R3V59P last accessed: 2022-11-04

NCBI reference sequences
metasource: bio.tools
version: extracted_at: 2022-11-04T11:24:12.319930

refseq
metasource: bio.tools
version: extracted_at: 2022-11-04T11:24:12.319930

Other names: RefSeq, NCBI Reference Sequence Database, NCBI reference sequences, refseq

The Reference Sequence (RefSeq) collection aims to provide a comprehensive, integrated, non-redundant, well-annotated set of sequences, including genomic DNA, transcripts, and proteins.

Webpage:

http://www.ncbi.nlm.nih.gov/RefSeq/

Licence:

Name: RefSeq Attribution required
URL: https://www.ncbi.nlm.nih.gov/books/NBK50679/#RefSeqFAQ.how_do_i_cite_the_refseq_proje

Publications: (7)

Publications
More detailed information about this field from each metasource.

NCBI prokaryotic genome annotation pipeline
PMID: 27342282
metasource: bio.tools
version: extracted_at: 2022-11-04T11:24:12.319930

Reference sequence (RefSeq) database at NCBI: current status, taxonomic expansion, and functional annotation
PMID: 26553804
metasource: bio.tools
version: extracted_at: 2022-11-04T11:24:12.319930

NCBI reference sequences (RefSeq): a curated non-redundant sequence database of genomes, transcripts and proteins
PMID: 17130148
metasource: Fairsharing.org
version: FAIRsharing.org: RefSeq; Reference Sequence Database; DOI: https://doi.org/10.25504/FAIRsharing.4jg0qw; Last edited: April 26, 2021, 12:04 p.m.; Last accessed: Jan 03 2022 7:06 p.m.

NCBI viral genomes resource
PMID: 25428358
metasource: bio.tools
version: extracted_at: 2022-11-04T11:24:12.319930

https://doi.org/10.1093/nar/gkaa1105
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657

http://dx.doi.org/10.1093/nar/gkr1079
metasource: bio.tools
version: extracted_at: 2022-11-04T11:24:12.319930

http://dx.doi.org/10.1093/nar/gkl842
metasource: bio.tools
version: extracted_at: 2022-11-04T11:24:12.319930

NCBI prokaryotic genome annotation pipeline PubMed citations: 2125.

2125 articles citing: NCBI prokaryotic genome annotation pipeline

Comparative genomics of Acinetobacter baumannii and therapeutic bacteriophages from a patient undergoing phage therapy. PMID:35773283
Ancylobacter gelatini sp. nov., isolated from beach sediment of Zhairuo Island, China. PMID:35759057
Novel thermophilic polyhydroxyalkanoates producing strain Aneurinibacillus thermoaerophilus CCM 8960. PMID:35759037
Recurrent bacteremia with a hypermucoviscous Escherichia coli isolated from a patient with perihilar cholangiocarcinoma: insights from a comprehensive genome-based analysis. PMID:35751078
Genomic analysis provides novel insights into diversification and taxonomy of Allorhizobium vitis (i.e. Agrobacterium vitis). PMID:35733110
Biosynthetic potential of the global ocean microbiome. PMID:35732736
Characterization of antibiotic-resistant, coagulase-negative staphylococci from fresh produce and description of Staphylococcus shinii sp. nov. isolated from chives. PMID:35731349
Sphingopyxis lutea sp. nov., a novel moderately halotolerant bacterium isolated from pebbles. PMID:35723741
Isolation, purification, and characterization of a novel exopolysaccharide isolated from marine bacteria Brevibacillus borstelensis M42. PMID:35713724
Photobacterium arenosum WH24, Isolated from the Gill of Pacific Oyster Crassostrea gigas from the North Sea of Germany: Co-cultivation and Prediction of Virulence. PMID:35704100
Genomic analysis of Acinetobacter pittii CEP14 reveals its extensive biodegradation capabilities, including cometabolic degradation of cis-1,2-dichloroethene. PMID:35701646
Analysis and Characterization of Lactobacillus paragasseri and Lacticaseibacillus paracasei: Two Probiotic Bacteria that Can Degrade Intestinal Oxalate in Hyperoxaluric Rats. PMID:35699895
Moraxella tetraodonis sp. nov., isolated from freshwater pufferfish (Tetraodon cutcutia) skin. PMID:35699830
A highly conserved core bacterial microbiota with nitrogen-fixation capacity inhabits the xylem sap in maize plants. PMID:35688828
Roseicella aquatilis sp. nov., isolated from freshwater lake. PMID:35678867
Formicincola oecophyllae gen. nov. sp. nov., a novel member of the family Acetobacteraceae isolated from the weaver ant Oecophylla smaragdina. PMID:35674967
Sphingopyxis jiangsuensis sp. nov. Isolated From the Surface Water of the Yellow Sea. PMID:35672580
Aquirufa lenticrescens sp. nov. and Aquirufa aurantiipilula sp. nov.: two new species of a lineage of widespread freshwater bacteria. PMID:35654990
Phenotypic characterization and analysis of complete genomes of two distinct strains of the proposed species "L. swaminathanii". PMID:35650389
Identification of hub pathways and drug candidates in gastric cancer through systems biology. PMID:35650297
Comparative genomics of the Western Hemisphere soft tick-borne relapsing fever borreliae highlights extensive plasmid diversity. PMID:35641918
Plant pathogenic bacterium can rapidly evolve tolerance to an antimicrobial plant allelochemical. PMID:35603031
Streptomyces spinosus sp. nov. and Streptomyces shenzhenensis subsp. oryzicola subsp. nov. endophytic actinobacteria isolated from Jasmine rice and their genome mining for potential as antibiotic producers and plant growth promoters. PMID:35597859
Thauera sedimentorum sp. nov., Isolated from Coastal Sediment. PMID:35596013
Genomic, morphological, and biochemical analyses of a multi-metal resistant but multi-drug susceptible strain of Bordetella petrii from hospital soil. PMID:35589928
Genomic and metabolomic profiling of endolithic Rhodococcus fascians strain S11 isolated from an arid serpentine environment. PMID:35587838
Genome mining of Burkholderia ambifaria strain T16, a rhizobacterium able to produce antimicrobial compounds and degrade the mycotoxin fusaric acid. PMID:35578144
Whole-genome sequence analysis of Clostridium chauvoei isolated from clinical case of black quarter (BQ) from India. PMID:35576020
Hybrid Plasmids Encoding Antimicrobial Resistance and Virulence Traits Among Hypervirulent Klebsiella pneumoniae ST2096 in India. PMID:35573787
Comparative Genomic Analysis of Two Xanthomonas oryzae pv. oryzae Strains Isolated From Low Land and High Mountain Paddies in Guangxi, China. PMID:35572630
A Highly Unstable and Elusive Plasmid That Encodes the Type III Secretion System Is Necessary for Full Virulence in the Marine Fish Pathogen Photobacterium damselae subsp. piscicida. PMID:35563122
Isolation and Genome Analysis of Pectobacterium colocasium sp. nov. and Pectobacterium aroidearum, Two New Pathogens of Taro. PMID:35557713
Genomic diversity across the Rickettsia and 'Candidatus Megaira' genera and proposal of genus status for the Torix group. PMID:35551207
Cold-adaptive traits identified by comparative genomic analysis of a lipase-producing Pseudomonas sp. HS6 isolated from snow-covered soil of Sikkim Himalaya and molecular simulation of lipase for wide substrate specificity. PMID:35532798
Cyanobacterial Genome Sequencing, Annotation, and Bioinformatics. PMID:35524055
Flavobacterium hungaricum sp. nov. a novel soil inhabitant, cellulolytic bacterium isolated from plough field. PMID:35524012
Comparative Genomics Revealed Fluoroquinolone Resistance Determinants and OmpF Deletion in Carbapenem-Resistant Escherichia coli. PMID:35516434
Genome sequence data of Lactiplantibacillus plantarum IMI 507028. PMID:35515993
Genomic data resource of type strains of genus Pseudoxanthomonas. PMID:35515983
Oral administration of Faecalibacterium prausnitzii and Akkermansia muciniphila strains from humans improves atopic dermatitis symptoms in DNCB induced NC/Nga mice. PMID:35513696
Survival strategies of an anoxic microbial ecosystem in Lake Untersee, a potential analog for Enceladus. PMID:35513542
Draft Genome Sequence of Corynebacterium sanguinis Strain Marseille-P8776. PMID:35506675
Melanin biopolymer synthesis using a new melanogenic strain of Flavobacterium kingsejongi and a recombinant strain of Escherichia coli expressing 4-hydroxyphenylpyruvate dioxygenase from F. kingsejongi. PMID:35501871
Draft Genome Sequence of the Marine Flavobacteriaceae sp. Strain LSUCC0859. PMID:35499337
Draft Genome Sequence of a Novel Rhizobium Species Isolated from the Marine Macroalga Codium fragile (Oyster Thief). PMID:35499313
Complete Genome Sequence of Methanofollis formosanus DSM 15483T, Isolated from an Aquaculture Fish Pond. PMID:35481773
Complete Genome Sequence of Colistin-Resistant, mcr-10-Harboring, Enterobacter cloacae Isolate AVS0889, Recovered from River Water in Switzerland. PMID:35475674
Complete Genome Sequence of Bacillus cereus Strain CPT56D-587-MTF, Isolated from a Nitrate- and Metal-Contaminated Subsurface Environment. PMID:35475637
Draft Genome Sequences of 15 Multidrug-Resistant Escherichia coli Strains Isolated from Indigenous Foods and Food-Gathering Sites in Aotearoa, New Zealand. PMID:35471059
Whole-Genome Sequence of Psychromonas antarctica Strain DSM 10704. PMID:35467384
Amplicon-Based Next-Generation Sequencing as a Diagnostic Tool for the Detection of Phylotypes of Cutibacterium acnes in Orthopedic Implant-Associated Infections. PMID:35464945
Bovine Leptospirosis Due to Persistent Renal Carriage of Leptospira borgpetersenii Serovar Tarassovi. PMID:35464389
Metabolism of the Genus Guyparkeria Revealed by Pangenome Analysis. PMID:35456775
Characterisation of Waterborne Psychrophilic Massilia Isolates with Violacein Production and Description of Massilia antarctica sp. nov. PMID:35456753
Genome Characterisation of an Isoprene-Degrading Alcaligenes sp. Isolated from a Tropical Restored Forest. PMID:35453719
Comparative Genomic Analysis of a Panton-Valentine Leukocidin-Positive ST22 Community-Acquired Methicillin-Resistant Staphylococcus aureus from Pakistan. PMID:35453247
Spongiibacter thalassae sp. nov., a marine gammaproteobacterium isolated from seawater. PMID:35449375
Chryseobacterium tagetis sp. nov., a plant growth promoting bacterium with an antimicrobial activity isolated from the roots of medicinal plant (Tagetes patula). PMID:35440770
As(III) Exposure Induces a Zinc Scarcity Response and Restricts Iron Uptake in High-Level Arsenic-Resistant Paenibacillus taichungensis Strain NC1. PMID:35435714
Imipenem/Relebactam Resistance in Clinical Isolates of Extensively Drug Resistant Pseudomonas aeruginosa: Inhibitor-Resistant β-Lactamases and Their Increasing Importance. PMID:35435707
Polyphasic Identification and Genomic Insights of Leptothermofonsia sichuanensis gen. sp. nov., a Novel Thermophilic Cyanobacteria Within Leptolyngbyaceae. PMID:35418964
Draft Genome Sequences of Four Bacterial Strains Isolated from Sediment of the South China Sea. PMID:35416693
Multidrug-Resistant Klebsiella variicola Isolated in the Urine of Healthy Bovine Heifers, a Potential Risk as an Emerging Human Pathogen. PMID:35416681
Paludibacterium denitrificans sp. nov., a Novel Denitrifying Bacterium Isolated from Activated Sludge. PMID:35416552
Genome Sequences for Levilactobacillus brevis Autochthonous to Commercial Cucumber Fermentations. PMID:35412360
Five Draft Genome Sequences of Historical Yersinia pestis Strains of Phylogroups 2.MED4 and 2.MED1 of the Medieval Biovar. PMID:35412351
Draft Genome Sequence of Paenibacillus profundus YoMME, a New Exoelectrogenic Gram-Positive Bacterium. PMID:35404087
Rates of evolutionary change of resident Escherichia coli O157:H7 differ within the same ecological niche. PMID:35392797
Brachybacterium epidermidis Sp. Nov., a Novel Bacterial Species Isolated from the Back of the Right Hand, in a 67-Year-Old Healthy Woman. PMID:35392139
Genome Sequence of Micromonospora aurantiaca Strain G9, a Member of a Bacterial Consortium Capable of Polyethylene Degradation. PMID:35389268
Draft Genome Sequence of Microaerobacter geothermalis Nad S1T, a Microaerophilic Bacterium Isolated from Tenusia Hot Spring. PMID:35389248
Draft Genome Assemblies of 4 Lactobacillus jensenii and 3 Lactobacillus mulieris Strains from the Urinary Tract. PMID:35389247
Draft Genome Sequence of Lacticaseibacillus rhamnosus IMI 507023. PMID:35389246
Purification and characterization of antifungal lipopeptide produced by Bacillus velezensis isolated from raw honey. PMID:35385565
De Novo Assembly and Annotation of the Complete Genome Sequence of Myxococcus xanthus DZ2. PMID:35384715
Draft Genome Sequences of Sphingomonadaceae Strains Isolated from a Freshwater Lake. PMID:35384702
Draft Genome Sequence of Paenibacillus sonchi IIRRBNF1, a Nitrogen-Fixing and Plant Growth-Promoting Bacterium Isolated from Rice Rhizosphere. PMID:35384700
Panakeia - a universal tool for bacterial pangenome analysis. PMID:35382730
Complete Genome Sequence of the Type Strain Citrobacter rodentium DSM 16636. PMID:35380454
Reference-Grade Genome and Large Linear Plasmid of Streptomyces rimosus: Pushing the Limits of Nanopore Sequencing. PMID:35377231
Complete Genome Sequence of a Rare Pigment-Producing Strain of Acinetobacter johnsonii, Isolated from the Bile of a Patient in Hangzhou, China. PMID:35377178
The Complete Genome Sequence of Bacillus thuringiensis Strain ATCC 13367 Features a cry-Containing Chromosome. PMID:35377174
Draft Genome Sequences of Two Acinetobacter soli Clinical Isolates from a Tertiary Hospital in Terengganu, Malaysia. PMID:35377171
Complete Genome Sequence of Psychrobacillus sp. Strain INOP01, a Phosphate-Solubilizing Bacterium Isolated from an Agricultural Soil in Germany. PMID:35377163
First Report of a Methicillin-Resistant, High-Level Mupirocin-Resistant Staphylococcus argenteus. PMID:35372120
Prevalence and characteristics of the mcr-1 gene in retail meat samples in Zhejiang Province, China. PMID:35362896
Complete Genome Sequence of Achromobacter sp. Strain 77, a Hyphosphere Isolate of Fusarium oxysporum f. sp. cucumerinum. PMID:35357184
Exploring the genome of Lactobacillaceae spp. Sy-1 isolated from Heterotrigona itama honey. PMID:35345581
Complete Genomes of Two Xanthomonas translucens pv. translucens Strains Isolated from Barley in North Dakota. PMID:35343804
Genome Sequence of Escherichia coli Isolated from an Adult in Kibera, an Urban Informal Settlement in Nairobi, Kenya. PMID:35343778
Draft Genome Sequence of Pediococcus pentosaceus IMI 507024. PMID:35343777
Draft Genome Sequence of Bacillus sp. strain YC2, an Isolate from the South African Medicinal Plant Pelargonium sidoides. PMID:35343776
The Genome Sequence of Brucella intermedia DF13, a 2,4-Dichlorophenoxyacetic Acid-Degrading Soil Bacterium Isolated in Brazil. PMID:35343769
Data on genome assembly and annotation of Marinobacter sp. strain CA1 isolated from indigenous diatom found in whiteleg shrimp pond in Malaysia. PMID:35341027
Insights into Gene Transcriptional Regulation of Kayvirus Bacteriophages Obtained from Therapeutic Mixtures. PMID:35337034
Draft Genome Sequence of Lactococcus lactis Subsp. cremoris WA2-67: A Promising Nisin-Producing Probiotic Strain Isolated from the Rearing Environment of a Spanish Rainbow Trout (Oncorhynchus mykiss, Walbaum) Farm. PMID:35336097
Escherichia coli and Pseudomonas aeruginosa Isolated From Urine of Healthy Bovine Have Potential as Emerging Human and Bovine Pathogens. PMID:35330764
Effect of chronic and acute enterotoxigenic E. coli challenge on growth performance, intestinal inflammation, microbiome, and metabolome of weaned piglets. PMID:35323827
Draft Genome Sequences of a Bifidobacterium Strain and a Bacteroides Strain Isolated from a Human Stool Sample. PMID:35319259
Plasmid-Mediated Stabilization of Prophages. PMID:35311569
Comparative Genomics of Cyclic di-GMP Metabolism and Chemosensory Pathways in Shewanella algae Strains: Novel Bacterial Sensory Domains and Functional Insights into Lifestyle Regulation. PMID:35311563
Identification and Genome Analysis of an Arsenic-Metabolizing Strain of Citrobacter youngae IITK SM2 in Middle Indo-Gangetic Plain Groundwater. PMID:35309170
Genomic Investigation Reveals a Community Typhoid Outbreak Caused by Contaminated Drinking Water in China, 2016. PMID:35308507
Comparative Respiratory Tract Microbiome Between Carbapenem-Resistant Acinetobacter baumannii Colonization and Ventilator Associated Pneumonia. PMID:35308401
Complete Genome Sequence of Four Strains of Leptospira borgpetersenii serovar Hardjo isolated from Cattle in the Central United States. PMID:35300048
Draft Genome Sequence of Rhizobium ruizarguesonis (Rhizobium leguminosarum) Strain 1TK341. PMID:35297685
Draft genome sequence data of a clinical Enterococcus faecalis isolate SHH039 from a patient with cholecystitis from a tertiary care hospital in Sabah, Malaysia. PMID:35295870
Hanamia caeni gen. nov., sp. nov., a Member of the Family Chitinophagaceae Isolated from Activated Sludge in Korea. PMID:35294641
Draft Genome Sequence of Thermoactinomyces vulgaris Strain AGRTWHS02, Isolated from Pasture Soil of a Sheep Dairy Farm in New Zealand. PMID:35293824
Draft Genome Sequences of 23 Tenacibaculum Isolates from Farmed Norwegian Lumpfish, Cyclopterus lumpus. PMID:35289652
Whole-Genome Shotgun (WGS) Sequence of cis-Isoprene Polymer-Degrading Nocardia sp. strain BSTN01. PMID:35286159
Pseudohalioglobus sediminis sp. nov., isolated from coastal sediment. PMID:35274186
Complete Genome Sequence Analysis of Ralstonia solanacearum Strain PeaFJ1 Provides Insights Into Its Strong Virulence in Peanut Plants. PMID:35273586
Characterization of a Neisseria gonorrhoeae Ciprofloxacin panel for an antimicrobial resistant Isolate Bank. PMID:35271599
The CIAMIB: a Large and Metabolically Diverse Collection of Inflammation-Associated Bacteria from the Murine Gut. PMID:35266814
Genomic, biochemical, and phylogenetic evaluation of bacteria isolated from deep-sea sediment harboring methane hydrates. PMID:35266047
Species Identification in Plant-Associated Prokaryotes and Fungi Using DNA. PMID:35265781
Draft Genome Sequence of Polaromonas eurypsychrophila AER18D-145, Isolated from a Uranium Tailings Management Facility in Northern Saskatchewan, Canada. PMID:35262382
Microvirga jeongseonensis sp. nov., isolated from soil in South Korea. PMID:35260993
Complete and Draft Genome Sequences of 48 Staphylococcus aureus Isolates Obtained from Atopic Dermatitis Patients and Healthy Controls. PMID:35258326
Genome Sequences of Marichromatium gracile HOL-1 and Its Purple Photosynthetic Coisolate, Afifella sp. H1R. PMID:35258324
Complete Genome Sequences of Three Staphylococcus haemolyticus Strains Isolated from the Lung of a TGFβ1 Transgenic Mouse with Lung Fibrosis. PMID:35254127
Complete Genome Sequence of Morganella morganii CTX51T, Isolated from a Human Cecal Adenocarcinoma. PMID:35254123
Complete Genome Sequence of Aggregatibacter actinomycetemcomitans Strain CU1000N. PMID:35254109
Newly Isolated Paenibacillus monticola sp. nov., a Novel Plant Growth-Promoting Rhizobacteria Strain From High-Altitude Spruce Forests in the Qilian Mountains, China. PMID:35250949
Genome Context Influences Evolutionary Flexibility of Nearly Identical Type III Effectors in Two Phytopathogenic Pseudomonads. PMID:35250942
Draft Genome Sequences of Buttiauxella spp. Isolates from Water and Gastropods with Putative β-d-Glucuronidase Activity. PMID:35234507
Draft Genome Sequence of Plesiomonas shigelloides Strain PI-19, Isolated from the Intestine of Pufferfish (Tetraodon cutcutia). PMID:35234506
Whole-Genome Sequencing and De Novo Assembly of 67 Staphylococcus pseudintermedius Strains Isolated from the Skin of Healthy Dogs. PMID:35234497
Complete Genome Sequence of Clostridium cadaveris IFB3C5, Isolated from a Human Colonic Adenocarcinoma. PMID:35234492
Analysis of global Aeromonas veronii genomes provides novel information on source of infection and virulence in human gastrointestinal diseases. PMID:35227192
Draft Genome Sequence of Listeria innocua Strain MEZLIS29, Isolated from a Cow in South Africa. PMID:35225692
The Genome of Enterobacter hormaechei Strain MG02, a 2,4-Dichlorophenoxyacetic Acid-Degrading Bacterium Isolated from Brazilian Soil. PMID:35225675
Genomic Comparisons and Phenotypic Diversity of Dickeya zeae Strains Causing Bacterial Soft Rot of Banana in China. PMID:35222482
Pseudomonas bijieensis Strain XL17 within the P. corrugata Subgroup Producing 2,4-Diacetylphloroglucinol and Lipopeptides Controls Bacterial Canker and Gray Mold Pathogens of Kiwifruit. PMID:35208879
Genome Analysis of Celeribacter sp. PS-C1 Isolated from Sekinchan Beach in Selangor, Malaysia, Reveals Its β-Glucosidase and Licheninase Activities. PMID:35208867
Physiological and Genomic Characterization of Actinotalea subterranea sp. nov. from Oil-Degrading Methanogenic Enrichment and Reclassification of the Family Actinotaleaceae. PMID:35208832
Genome Characterization and Probiotic Potential of Corynebacterium amycolatum Human Vaginal Isolates. PMID:35208706
Snapshot of Mycobacterium tuberculosis Phylogenetics from an Indian State of Arunachal Pradesh Bordering China. PMID:35205308
Draft Genome Sequences of 6 Actinobacterial Strains Isolated from Rock Surfaces Obtained from Indian Stone Ruins in Tamil Nadu, India, and Rocks from New England, United States. PMID:35200039
Long-Read Sequencing Reveals Genetic Adaptation of Bartonella Adhesin A Among Different Bartonella henselae Isolates. PMID:35197960
Closed Genome Sequence of an Environmental Aeromonas veronii Strain from California, United States, with an IncA/C Plasmid Carrying an Extended-Spectrum β-Lactamase Gene, blaVEB-3. PMID:35195453
Human gut commensal bacterium Ruminococcus species FMB-CY1 completely degrades the granules of resistant starch. PMID:35186353
Gymnodinialimonas ceratoperidinii gen. nov., sp. nov., isolated from rare marine dinoflagellate Ceratoperidinium margalefii. PMID:35182244
Larkinella humicola sp. nov., a gamma radiation-resistant bacterium isolated from soil. PMID:35179646
Draft Genome Sequence of Bacteriocin-Encoding Enterococcus faecium Strain S6, Isolated from Camel Milk. PMID:35175130
Whole-Genome Sequence of the Wolbachia Strain wTcon, an Endosymbiont of the Confused Flour Beetle, Tribolium confusum. PMID:35175127
Genome Sequence of Xanthomonas campestris Strain FDWSRU 18048, an Emerging Pathogen of Nonnative, Invasive Garlic Mustard (Alliaria petiolata). PMID:35175119
Draft Genome Sequences from Two Gram-Negative Bacteria, Serratia sp. Strain EWG9 and Leclercia sp. Strain EMC7, Isolated from the Earthworm Eisenia fetida. PMID:35175118
Draft Genome Sequence of Acidiplasma aeolicum Strain V1T, Isolated from a Hydrothermal Pool. PMID:35175111
Draft Genome Sequence of a Bacterium Isolated from Hypersaline Soil in Sonora, Mexico: Halomonas sp. Strain BLLS135. PMID:35175110
Commensal Bacteria in the Cystic Fibrosis Airway Microbiome Reduce P. aeruginosa Induced Inflammation. PMID:35174108
Pufferfish (Tetraodon cutcutia) Sampled from a Freshwater River Serves as an Intermediate Reservoir of a Sucrose Nonfermenting Variant of Vibrio cholerae PS-4. PMID:35171023
Whole-genome analyses reveal a novel prophage and cgSNPs-derived sublineages of Brachyspira hyodysenteriae ST196. PMID:35168548
Genomic and phenotypic analyses of diverse non-clinical Acinetobacter baumannii strains reveals strain-specific virulence and resistance capacity. PMID:35166651
Potential Genes Associated with COVID-19 and Comorbidity. PMID:35165525
Association of Tandem Repeat Number Variabilities in Subunit S of the Type I Restriction-Modification System with Macrolide Resistance in Mycoplasma pneumoniae. PMID:35160167
Complete genome sequence of Shewanella algae strain 2NE11, a decolorizing bacterium isolated from industrial effluent in Peru. PMID:35145887
Comparative Genomic Analysis of Pathogenic Factors of Pectobacterium Species Isolated in South Korea Using Whole-Genome Sequencing. PMID:35144358
Draft Genome Sequence of Bacillus thuringiensis ZZQ-130 with Multiple Pesticidal Genes, Isolated from Caka Salt Lake, China. PMID:35142556
Draft Genome Sequence of Bacillus wiedmannii Biovar thuringiensis ZZQ-138, Isolated from a Saline Lake. PMID:35142552
Complete Genome Sequence of Human Oral Saccharibacterium "Candidatus Nanosynbacter sp. HMT352" Strain KC1. PMID:35142548
Draft Genome Sequence of a Methanogenic Archaeon from West Spitsbergen Permafrost. PMID:35142547
Draft Genome Sequence of Legionella Species Isolated from Drinking Water in an Italian Industry. PMID:35142544
Complete Genome Sequence of Rhodococcus qingshengii VT6, a Promising Degrader of Persistent Pollutants and Putative Biosurfactant-Producing Strain. PMID:35142543
Complete Genome Sequence of Curtobacterium sp. Isolated from Surface-Sterilized Germinating Alfalfa Seeds. PMID:35142542
Draft Genome Sequences of 77 Endemic Multidrug-Resistant Mycobacterium tuberculosis Strains of SIT41 (TUR) Spoligotype from Bulgaria. PMID:35142538
Pseudomonas aeruginosa modulates alginate biosynthesis and type VI secretion system in two critically ill COVID-19 patients. PMID:35139898
Teleocidin-producing genotype of Streptomyces clavuligerus ATCC 27064. PMID:35138454
Characterization of Genetic Elements Carrying mcr-1 Gene in Escherichia coli from the Community and Hospital Settings in Vietnam. PMID:35138158
Sphingobacterium bovistauri sp. nov., Isolated from the Faeces of Bos Taurus. PMID:35129696
Pedobacter aquae sp. nov., a multi-drug resistant bacterium isolated from fresh water. PMID:35124766
Complete genome sequence of the kiwifruit bacterial canker pathogen Pseudomonas savastanoi strain MHT1. PMID:35120460
Draft Metagenome-Assembled Genomes from Methane-Rich Echo Lake, Montana. PMID:35112901
Draft Genome Sequences of Two Lactobacillus johnsonii and Three Ligilactobacillus salivarius Strains Isolated from Intestinal Microbiomes of Chickens. PMID:35112897
Draft Genome Sequence of Microbacterium sp. Strain KKR3/1, an Antimicrobial-Substance-Producing Strain Isolated from Banana Shrimp (Atyopsis moluccensis). PMID:35112894
Genome Sequence of Dermacoccus Strain Tok2021, a Soil Actinobacterium Isolated from a Pinus radiata Forest. PMID:35112892
High-Performance Deep Learning Toolbox for Genome-Scale Prediction of Protein Structure and Function. PMID:35112110
Flux balance analysis of the ammonia-oxidizing bacterium Nitrosomonas europaea ATCC19718 unravels specific metabolic activities while degrading toxic compounds. PMID:35108266
Genomic and Functional Dissections of Dickeya zeae Shed Light on the Role of Type III Secretion System and Cell Wall-Degrading Enzymes to Host Range and Virulence. PMID:35107329
Phenotypic and Molecular-Phylogenetic Analyses Reveal Distinct Features of Crown Gall-Associated Xanthomonas Strains. PMID:35107322
Construction of Aerobic/Anaerobic-Substrate-Induced Gene Expression Procedure for Exploration of Metagenomes From Subseafloor Sediments. PMID:35095779
Draft Genome Sequence of Francisella tularensis subsp. holarctica Strain H0001, Isolated from a Tularemia Patient in the Republic of Korea. PMID:35084225
Draft Genome Sequences of 12 Panton-Valentine Leucocidin-Positive and Multidrug-Resistant Methicillin-Resistant Staphylococcus aureus Strains Isolated from an Intensive Care Unit in Pakistan. PMID:35084222
Draft Genome Sequences of 27 Hospital-Associated Methicillin-Resistant Staphylococcus aureus Strains Isolated in Minnesota. PMID:35084220
Whole-Genome Sequences of Nine Hospital-Associated Methicillin-Susceptible Staphylococcus aureus Strains. PMID:35084219
Draft Genome Sequence of Bacillus tropicus Strain UPM-CREST01, Isolated from the Bulk Paddy Soil at Kampung Gajah, Perak. PMID:35084217
Complete sequence of classic F-type plasmid pRK100 shows unique conservation over time and geographic location. PMID:35077724
Multilocus sequence based identification and adaptational strategies of Pseudomonas sp. from the supraglacial site of Sikkim Himalaya. PMID:35073328
Novel insights into the role of the mobilome in ecological diversification and success of Staphylococcus haemolyticus as an opportunistic pathogen. PMID:35072602
Pedobacter segetis sp. nov., a Novel Bacterium Isolated from Soil. PMID:35059849
Elioraea tepida, sp. nov., a Moderately Thermophilic Aerobic Anoxygenic Phototrophic Bacterium Isolated from the Mat Community of an Alkaline Siliceous Hot Spring in Yellowstone National Park, WY, USA. PMID:35056529
Genetic Potential of Dissulfurimicrobium hydrothermale, an Obligate Sulfur-Disproportionating Thermophilic Microorganism. PMID:35056509
Genomic Features and Construction of Streamlined Genome Chassis of Nisin Z Producer Lactococcus lactis N8. PMID:35056496
Novel Alkaloids from Marine Actinobacteria: Discovery and Characterization. PMID:35049861
Complete Genome Sequences of Mycobacterium chimaera Strains 850 and 852, Isolated from Heater-Cooler Unit Water. PMID:35049351
Draft Genome Sequences of Halobacterium sp. Strains KA-4 and KA-6, Two Extremely Halophilic Archaea Isolated from a Triassic Salt Deposit in Northern Ireland. PMID:35049347
Genome Sequences of Soft Rot-Causing Pectobacterium Isolates from Different Vegetables. PMID:35049346
Complete Genome Sequence of Cellulomonas sp. Strain C5510, Isolated from Pacific Ocean Seawater. PMID:35049338
Genome Sequences of Apilactobacillus kunkeei Strains, Mannitol-Producing Bacteria Isolated from Nectariferous Plants. PMID:35049337
Draft Whole-Genome Sequences of Two Multidrug-Resistant Salmonella enterica Serovar Senftenberg Sequence Type 14 Strains Resistant to Ciprofloxacin, Ceftriaxone, and/or Azithromycin, Isolated from Kolkata, India. PMID:35023782
Draft Genome Sequences of Three Identified Rhizobacteria Associated with Maize Rhizosphere. PMID:35023777
Draft Genome Sequences of Nine Bacillus Strains and Two Weizmannia Strains Isolated from Live Dietary Supplements and a Cultured Food Product. PMID:35023776
Complete Genome Sequences of Five Burkholderia Strains with Biocontrol Activity against Various Lettuce Pathogens. PMID:35023775
Complete Genome Sequence of Curtobacterium sp. Strain TXMA1, Isolated from a Grapevine in Texas, USA. PMID:35023771
Genome Sequence of the Early 20th-Century Extreme Halophile Halobacterium sp. Strain NRC-34001. PMID:35023769
Modular evolution of secretion systems and virulence plasmids in a bacterial species complex. PMID:35022048
Genomic Characterization of Potential Plant Growth-Promoting Features of Sphingomonas Strains Isolated from the International Space Station. PMID:35019675
Erythrobacter rubeus sp. nov., a carotenoid-producing alphaproteobacterium isolated from coastal seawater. PMID:34997854
Complete de novo assembly of Wolbachia endosymbiont of Diaphorina citri Kuwayama (Hemiptera: Liviidae) using long-read genome sequencing. PMID:34996906
Prediction of trehalose-metabolic pathway and comparative analysis of KEGG, MetaCyc, and RAST databases based on complete genome of Variovorax sp. PAMC28711. PMID:34991451
Evaluating the aerobic xylene-degrading potential of the intrinsic microbial community of a legacy BTEX-contaminated aquifer by enrichment culturing coupled with multi-omics analysis: uncovering the role of Hydrogenophaga strains in xylene degradation. PMID:34989990
Complete Genome Sequences of Four Putatively Antibiotic-Producing Bacteria Isolated from Soil in Arkansas, USA. PMID:34989618
Draft Genome Sequences of Saccharopolyspora sp. Strains and Streptomyces sp. Strains, Isolated from Social Wasps (Vespidae; Polistinae: Epiponini). PMID:34989617
Whole-Genome Sequencing of Streptomycin-Resistant Mycobacterium tuberculosis Strain SBH145 from Sabah, Malaysia. PMID:34989616
Draft Genome Sequences of Six Yersinia kristensenii Strains. PMID:34989614
Complete Genome Sequence of Hafnia paralvei Isolate AVS0177, Harboring mcr-9 on a Plasmid. PMID:34989612
Complete Genome Assembly of Yersinia pestis subsp. pestis bv. Medievalis SCPM-O-B-6530, a Proline-Dependent Strain Isolated from the Central-Caucasian High-Mountain Plague Focus in Kabardino-Balkar Republic (Russia). PMID:34989602
Complete Genome Sequence of Rhodococcus opacus Strain MoAcy1 (DSM 44186), an Aerobic Acetylenotroph Isolated from Soil. PMID:34989600
Kaistella soli sp. nov., isolated from oil-contaminated experimental soil. PMID:34988667
Development of a Genomics-Based Approach To Identify Putative Hypervirulent Nontyphoidal Salmonella Isolates: Salmonella enterica Serovar Saintpaul as a Model. PMID:34986312
Hymenobacter telluris sp. nov., isolated from soil in South Korea. PMID:34981185
Steroid Metabolism in Thermophilic Actinobacterium Saccharopolyspora hirsuta VKM Ac-666T. PMID:34946155
2-Methylisoborneol (2-MIB) Excretion by Pseudanabaena yagii under Low Temperature. PMID:34946088
A New ICEclc Subfamily Integrative and Conjugative Element Responsible for Horizontal Transfer of Biphenyl and Salicylic Acid Catabolic Pathway in the PCB-Degrading Strain Pseudomonas stutzeri KF716. PMID:34946064
DNA Methylation Patterns Differ between Free-Living Rhizobium leguminosarum RCAM1026 and Bacteroids Formed in Symbiosis with Pea (Pisum sativum L.). PMID:34946059
Comparative Genomics and Physiological Investigation of a New Arthrospira/Limnospira Strain O9.13F Isolated from an Alkaline, Winter Freezing, Siberian Lake. PMID:34943919
Pan-Resistome Characterization of Uropathogenic Escherichia coli and Klebsiella pneumoniae Strains Circulating in Uganda and Kenya, Isolated from 2017-2018. PMID:34943759
A nationwide genomic study of clinical Klebsiella pneumoniae in Norway 2001-15: introduction and spread of ESBLs facilitated by clonal groups CG15 and CG307. PMID:34935048
High natural PHA production from acetate in Cobetia sp. MC34 and Cobetia marina DSM 4741T and in silico analyses of the genus specific PhaC2 polymerase variant. PMID:34930259
Complete Genome Sequences of Two Nosocomiicoccus ampullae Strains and a Growth-Adapted Mutant. PMID:34913718
Complete Genome Sequences of Kinneretia sp. Strain XES5, Shinella sp. Strain XGS7, and Vogesella sp. Strain XCS3, Isolated from Xenopus laevis Skin. PMID:34913717
Draft Genome Sequences of Four Streptomycin-Sensitive Erwinia amylovora Strains Isolated from Commercial Apple Orchards in Ohio. PMID:34913716
Complete Genome Sequence of Schaalia turicensis Strain CT001, Isolated from a Patient with Gonococcal Urethritis in Thailand. PMID:34913715
Draft Genome Sequence of Bacillus pacificus KVCMST-8A-12, Isolated from a Marine Sediment Sample from the Kanyakumari Coast, India. PMID:34913714
Draft Genome Sequences of Actinobacterial and Betaproteobacterial Strains Isolated from the Stratosphere. PMID:34913712
Draft Genome Sequence of Aestuariibacter halophilus Type Strain JC2043. PMID:34913711
Isolation and Characterization of Levoglucosan-Metabolizing Bacteria. PMID:34910566
Complete Genome Sequence of the Type Strain Tepidimonas taiwanensis LMG 22826T, a Thermophilic Alkaline Protease and Polyhydroxyalkanoate Producer. PMID:34908127
Genetic differentiation of Xylella fastidiosa following the introduction into Taiwan. PMID:34898423
Draft Genome Sequence of the Planctobacterium marinum Type Strain K7. PMID:34881986
Complete Genome Sequence of Lacticaseibacillus paracasei Strain NSMJ15. PMID:34881983
Draft Genome Sequence of Weissella cibaria P71, a Promising Aquaculture Probiotic Strain Isolated from Common Octopus (Octopus vulgaris). PMID:34881980
Complete Genome Sequence of Lacticaseibacillus rhamnosus CAU 1365, Isolated from Kimchi. PMID:34881978
Draft Genome Sequences of Two Strains of Enterococcus lactis Showing High Potential as Cattle Probiotic Supplements. PMID:34881976
Genome Sequence of the Reuterin-Producing Strain Limosilactobacillus reuteri INIA P572. PMID:34881975
Genome Sequence of Lysobacter sp. Strain BMK333-48F3, the Producer Strain of Potent Lipopeptide Antibiotics of the Tripropeptin Family. PMID:34881974
Whole-Genome Sequencing of Klebsiella pneumoniae BASUSDALSc45PDB48, a Unique Strain Capable of Growing in Pesticide-Containing Medium, Isolated from Soil in Bangladesh. PMID:34881973
Genomic Characterization of Extensively Drug-Resistant NDM-Producing Acinetobacter baumannii Clinical Isolates With the Emergence of Novel bla ADC-257. PMID:34880837
Comparative Genomics Analyses Support the Reclassification of Bisgaard Taxon 40 as Mergibacter gen. nov., With Mergibacter septicus sp. nov. as Type Species: Novel Insights Into the Phylogeny and Virulence Factors of a Pasteurellaceae Family Member Associated With Mortality Events in Seabirds. PMID:34880834
The Second Chromosome Promotes the Adaptation of the Genus Flammeovirga to Complex Environments. PMID:34878294
Genome insights of Enterococcus raffinosus CX012922, isolated from the feces of a Crohn's disease patient. PMID:34876224
No one tool to rule them all: Prokaryotic gene prediction tool annotations are highly dependent on the organism of study. PMID:34875010
Mcc1229, an Stx2a-Amplifying Microcin, Is Produced In Vivo and Requires CirA for Activity. PMID:34871041
Genetic and Phenotypic Diversity of Morganella morganii Isolated From Cheese. PMID:34867855
Lactiplantibacillus plantarum LRCC5314 includes a gene for serotonin biosynthesis via the tryptophan metabolic pathway. PMID:34865198
Genome In Silico and In Vitro Analysis of the Probiotic Properties of a Bacterial Endophyte, Bacillus Paranthracis Strain MHSD3. PMID:34858466
Genome Sequence of the Thermophilic Soil Bacterium Ureibacillus terrenus ATCC BAA-384T. PMID:34854732
Draft Genome Sequence of Bacillus sp. Strain IITD106, Isolated from Oil-Contaminated Soil. PMID:34854725
Aerobiology from an Inactive Pyrite Mine: the Genome Sequence of the Airborne Pseudomonas sp. Strain L5B5. PMID:34854724
Genome Sequence of Pseudomonas sp. Strain LAP_36, A Rhizosphere Bacterium Isolated from King George Island, Antarctica. PMID:34854719
Draft Genome Sequence of Schnuerera sp. Strain xch1, Isolated from the Tibetan Plateau. PMID:34854718
Complete Genome Sequences of Three Lactobacillus crispatus Strains Isolated from the Urine of Postmenopausal Women. PMID:34854711
Draft Genome Sequence of Salmonella enterica Serovar Enteritidis from Jos, Plateau State, Nigeria. PMID:34854703
Draft Genome Sequences of Cefepime-Resistant and -Susceptible Escherichia coli Strains and Imipenem-Resistant and -Susceptible Pseudomonas aeruginosa Strains. PMID:34854701
Genome Sequence of Halobacterium sp. Strain BOL4-2, Isolated and Cultured from Salar de Uyuni, Bolivia. PMID:34854697
First report from Bangladesh on genetic diversity of multidrug-resistant Pasteurella multocida type B:2 in fowl cholera. PMID:34840474
Genomic and Phylogenetic Analysis of Lactiplantibacillus plantarum L125, and Evaluation of Its Anti-Proliferative and Cytotoxic Activity in Cancer Cells. PMID:34829947
Abundance and Dynamic Distribution of Antibiotic Resistance Genes in the Environment Surrounding a Veterinary Antibiotic Manufacturing Site. PMID:34827299
Unpuzzling Friunavirus-Host Interactions One Piece at a Time: Phage Recognizes Acinetobacter pittii via a New K38 Capsule Depolymerase. PMID:34827242
Metagenome-assembled genomes recovered from the datasets of a high-altitude Himalayan hot spring Khirganga, Himachal Pradesh, India. PMID:34825025
Complete Genome Sequence of Two Deep-Sea Streptomyces Isolates from Madeira Archipelago and Evaluation of Their Biosynthetic Potential. PMID:34822492
Data on the genome of Bacillus subtilis A1- Midalam from beach soil. PMID:34820494
High-quality whole-genome sequence analysis of Lactobacillus paragasseri UBLG-36 reveals oxalate-degrading potential of the strain. PMID:34797858
Draft Genome Sequences of Eight Community-Associated Methicillin-Resistant Staphylococcus aureus Strains. PMID:34792385
Draft Genome Sequence of a Poly-γ-Glutamic Acid-Producing Isolate, Bacillus paralicheniformis Strain bcasdu2018/01. PMID:34792384
Complete Genome Sequences of Mycobacterium farcinogenes Strains Isolated from Clinical Specimens from Patients in Thailand. PMID:34792375
Whole-genome sequence and broad-spectrum antibacterial activity of Chryseobacterium cucumeris strain MW-6 isolated from the Arabian Sea. PMID:34790513
Characterization of the Type I Restriction Modification System Broadly Conserved among Group A Streptococci. PMID:34787444
Virtual screening and in vitro validation identifies the first reported inhibitors of Salmonella enterica HPPK. PMID:34778775
Microbial Diversity Analysis and Genome Sequencing Identify Xanthomonas perforans as the Pathogen of Bacterial Leaf Canker of Water Spinach (Ipomoea aquatic). PMID:34777306
Whole-Genome Sequencing, Phylogenetic and Genomic Analysis of Lactiplantibacillus pentosus L33, a Potential Probiotic Strain Isolated From Fermented Sausages. PMID:34764945
Genome Sequence of Lacticaseibacillus rhamnosus Strain NCDC610, Isolated from a Traditional Cereal-Based Fermented Milk Product (Raabadi). PMID:34761961
Complete Genome Sequence of a Colistin-Susceptible Salmonella enterica Serovar Minnesota Strain Harboring mcr-9 on an IncHI2/IncHI2A Plasmid, Isolated from Chicken Meat. PMID:34761951
Exploring bacterial diversity via a curated and searchable snapshot of archived DNA sequences. PMID:34752446
Down in the pond: Isolation and characterization of a new Serratia marcescens strain (LVF3) from the surface water near frog's lettuce (Groenlandia densa). PMID:34748577
Comparative Genome Analysis of the Genus Thiothrix Involving Three Novel Species, Thiothrix subterranea sp. nov. Ku-5, Thiothrix litoralis sp. nov. AS and "Candidatus Thiothrix anitrata" sp. nov. A52, Revealed the Conservation of the Pathways of Dissimilatory Sulfur Metabolism and Variations in the Genetic Inventory for Nitrogen Metabolism and Autotrophic Carbon Fixation. PMID:34745068
Flavobacterium flabelliforme sp. nov. and Flavobacterium geliluteum sp. nov., Two Multidrug-Resistant Psychrotrophic Species Isolated From Antarctica. PMID:34745033
Crosstalk between Circulatory Microenvironment and Vascular Endothelial Cells in Acute Myocardial Infarction. PMID:34744446
Chryseobacterium endalhagicum sp. nov., isolated from seed of leguminous plant. PMID:34739366
Genomic evidence of environmental and resident Salmonella Senftenberg and Montevideo contamination in the pistachio supply-chain. PMID:34735518
Draft Genome Sequence of Schaalia odontolytica Strain ORNL0103, a Basibiont of "Candidatus Saccharibacteria" HMT352. PMID:34734770
Draft Genome Sequence of Vibrio jasicida 20LP, an Opportunistic Bacterium Isolated from Fish Larvae. PMID:34734757
The chitinolytic activity of the Curtobacterium sp. isolated from field-grown soybean and analysis of its genome sequence. PMID:34731210
Transcriptomic analysis of the Myxococcus xanthus FruA regulon, and comparative developmental transcriptomic analysis of two fruiting body forming species, Myxococcus xanthus and Myxococcus stipitatus. PMID:34724903
Pyomelanin-Producing Brevundimonas vitisensis sp. nov., Isolated From Grape (Vitis vinifera L.). PMID:34721332
Evolutionary genomics and biosynthetic potential of novel environmental Actinobacteria. PMID:34716462
Complete genomic sequence and phylogenomics analysis of Agrobacterium strain AB2/73: a new Rhizobium species with a unique mega-Ti plasmid. PMID:34711172
Long-read sequencing to interrogate strain-level variation among adherent-invasive Escherichia coli isolated from human intestinal tissue. PMID:34710159
Contiguous Genome Sequence of Frankia sp. Strain ArI3, Isolated from Root Nodules of Alnus rubra Bong. PMID:34709056
Whole-Genome Sequencing and Annotation of Selected Lactobacillales Isolated from Commercial Cucumber Fermentation. PMID:34709055
Draft Genome Sequence of Cellulomonas sp. PS-H5, Isolated from Sekinchan Beach in Selangor, Malaysia. PMID:34709049
Whole-Genome Sequences of Staphylococcus aureus Isolates from Positive Blood Cultures. PMID:34709047
Transmission Dynamics of Carbapenem-Resistant Klebsiella pneumoniae Sequence Type 11 Strains Carrying Capsular Loci KL64 and rmpA/rmpA2 Genes. PMID:34690977
Acidisoma silvae sp. nov. and Acidisomacellulosilytica sp. nov., Two Acidophilic Bacteria Isolated from Decaying Wood, Hydrolyzing Cellulose and Producing Poly-3-hydroxybutyrate. PMID:34683374
Comparative Genomic Analysis Determines the Functional Genes Related to Bile Salt Resistance in Lactobacillus salivarius. PMID:34683359
Exoproteome Analysis of Antagonistic Interactions between the Probiotic Bacteria Limosilactobacillus reuteri LR1 and Lacticaseibacillus rhamnosus F and Multidrug Resistant Strain of Klebsiella pneumonia. PMID:34681658
Draft genome and description of Waterburya agarophytonicola gen. nov. sp. nov. (Pleurocapsales, Cyanobacteria): a seaweed symbiont. PMID:34674103
Draft Genome Sequences of Multidrug-Resistant Shigella Strains Isolated from Diarrheal Patients in Bangladesh. PMID:34672712
Draft Genome Sequence of the Anaerobic Arsenite-Oxidizing Halomonas sp. Strain ANAO-440, Isolated from an Alkaline Saline Lake in Khovsgol, Mongolia. PMID:34672708
Genome Analysis of the Probiotic Strain Enterococcus faecium Ef79OSAU. PMID:34672706
Complete Genome Sequences of Pseudomonas lundensis Strains M101 and M105, Isolated from 1% Pasteurized Milk. PMID:34672702
Draft Genome Sequence of Marinobacter sp. Strain AL4B, a Marine Bacterium Isolated from Quintero Bay, Chile. PMID:34672699
Colibrimycins, Novel Halogenated Hybrid Polyketide Synthase-Nonribosomal Peptide Synthetase (PKS-NRPS) Compounds Produced by Streptomyces sp. Strain CS147. PMID:34669429
Complete Genome Sequence of Weissella confusa LM1 and Comparative Genomic Analysis. PMID:34650545
Complete Genome Sequence of Streptococcus pneumoniae Strain Rx1, a Hex Mismatch Repair-Deficient Standard Transformation Recipient. PMID:34647809
Draft Genome Sequence of Pasteurella multocida Serotype A Strain MOR19, Isolated in Morocco. PMID:34647807
Complete Genome Sequence of Neisseria gonorrhoeae Multilocus Sequence Type ST7363 Isolated from Thailand. PMID:34647806
Complete Circular Genome Sequences of Three Bacillus cereus Group Strains Isolated from Positive Blood Cultures from Preterm and Immunocompromised Infants Hospitalized in France. PMID:34647805
Complete Genome Sequences of Six Salmonella enterica Strains (S. enterica subsp. arizonae, S. enterica subsp. diarizonae, and S. enterica subsp. salamae) Isolated from Poultry Houses. PMID:34647803
Draft Genome Sequence of the Anoxygenic Phototrophic Bacterium Rhodoferax sp. Strain U11-2br, Isolated from a Mountain Lake on the Ulagan Plateau. PMID:34647801
Complete Genome Sequence of Salmonella enterica Serovar Typhi Strain ISP2825. PMID:34647800
Draft Genome Sequences and Genomic Analysis for Pigment Production in Bacteria Isolated from Blue Discolored Soymilk and Tofu. PMID:34646396
Predictive regulatory and metabolic network models for systems analysis of Clostridioides difficile. PMID:34637780
Identification and Antibiotic Profiling of Wohlfahrtiimonas chitiniclastica, an Underestimated Human Pathogen. PMID:34630346
Isolation of AmpC- and extended spectrum β-lactamase-producing Enterobacterales from fresh vegetables in the United States. PMID:34629764
Manual Annotation Studio (MAS): a collaborative platform for manual functional annotation of viral and microbial genomes. PMID:34627149
Complete Genome Sequence of a Polish Enterococcus faecalis vanA-Positive Hospital Isolate. PMID:34617792
Complete Genome Sequence of the Soil-Isolated Psychrobacillus sp. Strain AK 1817, Capable of Biotransforming the Ergostane Triterpenoid Antcin K. PMID:34617788
Complete Genome Sequence of Achromobacter Strain ES-001, a Betaproteobacterium Associated with a Cellulolytic Soil Community. PMID:34617787
Genome Sequence of Escherichia coli Stbl4, a Versatile Genetic Tool for Heterologous Expression. PMID:34617786
Draft Genome Sequence and Annotation of Acinetobacter soli AS15, Isolated from an Irish Hospital. PMID:34617784
Overlapping genes in natural and engineered genomes. PMID:34611352
Identification and classification of antiviral defence systems in bacteria and archaea with PADLOC reveals new system types. PMID:34606606
Genomics-driven discovery of chiral triscatechol siderophores with enantiomeric Fe(iii) coordination. PMID:34603680
Insight Into Whole Genome of Aeromonas veronii Isolated From Freshwater Fish by Resistome Analysis Reveal Extensively Antibiotic Resistant Traits. PMID:34603262
Molecular basis of a bacterial-amphibian symbiosis revealed by comparative genomics, modeling, and functional testing. PMID:34601502
Is amplification bias consequential in transposon sequencing (TnSeq) assays? A case study with a Staphylococcus aureus TnSeq library subjected to PCR-based and amplification-free enrichment methods. PMID:34596508
Complete Genome Sequence of Caulobacter sp. Strain S6, Obtained Using Oxford Nanopore and Illumina Sequencing. PMID:34591684
Draft Genome Sequences of 12 Clostridium tyrobutyricum Strains Isolated from Raw Milk and Cheese. PMID:34591680
Complete Circular Genome Sequences of Brachyspira hyodysenteriae Isolates of the Four Different Sequence Types Causing Swine Dysentery in Switzerland. PMID:34591677
Draft Genome Sequence of Leptospira yasudae Strain BJ3, Isolated from the Soil of an Ex Situ Wild Animal Conservation Area. PMID:34591676
Metagenome Assembly and Metagenome-Assembled Genome of "Candidatus Aramenus sulfurataquae" from Thermal Sediments from the Los Azufres Volcanic Complex. PMID:34591673
Whole-Genome Sequencing of Alcaligenes faecalis HZ01, with Potential to Inhibit Nontuberculous Mycobacterial Growth. PMID:34591668
Complete Genome Sequence of Methanobacterium electrotrophus Strain YSL, Isolated from Coastal Riverine Sediments. PMID:34591665
Complete Genome Sequence of Bacillus amyloliquefaciens EA19, an Endophytic Bacterium with Biocontrol Potential Isolated from Erigeron annuus. PMID:34591661
Draft genome sequence data of a 4-nitrophenol- degrading bacterium, Pseudomonas alloputida strain PNP. PMID:34589566
Aerobactin Seems To Be a Promising Marker Compared With Unstable RmpA2 for the Identification of Hypervirulent Carbapenem-Resistant Klebsiella pneumoniae: In Silico and In Vitro Evidence. PMID:34589442
Genomic Investigation of Methicillin-Resistant Staphylococcus aureus ST113 Strains Isolated from Tertiary Care Hospitals in Pakistan. PMID:34572703
Characterisation of Early Positive mcr-1 Resistance Gene and Plasmidome in Escherichia coli Pathogenic Strains Associated with Variable Phylogroups under Colistin Selection. PMID:34572623
Draft genome sequence of a prodigiosin-hyperproducing Serratia marcescens strain isolated from Cairo, Egypt. PMID:34568929
The first complete genome sequence of species Shewanella decolorationis, from a bioremediation competent strain Ni1-3. PMID:34568919
Isolation and Characterization of High-Efficiency Rhizobia From Western Kenya Nodulating With Common Bean. PMID:34566909
Cohnella cholangitidis sp. nov., a novel species of the genus Cohnella isolated from a clinical specimen in Korea. PMID:34562146
Draft genome sequence data of methanotrophic Methylovulum psychrotolerans strain S1L and Methylomonas paludis strain S2AM isolated from hypoxic water column layers of boreal lakes. PMID:34557576
Draft Genome Sequence of Streptomyces sp. Strain PAM3C, a Prospective Probiotic Agent Isolated from the Gut of the Bay Scallop, Argopecten purpuratus (Lamarck, 1819). PMID:34554003
Complete Genome Sequence of the Neonatal Meningitis Escherichia coli Serotype O18:K1 Strain NMEC15. PMID:34554001
Draft Genome Sequence of the Halophilic Strain Citrobacter braakii AN-PRR1, Isolated from Rhizospheric Soil of Rice (Oryza sativa L.) from Pakistan. PMID:34553999
Draft Genome Sequence of Roseovarius sp. PS-C2, Isolated from Sekinchan Beach in Selangor, Malaysia. PMID:34553998
Draft Genome Sequence of Cupriavidus sp. Strain IK-TO18, Isolated from Antimony-Contaminated Sediment. PMID:34553996
Draft Genome Sequences of Four Different Strains Belonging to Leptospira interrogans Serovar Pomona Isolated from Mammals in the Island of Sardinia, Italy. PMID:34553992
Draft Genome Sequence of the Anoxygenic Phototrophic Bacterium Rhodomicrobium sp. Strain Az07, Isolated from a Brackish Canal. PMID:34553991
Campylobacter concisus upregulates PD-L1 mRNA expression in IFN-γ sensitized intestinal epithelial cells and induces cell death in esophageal epithelial cells. PMID:34552702
Prophage Tracer: precisely tracing prophages in prokaryotic genomes using overlapping split-read alignment. PMID:34551431
Genomic signatures of Lake Erie bacteria suggest interaction in the Microcystis phycosphere. PMID:34550975
Genomic Stability and Genetic Defense Systems in Dolosigranulum pigrum, a Candidate Beneficial Bacterium from the Human Microbiome. PMID:34546072
Genome archaeology of two laboratory Salmonella enterica enterica sv Typhimurium. PMID:34544129
Accurate annotation of protein coding sequences with IDTAXA. PMID:34541527
Genomic characterization of nine Clostridioides difficile strains isolated from Korean patients with Clostridioides difficile infection. PMID:34530913
Microvirga pudoricolor sp. nov., and Microvirga alba sp. nov., isolated from soil in South Korea. PMID:34529113
Complete Genome Sequence of Community-Associated Methicillin-Resistant Staphylococcus aureus Sequence Type 1, SCCmec IV[2B], Isolated in the 1990s from Northern Western Australia. PMID:34528828
Complete Genome Sequences of Three of the Earliest Community-Associated Methicillin-Resistant Staphylococcus aureus Strains Isolated in Remote Western Australia. PMID:34528826
Complete Genome Sequence of Cupriavidus sp. Strain EM10, Isolated from Sewage Sludge. PMID:34528825
Complete Genome Sequence of Bacillus subtilis BYS2, a Strain with a Broad Inhibitory Spectrum against Pathogenic Bacteria. PMID:34528824
Draft Genome Sequences of Three Shewanella sp. Strains Isolated from Urban Freshwaters in the Ohio River Valley, USA. PMID:34528821
Genome Sequences of Community Carriage Strains of Staphylococcus aureus from Yuma, Arizona. PMID:34528818
Complete Genome Sequence of Dickeya dadantii subsp. dieffenbachiae Strain S3-1, Isolated from a White-Flowered Calla Lily in Taiwan. PMID:34528816
Complete Genome Sequence of Erwinia amylovora Strain TS3128, a Korean Strain Isolated in an Asian Pear Orchard in 2015. PMID:34528814
Flavobacterium erciyesense sp. nov., a putative non-pathogenic fish symbiont. PMID:34515811
Genome-resolved metagenome and metatranscriptome analyses of thermophilic composting reveal key bacterial players and their metabolic interactions. PMID:34507539
Herbaspirillum seropedicae expresses non-phosphorylative pathways for D-xylose catabolism. PMID:34499201
Genome Sequences of Mycobacterium Strains Recovered from Captive Elephants with Tuberculosis. PMID:34498929
Genome Sequences of Two Mycobacterium tuberculosis Isolates from Asian Elephants in Nepal. PMID:34498927
Draft Genome Sequences of Heat Shock-Tolerant Microbes Isolated from a Spacecraft Assembly Facility. PMID:34498924
Metagenome-Assembled Genome Sequences Obtained from a Reactivated Kombucha Microbial Community Exposed to a Mars-Like Environment outside the International Space Station. PMID:34498919
Genome Sequencing and Comparative Genomics of Indian Isolates of Brucella melitensis. PMID:34489888
Microbispora oryzae sp. nov., isolated from leaves of rice plant (Oryza sativa L.). PMID:34489568
Secondhand smoke increases the risk of developing kidney stone disease. PMID:34489505
Complete Genome Sequence of Streptococcus oralis 34. PMID:34472981
Draft Genome Sequence of Enterobacter oligotrophicus, Isolated from the Microbiome of a Lizard in the Caribbean. PMID:34472977
Complete Genome Sequence of Rhodococcus sp. Strain W8901, a Human Clinical Specimen, Assembled Using MiSeq and MinION Sequence Data. PMID:34472975
Draft Genome Sequence of Enterobacter asburiae NCR1, a Plant Growth-Promoting Rhizobacterium Isolated from a Cadmium-Contaminated Environment. PMID:34472973
Distribution and diversity of dimetal-carboxylate halogenases in cyanobacteria. PMID:34461836
Genomic and Phenotypic Biology of Novel Strains of Dickeya zeae Isolated From Pineapple and Taro in Hawaii: Insights Into Genome Plasticity, Pathogenicity, and Virulence Determinants. PMID:34456933
The Ever-Expanding Pseudomonas Genus: Description of 43 New Species and Partition of the Pseudomonas putida Group. PMID:34442845
Comparative Genomic Analyses of Flavobacterium psychrophilum Isolates Reveals New Putative Genetic Determinants of Virulence Traits. PMID:34442736
High Occurrence of Shiga Toxin-Producing Escherichia coli in Raw Meat-Based Diets for Companion Animals-A Public Health Issue. PMID:34442635
Functional Genomic Insights into Probiotic Bacillus siamensis Strain B28 from Traditional Korean Fermented Kimchi. PMID:34441683
Genomic Characterization of Fluoroquinolone-Resistant Thermophilic Campylobacter Strains Isolated from Layer Chicken Feces in Gangneung, South Korea by Whole-Genome Sequencing. PMID:34440305
Pontibacillus sp. ALD_SL1 and Psychroflexus sp. ALD_RP9, two novel moderately halophilic bacteria isolated from sediment and water from the Aldabra Atoll, Seychelles. PMID:34437618
Molecular Characterization of Corynebacterium pseudotuberculosis Isolated over a 15-Year Period in Switzerland. PMID:34437473
Complete Genome and Methylome Analysis of the Box-Shaped Halophilic Archaeon Haloarcula sinaiiensis ATCC 33800. PMID:34435862
Draft Genome Sequence of Enterobacter mori Strain NSE2, Isolated from the Rhizosphere of a Sedum sp. PMID:34435860
Identification of an mcr-9-Carrying Salmonella enterica Serotype Heidelberg Strain Isolated from Blood. PMID:34435858
Draft Genome Sequences of Two Clinical Actinobacillus pleuropneumoniae Serotype 19 Strains from Pigs in Switzerland. PMID:34435857
Data on complete genome sequence and annotation of Paenibacillus sonchi LMG 24727T. PMID:34430681
Draft Genome Sequence of Bacillus amyloliquefaciens Strain CB, a Biological Control Agent and Plant Growth-Promoting Bacterium Isolated From Cotton (Gossypium L.) Rhizosphere in Coimbatore, Tamil Nadu, India. PMID:34422005
Whole Genome Sequencing of Sunflower Root-Associated Bacillus cereus. PMID:34421294
tRNAscan-SE 2.0: improved detection and functional classification of transfer RNA genes. PMID:34417604
Comparative Genomics of Potato Common Scab-Causing Streptomyces spp. Displaying Varying Virulence. PMID:34413844
Complete Genome Sequence of Acinetobacter junii Strain INC8271, Isolated from a Patient with Metastatic Cancer and Bacteremia. PMID:34410161
Complete Genome Sequence of Sphingobium xenophagum PH3-15, Isolated from La Roche-Posay Thermal Water Sources. PMID:34410160
Complete Genome Sequence of High Current-Producing Geobacter sulfurreducens Strain YM35, Isolated from River Sediment in Japan. PMID:34410151
Draft Genome Sequence of Hafnia paralvei Strain VBC_1714, Isolated from Frozen Cod Fillet Imported from Russia to Norway. PMID:34410149
Complete genome sequence of an extensively drug resistant (XDR) M. morganii SMM01 isolated from a patient with urinary and fecal incontinence. PMID:34399683
Aquimarina algicola sp. nov., isolated from the surface of a marine red alga. PMID:34398306
Whole Genomic analysis of a clinical isolate of Uropathogenic Escherichia coli strain of Sequence Type - 101 carrying the drug resistance NDM-7 in IncX3 plasmid. PMID:34393427
Genetic and phenotypic analysis of the pathogenic potential of two novel Chlamydia gallinacea strains compared to Chlamydia psittaci. PMID:34389764
Complete Genome Sequence of a Novel Pseudomonas fluorescens Strain Isolated from the Flower of Kūmarahou (Pomaderris kumeraho). PMID:34382834
Draft Genome Sequences of 10 Bacteria from the Marine Pseudoalteromonas Group. PMID:34382833
Draft De Novo Genome Assembly of Acinetobacter pittii Strain VKPM B-3780, a Prospective Multifunctional Bioremediation Agent. PMID:34382832
Draft Genome Sequence of the Mucin Degrader Clostridium tertium WC0709. PMID:34382829
Complete Genome Sequence of the Secondary Alcohol-Utilizing Methanogen Methanospirillum hungatei Strain GP1. PMID:34382827
Draft Genome Sequences of Enterobacter spp., Lelliottia spp., and Serratia spp., Coliform Bacteria from Drinking Water Reservoirs and Lakes. PMID:34382825
Complete Genome Sequence of Lactobacillus crispatus Type Strain ATCC 33820. PMID:34382824
Identification of the Biosynthetic Gene Cluster for the Organoarsenical Antibiotic Arsinothricin. PMID:34378964
Classification of a Violacein-Producing Psychrophilic Group of Isolates Associated with Freshwater in Antarctica and Description of Rugamonas violacea sp. nov. PMID:34378950
Two carbapenem-resistant ST1:ST231:KL1:OCL1 Acinetobacter baumannii strains recovered in Tehran, Iran, carry AbaR31 in the chromosome and AbaR4 and TnaphA6 in a RepAci6 plasmid. PMID:34377981
Population Genomics of emm4 Group A Streptococcus Reveals Progressive Replacement with a Hypervirulent Clone in North America. PMID:34374563
Sphingobacterium pedocola sp. nov. a novel halotolerant bacterium isolated from agricultural soil. PMID:34363180
Functional strain redundancy and persistent phage infection in Swiss hard cheese starter cultures. PMID:34363005
Genomic Analysis of Cutibacterium acnes Strains Isolated from Prosthetic Joint Infections. PMID:34361935
Comparative Genomics of Clinical Isolates of the Emerging Tick-Borne Pathogen Neoehrlichia mikurensis. PMID:34361922
Genome Mining and Comparative Genome Analysis Revealed Niche-Specific Genome Expansion in Antibacterial Bacillus pumilus Strain SF-4. PMID:34356076
Complete Genome Sequence of Escherichia coli Sequence Type 1193 Isolate AVS0096, Recovered from River Water in Switzerland. PMID:34351235
Genome Sequence of Brevibacillus brevis HK544, an Antimicrobial Bacterium Isolated from Soil in Daejeon, South Korea. PMID:34351232
Complete Genome Assemblies of Three Highly Prevalent, Toxigenic Clostridioides difficile Strains Causing Health Care-Associated Infections in Australia. PMID:34351229
Draft Genome Sequences of Two Multidrug-Resistant Sequence Type 405 Escherichia coli Isolates without Clinical Infection. PMID:34351225
Complete and Circularized Genome Sequences of 17 Xanthomonas Strains Responsible for Common Bacterial Blight of Bean. PMID:34351221
Complete and Circularized Genome Sequences of Three Xanthomonas Strains Pathogenic on Soybean and Alfalfa. PMID:34351220
Complete Genome Sequence of Enterobacter asburiae Strain AEB30, Determined Using Illumina and PacBio Sequencing. PMID:34351219
Hymenobacter puniceus sp. nov., radiation resistant bacteria isolated from soil in South Korea. PMID:34342780
Physiological and Genomic Characterization of a Hyperthermophilic Archaeon Archaeoglobus neptunius sp. nov. Isolated From a Deep-Sea Hydrothermal Vent Warrants the Reclassification of the Genus Archaeoglobus. PMID:34335500
Isolation and characterisation of carbapenemase-producing and polymyxin B-resistant Enterobacter bugandensis from a vegetable. PMID:34329791
Draft Genome Sequence of an Epiphytic Strain, Bacillus sp. Strain WL1, Isolated from the Surface of Nostoc flagelliforme Colonies in Yinchuan, Ningxia, China. PMID:34323615
Draft Whole-Genome Sequence of Bacillus paramycoides LB_RP2, a Putative Polyhydroxyalkanoate-Producing Bacterium Isolated from an Amazonian Blackwater River. PMID:34323610
Complete Genome Sequence of Pantoea agglomerans ASB05 Using Illumina and PacBio Sequencing. PMID:34323608
Complete Genome Sequence of Campylobacter jejuni Strain G1, Isolated from a Patient with Guillain-Barré Syndrome. PMID:34323606
Draft Genome Sequences of Two Bacteria from the Roseobacter Group. PMID:34323605
Draft Genome Sequences of the Three Massilia Strains AB1, ST3, and ZL223. PMID:34323604
Complete Genome Sequence of the Cytokinin-Producing Biocontrol Strain Pseudomonas fluorescens G20-18. PMID:34323599
Novel genomic islands and a new vanD-subtype in the first sporadic VanD-type vancomycin resistant enterococci in Norway. PMID:34297779
Draft Genome Sequence of Rhodococcus erythropolis VKPM Ac-1659, a Putative Oil-Degrading Strain Isolated from Polluted Soil in Siberia. PMID:34292073
Characterization of Carbapenem-Resistant Acinetobacter baumannii Isolates from Clinical Specimens. PMID:34292070
Draft Genome Sequence of Aeromonas popoffii ID682, Isolated from a Natural Water Source in Idaho. PMID:34292067
Complete Closed Genome Sequence of the Extremely Heat-Resistant Strain Escherichia coli AW1.7. PMID:34292065
Draft Genome Sequences of Corynebacterium diphtheriae Clinical Isolates from Colombia. PMID:34292063
Comprehensive Molecular Dissection of Dermatophilus congolensis Genome and First Observation of tet(Z) Tetracycline Resistance. PMID:34281179
Analysis of the Taxonomy and Pathogenic Factors of Pectobacterium aroidearum L6 Using Whole-Genome Sequencing and Comparative Genomics. PMID:34276610
At the Gate of Mutualism: Identification of Genomic Traits Predisposing to Insect-Bacterial Symbiosis in Pathogenic Strains of the Aphid Symbiont Serratia symbiotica. PMID:34268133
Whole-Genome Sequences of Mycobacterium abscessus subsp. massiliense Isolates from Brazil. PMID:34264116
Draft Genome Sequences of the Bap-Producing Strain Staphylococcus aureus V329 and Its Derived Phage-Resistant Mutant BIM-1. PMID:34264112
Complete Genome Sequence of a Third- and Fourth-Generation Cephalosporin-Resistant Comamonas kerstersii Isolate. PMID:34264111
Complete Genome Sequence of Arcanobacterium phocisimile Strain DSM 26142, Isolated from a Harbor Seal. PMID:34264110
Draft Genome Sequence of Enterobacter hormaechei subsp. steigerwaltii Strain BEI01. PMID:34264109
Complete Genome Assembly of Myxococcus xanthus Strain DZ2 Using Long High-Fidelity (HiFi) Reads Generated with PacBio Technology. PMID:34264106
Draft Genome Sequence of Janthinobacterium lividum ID1246, Isolated from a Rainbow Trout Hatchery Biofilm. PMID:34264102
Complete Genome Sequence of Streptococcus oralis SF100, Isolated from Blood Cultures from a Patient with Infective Endocarditis. PMID:34264098
Complete Genome Sequence of an Extremely Halophilic Archaeon from Great Salt Lake, Halobacterium sp. GSL-19. PMID:34264097
Draft Genome Sequencing of Stenotrophomonas indicatrix BOVIS40 and Stenotrophomonas maltophilia JVB5, Two Strains with Identifiable Genes Involved in Plant Growth Promotion. PMID:34264096
Genome Sequences of Two Pseudomonas aeruginosa Isolates with Defects in Type III Secretion System Gene Expression from a Chronic Ankle Wound Infection. PMID:34259549
Complete Genome Sequences of Priestia megaterium Type and Clinical Strains Feature Complex Plasmid Arrays. PMID:34236233
Draft Genome Sequence of Coralloluteibacterium stylophorae LMG 29479T. PMID:34236229
Complete Genome Sequences of Three Human Oral Treponema parvum Isolates. PMID:34236225
Draft Genome Sequence of Staphylococcus succinus Strain GN1, Isolated from a Basement Floor in Milwaukee, WI. PMID:34236223
Updated Genome Sequence for the Probiotic Bacterium Bifidobacterium animalis subsp. lactis BB-12. PMID:34236222
Complete Genome Sequences of the Methicillin-Resistant Strain Staphylococcus aureus 17Gst354 and Its Prophage Staphylococcus Phage vB_StaphS-IVBph354. PMID:34236219
In vivo Emergence of Colistin Resistance in Carbapenem-Resistant Klebsiella pneumoniae Mediated by Premature Termination of the mgrB Gene Regulator. PMID:34234754
Production and сharacterization of the exopolysaccharide from strain Paenibacillus polymyxa 2020. PMID:34228741
Genomic Investigation of Carbapenem-Resistant Klebsiella pneumonia Colonization in an Intensive Care Unit in South Africa. PMID:34206235
Phylogenomic Reconstruction and Metabolic Potential of the Genus Aminobacter. PMID:34205374
Feedborne Salmonella enterica Serovar Jerusalem Outbreak in Different Organic Poultry Flocks in Switzerland and Italy Linked to Soya Expeller. PMID:34201865
Klebsiella variicola Reference Strain F2R9 (ATCC BAA-830) Genome Sequence. PMID:34197204
Complete Genome Sequences of Three Clostridiales R-7 Group Strains Isolated from the Bovine Rumen in New Zealand. PMID:34197202
Draft Genome Sequence of Arthrobacter sp. Strain 260, Isolated from a Uranium Tailings Management Facility in Northern Saskatchewan, Canada. PMID:34197201
Draft Genome Sequence of Enterococcus mundtii SCPM-O-B-8398 (E28), Isolated from Fermented Milk in the Moscow Region, Russian Federation. PMID:34197199
Draft Genome Sequence of the Chitin-Degrading Psychrotolerant Bacterium Pedobacter jejuensis TN23, Isolated from Antarctic Soil. PMID:34197196
Complete Genome Sequence of Pasteurella multocida HuN001, a Capsular Type A Strain from a Human. PMID:34197193
Complete Genome Sequence of Rhynchophorus ferrugineus Endocytobiont "Candidatus Nardonella dryophthoridicola" Strain NardRF. PMID:34197191
Complete Genome Sequence of Pseudomonas syringae BIM B-268, a Plant Pathogen Strain Used for In Vitro Testing of Agricultural Bacteriophage Efficiency. PMID:34197188
Comparative insights into genome signatures of ferric iron oxide- and anode-stimulated Desulfuromonas spp. strains. PMID:34171987
Salinimonas marina sp. nov. Isolated from Jeju Island Marine Sediment. PMID:34170378
Bioinformatics tools used for whole-genome sequencing analysis of Neisseria gonorrhoeae: a literature review. PMID:34170311
Sphingobacterium rhinopitheci sp. Nov., isolated from the faeces of Rhinopithecus bieti in China. PMID:34165622
Complete Genome Sequence of a Canadian Strain of Raoultella planticola with Metal and Antimicrobial Resistance Genes. PMID:34165338
Complete Genome Sequences of Six Staphylococcus pseudintermedius Strains from Dogs with Superficial Pyoderma in Georgia, USA. PMID:34165335
Complete Genome Sequence of Streptococcus mutans 27-3, an Active Extracellular Membrane Vesicle Producer. PMID:34165333
Verrucomicrobial methanotrophs grow on diverse C3 compounds and use a homolog of particulate methane monooxygenase to oxidize acetone. PMID:34158629
Draft genome of Metabacillus niabensis strain 4T19T isolated from cotton-waste composts for mushroom cultivation. PMID:34150213
Analysis of Antimicrobial Peptide Metabolome of Bacterial Endophyte Isolated From Traditionally Used Medicinal Plant Millettia pachycarpa Benth. PMID:34149644
Complete genome and description of Corynebacterium incognita sp. nov.: a new bacterium within the Corynebacterium genus. PMID:34141439
Genome Sequences of Mycobacterium tuberculosis Biovar bovis Strains Ravenel and 10-7428. PMID:34137637
Genome Sequences for Extended-Spectrum Beta-Lactamase-Producing Escherichia coli Strains Isolated from Different Water Sources. PMID:34137636
Characterization of an α-Glucosidase Enzyme Conserved in Gardnerella spp. Isolated from the Human Vaginal Microbiome. PMID:34124938
A microbial eukaryote with a unique combination of purple bacteria and green algae as endosymbionts. PMID:34117067
Whole-Genome Sequencing of Micrococcus luteus MT1691313, Isolated from the Mariana Trench. PMID:34110244
Draft Genome Sequence of Rhodococcus qingshengii Strain PN_19, Isolated from a Moribund Individual of Pinna nobilis in Sardinia, Italy. PMID:34110242
Complete Genome Sequence of Human Oral Actinomyces sp. HMT175 Strain ORNL0102, a Host of the Saccharibacterium (TM7) HMT957. PMID:34110241
Complete Genome Sequence of Escherichia coli Antibiotic Resistance Isolate Bank Number 0346. PMID:34110240
Complete Genome Sequence of Neisseria musculi Using Illumina and PacBio Sequencing. PMID:34110239
Draft Genome Sequences of Two Enteroinvasive Escherichia coli Strains Representative of Major Enteroinvasive E. coli Clades. PMID:34110238
Complete Genome Sequence of Paradevosia shaoguanensis Type Strain J5-3, Obtained Using Nanopore and Illumina Sequencing Technologies. PMID:34110237
Bacteriophage Resistance Affects Flavobacterium columnare Virulence Partly via Mutations in Genes Related to Gliding Motility and the Type IX Secretion System. PMID:34106011
Genome profiling of fluoroquinolone-resistant uropathogenic Escherichia coli isolates from Brazil. PMID:34105110
The Vaginal Microbial Signatures of Preterm Birth Delivery in Indian Women. PMID:34094994
Complete Genome Sequence of Xylella taiwanensis and Comparative Analysis of Virulence Gene Content With Xylella fastidiosa. PMID:34093511
Azohydromonas caseinilytica sp. nov., a Nitrogen-Fixing Bacterium Isolated From Forest Soil by Using Optimized Culture Method. PMID:34093463
Cold-shock gene cspC in the genome of Massilia polaris sp. nov. revealed cold-adaptation. PMID:34091798
Flavobacterium agrisoli sp. nov., a novel bacterium isolated from soil. PMID:34085113
MiMiC: a bioinformatic approach for generation of synthetic communities from metagenomes. PMID:34081399
Draft Genome Sequences of 13 Vibrio cholerae Strains from the Rio Grande Delta. PMID:34080905
Draft Genome Sequence of Pandrug-Resistant Pseudomonas aeruginosa SPA03, Isolated from a Patient with Benign Prostatic Hyperplasia. PMID:34080904
Draft Genome Sequences of Vibrio vulnificus Strains Recovered from Moribund Tilapia. PMID:34080900
Genome Sequence of Paenibacillus polymyxa Strain HOB6, Isolated from Hemp Seed Oil. PMID:34080899
Complete Circular Genome Sequence of a mecB- and mecD-Containing Strain of Macrococcus canis. PMID:34080896
Compared with Cotrimoxazole Nitroxoline Seems to Be a Better Option for the Treatment and Prophylaxis of Urinary Tract Infections Caused by Multidrug-Resistant Uropathogens: An In Vitro Study. PMID:34071539
Genomics and Virulence of Klebsiella pneumoniae Kpnu95 ST1412 Harboring a Novel Incf Plasmid Encoding Blactx-M-15 and Qnrs1 Causing Community Urinary Tract Infection. PMID:34068663
Ornithobacterium rhinotracheale: MALDI-TOF MS and Whole Genome Sequencing Confirm That Serotypes K, L and M Deviate from Well-Known Reference Strains and Numerous Field Isolates. PMID:34067063
Rationally designed bacterial consortia to treat chronic immune-mediated colitis and restore intestinal homeostasis. PMID:34050144
Systems biology evaluation of refractory Clostridioides difficile infection including multiple failures of fecal microbiota transplantation. PMID:34044101
Closed Genome Sequence of a Salmonella enterica Serotype Senftenberg Strain Carrying the mcr-9 Gene Isolated from Broken Chicken Eggshells in Trinidad and Tobago. PMID:34042489
Draft Genome Sequences of 40 Dermatophilus congolensis Isolates from Bovine Dermatophilosis Cases in St. Kitts and Nevis. PMID:34042483
Draft Genome Sequence of Environmental Isolate Acinetobacter nosocomialis U20-HoPe-S34-3 from Germany. PMID:34042479
Draft Genome Sequences of Switchgrass Diazotrophs. PMID:34042473
Hymenobacter properus sp. nov., Hymenobacter ruricola sp. nov., and Hymenobacter jeongseonensis sp. nov., three new species isolated from mountain and beach soil in South Korea. PMID:34041640
Whole-Genome Analysis of Mycobacterium avium subsp. paratuberculosis IS900 Insertions Reveals Strain Type-Specific Modalities. PMID:34040595
Genomic analysis of Neisseria elongata isolate from a patient with infective endocarditis. PMID:34038628
Genome analysis of Spiroplasma citri strains from different host plants and its leafhopper vectors. PMID:34022804
Complete Genome Sequence of Lentilactobacillus parabuchneri Strain KEM. PMID:34016686
Complete Genome Sequence of Bacillus cereus Sensu Stricto VKM B-370, Isolated from the Silkworm Bombyx mori. PMID:34016682
Draft Genome Sequences of Five Staphylococcus saprophyticus Strains Isolated from African Fermented Nono in Nigeria. PMID:34016680
Complete Genome Sequences of Two Gammaproteobacterial Methanotrophs Isolated from a Mercury-Contaminated Stream. PMID:34016673
Genomic evolution of the class Acidithiobacillia: deep-branching Proteobacteria living in extreme acidic conditions. PMID:34007059
De novo genome assembly and analysis unveil biosynthetic and metabolic potentials of Pseudomonas fragi A13BB. PMID:34006216
Flavobacterium inviolabile sp. nov. isolated from stream water. PMID:33993324
Genome Sequence of Streptomyces cavourensis BUU135, Isolated from Soil from a Tropical Fruit Farm in Thailand. PMID:33986105
Whole-Genome Sequencing Analysis of Salmonella Isolates from Poultry Farms, a Slaughterhouse, and Retail Stalls in Thailand. PMID:33986103
Complete Genome Sequence of Bacillus coagulans BC01, a Promising Human Probiotic Strain Isolated from Thick Broad Bean Sauce. PMID:33986102
Complete Genome Sequence of Rhodococcus qingshengii Strain CL-05, Isolated from Concrete. PMID:33986101
Carriage of Capsular Serotype K1 Klebsiella pneumoniae Sequence Type 23 Strains in Healthy Microbiology Laboratory Staff in Russia. PMID:33986096
Whole-Genome Sequencing and Annotation of 10 Endophytic and Epiphytic Bacteria Isolated from Lolium arundinaceum. PMID:33986094
Draft Genome Sequences of Legionella Presumptive Novel Species Isolated during Environmental Surveillance in Artificial Water Systems. PMID:33986093
Draft Genome Sequence of Bacillus velezensis BZR 277, a Prospective Biocontrol Agent against Phytoparasitic Nematodes. PMID:33986089
Hybrid Assembly of the Quorum-Quenching Isolate Variovorax paradoxus VAI-C Genome Sequence. PMID:33986088
Complete Genome Assembly of Multidrug-Resistant Yersinia enterocolitica Y72, Isolated in Sweden. PMID:33986087
Draft Genome Sequence of Lignin-Degrading Agrobacterium sp. Strain S2, Isolated from a Decaying Oil Palm Empty Fruit Bunch. PMID:33986086
Metagenome-Assembled Genomes Isolated from a Human Fecal Diarrhea Sample. PMID:33986083
Four Complete Genome Sequences for Bradyrhizobium sp. Strains Isolated from an Endemic Australian Acacia Legume Reveal Structural Variation. PMID:33986081
Draft Genome Sequences of 29 Helicobacter pylori Strains Isolated from Colombia. PMID:33986079
Complete Genome Sequences of Curtobacterium, Pantoea, Erwinia, and Two Pseudomonas sp. Strains, Isolated from Apple Flower Stigmas from Connecticut, USA. PMID:33986077
Draft Genome Sequence of Mycobacterium sp. Strain JC1 DSM 3803. PMID:33986076
Complete Multipartite Genome Sequence of the Cupriavidus basilensis Type Strain, a 2,6-Dichlorophenol-Degrading Bacterium. PMID:33986075
Genome Investigation of Urinary Gardnerella Strains and Their Relationship to Isolates of the Vaginal Microbiota. PMID:33980674
Comprehensive discovery of novel structured noncoding RNAs in 26 bacterial genomes. PMID:33970790
Spirosoma profusum sp. nov., and Spirosoma validum sp. nov., radiation-resistant bacteria isolated from soil in South Korea. PMID:33969460
Horizontal Gene Transfer of Genes Encoding Copper-Containing Membrane-Bound Monooxygenase (CuMMO) and Soluble Di-iron Monooxygenase (SDIMO) in Ethane- and Propane-Oxidizing Rhodococcus Bacteria. PMID:33962978
IND-enzymes: a repository for hydrolytic enzymes derived from thermophilic and psychrophilic bacterial species with potential industrial usage. PMID:33961119
Complete Genome Sequence of a Pseudomonas simiae Strain with Biocontrol Potential against Aphanomyces Root Rot. PMID:33958418
Complete Genome Sequence of Chlamydia abortus MRI-10/19, Isolated from a Sheep Vaccinated with the Commercial Live C. abortus 1B Vaccine Strain. PMID:33958416
Genome Sequence of the Type Strain Azospira restricta SUA2 (DSM 18626). PMID:33958413
Complete Genome Sequence of Halomonas venusta Type Strain DSM 4743, a Moderately Halophilic Marine Bacterium. PMID:33958412
Complete Genome Sequence of Bacillus sp. Strain V3, Isolated from Mangrove Sediments in Wenzhou, China. PMID:33958409
Draft Genome Sequences of Four Aerobic Isobutane-Metabolizing Bacteria. PMID:33958408
Complete Genome Sequence of the Endosymbiotic Bacterium "Candidatus Riesia pediculicola". PMID:33958407
Complete Genome Sequences of Francisella marina Strains E95-16 and E103-15, Isolated from Maricultured Spotted Rose Snapper (Lutjanus guttatus) on the Pacific Coast of Central America. PMID:33958406
Draft Genome Sequences of Three Multidrug-Resistant Staphylococcus spp. Isolated from Hospital Wastewater in Malaysia. PMID:33958405
Complete Genome Sequences of Three Clinical Listeria monocytogenes Sequence Type 8 Strains from Recent German Listeriosis Outbreaks. PMID:33958403
Genome Sequence and Methylation Pattern of Haloterrigena salifodinae BOL5-1, an Extremely Halophilic Archaeon from a Bolivian Salt Mine. PMID:33958400
Whole-Genome Sequence of a Brucella pinnipedialis Sequence Type 54 Strain Isolated from a Hooded Seal (Cystophora cristata) from the North Atlantic Ocean, Norway. PMID:33958398
Complete Genome Sequences of Pseudomonas atacamensis Strain SM1 and Pseudomonas toyotomiensis Strain SM2, Isolated from the Date Palm Rhizosphere. PMID:33958397
Everything Is Everywhere: Physiological Responses of the Mediterranean Sea and Eastern Pacific Ocean Epiphyte Cobetia Sp. to Varying Nutrient Concentration. PMID:33954842
Hymenobacter negativus sp. nov., bacteria isolated from mountain soil collected in South Korea. PMID:33948755
Comparative genome analysis of multidrug-resistant Pseudomonas aeruginosa JNQH-PA57, a clinically isolated mucoid strain with comprehensive carbapenem resistance mechanisms. PMID:33932986
Cocultivation of an ultrasmall environmental parasitic bacterium with lytic ability against bacteria associated with wastewater foams. PMID:33927381
Complete Genome Sequence of a Blochmannia Endosymbiont of Colobopsis nipponica. PMID:33927044
Draft Genome Sequence of Bacillus albus Strain IB84, Isolated from Mexican Soil. PMID:33927041
Draft Genome Assemblies of Two Campylobacter novaezeelandiae and Four Unclassified Thermophilic Campylobacter Isolates from Canadian Agricultural Surface Water. PMID:33927040
Draft Genome Sequences of Five Vibrio neptunius Strains Isolated from Hatcheries of Bivalve Mollusks. PMID:33927038
Draft Genome Sequences of Various Bacterial Phyla Isolated from the International Space Station. PMID:33927037
Complete Genome Sequences of Two Corynebacterium macginleyi Strains Isolated from Infectious Keratitis. PMID:33927036
Complete Genome Sequence of an Antimicrobial-Producing Bacillus velezensis Sam8H1 Isolate from the Makgadikgadi Saltpans of Botswana. PMID:33927034
Complete and Draft Genome Sequences of the Cruciferous Pathogens Pseudomonas cannabina pv. alisalensis and Pseudomonas syringae pv. maculicola. PMID:33927031
Complete Genome Sequences of Four Canadian Mycoplasma bovis Strains Isolated from Bison and Cattle. PMID:33927029
Draft Genome Sequence of Clostridium beijerinckii Strain mbf-VZ-132, Isolated from an Environmental Soil Sample. PMID:33927028
Draft Genome Sequences of Three Strains of Campylobacter jejuni Isolated from Patients with Guillain-Barré Syndrome in Bangladesh. PMID:33927026
Genomic Characterization of Salmonella typhimurium DT104 Strains Associated with Cattle and Beef Products. PMID:33925684
Biotechnological and Ecological Potential of Micromonospora provocatoris sp. nov., a Gifted Strain Isolated from the Challenger Deep of the Mariana Trench. PMID:33923039
Probiogenomics of Lactobacillus delbrueckii subsp. lactis CIDCA 133: In Silico, In Vitro, and In Vivo Approaches. PMID:33919849
Genome and Pangenome Analysis of Lactobacillus hilgardii FLUB-A New Strain Isolated from Mead. PMID:33917427
Genomic characterization and computational phenotyping of nitrogen-fixing bacteria isolated from Colombian sugarcane fields. PMID:33911103
Mucilaginibacter segetis sp. nov., Isolated from Soil. PMID:33909088
Spurious regulatory connections dictate the expression-fitness landscape of translation factors. PMID:33900014
Complete Genome Sequence of Bacillus safensis Strain 3A, a Heavy Metal-Resistant Bacterium Isolated from Contaminated Estuarine Sediment in Brazil. PMID:33888506
Hybrid Nanopore-Illumina Genome Assembly of a Drosophila suzukii Gut Bacterial Symbiont, Gluconobacter cerinus FLW-1. PMID:33888503
Draft Genome Sequence of Limosilactobacillus fermentum Strain NKN-51, Isolated from Fermented Yak Milk in the Western Himalayas of India. PMID:33888502
Whole-Genome Sequencing and De Novo Assembly of 61 Staphylococcus pseudintermedius Isolates from Healthy Dogs and Dogs with Pyoderma. PMID:33888500
Complete Genome Sequence of Anaerostipes caccae Strain L1-92T, a Butyrate-Producing Bacterium Isolated from Human Feces. PMID:33888495
Draft Genome Sequence of Persistent Klebsiella grimontii AT013-Mero-001, Isolated from Human Feces. PMID:33888494
Genome analysis provides insights into the biocontrol ability of Mitsuaria sp. strain TWR114. PMID:33880605
Pikeienuella piscinae gen. nov., sp. nov., a novel genus in the family Rhodobacteraceae. PMID:33877579
Streptomyces adelaidensis sp. nov., an actinobacterium isolated from the root of Callitris preissii with potential for plant growth-promoting properties. PMID:33871674
Comparative Whole Genome Analysis of Escherichia coli O157:H7 Isolates From Feedlot Cattle to Identify Genotypes Associated With the Presence and Absence of stx Genes. PMID:33868205
Draft Genome Sequence and Polyhydroxyalkanoate Biosynthetic Potential of Jeongeupia naejangsanensis Type Strain DSM 24253. PMID:33858927
Draft Genome Sequence of Enterococcus faecalis 1351, Isolated from a Mastitis-Affected Camel in Isiolo County, Kenya. PMID:33858924
Draft Genome Sequences of Pseudomonas syringae pv. tomato Strains J4 and J6, Isolated in Florida. PMID:33858923
Complete Genome Sequences of Three Invasive Strains of Streptococcus pyogenes Subtype emm5.23 Isolated in Scotland. PMID:33858921
Complete Genome Sequence of Mycobacterium avium subsp. paratuberculosis Strain 42-13-1, Isolated in Japan. PMID:33858919
Genome Sequence of Sulfide-Dependent Denitrification Bacterium Thermomonas sp. Strain XSG, Isolated from Marine Sediment. PMID:33858918
Complete Genome Sequence of the Red-Pigmented Strain Serratia marcescens SCQ1 and Its Four Spontaneous Pigment Mutants. PMID:33858915
Taxonogenomics description of Arcanobacterium urinimassiliense sp. nov., a new bacterial species isolated from urine sample. PMID:33854785
Actirhodobacter atriluteus gen. nov., sp. nov., isolated from the surface water of the Yellow Sea. PMID:33847861
Genome-wide analysis in Escherichia coli unravels a high level of genetic homoplasy associated with cefotaxime resistance. PMID:33843573
Draft Genome of Proteus mirabilis Serogroup O18 Elaborating Phosphocholine-Decorated O Antigen. PMID:33842384
Whole-genome sequence-based analysis of the Paenibacillus aquistagni strain DK1, a polyethylene-degrading bacterium isolated from landfill. PMID:33839943
Multiple concurrent and convergent stages of genome reduction in bacterial symbionts across a stink bug family. PMID:33833268
Complete Genome Sequence of Human Oral Actinomyces sp. HMT897 Strain ORNL0104, a Host of the Saccharibacterium (TM7) HMT351. PMID:33833021
Functional genomics of a Spiroplasma associated with the carmine cochineals Dactylopius coccus and Dactylopius opuntiae. PMID:33823812
Microbiome assembly for sulfonamide subsistence and the transfer of genetic determinants. PMID:33820946
Hymenobacter citatus sp. nov., isolated from soil in South Korea. PMID:33811262
Staphylococcus saccharolyticus Associated with Prosthetic Joint Infections: Clinical Features and Genomic Characteristics. PMID:33810311
Complete Whole Genome Sequences of Escherichia coli Surrogate Strains and Comparison of Sequence Methods with Application to the Food Industry. PMID:33809423
Whole-Genome Sequencing and Comparative Genomics of Three Helicobacter pylori Strains Isolated from the Stomach of a Patient with Adenocarcinoma. PMID:33809022
Isolation and Characterization of Potential Starter Cultures from the Nigerian Fermented Milk Product nono. PMID:33808742
Prediction of Selected Biosynthetic Pathways for the Lipopolysaccharide Components in Porphyromonas gingivalis. PMID:33804654
Functional Annotation Genome Unravels Potential Probiotic Bacillus velezensis Strain KMU01 from Traditional Korean Fermented Kimchi. PMID:33803098
Transmission of Similar Mcr-1 Carrying Plasmids among Different Escherichia coli Lineages Isolated from Livestock and the Farmer. PMID:33803068
Comparative Genomics of Xanthomonas euroxanthea and Xanthomonas arboricola pv. juglandis Strains Isolated from a Single Walnut Host Tree. PMID:33803052
GABA-Producing Lactococcus lactis Strains Isolated from Camel's Milk as Starters for the Production of GABA-Enriched Cheese. PMID:33802798
Protein-Coding Genes of Helicobacter pylori Predominantly Present Purifying Selection though Many Membrane Proteins Suffer from Selection Pressure: A Proposal to Analyze Bacterial Pangenomes. PMID:33800844
Genomic Data of Acaciella Nodule Ensifer mexicanus ITTG R7T. PMID:33795348
Draft Genome Sequence of a Multidrug-Resistant Klebsiella pneumoniae Isolate from a Prosthetic Joint Infection. PMID:33795342
Complete Genome Sequence of Shigella sonnei Strain SE6-1, Capable of Selenate Reduction. PMID:33795341
Draft Genome Sequence of Mobilitalea sibirica Strain P3M-3T, the Sole Representative of the Genus Mobilitalea. PMID:33795340
Draft Genome Sequences of Three Strains of Acidithiobacillus spp. Isolated from Acidic Cold Springs in a Freshwater Wetland. PMID:33795339
Revised Draft Genome Sequences of Rhodomicrobium vannielii ATCC 17100 and Rhodomicrobium udaipurense JA643. PMID:33795336
Methylobacterium ajmalii sp. nov., Isolated From the International Space Station. PMID:33790880
Clinical Experience of Cerebrospinal Fluid-Based Liquid Biopsy Demonstrates Superiority of Cell-Free DNA over Cell Pellet Genomic DNA for Molecular Profiling. PMID:33781965
SNP-based genotyping and whole-genome sequencing reveal previously unknown genetic diversity in Xanthomonas vasicola pv. musacearum, causal agent of banana xanthomonas wilt, in its presumed Ethiopian origin. PMID:33776147
Genomic insights into biocontrol potential of edible seaweed-associated Bacillus velezensis MTCC 10456 from Gulf of Mannar. PMID:33770230
Complete Genome Sequences of African Salmonella enterica Serovar Enteritidis Clinical Isolates Associated with Bloodstream Infection. PMID:33766909
Complete Genome Sequence of Campylobacter hepaticus Strain UF2019SK1, Isolated from a Commercial Layer Flock in the United States. PMID:33766908
Draft Genome Sequences of Dysgonomonas sp. Strains GY75 and GY617, Isolated from the Hindgut of Reticulitermes flavipes. PMID:33766898
Genome-resolved metagenomics using environmental and clinical samples. PMID:33758906
Genome insight and description of antibiotic producing Massilia antibiotica sp. nov., isolated from oil-contaminated soil. PMID:33758279
Micromonospora veneta sp. nov., an endophytic actinobacterium with potential for nitrogen fixation and for bioremediation. PMID:33754164
Methylation analysis of Klebsiella pneumoniae from Portuguese hospitals. PMID:33753763
Flavisolibacter longurius sp. nov., isolated from soil. PMID:33742220
Stable Recombinant-Gene Expression from a Ligilactobacillus Live Bacterial Vector via Chromosomal Integration. PMID:33741626
Genome-wide methylome analysis of two strains belonging to the hypervirulent Neisseria meningitidis serogroup W ST-11 clonal complex. PMID:33737546
Draft Genome Sequences of Nine Environmental Bacterial Isolates Colonizing Plastic. PMID:33737371
Complete Genome Sequence of Sinorhizobium meliloti S35m, a Salt-Tolerant Isolate from Alfalfa Rhizosphere in Soil Native to the Caucasus Region. PMID:33737367
Complete Genome Sequence of the Bacterial Component of Mysorin Biopreparation. PMID:33737366
Draft Genome Sequence of Plant Growth-Promoting Rhizobacterium Burkholderia sp. Strain USMB20, Isolated from Nodules of Mucuna bracteata. PMID:33737365
Genome Sequence of Clostridium sp. Strain P21, a CO-Fermenting Acetogen Isolated from Old Hay. PMID:33737364
Complete Genome Sequence of Rhodococcus qingshengii Strain VKM Ac-2784D, Isolated from Elytrigia repens Rhizosphere. PMID:33737361
Complete Genome Sequence of Pseudoalteromonas sp. Strain LC2018020214, a Bacterium Isolated from Natural Seawater. PMID:33737359
Complete Genome Sequences of Three Uropathogenic Klebsiella quasipneumoniae Strains Isolated from Postmenopausal Women with Recurrent Urinary Tract Infection. PMID:33737357
Draft Genome Sequences of 19 Clinical stx-Harboring Escherichia coli O80:H2 Strains. PMID:33737351
Draft Genome Sequence of the Prazosin-Degrading Bacillus sp. Strain PR5, Isolated from a River Receiving Hospital and Urban Wastewater in Malaysia. PMID:33737348
Complete Genomic Sequences of Campylobacter coli Strains Isolated from Poultry Sold in Pennsylvania Farmers' Markets. PMID:33737347
Anaerocolumna sedimenticola sp. nov., isolated from fresh water sediment. PMID:33730291
Genomics of an endemic cystic fibrosis Burkholderia multivorans strain reveals low within-patient evolution but high between-patient diversity. PMID:33720991
Phenotypic and genomic characterization of Pseudomonas putida ITEM 17297 spoiler of fresh vegetables: Focus on biofilm and antibiotic resistance interaction. PMID:33718885
Complete Genome Sequence of Curtobacterium sp. Strain YC1, Isolated from the Surface of Nostoc flagelliforme Colonies in Yinchuan, Ningxia, China. PMID:33707340
Complete Genome Sequence of Brucella abortus 68, Isolated from Aborted Fetal Sheep in Ukraine. PMID:33707337
Complete Genome Sequence of Rhodococcus sp. Strain M8, a Platform Strain for Acrylic Monomer Production. PMID:33707335
Complete Annotated Genome Sequence of the Salmonella enterica Serovar Typhimurium LT7 Strain STK003, Historically Used in Gene Transfer Studies. PMID:33707333
Draft Genome Sequence of the Type Strain Bacillus subtilis subsp. subtilis DSM10. PMID:33707332
Complete Genome Sequences of Two Staphylococcus saccharolyticus Strains Isolated from Prosthetic Joint Infections. PMID:33707331
Draft Genome Sequences of 62 Staphylococcus aureus Isolates Associated with Four Foodborne Outbreaks in the United States. PMID:33707328
Complete Genome Sequence Obtained by Nanopore and Illumina Hybrid Assembly of Xanthomonas arboricola pv. juglandis CPBF 427, Isolated from Buds of a Walnut Tree. PMID:33707324
Draft Genome Sequence of the Sattazolin-Producing Strain Pseudonocardia sp. C8, Isolated from a Mud Dauber Wasp Nest in Nepal. PMID:33707315
Genomic analysis of dibenzofuran-degrading Pseudomonas veronii strain Pvy reveals its biodegradative versatility. PMID:33693598
Complete Genome Sequence of Cellulomonas sp. JZ18, a Root Endophytic Bacterium Isolated from the Perennial Desert Tussock-Grass Panicum turgidum. PMID:33683416
Genome sequence analysis and bioactivity profiling of marine-derived actinobacteria, Brevibacterium luteolum, and Cellulosimicrobium funkei. PMID:33677635
Comparative Genomic Analysis of Three Pseudomonas Species Isolated from the Eastern Oyster (Crassostrea virginica) Tissues, Mantle Fluid, and the Overlying Estuarine Water Column. PMID:33673397
Janthinobacterium tructae sp. nov., Isolated from Kidney of Rainbow Trout (Oncorhynchus mykiss). PMID:33669546
Complete Genome Sequence of Staphylococcus epidermidis PH1-28, Isolated from the Forehead of a Hyperseborrheic Donor. PMID:33664152
Complete Genome Sequence of Peptacetobacter (Clostridium) hiranonis Strain DGF055142, Isolated from Dog Feces from Flagstaff, Arizona, USA, 2019. PMID:33664150
Complete Genome Sequence of Aureimonas sp. Strain OT7, Isolated from Human Skin. PMID:33664149
Draft Genome Sequence of Bacillus toyonensis Strain GM18, Isolated from Agricultural Soil. PMID:33664148
Draft Genome Sequences of Seven Vibrio cholerae Isolates from Adult Patients in Qatar. PMID:33664147
Complete and Circularized Bacterial Genome Sequence of Gordonia sp. Strain X0973. PMID:33664146
Draft Genome Sequence of Salmonella enterica subsp. enterica Serovar Enteritidis ODA 99-30581-13, a Heat-Resistant Strain Isolated from Shell Eggs. PMID:33664142
Complete and Draft Genome Sequences of Aerobic Methanotrophs Isolated from a Riparian Wetland. PMID:33664141
Genome Sequences of Five Novel Neisseria gonorrhoeae Sequence Types Isolated in KwaZulu-Natal, South Africa. PMID:33664140
Draft Genome Sequences of 28 Actinobacteria of the Family Microbacteriaceae Associated with Nematode-Infected Plants. PMID:33664138
Complete Genome Sequence of a Pseudomonas Species Isolated from Tailings Pond Water in Alberta, Canada. PMID:33664136
Genome mining and description of Streptomyces albidus sp. nov., an endophytic actinobacterium with antibacterial potential. PMID:33661469
Altererythrobacter flava sp. nov., a new member of the family Erythrobacteraceae, isolated from a surface seawater sample. PMID:33661468
Draft genome and description of Microvirga mediterraneensis strain Marseille-Q2068T sp. nov., a new bacterium isolated from human healthy skin. PMID:33659063
Mobile Plasmid Mediated Transition From Colistin-Sensitive to Resistant Phenotype in Klebsiella pneumoniae. PMID:33658985
Escherichia coli EC93 deploys two plasmid-encoded class I contact-dependent growth inhibition systems for antagonistic bacterial interactions. PMID:33646095
Balrog: A universal protein model for prokaryotic gene prediction. PMID:33635857
Genome Sequence of Streptomyces sp. Strain HB-N217, Isolated from the Marine Sponge Forcepia sp. PMID:33632867
Complete Genome Sequence of Escherichia coli Strain FEX669, a ColV Plasmid-Containing Isolate from Retail Chicken Meat. PMID:33632865
Complete Genome Sequence of Campylobacter hepaticus USA52, Associated with Chicken Spotty Liver Disease. PMID:33632862
Genome Sequencing of Kocuria varians Strain 80, Isolated from Starter Culture for Dry Sausage. PMID:33632857
Complete Genome Sequence of Bradyrhizobium sp. Strain BDV5419, Representative of Australian Genospecies L. PMID:33632854
Draft Genome Sequence of Halomonas sp. Strain KAO, a Halophilic Mn(II)-Oxidizing Bacterium. PMID:33632853
Complete Genome Sequence of Kinneretia sp. Strain DAIF2, Isolated from a Freshwater Pond. PMID:33632852
Genomic relatedness and clinical significance of Streptococcus mitis strains isolated from the urogenital tract of sexual partners. PMID:33629947
Discovery of novel community-relevant small proteins in a simplified human intestinal microbiome. PMID:33622394
Draft genome and description of Mixta mediterraneensis strain Marseille-Q2057T sp.nov., a new bacterium isolated from human healthy skin. PMID:33604053
Draft Genome Sequences of 113 Escherichia coli Strains Isolated from Intramammary Infections in Dairy Cattle. PMID:33602739
Draft Genome Sequence of Herminiimonas contaminans Strain CCM 7991T, a Biopharmaceutical Contaminant. PMID:33602736
Metagenomes and Assembled Genomes from Diarrhea-Affected Cattle (Bos taurus). PMID:33602735
Draft Genome Sequence of Weissella paramesenteroides STCH-BD1, Isolated from Ensiled Sorghum bicolor. PMID:33602733
Alcanivorax profundimaris sp. nov., a Novel Marine Hydrocarbonoclastic Bacterium Isolated from Seawater and Deep-Sea Sediment. PMID:33599831
Amycolatopsis pittospori sp. nov., an endophytic actinobacterium isolated from native apricot tree and genome mining revealed the biosynthesis potential as antibiotic producer and plant growth promoter. PMID:33598876
Streptomyces bathyalis sp. nov., an actinobacterium isolated from the sponge in a deep sea. PMID:33595745
Criibacterium bergeronii gen. nov., sp. nov., a new member of the family Peptostreptococcaceae, isolated from human clinical samples. PMID:33586648
The Isolate Caproiciproducens sp. 7D4C2 Produces n-Caproate at Mildly Acidic Conditions From Hexoses: Genome and rBOX Comparison With Related Strains and Chain-Elongating Bacteria. PMID:33584563
Comparative Virulence and Genomic Analysis of Streptococcus suis Isolates. PMID:33574803
Complete Genome Sequence of Exfoliative Toxin-Producing Staphylococcus aureus Strain MSSA_SSSS_01, Obtained from a Case of Staphylococcal Scalded-Skin Syndrome. PMID:33574109
Draft Genome Sequences of Pseudomonas sp. Isolates Recovered from Ghanaian Fish Food Samples in 2018. PMID:33574108
Draft Genome Sequence of Comamonas jiangduensis Strain YW1T. PMID:33574105
Potential Whole-Cell Biosensors for Detection of Metal Using MerR Family Proteins from Enterobacter sp. YSU and Stenotrophomonas maltophilia OR02. PMID:33572806
Comparative genomics of a novel clade shed light on the evolution of the genus Erysipelothrix and characterise an emerging species. PMID:33564084
Vagococcus fluvialis isolation and sequencing from urine of healthy cattle. PMID:33561240
Whole-genome sequencing, genome mining, metabolic reconstruction and evolution of pentachlorophenol and other xenobiotic degradation pathways in Bacillus tropicus strain AOA-CPS1. PMID:33547987
Distinct clonal lineages and within-host diversification shape invasive Staphylococcus epidermidis populations. PMID:33544760
An antimicrobial Staphylococcus sciuri with broad temperature and salt spectrum isolated from the surface of the African social spider, Stegodyphus dumicola. PMID:33543432
Draft Genome Sequence of Antarctic Psychrotroph Streptomyces fildesensis Strain INACH3013, Isolated from King George Island Soil. PMID:33541887
Complete Genome Sequence of Klebsiella pneumoniae Strain ATCC 43816. PMID:33541885
Closed Genome Sequences of Clinical Listeria monocytogenes PCR Serogroup IVb Isolates Associated with Two Recent Large Listeriosis Outbreaks in Germany. PMID:33541883
Draft Genome Sequence of Streptococcus agalactiae TA B490, a Multidrug-Resistant Strain Isolated from Bovine Mastitis in Argentina. PMID:33541881
Draft Genome Sequences of 27 Northern Maine Clinical Isolates. PMID:33541879
Whole-Genome Assembly of Yersinia pestis 231, the Russian Reference Strain for Testing Plague Vaccine Protection. PMID:33541878
Analysis of Bacteroides fragilis Clinical Strains Isolated in Kazakhstan. PMID:33541875
Genome Sequence of a Novel Soil Actinomycete, Protaetiibacter sp. Strain SSC-01. PMID:33541872
Draft Genome Sequence of Vogesella oryzae L3B39T, Isolated from the Rhizosphere of Saline-Tolerant Pokkali Rice. PMID:33541871
Complete Genome Sequence of Desulfobulbus oligotrophicus Prop6, an Anaerobic Deltabacterota Strain That Lacks Mercury Methylation Capability. PMID:33541869
Genomic and clinical characterisation of multidrug-resistant carbapenemase-producing ST231 and ST16 Klebsiella pneumoniae isolates colonising patients at Siriraj hospital, Bangkok, Thailand from 2015 to 2017. PMID:33541274
Genome annotation of disease-causing microorganisms. PMID:33537706
Taxonomic Evaluation of the Heyndrickxia (Basonym Bacillus) sporothermodurans Group (H. sporothermodurans, H. vini, H. oleronia) Based on Whole Genome Sequences. PMID:33530338
Within-Host Microevolution of Pseudomonas aeruginosa Urinary Isolates: A Seven-Patient Longitudinal Genomic and Phenotypic Study. PMID:33519766
Isolation, Biochemical and Genomic Characterization of Glyphosate Tolerant Bacteria to Perform Microbe-Assisted Phytoremediation. PMID:33519737
Whole Genome Sequencing and Root Colonization Studies Reveal Novel Insights in the Biocontrol Potential and Growth Promotion by Bacillus subtilis MBI 600 on Cucumber. PMID:33510723
Draft Genome Sequences of Dysgonomonas sp. Strains BGC7 and HGC4, Isolated from the Hindgut of a Lower Termite. PMID:33509995
Genome Sequences of 104 Escherichia coli O157:H7 Isolates from Pigs, Cattle, and Pork Production Environments in Alberta, Canada. PMID:33509991
Whole-Genome Assemblies of 16 Burkholderia pseudomallei Isolates from Rivers in Laos. PMID:33509986
Draft Genome Sequences of a Bacillus subtilis Strain, a Bacillus velezensis Strain, a Paenibacillus Strain, and an Acinetobacter baumannii Strain, All Isolated from the Phyllosphere of Lactuca sativa or Solanum lycopersicum. PMID:33509984
Complete Genome Sequence of Phascolarctobacterium faecium G 104, Isolated from the Stools of a Healthy Lean Donor. PMID:33509983
Strategies for recovery of imbalanced full-scale biogas reactor feeding with palm oil mill effluent. PMID:33505799
Markers to Rapidly Distinguish Bacillus paralicheniformis From the Very Close Relative, Bacillus licheniformis. PMID:33505369
Complete Genome Sequencing of Acinetobacter baumannii AC1633 and Acinetobacter nosocomialis AC1530 Unveils a Large Multidrug-Resistant Plasmid Encoding the NDM-1 and OXA-58 Carbapenemases. PMID:33504662
Locus of Heat Resistance (LHR) in Meat-Borne Escherichia coli: Screening and Genetic Characterization. PMID:33483306
Genomic analysis of a novel species Halomonas shambharensis isolated from hypersaline lake in Northwest India. PMID:33479827
Complete Genome Sequence of Bradyrhizobium sp. Strain BDV5040, Representative of Widespread Genospecies B in Australia. PMID:33479000
Complete Genome Sequence of Mycobacterium bovis BCG SL222 Sofia, the First WHO Reference Reagent for the M. bovis BCG Vaccine of the Russian BCG-I Substrain. PMID:33478999
Complete Genome Sequence of Vibrio cholerae O1 El Tor Strain C6706. PMID:33478998
Draft Genome Sequences of Idiomarina abyssalis Strain KJE, Marinobacter salarius Strain NP2017, and Marinobacter salarius Strain AT3901, Isolated from Deep-Sea Sediment near the Western Flank of the Mid-Atlantic Ridge. PMID:33478997
Complete Genome Sequence of Aeromonas salmonicida subsp. masoucida Strain BR19001YR, Isolated from Diseased Korean Rockfish (Sebastes schlegelii). PMID:33478996
Draft Genome Sequence of the Type Strain Lysobacter capsici VKM B-2533. PMID:33478995
Serotyping of sub-Saharan Africa Salmonella strains isolated from poultry feces using multiplex PCR and whole genome sequencing. PMID:33468047
Bacteria and Metabolic Potential in Karst Caves Revealed by Intensive Bacterial Cultivation and Genome Assembly. PMID:33452024
Metagenome-Assembled Genome Sequences of Raphidiopsis raciborskii and Planktothrix agardhii from a Cyanobacterial Bloom in Kissena Lake, New York, USA. PMID:33446598
Complete Genome Sequence of Sulfurospirillum sp. Strain ACSDCE, an Anaerobic Bacterium That Respires Tetrachloroethene under Acidic pH Conditions. PMID:33446597
Complete Genome Sequence of Neonatal Clinical Group B Streptococcal Isolate CJB111. PMID:33446593
Complete Genome Sequence of Francisella sp. Strain LA11-2445 (FDC406), a Novel Francisella Species Isolated from a Human Skin Lesion. PMID:33446589
Complete Genome Sequence of Halomonas sp. Strain SH5A2, a Dye-Degrading Halotolerant Bacterium Isolated from the Salinas and Aguada Blanca National Reserve in Peru. PMID:33446584
Complete Genome Sequence of Geobacter sp. Strain FeAm09, a Moderately Acidophilic Soil Bacterium. PMID:33446582
First Complete Genome of the Thermophilic Polyhydroxyalkanoates-Producing Bacterium Schlegelella thermodepolymerans DSM 15344. PMID:33432323
Combined whole cell wall analysis and streamlined in silico carbohydrate-active enzyme discovery to improve biocatalytic conversion of agricultural crop residues. PMID:33422151
Draft Genome Sequences of Six Vibrio Strains Isolated from the Atlantic Intertidal Marine Sponge Ophlitaspongia papilla. PMID:33414346
Draft Genome Sequence of Pseudomonas saudiphocaensis Strain AGROB56, Isolated from a Dairy Farm in New Zealand. PMID:33414345
Whole-Genome Shotgun Sequence of Bacillus mycoides Strain U53, a Psychrotolerant Bacterium Isolated from the Sakhalin Region in Russia. PMID:33414344
Genome Sequence of Hymenobacter polaris RP-2-7T, Isolated from Arctic Soil. PMID:33414337
Draft Genome Sequence of Salmonella enterica subsp. enterica Serovar Livingstone 1236H, a Desiccation-Resistant Strain That Poses a Salmonellosis Hazard in Low-Moisture Foods. PMID:33414333
Complete Genome Sequence of Sandaracinobacter sp. Strain M6, Isolated from a Rocky Mountain in China. PMID:33414331
Draft Genome Sequence of the Phosphate-Solubilizing Rhizobacterium Burkholderia pseudomultivorans Strain MPSB1, Isolated from a Copper Mined-Out Site. PMID:33414315
Draft Genome Sequence and Secondary Metabolite Biosynthetic Potential of the Lysobacter niastensis Type Strain DSM 18481. PMID:33414313
Draft Genome Sequence of Plant Growth-Promoting Bacillus velezensis BS89. PMID:33414312
Complete Genome Sequence of Mycobacterium orygis Strain 51145. PMID:33414309
Complete Genome Sequence of a Serotype 7 Listeria monocytogenes Strain, FSL R9-0915. PMID:33414303
Complete Genome Sequence of Nisin-Producing Lactococcus lactis subsp. lactis N8. PMID:33414301
Genome Sequence of Acetobacter tropicalis DmPark25_167, a Bacterium Isolated from a Drosophila melanogaster Genetic Model of Parkinson's Disease. PMID:33414300
Whole-Genome Sequence of Bioactive Compound-Producing Pseudomonas aeruginosa Strain LV. PMID:33414299
Draft Genome Sequence of Bacillus sp. Strain E25, a Biocontrol and Plant Growth-Promoting Bacterial Endophyte Isolated from Mexican Husk Tomato Roots (Physalis ixocarpa Brot. Ex Horm.). PMID:33414296
Complete Genome Sequence of Bisphenol A-Degrading Bacterium Sphingobium sp. Strain A3, Isolated from Contaminated Soil. PMID:33414294
Draft Genome Sequences of Four Commensal Strains of Staphylococcus and Pseudomonas Isolated from Healthy Human Skin. PMID:33414288
Draft Genome Sequences of 284 Xanthomonas citri pv. citri Strains Causing Asiatic Citrus Canker. PMID:33414287
Complete Genome Sequence of Strain SS-5, a Magnetotactic Gammaproteobacterium Isolated from the Salton Sea, a Shallow, Saline, Endorheic Rift Lake Located on the San Andreas Fault in California. PMID:33414284
Complete Genome Sequences for 36 Canadian Salmonella enterica Serovar Typhimurium and I 1,4,[5],12:i:- Isolates from Clinical and Animal Sources. PMID:33414281
Whole-Genome Sequencing of Two Moroccan Mycobacterium tuberculosis Strains. PMID:33414280
The complete genome sequence of Hafnia alvei A23BA; a potential antibiotic-producing rhizobacterium. PMID:33407900
MicrobeAnnotator: a user-friendly, comprehensive functional annotation pipeline for microbial genomes. PMID:33407081
Comprehensive genomic analysis reveals virulence factors and antibiotic resistance genes in Pantoea agglomerans KM1, a potential opportunistic pathogen. PMID:33406073
Reclassification of Sphaerotilus natans subsp. sulfidivorans Gridneva et al. 2011 as Sphaerotilus sulfidivorans sp. nov. and comparative genome analysis of the genus Sphaerotilus. PMID:33399897
Genome analysis of Streptococcus salivarius subsp. thermophilus type strain ATCC 19258 and its comparison to equivalent strain NCTC 12958. PMID:33398402
Zongyanglinia huanghaiensis gen. nov., sp. nov., a novel denitrifying bacterium isolated from the yellow sea, and transfer of Pelagicola marinus to Zongyanglinia gen. nov. as Zongyanglinia marinus comb. nov. PMID:33392935
Comparative and Functional Analyses of Two Sequenced Paenibacillus polymyxa Genomes Provides Insights Into Their Potential Genes Related to Plant Growth-Promoting Features and Biocontrol Mechanisms. PMID:33391337
Complete Genome Sequence of Ovine Mycobacterium avium subsp. paratuberculosis Strain JIII-386 (MAP-S/type III) and Its Comparison to MAP-S/type I, MAP-C, and M. avium Complex Genomes. PMID:33383865
Swine Conjunctivitis Associated with a Novel Mycoplasma Species Closely Related to Mycoplasma hyorhinis. PMID:33375690
Genomic Insight into Pediococcus acidilactici HN9, a Potential Probiotic Strain Isolated from the Traditional Thai-Style Fermented Beef Nhang. PMID:33375492
An Educational Bioinformatics Project to Improve Genome Annotation. PMID:33365016
Draft genome sequence data of a chromium reducing bacterium, Bacillus licheniformis strain KNP. PMID:33364272
Newly Isolated Streptomyces sp. JBS5-6 as a Potential Biocontrol Agent to Control Banana Fusarium Wilt: Genome Sequencing and Secondary Metabolite Cluster Profiles. PMID:33343545
Comparative Pathogenomics of Aeromonas veronii from Pigs in South Africa: Dominance of the Novel ST657 Clone. PMID:33339176
Emergence of Multidrug Resistant Hypervirulent ST23 Klebsiella pneumoniae: Multidrug Resistant Plasmid Acquisition Drives Evolution. PMID:33330125
Genomic Investigation into the Virulome, Pathogenicity, Stress Response Factors, Clonal Lineages, and Phylogenetic Relationship of Escherichia coli Strains Isolated from Meat Sources in Ghana. PMID:33327465
Distribution of Important Probiotic Genes and Identification of the Biogenic Amines Produced by Lactobacillus acidophilus PNW3. PMID:33321968
Draft genome sequence data of the anaerobic, thermophilic, chitinolytic bacterium strain UUS1-1 belonging to genus Hydrogenispora of the uncultured taxonomic OPB54 cluster. PMID:33304949
Draft Genome Sequences of Fructobacillus fructosus DPC 7238 and Leuconostoc mesenteroides DPC 7261, Mannitol-Producing Organisms Isolated from Fructose-Rich Honeybee-Resident Flowers on an Irish Farm. PMID:33303674
Complete Genome Sequence of a Hyperthermophilic Archaeon, Thermosphaera sp. Strain 3507, Isolated from a Chilean Hot Spring. PMID:33303673
Complete Genome Sequence of Francisella tularensis Live Vaccine Strain NR-28537 (BEI Master Cell Bank). PMID:33303672
Genome Sequence of "Candidatus Dehalogenimonas etheniformans" Strain GP, a Vinyl Chloride-Respiring Anaerobe. PMID:33303670
Retrospective Analysis of the Relationship between Two Anthrax Outbreaks in Kazakhstan Based on Genomic Data. PMID:33303664
Draft Genome Sequence of an Algicidal Bacterium, Arenibacter sp. Strain 6A1, Isolated from Seawater during an Akashiwo sanguinea Bloom in Shenzhen, China. PMID:33303656
Draft genome and description of Aeromicrobium phoceense strain Marseille-Q0843T sp. nov., a new bacterium isolated from human healthy skin. PMID:33294199
Draft genome and description of Chryseobacterium manosquense strain Marseille-Q2069T sp. nov., a new bacterium isolated from human healthy skin. PMID:33294197
Genetic diversity and characteristics of high-level tigecycline resistance Tet(X) in Acinetobacter species. PMID:33287863
Distribution and Evolution of the Bacteriophage WO and Its Antagonism With Wolbachia. PMID:33281793
Draft Genome Sequence of Stenotrophomonas sp. Strain SbOxS2, an Antimony-Oxidizing Bacterium Isolated from Stibnite Mine Tailing Soil. PMID:33273006
Draft Genome Sequence of the Antimony-Oxidizing Pseudomonas sp. Strain SbOxS1, Isolated from Stibnite Mine Tailing Soil. PMID:33273005
Complete Genome Sequence of Salmonella enterica subsp. enterica Serovar Kottbus Strain Kharkiv, Isolated from a Commercial Pork Production Facility in Ukraine. PMID:33273001
Metagenome-Assembled Genome Sequence of Aphanizomenon flos-aquae Strain Clear-A1, Assembled from an Enrichment Culture. PMID:33272999
Metagenome-Assembled Genome Sequence of Dolichospermum circinale Strain Clear-D4, Assembled from a Harmful Cyanobacterial Bloom Enrichment Culture. PMID:33272998
Metagenome-Assembled Genome Sequence of Vulcanococcus sp. Strain Clear-D1, Assembled from a Cyanobacterial Enrichment Culture. PMID:33272997
Metagenome-Assembled Genome Sequence of Rhodobacteraceae Bacterium Strain Clear-D3, Assembled from a Dolichospermum Consortium from Clear Lake, California. PMID:33272996
Metagenome-Assembled Genome Sequence of Kapabacteriales Bacterium Strain Clear-D13, Assembled from a Harmful Algal Bloom Enrichment Culture. PMID:33272995
De Novo Whole-Genome Sequencing and Annotation of Pathogenic Bovine Pasteurella multocida Type A:3 Strains. PMID:33272994
Draft Genome Sequences of Lysostaphin-Resistant (K07-204) and Lysostaphin-Susceptible (K07-561) Staphylococcus aureus Sequence Type 72 Strains Isolated from Patients in South Korea. PMID:33272992
Complete Genome Sequence of Marinobacterium sp. Strain LSUCC0821, Isolated from the Coastal Gulf of Mexico. PMID:33272989
Complete Genome Sequences of Four Natural Pseudomonas Isolates That Catabolize a Wide Range of Aromatic Compounds Relevant to Lignin Valorization. PMID:33272987
Complete Genome Sequence of a Shiga Toxin-Producing Escherichia coli O26:H11 Strain (Sequence Type 21) and Two Draft Genome Sequences of Listeria monocytogenes Strains (Clonal Complex 1 [CC1] and CC59) Isolated from Fresh Produce in Germany. PMID:33272986
Genome Sequence Data of Lactobacillus ruminis ICIS-540, Isolated from the Intestine of a Healthy Woman. PMID:33272985
RefSeq: expanding the Prokaryotic Genome Annotation Pipeline reach with protein family model curation. PMID:33270901
Antibiotic Sensitivity Screening of Klebsiella spp. and Raoultella spp. Isolated from Marine Bivalve Molluscs Reveal Presence of CTX-M-Producing K. pneumoniae. PMID:33266320
Identification of the Gene Responsible for Lignin-Derived Low-Molecular-Weight Compound Catabolism in Pseudomonas sp. Strain LLC-1. PMID:33260964
Multiple origins of obligate nematode and insect symbionts by a clade of bacteria closely related to plant pathogens. PMID:33257562
Severe Corrosion of Carbon Steel in Oil Field Produced Water Can Be Linked to Methanogenic Archaea Containing a Special Type of [NiFe] Hydrogenase. PMID:33257309
Altererythrobacter segetis sp. nov., Isolated from Farmland Soil. PMID:33252774
Draft genome and description of Corynebacterium haemomassiliense strain Marseille-Q3615T sp. nov., a new bacterium isolated from a 59-year-old man with chronic obstructive pulmonary disease symptoms. PMID:33251018
A comprehensive and contemporary "snapshot" of β-lactamases in carbapenem resistant Acinetobacter baumannii. PMID:33248392
Draft Genome Sequence of a Noncognate Bacterium, Achromobacter sp. Strain Bel, Associated with a Rhabditid Entomopathogenic Nematode. PMID:33239467
Feces Metagenomes and Metagenome-Assembled Genome Sequences from Two Separate Dogs (Canis lupus familiaris) with Multiple Diarrheal Episodes. PMID:33239463
Whole-Genome Sequence of Brevibacillus borstelensis SDM, Isolated from a Sorghum-Adapted Microbial Community. PMID:33239462
Complete Genome Sequences of Allofrancisella inopinata SYSU YG23 and Allofrancisella frigidaquae SYSU 10HL1970, Isolated from Water from Cooling Systems in China. PMID:33239460
Pseudonocardia cytotoxica sp. nov., a novel actinomycete isolated from an Arctic fjord with potential to produce cytotoxic compound. PMID:33230720
A Generalist Lifestyle Allows Rare Gardnerella spp. to Persist at Low Levels in the Vaginal Microbiome. PMID:33219399
Draft Genome Sequence of Halomonas sp. Strain ML-15, a Haloalkaliphilic, Polycyclic Aromatic Hydrocarbon-Degrading Bacterium. PMID:33214310
Draft Genome Sequences of 59 Endospore-Forming Gram-Positive Bacteria Associated with Crop Plants Grown in Vietnam. PMID:33214309
Draft Genome Sequences of Five Diverse Klebsiella Species Isolates from Intensive Care Unit Patients. PMID:33214307
Draft Genome Sequences of Four Bacterial Species as Part of an Experiential Microbiology Project at SUNY Geneseo. PMID:33214303
Complete Genome and Plasmid Sequences of Raphidiopsis curvispora Strain GIHE-G1, Isolated from a Drinking Water Reservoir in South Korea. PMID:33214301
Complete Genome Sequences of Six Lactobacilli Isolated from American Quarter Horses. PMID:33214299
Draft Genome Sequence of Psychrotolerant Shewanella sp. Strain VB17, Isolated from Marine Intertidal Sediment near Virginia Beach, Virginia. PMID:33214298
Complete Genome Sequence of an Environmental Bacillus cereus Isolate Belonging to the Bacillus anthracis Clade. PMID:33214297
Draft Whole-Genome Sequence of the Alkane-Synthesizing Polar Cyanobacterium Pseudanabaena biceps Strain O-153. PMID:33214296
Draft Genome Sequence of Mycobacteroides sp. Strain LB1, Isolated from the Sputum of a Cystic Fibrosis Patient. PMID:33214293
Analysis of biliary MICRObiota in hepatoBILIOpancreatic diseases compared to healthy people [MICROBILIO]: Study protocol. PMID:33211762
Whole Genome Sequencing and Tn5-Insertion Mutagenesis of Pseudomonas taiwanensis CMS to Probe Its Antagonistic Activity Against Rice Bacterial Blight Disease. PMID:33207795
CRISPR sequences are sometimes erroneously translated and can contaminate public databases with spurious proteins containing spaced repeats. PMID:33206958
Data on draft genome sequence of Caldanaerobacter sp. strain 1523vc, a thermophilic bacterium, isolated from a hot spring of Uzon Caldera, (Kamchatka, Russia). PMID:33204772
Construction and Validation of a Genome-Scale Metabolic Network of Thermotoga sp. Strain RQ7. PMID:33200269
Transcriptome-based design of antisense inhibitors potentiates carbapenem efficacy in CRE Escherichia coli. PMID:33199638
An xa5 Resistance Gene-Breaking Indian Strain of the Rice Bacterial Blight Pathogen Xanthomonas oryzae pv. oryzae Is Nearly Identical to a Thai Strain. PMID:33193207
Draft Genome Sequences of Vibrio cholerae Non-O1, Non-O139 Isolates from Common Tern Chicks (Sterna hirundo) following a Mass Mortality Event. PMID:33184162
Genome Sequence of Eubacterium callanderi AMC0717, Isolated from the Colonic Mucosa of an 11-Year-Old Organ Donor. PMID:33184159
Genome Sequence of Citrobacter freundii AMC0703, Isolated from the Intestinal Lumen of an 11-Year-Old Organ Donor. PMID:33184158
Draft Genome Sequence of Pseudomonas aeruginosa Strain PA14-UM. PMID:33184157
Complete Genome Sequence of a Canadian Klebsiella michiganensis Strain, Obtained Using Oxford Nanopore Technologies Sequencing. PMID:33184156
Epigenomics, genomics, resistome, mobilome, virulome and evolutionary phylogenomics of carbapenem-resistant Klebsiella pneumoniae clinical strains. PMID:33170117
The carbapenem resistance gene blaOXA-23 is disseminated by a conjugative plasmid containing the novel transposon Tn6681 in Acinetobacter johnsonii M19. PMID:33168102
Draft Genome Sequence of the Carboxydotrophic Alphaproteobacterium Aminobacter carboxidus Type Strain DSM 1086. PMID:33154019
Genome Sequencing of Escherichia coli and Klebsiella pneumoniae Isolates That Harbor the FOX-5 β-Lactamase Gene. PMID:33154016
Complete Genome Sequence of Gordonia rubripertincta SD5, a Soil Bacterium Isolated from a Di-(2-Ethylhexyl) Phthalate-Degrading Enrichment Culture. PMID:33154014
Whole-Genome Assemblies for Three Yersinia pestis Strains Isolated in Erenhot, China. PMID:33154013
Draft Genome Sequences of Hazelnut-Associated Pseudomonas Strains Isolated in Ontario, Canada. PMID:33154011
Complete Genome Sequences of the Escherichia coli Donor Strains ST18 and MFDpir. PMID:33154010
Draft Genome Sequence of Escherichia coli Strain UMD142. PMID:33154008
Complete Genome Sequence of Campylobacter fetus Isolated from a Sheep. PMID:33154007
Draft Genome Sequences of Nine Japanese Strains of the Kiwifruit Bacterial Canker Pathogen Pseudomonas syringae pv. actinidiae Biovar 3. PMID:33154006
Complete Genome Sequences of Walnut-Associated Xanthomonas euroxanthea Strains CPBF 367 and CPBF 426 Obtained by Illumina/Nanopore Hybrid Assembly. PMID:33154004
Whole-Genome Analysis of a Shiga Toxin-Producing Escherichia coli O103:H2 Strain Isolated from Cattle Feces. PMID:33154003
Draft Genome Sequences of Lactobacillus delbrueckii subsp. bulgaricus Strains CBC-LB69 and CBC-LB8, Isolated from Homemade Dairy Foods in Bulgaria. PMID:33154002
Draft Genome Sequence of Salinispora sp. Strain H7-4, Isolated from Deep-Sea Sediments of the Shikoku Basin. PMID:33154000
Complete Genome Sequence of Serratia marcescens FY, Isolated from Drosophila melanogaster. PMID:33153999
Complete Genome Sequence of Francisella tularensis subsp. holarctica Strain A271_1 (FDC408), Isolated from a Eurasian Beaver (Castor fiber). PMID:33153998
Genomic and Physiological Properties of a Facultative Methane-Oxidizing Bacterial Strain of Methylocystis sp. from a Wetland. PMID:33147874
Cooperative Interaction of Janthinobacterium sp. SLB01 and Flavobacterium sp. SLB02 in the Diseased Sponge Lubomirskia baicalensis. PMID:33143227
Genome sequence of an uncharted halophilic bacterium Robertkochia marina with deciphering its phosphate-solubilizing ability. PMID:33141351
Comparative Genomics of Pathogenic Clavibacter michiganensis subsp. michiganensis Strains from Chile Reveals Potential Virulence Features for Tomato Plants. PMID:33137950
Galaxy and Apollo as a biologist-friendly interface for high-quality cooperative phage genome annotation. PMID:33137082
An integrated model system to gain mechanistic insights into biofilm-associated antimicrobial resistance in Pseudomonas aeruginosa MPAO1. PMID:33127897
Cyanorak v2.1: a scalable information system dedicated to the visualization and expert curation of marine and brackish picocyanobacteria genomes. PMID:33125079
Complete and Circularized Genome Assemblies of the Kroppenstedtia eburnea Genus Type Strain and the Kroppenstedtia pulmonis Species Type Strain with MiSeq and MinION Sequence Data. PMID:33122418
Draft Genome Sequence of Streptomyces mexicanus Strain Q0842, Isolated from Human Skin. PMID:33122417
Whole-Genome Sequence of Cyanobacterium Oxynema sp. AP17, Isolated from an Indian Mangrove Forest. PMID:33122408
Selection of Immunobiotic Ligilactobacillus salivarius Strains from the Intestinal Tract of Wakame-Fed Pigs: Functional and Genomic Studies. PMID:33114778
Analysis of complete Campylobacter concisus genomes identifies genomospecies features, secretion systems and novel plasmids and their association with severe ulcerative colitis. PMID:33111662
Diverse Horizontally-Acquired Gene Clusters Confer Sucrose Utilization to Different Lineages of the Marine Pathogen Photobacterium damselae subsp. damselae. PMID:33105683
The whole genome sequence data analyses of a Mycobacterium tuberculosis strain SBH321 isolated in Sabah, Malaysia, belongs to Ural family of Lineage 4. PMID:33102655
Whole genome sequence of Serratia marcescens 39_H1, a potential hydrolytic and acidogenic strain. PMID:33102161
Database resources of the National Center for Biotechnology Information. PMID:33095870
Two Nearly Complete Nosocomial Pathogen Genome Sequences Reconstructed from Early-Middle 20th-Century Dental Calculus. PMID:33093055
Draft Genome Sequences of Six Yersinia pestis Strains Isolated from a Natural Plague Focus in Mongolia. PMID:33093054
Draft Whole-Genome Sequence of the Anthracene-Degrading Strain Mycolicibacterium frederiksbergense LB501T, Isolated from a Polycyclic Aromatic Hydrocarbon-Contaminated Soil. PMID:33093053
Complete Genome Sequence of Lactobacillus johnsonii NCK2677, Isolated from Mice. PMID:33093042
Phosphate-solubilizing Pseudomonas sp., and Serratia sp., co-culture for Allium cepa L. growth promotion. PMID:33088968
Draft genome sequence data and comparative analysis of Erysipelothrix Rhusiopathiae vaccine strain VR-2. PMID:33088652
Draft genome sequence data of Erysipelothrix rhusiopathiae vaccine strain VR-2. PMID:33083506
Comparative Genome Analysis Reveals Natural Variations in the Genomes of Erwinia pyrifoliae, a Black Shoot Blight Pathogen in Apple and Pear. PMID:33082727
Noviherbaspirillum galbum sp. nov., a bacterium isolated from soil. PMID:33063170
Chitinophaga agri sp. nov., a bacterium isolated from soil of reclaimed land. PMID:33063169
Draft Genome Sequences of Two Virulent Streptococcus equi subsp. zooepidemicus Swine Isolates from Pennsylvania. PMID:33060275
Draft Genome Sequence of a Potential Commercial Biocellulose Producer, Strain Komagataeibacter europaeus GH1. PMID:33060274
Genome Sequences of Two Pathogens of Cruciferous Crops, Xanthomonas campestris pv. raphani MAFF 106181 and X. campestris pv. campestris MAFF 301176. PMID:33060268
Whole-Genome Sequence of Lactobacillus plantarum SPC-SNU 72-2 as a Probiotic Starter for Sourdough Fermentation. PMID:33060265
Genomic Assemblies of Members of Burkholderia and Related Genera as a Resource for Natural Product Discovery. PMID:33060263
Next-generation sequencing of 35 RHD variants in 16 253 serologically D- pregnant women in the Finnish population. PMID:33057632
Accurate reconstruction of bacterial pan- and core genomes with PEPPAN. PMID:33055096
Genome Sequence of a Persistent Campylobacter jejuni Strain, 2016-IZSVE-19-111250. PMID:33033140
Complete Genome Sequence of the Novel Psychrobacter sp. Strain AJ006, Which Has the Potential for Biomineralization. PMID:33033137
Complete Genome Sequence of Yellow Pigment-Producing Sphingobium sp. Strain HAL-16. PMID:33033136
Whole-Genome Assemblies for Two Yersinia pestis Strains Isolated in Mongolia. PMID:33033133
Genome Sequences of Four Shigella boydii Strains Representative of the Major S. boydii Clades. PMID:33033129
Complete Genome Sequence of Lactococcus lactis subsp. lactis G121, an Isolate with Allergy-Protective Features Derived from a Farming Environment. PMID:33033123
Draft Genome Sequences of Six Moroccan Helicobacter pylori Isolates Belonging to the hspWAfrica Group. PMID:33033122
Draft Genome Sequences of Two Campylobacter jejuni Strains That Show Significantly Different Colonization Potentials in Chickens. PMID:33033121
Draft Genome Sequences for the Frankia sp. strains CgS1, CcI156 and CgMI4, Nitrogen-Fixing Bacteria Isolated from Casuarina sp. in Egypt. PMID:33029225
Genomic and phenotypic analysis of siderophore-producing Rhodococcus qingshengii strain S10 isolated from an arid weathered serpentine rock environment. PMID:33025059
Genomic Survey of E. coli From the Bladders of Women With and Without Lower Urinary Tract Symptoms. PMID:33013764
Whole-Genome Sequencing of Bacterial Isolates That Degrade the Cyanobacterial Toxin Microcystin-LR. PMID:33004461
Complete Genome Sequence of Sulfurospirillum Strain ACSTCE, a Tetrachloroethene-Respiring Anaerobe Isolated from Contaminated Soil. PMID:33004458
Complete Genome Sequence of Streptococcus salivarius DB-B5, a Novel Probiotic Candidate Isolated from the Supragingival Plaque of a Healthy Female Subject. PMID:33004456
Draft Genome Sequence of a Novel "Candidatus Liberibacter" Species Detected in a Zanthoxylum Species from Bhutan. PMID:33004455
Complete Genome Sequence of Pseudomonas putida BS3701, a Promising Polycyclic Aromatic Hydrocarbon-Degrading Strain for Bioremediation Technologies. PMID:33004454
Draft Genome Sequence of the Plant Growth-Promoting Bacterium Bacillus subtilis Strain BZR 517, Isolated from Winter Wheat, Now Reclassified as Bacillus velezensis Strain BZR 517. PMID:33004451
Complete Genome Sequence of Bdellovibrio sp. Strain KM01, a Predatory Bacterium Isolated from Soil. PMID:33004449
Genome Sequence of Bacillus megaterium O1, a Saponin-Degrading Bacterium. PMID:33004444
Data on draft genome sequence of stenotrophomonas sp. SAM-B isolated from a mineral cold spring located in Tyva, southern Siberia. PMID:32984471
Comparative Genome Analysis and Phenotypic Characterization of Clostridium gasigenes CGAS001 Isolated From Chilled Vacuum-Packed Lamb Meat. PMID:32983035
Phylogenomics insights into order and families of Lysobacterales. PMID:32974511
Is Long-Term Heavy Metal Exposure Driving Carriage of Antibiotic Resistance in Environmental Opportunistic Pathogens: A Comprehensive Phenomic and Genomic Assessment Using Serratia sp. SRS-8-S-2018. PMID:32973703
Draft Genome Sequences of Isolates of Diverse Host Origin from the E. coli Reference Center at Penn State University. PMID:32972949
Complete Genome Sequences for Pseudomonas sp. Strains 29A and 43A. PMID:32972942
Genome Sequences of Two Microcystis aeruginosa (Chroococcales, Cyanobacteria) Strains from Florida (United States) with Disparate Toxigenic Potentials. PMID:32972941
Draft Genome Sequence of a New Delhi Metallo-β-Lactamase (NDM-1)-Producing Providencia stuartii Strain Isolated in Lima, Peru. PMID:32972938
Complete Genome Sequence of Enterococcus faecium FS86, Used for Propagation of Bacteriophages with Therapeutic Potential. PMID:32972936
Complete Genome Sequence of Pseudomonas chilensis Strain ABC1, Isolated from Soil. PMID:32972935
Genome Sequence of Lactiplantibacillus plantarum ATCC 202195, a Probiotic Strain That Reduces Sepsis and Other Infections during Early Infancy. PMID:32972932
Whole-Genome Sequence of Bacillus subtilis WS1A, a Promising Fish Probiotic Strain Isolated from Marine Sponge of the Bay of Bengal. PMID:32972930
Complete Genome Sequences of Lactobacillus Strains C25 and P38, Isolated from Chicken Cecum. PMID:32972926
Complete genome sequence of fish-pathogenic Aeromonas hydrophila HX-3 and a comparative analysis: insights into virulence factors and quorum sensing. PMID:32968153
Genomic analysis of Latin American-Mediterranean family of Mycobacterium tuberculosis clinical strains from Kazakhstan. PMID:32965331
Review on the Computational Genome Annotation of Sequences Obtained by Next-Generation Sequencing. PMID:32962098
Draft Genome Sequence of Lactobacillus rhamnosus Strain CBC-LR1, Isolated from Homemade Dairy Foods in Bulgaria. PMID:32943571
Complete Genome Sequence of Microcystis aeruginosa FD4, Isolated from a Subtropical River in Southwest Florida. PMID:32943567
Draft Genome Sequences of 13 Plant-Associated Actinobacteria of the Family Microbacteriaceae. PMID:32943566
Draft Genome Sequence of "Candidatus Phytoplasma pruni" (X-Disease Group, Subgroup 16SrIII-B) Strain ChTDIII from Argentina. PMID:32943565
Draft Genome Sequences of 12 Shiga Toxin-Producing Escherichia coli Strains Isolated from Dairy Cattle in Portugal. PMID:32943564
Complete Genome Sequence of Rhodoferax sp. Strain BAB1, Isolated after Filter Sterilization of Tap Water. PMID:32943561
Complete Genome Sequence of Arcanobacterium sp. Strain 2701, Isolated from a Harbor Seal. PMID:32943560
Complete Genome Sequence of Shewanella chilikensis Strain DC57, Isolated from Corroded Seal Rings at a Floating Oil Production System in Australia. PMID:32943556
Draft Genome Sequences of Five Paenibacillus Species of Dairy Origin. PMID:32912921
Draft Genome Sequence for Frankia sp. Strain BMG5.11, a Nitrogen-Fixing Bacterium Isolated from Elaeagnus angustifolia. PMID:32912917
Draft Genome Sequence of Lactobacillus rhamnosus OSU-PECh-69, a Cheese Isolate with Antibacterial Activity. PMID:32912915
Draft Genome Sequence of Bacillus licheniformis Strain UASWS1606, a Plant Biostimulant for Agriculture. PMID:32912913
Draft Genome Sequences of Six Strains of Lactococcus lactis (Phylum Firmicutes), Spanning the Seeds of Cucumis sativus L. (Cucumber), Cucumis melo L. (Cantaloupe), and Cucurbita pepo var. turbinate (Acorn Squash). PMID:32912910
Complete Genome Sequence of the Carotenoid-Producing Strain Gordonia ajoucoccus A2. PMID:32912909
Genome sequences of two clinical Escherichia coli isolates harboring the novel colistin-resistance gene variants mcr-1.26 and mcr-1.27. PMID:32908612
Chryseobacterium antibioticum sp. nov. with antimicrobial activity against Gram-negative bacteria, isolated from Arctic soil. PMID:32895493
Outbreak of multi-drug-resistant (MDR) Shigella flexneri in northern Australia due to an endemic regional clone acquiring an IncFII plasmid. PMID:32888117
Complete Genome Sequence of the Hypha-Colonizing Rhizobium sp. Strain 76, a Potential Biocontrol Agent. PMID:32883795
Draft Genome Sequences of 81 Salmonella enterica Strains from Informal Markets in Cambodia. PMID:32883787
Best Practices for Successfully Writing and Publishing a Genome Announcement in Microbiology Resource Announcements. PMID:32883786
Complete Genome Sequence of Salmonella enterica subsp. diarizonae Serovar 61:k:1,5,(7) Strain 14-SA00836-0, Isolated from Human Urine. PMID:32883784
Complete Genome Sequence of Streptococcus agalactiae Strain 01173, Isolated from Kuwaiti Wild Fish. PMID:32883783
Comparative Genomic Analysis of 450 Strains of Salmonella enterica Isolated from Diseased Animals. PMID:32883017
Comparative assessment of single-stage and two-stage anaerobic digestion for biogas production from high moisture municipal solid waste. PMID:32879796
Sulfur and Methane-Oxidizing Microbial Community in a Terrestrial Mud Volcano Revealed by Metagenomics. PMID:32878336
Characterization of methicillin-resistant Staphylococcus aureus through genomics approach. PMID:32864286
Nostoc edaphicum CCNP1411 from the Baltic Sea-A New Producer of Nostocyclopeptides. PMID:32858999
Microarray analysis of long non-coding RNA expression profiles in Marfan syndrome. PMID:32855713
Draft Genome Sequence of Vibrio ostreicida Strain PP-203, the Type Strain of a Pathogen That Infects Bivalve Larvae. PMID:32855258
Draft Genome Sequence of Clostridium cadaveris Strain AGRFS2.2, Isolated from a Bovine Dairy Farm in New Zealand. PMID:32855254
Draft Genome Sequence of the Strain Francisella tularensis subsp. mediasiatica 240, Isolated in Kazakhstan. PMID:32855253
Draft Genome Sequences of 10 Strains of Pseudomonas syringae pv. actinidiae Biovar 1, a Major Kiwifruit Bacterial Canker Pathogen in Japan. PMID:32855251
Complete Genome Sequences of Diverse Uropathogenic Staphylococcus saprophyticus Isolates from a College Health Center. PMID:32855248
Draft Genome Sequences of 15 Bacterial Species Constituting the Stable Defined Intestinal Microbiota of the GM15 Gnotobiotic Mouse Model. PMID:32855247
Near-Complete Genome Sequences of a Wolbachia Strain Isolated from Diaphorina citri Kuwayama (Hemiptera: Liviidae). PMID:32855244
Draft Genome Sequence of the Plant Growth-Promoting Rhizobacterium Klebsiella sp. Strain KBG6.2, Imparting Salt Tolerance to Rice. PMID:32855243
Two Metagenome-Assembled Genome Sequences of Magnetotactic Bacteria in the Order Magnetococcales. PMID:32855242
Symbiosis islands of Loteae-nodulating Mesorhizobium comprise three radiating lineages with concordant nod gene complements and nodulation host-range groupings. PMID:32845829
Virulence genes and previously unexplored gene clusters in four commensal Neisseria spp. isolated from the human throat expand the neisserial gene repertoire. PMID:32845827
Mycobacterium tuberculosis Rv0991c Is a Redox-Regulated Molecular Chaperone. PMID:32843553
Draft Genome Sequence of the Extended-Spectrum β-Lactamase-Producing Escherichia coli Isolate INF13/18/A, Recovered from Kelantan, Malaysia. PMID:32817162
Complete Genome Sequences of Four Streptococcus canis Strains Isolated from Dogs in South Korea. PMID:32817161
Genetic Characterization of a Listeria monocytogenes Serotype IVb Variant 1 Strain Isolated from Vegetal Matrix in Italy. PMID:32817158
Draft Genome Sequences of Pseudomonas koreensis Strain UASWS1668, Bacillus megaterium Strain UASWS1667, and Paenibacillus sp. Strain UASWS1643, Considered Potential Plant Growth-Promoting Rhizobacteria. PMID:32817155
Whole-Genome Sequencing of a Mycobacterium tuberculosis Strain Belonging to Lineage 1 (Indo-Oceanic) and the East African Indian Spoligotype, Isolated in Jazan, Saudi Arabia. PMID:32817153
Complete Genome Sequences of Seven Uropathogenic Escherichia coli Strains Isolated from Postmenopausal Women with Recurrent Urinary Tract Infection. PMID:32817150
Draft Genome Sequence of Ligilactobacillus salivarius FFIG58, Isolated from the Intestinal Tract of Wakame-Fed Pig. PMID:32816987
Complete Genome Sequence of Strain BB001, a Novel Epibiont Bacterium from the Candidate Phylum Saccharibacteria (TM7). PMID:32816985
Complete Genome Assembly of a Multidrug-Resistant New Delhi Metallo-β-Lactamase 1 (NDM-1)-Producing Escherichia coli Human Isolate from a New Zealand Hospital. PMID:32816984
Complete Genome Sequence of Bartonella alsatica Strain IBS 382 (CIP 105477). PMID:32816983
Improved De Novo Draft Genome Sequence of the Nocavionin-Producing Type Strain Nocardia terpenica IFM 0706 and Comparative Genomics with the Closely Related Strain Nocardia terpenica IFM 0406. PMID:32816977
Draft Genome Sequences of Six Strains Isolated from the Rhizosphere of Wheat Grown in Cadmium-Contaminated Soil. PMID:32816975
Draft Genome Sequence of Enterobacter roggenkampii Strain OS53, Isolated from Corroded Pipework at an Offshore Oil Production Facility. PMID:32816973
Insights into Mobile Genetic Elements of the Biocide-Degrading Bacterium Pseudomonas nitroreducens HBP-1. PMID:32806781
Strains of Bradyrhizobium cosmicum sp. nov., isolated from contrasting habitats in Japan and Canada possess photosynthesis gene clusters with the hallmark of genomic islands. PMID:32804606
Differences between predicted outer membrane proteins of genotype 1 and 2 Mannheimia haemolytica. PMID:32787780
Genomic Analysis of Three Cheese-Borne Pseudomonas lactis with Biofilm and Spoilage-Associated Behavior. PMID:32784363
ramR Deletion in an Enterobacter hormaechei Isolate as a Consequence of Therapeutic Failure of Key Antibiotics in a Long-Term Hospitalized Patient. PMID:32778545
Complete Genome Sequence of the Prototrophic Bacillus subtilis subsp. subtilis Strain SP1. PMID:32763948
Draft Genome Sequence of Ligilactobacillus salivarius TUCO-L2, Isolated from Lama glama Milk. PMID:32763947
Draft Genome Sequence of a Multicountry Outbreak-Related Listeria monocytogenes Sequence Type 1247 Strain, VLTRLM2013. PMID:32763938
Draft Genome Sequence of the Redox-Active Enteric Bacterium Citrobacter portucalensis Strain MBL. PMID:32763937
Complete Genome Sequence of Stenotrophomonas maltophilia Strain CF13, Recovered from Sputum from an Australian Cystic Fibrosis Patient. PMID:32763931
Draft Genome Sequence of an Environmental Vibrio cholerae Strain, 2012Env-25, Obtained Using Nanopore Sequencing Technology. PMID:32763930
Draft Genome Sequence of Streptomyces sp. Strain ventii, Isolated from a Microbial Mat near Hydrothermal Vents within the Axial Seamount in the Pacific Ocean, and Resequencing of the Type Strains Streptomyces lonarensis NCL 716 and Streptomyces bohaiensis 11A07. PMID:32763929
Draft Genome Sequences of Three Pasteurella multocida Strains Isolated from Domestic Animals in Kazakhstan. PMID:32763927
Complete Genome Sequence of the Type Strain Pectobacterium punjabense SS95, Isolated from a Potato Plant with Blackleg Symptoms. PMID:32763925
Evolutionary Remodeling of the Cell Envelope in Bacteria of the Planctomycetes Phylum. PMID:32761170
Complete Genome Sequence of Bacillus sp. Strain RZ2MS9, a Multitrait Plant Growth Promoter. PMID:32732234
Draft Genome Sequences of Lactobacillus plantarum Strain K03D08 and Acetobacter syzygii Strain K03D05, Isolated from a Kefir Beverage Collected in Chile. PMID:32732233
Draft Genome Sequence of Streptomyces morookaense DSM 40503, an 8-Azaguanine-Producing Strain. PMID:32732231
Draft Genome Sequence of an Extensively Drug-Resistant Salmonella enterica Serovar Typhi Strain from a Returned Traveler from Pakistan. PMID:32732230
Genomic Characterization and Environmental Distribution of a Thermophilic Anaerobe Dissulfurirhabdus thermomarina SH388T Involved in Disproportionation of Sulfur Compounds in Shallow Sea Hydrothermal Vents. PMID:32727039
Chemical structure and genetic organization of the E. coli O6:K15 capsular polysaccharide. PMID:32724125
Selection of Exopolysaccharide-Producing Lactobacillus Plantarum (Lactiplantibacillus Plantarum) Isolated from Algerian Fermented Foods for the Manufacture of Skim-Milk Fermented Products. PMID:32717902
The Discovery of New Antilisterial Proteins From Paenibacillus polymyxa Kp10 via Genome Mining and Mass Spectrometry. PMID:32714281
Sensing, Signaling, and Secretion: A Review and Analysis of Systems for Regulating Host Interaction in Wolbachia. PMID:32708808
Metagenomic approaches in microbial ecology: an update on whole-genome and marker gene sequencing analyses. PMID:32706331
Draft Genome Sequence of Moraxella bovoculi Strain KZ-1, Isolated from Cattle in North Kazakhstan. PMID:32703839
Complete Genome Sequence of Pseudomonas aeruginosa CMC-115, a Clinical Strain from an Acute Ventilator-Associated Pneumonia Patient. PMID:32703835
Genome Sequences of Synechococcus sp. Strain MIT S9220 and Cocultured Cyanophage SynMITS9220M01. PMID:32703830
Complete Genome Sequence of Clostridium innocuum Strain ATCC 14501. PMID:32703829
Draft Genome Sequence of Leptospira interrogans Serovar Bataviae Strain D64, Isolated from the Urine of an Asymptomatic Dog in Pathum Thani, Thailand. PMID:32703826
Complete Genome Sequence of Vibrio coralliilyticus OCN008. PMID:32703823
Antibiotic Resistance-Susceptibility Profiles of Enterococcus faecalis and Streptococcus spp. From the Human Vagina, and Genome Analysis of the Genetic Basis of Intrinsic and Acquired Resistances. PMID:32695087
Genome-Scale Transcription-Translation Mapping Reveals Features of Zymomonas mobilis Transcription Units and Promoters. PMID:32694125
Completed Genomic Sequence of Bacillus thuringiensis HER1410 Reveals a Cry-Containing Chromosome, Two Megaplasmids, and an Integrative Plasmidial Prophage. PMID:32690586
First description of antimicrobial resistance in carbapenem-susceptible Klebsiella pneumoniae after imipenem treatment, driven by outer membrane remodeling. PMID:32689945
Integrated genome-based probiotic relevance and safety evaluation of Lactobacillus reuteri PNW1. PMID:32687505
Characterization of the genes responsible for rubber degradation in Actinoplanes sp. strain OR16. PMID:32681242
AbGRI4, a novel antibiotic resistance island in multiply antibiotic-resistant Acinetobacter baumannii clinical isolates. PMID:32681170
Complete Genome Sequences and Methylome Analyses of Cutibacterium acnes subsp. acnes Strains DSM 16379 and DSM 1897T. PMID:32675190
Genome Sequences of 14 Escherichia coli O157:H7 Strains Isolated before and during the Time Frame of the 2018 Multistate Outbreak Associated with Romaine Lettuce. PMID:32675182
Draft Genome Assembly of Rhodobacter sphaeroides 2.4.1 Substrain H2 from Nanopore Data. PMID:32675180
Draft Genome Sequences of Plant-Pathogenic Klebsiella variicola Strains Isolated from Plantain in Haiti. PMID:32675179
Dataset of complete genome assembly and analysis of mycobacterium tuberculosis strain SIT745/EAI1-MYS. PMID:32671154
Complete genome sequences of Streptococcus pyogenes type strain reveal 100%-match between PacBio-solo and Illumina-Oxford Nanopore hybrid assemblies. PMID:32669560
ClbR Is the Key Transcriptional Activator of Colibactin Gene Expression in Escherichia coli. PMID:32669458
Complete Genome of Roseobacter ponti DSM 106830T. PMID:32658259
First Complete Genome Sequences of Janthinobacterium lividum EIF1 and EIF2 and Their Comparative Genome Analysis. PMID:32658247
A Genomic Perspective on the Potential of Wild-Type Rumen Bacterium Enterobacter sp. LU1 as an Industrial Platform for Bio-Based Succinate Production. PMID:32650546
Draft Genome Sequences of Seven Strains of Dickeya dadantii, a Quick Decline-Causing Pathogen in Fruit Trees, Isolated in Japan. PMID:32646907
Draft Genome Sequence of Pseudomonas nitrititolerans Strain AGROB37, Isolated from a Sheep Dairy Farm in New Zealand. PMID:32646906
Draft Genome Sequence of Stenotrophomonas pavanii Strain MHSD12, a Bacterial Endophyte Associated with Dicoma anomala. PMID:32646904
Genome Sequence of Colistin-Resistant Escherichia coli CLR8, Isolated from the Feces of Larus argentatus. PMID:32646903
Draft Genome Sequences of Three Bacillus Species Isolated from Biofouled Reverse-Osmosis Membranes. PMID:32646899
Complete Genome Sequence of Clostridium innocuum Strain LC-LUMC-CI-001, Isolated from a Patient with Recurrent Antibiotic-Associated Diarrhea. PMID:32646898
The endosymbiont Wolbachia rebounds following antibiotic treatment. PMID:32639986
In vitro propagation and genome sequencing of three 'atypical' Ehrlichia ruminantium isolates. PMID:32633992
Involvement of NO3 - in Ecophysiological Regulation of Dissimilatory Nitrate/Nitrite Reduction to Ammonium (DNRA) Is Implied by Physiological Characterization of Soil DNRA Bacteria Isolated via a Colorimetric Screening Method. PMID:32631862
Whole genome sequence of five strains of Spiroplasma citri isolated from different host plants and its leafhopper vector. PMID:32620150
Complete Genome Sequences of Seven Avibacterium paragallinarum Isolates from Poultry Farms in Pennsylvania, USA. PMID:32616650
Complete Genome Sequence of Starkeya sp. Strain ORNL1, a Soil Alphaproteobacterium Isolated from the Rhizosphere of Populus deltoides. PMID:32616649
Complete Genome Sequence of the Novel Roseimicrobium sp. Strain ORNL1, a Verrucomicrobium Isolated from the Populus deltoides Rhizosphere. PMID:32616646
Draft Genome Sequence of Cyclic Lipopeptide Producer Pseudomonas sp. Strain SWRI103, Isolated from Wheat Rhizosphere. PMID:32616641
Draft Genome Sequence of a New Oscillospiraceae Bacterium Isolated from Anaerobic Digestion of Biomass. PMID:32616639
Draft Genome Sequence of Agrobacterium fabrum ARqua1. PMID:32616638
Draft Genome Sequence of Putative 2-Methylisoborneol-Producing Pseudanabaena yagii Strain GIHE-NHR1, Isolated from the North Han River in South Korea. PMID:32616632
A novel Borrelia species, intermediate between Lyme disease and relapsing fever groups, in neotropical passerine-associated ticks. PMID:32606328
Complete Genome Sequence of Pseudomonas aeruginosa Strain AA2 (LMG 27630), an Early Isolate Recovered from the Airway of a German Cystic Fibrosis Patient. PMID:32586869
Complete Genome Sequence of Pseudomonas sp. Strain SK, Isolated from Organic Wheat Rhizosphere. PMID:32586866
Genome Sequence of a Pathogenic Vibrio cholerae O1 El Tor Strain Defective for the Entire Vibrio Pathogenicity Island 1, Isolated in Eastern Democratic Republic of the Congo. PMID:32586863
Draft Genome Sequence of Clostridium cochlearium Strain AGROS13, Isolated from a Sheep Dairy Farm in New Zealand. PMID:32586862
Complete Genome Sequence of a Gram-Positive Bacterium, Leifsonia sp. Strain PS1209, a Potato Endophyte. PMID:32586859
Draft Genome Sequence of a Bacteroides fragilis Strain Isolated from Peritoneal Fluid of a Patient from Kazakhstan. PMID:32586856
Draft Genome Sequences of Bacillus glennii V44-8, Bacillus saganii V47-23a, Bacillus sp. Strain V59.32b, Bacillus sp. Strain MER_TA_151, and Paenibacillus sp. Strain MER_111, Isolated from Cleanrooms Where the Viking and Mars Exploration Rover Spacecraft Were Assembled. PMID:32586854
Bioprospecting Microbial Diversity for Lignin Valorization: Dry and Wet Screening Methods. PMID:32582068
Genome Analysis of Endobacterium cerealis, a Novel Genus and Species Isolated from Zea mays Roots in North Spain. PMID:32580505
Importance of Defluviitalea raffinosedens for Hydrolytic Biomass Degradation in Co-Culture with Hungateiclostridium thermocellum. PMID:32560349
Vibrios from the Norwegian marine environment: Characterization of associated antibiotic resistance and virulence genes. PMID:32558371
Draft Genome Sequences of Sphingomonas Species Associated with the International Space Station. PMID:32554796
Draft Genome Sequences of Two Streptomyces Strains, MZ03-37T and MZ03-48, Isolated from Lava Tube Speleothems. PMID:32554795
Draft Genome Sequences of Xylella fastidiosa subsp. fastidiosa Strains OK3, VB11, and NOB1, Isolated from Bunch and Muscadine Grapes Grown in Southern Mississippi. PMID:32554794
Draft Genome Sequences of Micrococcus luteus MFP06 and MFP07, Isolated from the Skin of Healthy Volunteers. PMID:32554793
Complete Genome Sequences of Seven Strains of Pseudomonas spp. Isolated from Boreal Forest Soil in Interior Alaska. PMID:32554792
Complete Genome Sequence of Phytobacter diazotrophicus Strain UAEU22, a Plant Growth-Promoting Bacterium Isolated from the Date Palm Rhizosphere. PMID:32554791
Complete Genome Sequence and Annotation for Turicibacter sanguinis MOL361T (DSM 14220). PMID:32554789
Methylome and Complete Genome Sequence of Parageobacillus toebii DSM 14590T, a Thermophilic Bacterium. PMID:32554784
The Leader Peptide peTrpL Forms Antibiotic-Containing Ribonucleoprotein Complexes for Posttranscriptional Regulation of Multiresistance Genes. PMID:32546623
Genome re-sequencing and reannotation of the Escherichia coli ER2566 strain and transcriptome sequencing under overexpression conditions. PMID:32546194
Genomic and Proteomic Characterization of the Extended-Spectrum β-Lactamase (ESBL)-Producing Escherichia coli Strain CCUG 73778: A Virulent, Nosocomial Outbreak Strain. PMID:32545759
Complete Genome Sequences of Six Salmonella enterica Serovar 4,[5],12:i:- Isolates from Canada. PMID:32527782
Draft Genome Sequence of Bacillus velezensis Strain E68, Isolated from an Oil Battery. PMID:32527774
Whole-Genome Sequence of Geobacillus thermoleovorans ARTRW1, Isolated from Armutlu Geothermal Spring, Turkey. PMID:32527772
Evaluating Eucalyptus leaf colonization by Brasilonema octagenarum (Cyanobacteria, Scytonemataceae) using in planta experiments and genomics. PMID:32518725
Host dependent maintenance of a blaNDM-1-encoding plasmid in clinical Escherichia coli isolates. PMID:32518312
Draft genome sequence of antimicrobial producing Paenibacillus alvei strain MP1 reveals putative novel antimicrobials. PMID:32517793
Comparative Genome Analysis of a Pathogenic Erysipelothrix rhusiopathiae Isolate WH13013 from Pig Reveals Potential Genes Involve in Bacterial Adaptions and Pathogenesis. PMID:32512708
Complete Genome Sequence of a SARS-CoV-2 Strain Isolated in Northern Germany. PMID:32499358
Whole-Genome Sequences of Salmonella Isolates from an Ecological Wastewater Treatment System. PMID:32499355
Draft Genome Sequence of Escherichia coli UMB9246, Isolated from the Bladder of a Woman with Recurrent Urinary Tract Infection. PMID:32499352
Draft Genome Sequence of an Extended-Spectrum β-Lactamase-Producing Klebsiella oxytoca Strain Bearing mcr-9 from Qatar. PMID:32499351
Genome Sequences of Five Streptomyces Strains Isolated at Microscale. PMID:32499350
Draft Genome Sequence of Staphylococcus epidermidis UMB8493, Isolated from the Female Urinary Tract. PMID:32499349
Draft Genome Sequence of Escherichia coli UMB1353, Isolated from the Female Urinary Tract. PMID:32499348
Draft Genome Sequence of Streptococcus anginosus UMB0839, Isolated from the Female Urinary Tract. PMID:32499347
Draft Genome Sequence of Lactobacillus crispatus UMB1163, Isolated from the Female Urinary Tract. PMID:32499346
Draft Genome Sequence of Actinomyces neuii UMB1295, Isolated from the Female Urinary Tract. PMID:32499345
Complete Genome Sequence and Annotation for Romboutsia sp. Strain CE17. PMID:32499344
Complete Genome Sequences of 16 Mycoplasma bovis Isolates from Canadian Bison and Cattle. PMID:32499343
Draft Genome Sequences of Spirosoma agri KCTC 52727 and Spirosoma terrae KCTC 52035. PMID:32499342
Newly Named Klebsiella aerogenes (formerly Enterobacter aerogenes) Is Associated with Poor Clinical Outcomes Relative to Other Enterobacter Species in Patients with Bloodstream Infection. PMID:32493786
Draft genome sequence of "Candidatus Afipia apatlaquensis" sp. nov., IBT-C3, a potential strain for decolorization of textile dyes. PMID:32487246
Effect of oxygen limitation on the enrichment of bacteria degrading either benzene or toluene and the identification of Malikia spinosa (Comamonadaceae) as prominent aerobic benzene-, toluene-, and ethylbenzene-degrading bacterium: enrichment, isolation and whole-genome analysis. PMID:32474783
Searching for a Bacteriophage Lysin to Treat Corynebacterium bovis in Immunocompromised Mice. PMID:32471521
Complete Genome Sequence of the Plant Pathogen Ralstonia solanacearum Strain CIAT-078, Isolated in Colombia, Obtained Using Oxford Nanopore Technology. PMID:32467281
Draft Genome Sequence of Ochrobactrum sp. Strain MC-1LL, a Bacterial Strain with Antimicrobial Properties, Isolated from Marine Sediments in Nigeria. PMID:32467280
Draft Genome Sequence of Enterococcus faecalis UMB1309, Isolated from Catheterized Urine. PMID:32467279
Draft Genome Sequence of Enterococcus faecalis UMB7780, Isolated from the Female Urinary Tract. PMID:32467278
Draft Genome Sequence of Corynebacterium aurimucosum UMB7769, Isolated from the Female Urinary Tract. PMID:32467275
Draft Genome Assemblies of Two Staphylococcus pseudintermedius Strains Isolated from Canine Skin Biopsy Specimens. PMID:32467274
Complete and Draft Genome Sequences of 12 Plant-Associated Rathayibacter Strains of Known and Putative New Species. PMID:32467269
Draft Genome Sequences of Nine Cultivable Heterotrophic Proteobacteria Isolated from Phycosphere Microbiota of Toxic Alexandrium catenella LZT09. PMID:32467266
Complete Genome Sequence of a Colistin-Resistant Klebsiella pneumoniae Isolate from Houseflies (Musca domestica) in a Trash Disposal Truck in the United States. PMID:32467265
Draft Genome Sequence of an Unusually Multidrug-Resistant Strain of Achromobacter xylosoxidans from a Blood Isolate. PMID:32467264
The Concerted Action of Two B3-Like Prophage Genes Excludes Superinfecting Bacteriophages by Blocking DNA Entry into Pseudomonas aeruginosa. PMID:32461312
Characterization of a potential probiotic bacterium Lactococcus raffinolactis WiKim0068 isolated from fermented vegetable using genomic and in vitro analyses. PMID:32460704
Novel cultivated endophytic Verrucomicrobia reveal deep-rooting traits of bacteria to associate with plants. PMID:32457320
Nanopore sequencing reveals genomic map of CTX-M-type extended-spectrum β-lactamases carried by Escherichia coli strains isolated from blue mussels (Mytilus edulis) in Norway. PMID:32450819
VADR: validation and annotation of virus sequence submissions to GenBank. PMID:32448124
Genome Sequences of Two Putative Streptogramin Producers, Streptomyces sp. Strains TÜ 2975 and TÜ 3180, from the Tübingen Strain Collection. PMID:32439682
Draft Genome Sequence of Streptococcus anginosus UMB7768, Isolated from a Woman with Recurrent UTI Symptoms. PMID:32439677
Draft Genome Sequence of Lactobacillus jensenii UMB0836, Isolated from the Female Bladder. PMID:32439676
Draft Genome Sequence of Lactobacillus mulieris UMB7784, Isolated from the Female Urinary Tract. PMID:32439675
Draft Genome Sequence of Proteus mirabilis Strain UMB0038, Isolated from the Female Bladder. PMID:32439674
Three Draft Genome Sequences of Staphylococcus Species Isolated from the Urine of Healthy Bovine Heifers (Gyr Breed). PMID:32439673
Draft Genome Sequences of Three Enterococcus casseliflavus Strains Isolated from the Urine of Healthy Bovine Heifers (Gyr Breed). PMID:32439672
Draft Genome Sequence of Enterobacter asburiae UFMG-H9, Isolated from Urine from a Healthy Bovine Heifer (Gyr Breed). PMID:32439671
Thaumarchaea Genome Sequences from a High Arctic Active Layer. PMID:32439668
Genome Sequence of Pseudomonas sp. Strain AN3A02, Isolated from Rhizosphere of Deschampsia antarctica Desv., with Antagonism against Botrytis cinerea. PMID:32439667
Draft Genome Sequence of Lipopeptide-Producing Strain Pseudomonas fluorescens DSM 11579 and Comparative Genomics with Pseudomonas sp. Strain SH-C52, a Closely Related Lipopeptide-Producing Strain. PMID:32439665
Complete Genome Sequence of Escherichia coli GW-AmxH19, Isolated from Hospital Wastewater in Greifswald, Germany. PMID:32439663
Complete Genome Sequence of the Lignocellulose-Degrading Actinomycete Streptomyces albus CAS922. PMID:32439662
Draft Genome Sequence of the Psychrotolerant Bacterium Methylobacterium sp. Strain BTF04, Isolated from Freshwater in Antarctica. PMID:32439661
Cointegration as a mechanism for the evolution of a KPC-producing multidrug resistance plasmid in Proteus mirabilis. PMID:32438864
Impacts of local population history and ecology on the evolution of a globally dispersed pathogen. PMID:32434538
Emergence of mcr-9.1 in Extended-Spectrum-β-Lactamase-Producing Clinical Enterobacteriaceae in Pretoria, South Africa: Global Evolutionary Phylogenomics, Resistome, and Mobilome. PMID:32430406
Genome sequence data of Mangrovimonas sp. strain CR14 isolated from mangrove forest at Tanjung Piai National Park, Malaysia. PMID:32426431
Linking Comparative Genomics of Nine Potato-Associated Pseudomonas Isolates With Their Differing Biocontrol Potential Against Late Blight. PMID:32425922
Genome Comparison Identifies Different Bacillus Species in a Bast Fibre-Retting Bacterial Consortium and Provides Insights into Pectin Degrading Genes. PMID:32424209
Metagenomic Analysis of Regularly Microwave-Treated and Untreated Domestic Kitchen Sponges. PMID:32423128
Biochemical and Genomic Characterization of the Cypermethrin-Degrading and Biosurfactant-Producing Bacterial Strains Isolated from Marine Sediments of the Chilean Northern Patagonia. PMID:32414006
Draft Genome Sequence of Clostridium estertheticum-Like Strain FP3, Isolated from Spoiled Uncooked Lamb. PMID:32409559
Draft Genome Sequence of Streptococcus agalactiae UMB7782, Isolated from the Female Urinary Tract. PMID:32409558
Draft Genome Sequence of Staphylococcus epidermidis UMB7765, Isolated from the Urobiome of a Woman with Recurrent Urinary Tract Infection. PMID:32409557
Draft Genome Sequence of Streptococcus anginosus UMB1296, Isolated from the Female Urinary Tract. PMID:32409556
Draft Genome Sequence of Lactobacillus mulieris UMB9245, Isolated from the Female Bladder. PMID:32409555
Draft Genome Sequence of Antibiotic-Resistant Enterococcus faecalis Strain UMB0843, Isolated from the Female Urinary Tract. PMID:32409554
Draft Genome Sequence of Klebsiella pneumoniae UMB8492, Isolated from the Female Urinary Tract. PMID:32409553
Draft Genome Sequence of Klebsiella pneumoniae UMB7779, Isolated from the Female Urinary Tract. PMID:32409552
Draft Genome Sequence of Lactobacillus jensenii UMB0847, Isolated from the Female Urinary Tract. PMID:32409551
Draft Genome Sequence of Corynebacterium coyleae UMB8490, Isolated from the Female Urinary Tract. PMID:32409550
Draft Genome Sequence of Lactobacillus jensenii Strain UMB7766, Isolated from the Female Bladder. PMID:32409549
Draft Genome Sequence of Proteus mirabilis UMB1310, Isolated from the Female Urinary Tract. PMID:32409548
Whole-Genome Sequences of Three Plant Growth-Promoting Rhizobacteria Isolated from Solanum tuberosum L. Rhizosphere in Tanzania. PMID:32409546
Complete Genome Sequence of Pseudomonas sp. Strain BIOMIG1BAC, Which Mineralizes Benzalkonium Chloride Disinfectants. PMID:32409540
Genome Assembly of Azotobacter chroococcum Strain W5, a Free-Living Diazotroph Isolated from India. PMID:32409538
Genome Sequence of a Staphylococcus aureus Strain Isolated from a Dairy Cow That Was Nonresponsive to Antibiotic Treatment. PMID:32409533
Draft Genome Sequence of Biological N2-Fixing Bacterium Rhizobium tropici A12, Isolated from Root Nodule of Tropical Soybean (Glycine max), TGx-1148 Variety. PMID:32409532
Draft Genome Sequence of Clostridium perfringens netB-Positive Strain 2016TE7641_69, Isolated from the Intestine of a Diseased Turkey in Italy. PMID:32409527
Draft Genome Sequences of Two Extensively Drug-Resistant Strains of Acinetobacter baumannii Isolated from Clinical Samples in Pakistan. PMID:32409526
AcrFinder: genome mining anti-CRISPR operons in prokaryotes and their viruses. PMID:32402073
High Synteny and Sequence Identity between Genomes of Nitrosococcus oceani Strains Isolated from Different Oceanic Gyres Reveals Genome Economization and Autochthonous Clonal Evolution. PMID:32397339
Escherichia coli Small Proteome. PMID:32385980
Draft Genome Sequence of Klebsiella pneumoniae UMB7783, Isolated from the Female Bladder. PMID:32381623
Draft Genome Sequence of Aeromonas caviae UFMG-H8, Isolated from Urine from a Healthy Bovine Heifer (Gyr Breed). PMID:32381622
Draft Genome Sequence of Citrobacter freundii UFMG-H9, Isolated from Urine from a Healthy Bovine Heifer (Gyr Breed). PMID:32381621
Complete Genome Sequence of Pseudomonas balearica Strain EC28, an Iron-Oxidizing Bacterium Isolated from Corroded Steel. PMID:32381614
Complete Genome Sequence of an Efficient Rhizobium leguminosarum bv. viciae Strain, A1. PMID:32381612
Complete Genome Sequences of Three Neisseria gonorrhoeae Isolates from Thailand with Multidrug Resistance and Multilocus Sequence Type 1903. PMID:32381609
Complete Genome Sequence of Tetracycline-Resistant Serratia liquefaciens S1, Isolated from Mixed Greens, Obtained Using Illumina MiSeq and Oxford Nanopore MinION Sequencing. PMID:32381605
Draft Genome Sequence of a Streptococcus suis Isolate from a Case of Cattle Meningitis. PMID:32381604
Comparative genomics of whole-cell pertussis vaccine strains from India. PMID:32381023
Nocardia colli sp. nov., a new pathogen isolated from a patient with primary cutaneous nocardiosis. PMID:32375925
Whole-Genome Sequence of a Plant Growth-Promoting Strain, Serratia marcescens BTL07, Isolated from the Rhizoplane of Capsicum annuum L. PMID:32354984
Draft Genome Sequences of Six Type Strains of the Genus Massilia. PMID:32354976
Draft Genome Sequence of Limisphaera ngatamarikiensis NGM72.4T, a Moderately Alkaliphilic Thermophile Belonging to the Class Verrucomicrobiae. PMID:32354975
Closed Genome Sequences of 28 Foodborne Pathogens from the CFSAN Verification Set, Determined by a Combination of Long and Short Reads. PMID:32354971
Decolorization and biodegradation of textile di-azo dye Acid Blue 113 by Pseudomonas stutzeri AK6. PMID:32351872
Pathogenomes of Atypical Non-shigatoxigenic Escherichia coli NSF/SF O157:H7/NM: Comprehensive Phylogenomic Analysis Using Closed Genomes. PMID:32351476
Genomic and Metabolomic Analysis of Antarctic Bacteria Revealed Culture and Elicitation Conditions for the Production of Antimicrobial Compounds. PMID:32349314
Comparative genetics of Enterococcus faecalis intestinal tissue isolates before and after surgery in a rat model of colon anastomosis. PMID:32343730
Taxogenomics of the Genus Cyclobacterium: Cyclobacterium xiamenense and Cyclobacterium halophilum as Synonyms and Description of Cyclobacterium plantarum sp. nov. PMID:32340290
Complete Genome Sequence of Blautia producta JCM 1471T. PMID:32327523
Complete Genome Sequence of Flavonifractor plautii JCM 32125T. PMID:32327522
Draft Genome Sequence of the Thermophilic Bacterium Bacillus licheniformis SMIA-2, an Antimicrobial- and Thermostable Enzyme-Producing Isolate from Brazilian Soil. PMID:32327520
Draft Genomic Sequences of Three Escherichia coli Sequence Type 131 Isolates (H45, H43ii, and H43iii) from Patients in Lagos, Nigeria. PMID:32327517
Draft Genome Sequence of a Fish Pathogen, Edwardsiella piscicida Isolate CK41. PMID:32327515
Draft Genome Sequence of Glyphosate-Degrading Achromobacter insolitus Strain Kg 19 (VKM B-3295), Isolated from Agricultural Soil. PMID:32327510
Complete Genome Sequence of the Plant Growth-Promoting Bacterium Pantoea agglomerans Strain UAEU18, Isolated from Date Palm Rhizosphere Soil in the United Arab Emirates. PMID:32327505
Natronomonas salsuginis sp. nov., a New Inhabitant of a Marine Solar Saltern. PMID:32326357
Comparative Genomics Reveals Pathogenicity-Related Loci in Shewanella algae. PMID:32318128
Characterization and spontaneous induction of urinary tract Streptococcus anginosus prophages. PMID:32310742
Draft genome sequence data of Streptomyces sp. SS1-1, an endophytic strain showing cytotoxicity against the human lung cancer A549 cell line. PMID:32300629
Integrated Comparative Genomic Analysis and Phenotypic Profiling of Pseudomonas aeruginosa Isolates From Crude Oil. PMID:32300337
Draft Genome Sequence of Paenibacillus sp. Strain OT2-17, a Triclosan-Degrading Rhizobacterium. PMID:32299895
Complete Genome Sequence of Plant Growth-Promoting Rhizobacterium Pseudomonas protegens SN15-2. PMID:32299892
Draft Genome Sequences of Two Acidophilic, Mesophilic Verrucomicrobial Methanotrophs Contain Only One pmoCAB Operon. PMID:32299887
Complete Genome Sequence of a Toxic and Bioactive Exopolysaccharide-Bearing Bacterium, Sulfitobacter sp. Strain AM1-D1. PMID:32299880
Draft Genome Sequences of 11 Bacterial Strains Isolated from Commercial Corn-Based Poultry Feed. PMID:32299877
Complete Genome Sequence of Megamonas funiformis JCM 14723T. PMID:32299874
Complete Genome Sequence of Collinsella aerofaciens JCM 10188T. PMID:32299873
Draft Genome Sequence of Pseudarthrobacter phenanthrenivorans Strain MHSD1, a Bacterial Endophyte Isolated From the Medicinal Plant Pellaea calomelanos. PMID:32284671
Whole-Genome Sequencing of Lentibacillus sp. Strain JNUCC-1, Isolated from Fermented Anchovy Sauce (Myeolchi Aekjeot). PMID:32273372
Complete Genome Sequences and Methylome Analysis of Two Environmental Spirochaetes. PMID:32273363
Draft Genome Sequences of Novel Campylobacter Species Isolated from Nonhuman Primates. PMID:32273357
Draft Genome Sequence of Mercury-Resistant Serratia sp. Strain SRS-8-S-2018. PMID:32273355
Draft Whole-Genome Sequences of Ciprofloxacin-Resistant Derivatives of a Bacillus anthracis ΔANR Strain Lacking pXO1 and pXO2 Plasmids. PMID:32273351
Complete Genome Sequence of Moraxella osloensis Strain YV1, Isolated from an Australian Wastewater Treatment Plant. PMID:32273350
Complete Genome Sequence of Mycoplasma bovis Strain XBY01, Isolated from Henan Province, China. PMID:32273349
Draft Genome Sequence of the Urinary Catheter Isolate Enterobacter ludwigii CEB04 with High Biofilm Forming Capacity. PMID:32260576
Whole-genome analysis of bacillus velezensis ZF2, a biocontrol agent that protects cucumis sativus against corynespora leaf spot diseases. PMID:32257742
Complete genome sequence and annotation of the laboratory reference strain Shigella flexneri serotype 5a M90T and genome-wide transcriptional start site determination. PMID:32252626
Complete Chromosomal Sequences of Two Borrelia miyamotoi Samples Obtained from Ixodes ricinus Eggs in Czechia. PMID:32241866
Whole-Genome Sequence of Streptomyces kaniharaensis Shomura and Niida SF-557. PMID:32241862
Draft Genome Sequence of Desulfobacter hydrogenophilus DSM 3380, a Psychrotolerant Sulfate-Reducing Bacterium. PMID:32241859
Thermococcus indicus sp. nov., a Fe(III)-reducing hyperthermophilic archaeon isolated from the Onnuri Vent Field of the Central Indian Ocean ridge. PMID:32239454
Jejubacter calystegiae gen. nov., sp. nov., moderately halophilic, a new member of the family Enterobacteriaceae, isolated from beach morning glory. PMID:32221820
Genome-scale metabolic models of Microbacterium species isolated from a high altitude desert environment. PMID:32221328
Sequencing and Characterization of Five Extensively Drug-Resistant Salmonella enterica Serotype Typhi Isolates Implicated in Human Infections from Punjab, Pakistan. PMID:32217683
Draft Genome Sequences of 26 Salmonella Isolates Associated with Multiple Outbreaks in Brazil. PMID:32217679
Salmonella enterica subsp. arizonae Isolated from a Canine Clinical Case of Prostatitis. PMID:32217678
Complete Genome Sequences of Clinical Pandoraea fibrosis Isolates. PMID:32217674
Complete Genomic Sequences of Three Salmonella enterica subsp. enterica Serovar Muenchen Strains from an Orchard in San Joaquin County, California. PMID:32217672
Draft Genome Sequences of Two Acinetobacter baumannii Isolates from a Fatal Case of Necrotizing Fasciitis. PMID:32217671
Complete Genome Sequence of Acidithiobacillus ferridurans JAGS, Isolated from Acidic Mine Drainage. PMID:32217670
Genome analysis of cellulose and hemicellulose degrading Micromonospora sp. CP22. PMID:32206494
OXA-48 Carbapenemase in Klebsiella pneumoniae Sequence Type 307 in Ecuador. PMID:32204571
Complete Genome Sequence of Pediococcus pentosaceus Strain GDIAS 001. PMID:32193246
Draft Genome Sequence of Vibrio sp. Strain OCN044, Isolated from Palmyra Atoll, Northern Line Islands. PMID:32193232
Complete Genome Sequence of the Necrotrophic Plant-Pathogenic Bacterium Pectobacterium brasiliense 1692. PMID:32193231
Complete Genome Sequence of Pseudomonas psychrotolerans CS51, a Plant Growth-Promoting Bacterium, Under Heavy Metal Stress Conditions. PMID:32182882
Genome analysis of Lactobacillus plantarum subsp. plantarum KCCP11226 reveals a well-conserved C30 carotenoid biosynthetic pathway. PMID:32181112
Complete Genome Sequence of Kosakonia radicincitans GXGL-4A, a Nitrogen-Fixing Bacterium with Capability to Degrade TEX. PMID:32170407
Metagenomic analysis of bacterial species in tongue microbiome of current and never smokers. PMID:32170059
Draft Genome Sequences of 30 Salmonella enterica Serovar Enteritidis Isolates Associated with Multiple Outbreaks in Brazil. PMID:32165391
Draft Genome Sequence of Bradyrhizobium elkanii BR 2003, an Efficient Rhizobium Strain for Cajanus, Canavalia, Crotalaria, and Indigofera. PMID:32165390
Genome Sequence of Escherichia coli Clone O25:H4 Sequence Type 131, Isolated from a Sudanese Patient with Urinary Tract Infection. PMID:32165387
Complete Genome Sequence of Gordonia sp. Strain JH63, Isolated from Human Skin. PMID:32165382
Draft Genome Sequence of a Mycobacterium porcinum Strain Isolated from a Pet Cat with Atypical Mycobacterial Panniculitis. PMID:32165379
Data on genome sequencing, assembly, annotation and genomic analysis of Rhodococcus rhodochrous strain SPC17 isolated from Lonar Lake. PMID:32154356
Closing Clostridium botulinum Group I Genomes Using a Combination of Short- and Long-Reads. PMID:32153532
Comparative genomics analysis of c-di-GMP metabolism and regulation in Microcystis aeruginosa. PMID:32151246
Comparative Genomic Analysis Confirms Five Genetic Populations of the Select Agent, Rathayibacter toxicus. PMID:32150860
Streptomyces acidicola sp. nov., isolated from a peat swamp forest in Thailand. PMID:32139879
Draft Genome Sequence of an Extensively Drug-Resistant Mycobacterium tuberculosis Clinical Isolate, 3485_MTB, from Nur-Sultan, Kazakhstan. PMID:32139580
Draft Genome Sequences of Four Saccharibacter sp. Strains Isolated from Native Bees. PMID:32139579
Complete Genome Sequence of Escherichia coli BL21-AI. PMID:32139577
Complete Genome Sequence of Streptococcus ratti JH145. PMID:32139573
Genome Sequence of Vibrio cholerae Strain RFB16, Isolated from North Park Lake in Allegheny County, Pennsylvania. PMID:32139572
Draft Genome Sequences of Two Cultivable Strains of the Bacterial Symbiont Serratia symbiotica. PMID:32139562
Genome Sequences of Uncommon Shiga Toxin-Producing Escherichia coli Serotypes. PMID:32139559
Draft Genome Sequence and Annotation of Paracoccus versutus MAL 1HM19, a Nitrate-Reducing, Sulfide-Oxidizing Bacterium. PMID:32139556
Complete genome of Enterobacter sichuanensis strain SGAir0282 isolated from air in Singapore. PMID:32127921
Whole-Genome Sequencing of Lactobacillus helveticus D75 and D76 Confirms Safety and Probiotic Potential. PMID:32111071
Comparative genomics of the fish pathogens Edwardsiella ictaluri 93-146 and Edwardsiella piscicida C07-087. PMID:32108566
Genome-wide analyses of Liberibacter species provides insights into evolution, phylogenetic relationships, and virulence factors. PMID:32108417
Genomic Characterization of Newly Completed Genomes of Botulinum Neurotoxin-Producing Species from Argentina, Australia, and Africa. PMID:32108238
Complete Genome Sequences of Micrococcus luteus Strains NCCP 15687 and NCCP 16831, Isolated in South Korea. PMID:32107302
Complete Genome Sequences of Pseudomonas alkylphenolica Neo and Variovorax sp. Strain CSUSB, Obtained in Undergraduate Microbiology Courses Using a Hybrid Assembly Approach. PMID:32107301
Whole-Genome Sequencing of Pantoea sp. Strain RIT388, a Potential Oral Opportunistic Pathogen Isolated from a Chewing Stick (Distemonanthus benthamianus). PMID:32107300
Genome Sequence of a Potentially New Buttiauxella Species, Strain B2, Isolated from Rhizosphere of Olivillo Trees (Aextoxicon punctatum). PMID:32107298
Whole Genome Sequence of Dermacoccus abyssi MT1.1 Isolated from the Challenger Deep of the Mariana Trench Reveals Phenazine Biosynthesis Locus and Environmental Adaptation Factors. PMID:32106586
Paradesulfovibrio onnuriensis gen. nov., sp. nov., a chemolithoautotrophic sulfate-reducing bacterium isolated from the Onnuri vent field of the Indian Ocean and reclassification of Desulfovibrio senegalensis as Paradesulfovibrio senegalensis comb. nov. PMID:32103446
Draft genome sequence of Actinocorallia populi A251T, an actinomycetes producing polyketides and nonribosomal polypeptides. PMID:32099730
Detection and Characterization of Leptospira Infection and Exposure in Rats on the Caribbean Island of Saint Kitts. PMID:32098357
Using comparative genomics to understand molecular features of carbapenem-resistant Acinetobacter baumannii from South Korea causing invasive infections and their clinical implications. PMID:32084241
Comparative Genomic Analysis of a Novel Strain of Taiwan Hot-Spring Cyanobacterium Thermosynechococcus sp. CL-1. PMID:32082292
Draft Genome Sequences of Vibrio alginolyticus Strain S6-61 and Vibrio diabolicus Strain S7-71, Isolated from Corals in the Andaman Sea. PMID:32079632
Draft Genome Sequences of 13 Isolates of Adlercreutzia equolifaciens, Eggerthella lenta, and Gordonibacter urolithinfaciens, Isolated from Human Fecal Samples in Karlsruhe, Germany. PMID:32079628
Genomic and phenotypic characterization of Burkholderia isolates from the potable water system of the International Space Station. PMID:32074104
Cultivable, Host-Specific Bacteroidetes Symbionts Exhibit Diverse Polysaccharolytic Strategies. PMID:32060023
Draft Genome Sequences of Leptospira interrogans Serovar Copenhageni Strains Isolated from Patients with Weil's Disease in Brazil. PMID:32054712
Draft Genome Sequence of Paenibacillus polymyxa 3A-25AI, a Strain Antagonist to Root Rot Causal Phytopathogens. PMID:32054710
Draft Genome Sequence of Pseudomonas aeruginosa Strain LMG 1272, an Atypical White Line Reaction Producer. PMID:32054708
Draft Genome Sequences of Campylobacter jejuni Strains Isolated from Poultry. PMID:32054706
Draft Genome Sequence of Staphylococcus pseudintermedius Strain 13-13613, Isolated from a Case of Canine Pyoderma. PMID:32054701
Draft Genome Sequences of 12 Lactobacillus reuteri Strains of Rodent Origin. PMID:32054699
Salmonella enterica Serovar Typhimurium 14028s Genomic Regions Required for Colonization of Lettuce Leaves. PMID:32038592
Complete Genome Sequences of Four Isolates of Vancomycin-Resistant Enterococcus faecium with the vanA Gene and Two Daptomycin Resistance Mutations, Obtained from Two Inpatients with Prolonged Bacteremia. PMID:32029568
Draft Genome Sequence of Raphidiopsis raciborskii Strain GIHE 2018, Isolated from a Shallow Freshwater Pond in South Korea. PMID:32029564
Draft Genome Sequence of Microbacterium oryzae Strain MB-10, Isolated from a Rice Field in India. PMID:32029561
Complete Genome Sequencing of Mycoplasma synoviae Strain HN01, Isolated from Chicken in Henan Province, China. PMID:32029555
Isolation and Whole-Genome Sequencing of 12 Mushroom-Associated Bacterial Strains: an Inquiry-Based Laboratory Exercise in a Genomics Course at the Rochester Institute of Technology. PMID:32029553
Haloglomus irregulare gen. nov., sp. nov., a New Halophilic Archaeon Isolated from a Marine Saltern. PMID:32024278
Pathogenomic Analysis of a Novel Extensively Drug-Resistant Citrobacter freundii Isolate Carrying a blaNDM-1 Carbapenemase in South Africa. PMID:32024012
Hybrid Genome Assembly and Annotation of a Pandrug-Resistant Klebsiella pneumoniae Strain Using Nanopore and Illumina Sequencing. PMID:32021334
Diversity and Host Interactions Among Virulent and Temperate Baltic Sea Flavobacterium Phages. PMID:32019073
Atypical Salmonella enterica Serovars in Murine and Human Macrophage Infection Models. PMID:32014897
mcr-Colistin Resistance Genes Mobilized by IncX4, IncHI2, and IncI2 Plasmids in Escherichia coli of Pigs and White Stork in Spain. PMID:32010114
Genomic Characterization of a Mercury Resistant Arthrobacter sp. H-02-3 Reveals the Presence of Heavy Metal and Antibiotic Resistance Determinants. PMID:32010097
Complete Genome Sequence of a Legionella longbeachae Serogroup 2 Isolate Derived from a Patient with Legionnaires' Disease. PMID:32001572
Draft Genome Sequence of Idiomarina sp. Strain W-5T, Isolated from the Andaman Sea. PMID:32001569
Genome Sequence of Salarchaeum sp. Strain JOR-1, an Extremely Halophilic Archaeon from the Dead Sea. PMID:32001568
Whole-Genome Sequences of 66 Incompatibility Group FIB Plasmid-Carrying Salmonella enterica Serovar Typhimurium Isolates from Food Animal Sources. PMID:32001566
Whole-Genome Sequencing Confirms the Coexistence of Different Colonizing Group B Streptococcus Isolates Underscored by CRISPR Typing. PMID:32001563
Complete Genome Sequence of Lignin-Degrading Streptomyces sp. Strain S6, Isolated from an Oil Palm Plantation in Malaysia. PMID:32001560
Complete genome sequence of Bifidobacterium adolescentis P2P3, a human gut bacterium possessing strong resistant starch-degrading activity. PMID:31988825
Diversity and metabolism of Woeseiales bacteria, global members of marine sediment communities. PMID:31988474
Pathogenomics and Evolutionary Epidemiology of Multi-Drug Resistant Clinical Klebsiella pneumoniae Isolated from Pretoria, South Africa. PMID:31988374
Distribution of Phototrophic Purple Nonsulfur Bacteria in Massive Blooms in Coastal and Wastewater Ditch Environments. PMID:31979033
Robertkochia solimangrovi sp. nov., isolated from mangrove soil, and emended description of the genus Robertkochia. PMID:31976852
Draft Genome Sequence of Clostridium perfringens Strain TAMU, Which Causes Necrotic Enteritis in Broiler Chickens. PMID:31974152
Complete Genome Sequence of the Deep-Sea Bacterium Moritella marina MP-1 (ATCC 15381). PMID:31974151
Complete Genome Sequence of Bordetella bronchiseptica Strain KM22. PMID:31974149
Draft Genome Sequence of Mesorhizobium sp. Strain SARCC-RB16n, an Effective Nodulating and Nitrogen-Fixing Symbiont of Rooibos [Aspalathus linearis (Burm. f.)] in South Africa. PMID:31974148
Draft Genome Sequence of "Candidatus Arthromitus" UMNCA01, a Suspected Commensal Isolated from the Gut Microbiome of Commercial Turkey. PMID:31974147
Paenibacillus odorifer, the Predominant Paenibacillus Species Isolated from Milk in the United States, Demonstrates Genetic and Phenotypic Conservation of Psychrotolerance but Clade-Associated Differences in Nitrogen Metabolic Pathways. PMID:31969477
Complete Genome Sequence of Pseudomonas coronafaciens pv. oryzae 1_6. PMID:31948975
Complete Genome Sequence of a New Clostridium sp. Isolated from Anaerobic Digestion and Biomethanation. PMID:31948972
Draft Genome Sequence of Desulfofundulus thermobenzoicus subsp. thermosyntrophicus DSM 14055, a Moderately Thermophilic Sulfate Reducer. PMID:31948969
Draft Genome Sequence of Acidianus ambivalens DSM 3772, an Aerobic Thermoacidophilic Sulfur Disproportionator. PMID:31948968
Complete Genome Sequence of Klebsiella pneumoniae Strain TK421, a Conjugative Hypervirulent Isolate. PMID:31948967
Draft Genome Sequence of Pseudomonas chlororaphis subsp. aurantiaca ARS-38, a Bacterial Strain with Plant Growth Promotion Potential, Isolated from the Rhizosphere of Cotton in Pakistan. PMID:31948966
Five Closed Salmonella enterica Genome Sequences from a 2017-2018 Multistrain, Multistate Kratom Outbreak. PMID:31948965
Genome Sequence Analysis of Enterobacter sp. C6, Found in the Pitcher Fluids of Sarracenia rosea. PMID:31948957
Draft Genome Sequence of the Non-Microcystin-Producing Microcystis aeruginosa Strain KLA2, Isolated from a Freshwater Reservoir in Northern California, USA. PMID:31948955
Genome Sequence of Novoherbaspirillum sp. UKPF54, a Plant Growth-Promoting Rhizobacterial Strain with N2O-Mitigating Abilities, Isolated from Paddy Soil. PMID:31948954
The Polycyclic Aromatic Hydrocarbon (PAH) degradation activities and genome analysis of a novel strain Stenotrophomonas sp. Pemsol isolated from Mexico. PMID:31934497
A Novel Cyanobacterium Synechococcus elongatus PCC 11802 has Distinct Genomic and Metabolomic Characteristics Compared to its Neighbor PCC 11801. PMID:31932622
Vanillin Production in Pseudomonas: Whole-Genome Sequencing of Pseudomonas sp. Strain 9.1 and Reannotation of Pseudomonas putida CalA as a Vanillin Reductase. PMID:31924622
Genome-Scale Metabolic Reconstruction of Acetobacter pasteurianus 386B, a Candidate Functional Starter Culture for Cocoa Bean Fermentation. PMID:31921009
Formulation of a Highly Effective Inoculant for Common Bean Based on an Autochthonous Elite Strain of Rhizobium leguminosarum bv. phaseoli, and Genomic-Based Insights Into Its Agronomic Performance. PMID:31920999
Draft Genome Sequences of 10 Bacterial Strains Isolated from Root Nodules of Alnus Trees in New Hampshire. PMID:31919185
Draft Genome Sequence of Bacillus sp. Strain HY001, a High Producer of Isoprene, Isolated from Natto. PMID:31919174
Identification and Characterization of Mycobacterium tuberculosis Beijing Genotype Strain SBH163, Isolated in Sabah, Malaysia. PMID:31919173
Draft Genome Sequence of a Pseudomonas aeruginosa Sequence Type 3351 Strain Exhibiting High-Level Resistance to Polymyxins in a Pediatric Patient with Cystic Fibrosis in Mexico. PMID:31919170
Complete Genome Sequence of Lactobacillus plantarum Strain JDARSH, Isolated from Sheep Milk. PMID:31919166
Draft Genome Sequences of Strains TAV3 and TAV4 (Verrucomicrobia: Opitutaceae), Isolated from a Wood-Feeding Termite, and In Silico Analysis of Their Polysaccharide-Degrading Enzymes. PMID:31919165
Genome Sequences of a Green-Colored Chlorobium phaeovibrioides Strain Containing Two Plasmids and a Closely Related Plasmid-Free Brown-Colored Strain. PMID:31919163
Draft Genome Sequences of Two Pseudomonas Strains That Are Able To Use Furan Derivatives as Their Sole Carbon Source. PMID:31919162
Draft Genome Sequence of Rhizobium tropici SARCC-755, a Free-Living Rhizobium That Nodulated and Promoted Growth in Pigeonpea [Cajanus cajan (L.) Millsp.]. PMID:31919160
Complete Genome Sequence of Rhodococcus ruber R1, a Novel Strain Showing a Broad Catabolic Potential toward Lignin-Derived Aromatics. PMID:31919154
Draft Genome Sequence of Novel Coastal Bacterium LSUCC0115 from the MWH-UniPo Clade, Order Burkholderiales, Class Betaproteobacteria. PMID:31919153
Genome Sequence of Bacillus thuringiensis Strain MW, a Freshwater Isolate. PMID:31919151
Complete Genome Sequence of Gordonia sp. 135, a Promising Dibenzothiophene- and Hydrocarbon-Degrading Strain. PMID:31919147
Genome sequence of Pseudomonas aeruginosa PAO1161, a PAO1 derivative with the ICEPae1161 integrative and conjugative element. PMID:31906858
Wolbachia Endosymbiont of the Horn Fly (Haematobia irritans irritans): a Supergroup A Strain with Multiple Horizontally Acquired Cytoplasmic Incompatibility Genes. PMID:31900308
Sex-specific and opposite modulatory aspects revealed by PPI network and pathway analysis of ischemic stroke in humans. PMID:31899762
Complete Genome Sequences of Streptococcus mitis Strains Isolated from the Oral Cavity and Urogenital Tract of a Woman and Her Male Sexual Partner. PMID:31896651
Draft Genome Sequences of Two Pseudomonas aeruginosa Isolates from the Female Urogenital Tract. PMID:31896650
Complete Genome Sequence of Bartonella bacilliformis Strain KC584 (ATCC 35686). PMID:31896649
Draft Genome Sequence of the Moderately Thermophilic Actinobacterial Steroid-Transforming Saccharopolyspora hirsuta subsp. hirsuta Strain VKM Ac-666T. PMID:31896645
Whole-Genome Shotgun Sequence of Halomonas sp. Strain SBS 10, Isolated from a Hypersaline Lake in India. PMID:31896639
Draft Genome Sequences of Eight Pseudomonas aeruginosa Corneal Infection Isolates. PMID:31896638
Draft Genome Sequences of Clinical K1-Type Klebsiella pneumoniae Strains Isolated in Russia. PMID:31896637
Draft Genome Sequences of Two Vibrio fortis Strains Isolated from Coral (Fungia sp.) from the Andaman Sea. PMID:31896635
Complete Genome Sequence of a Plant-Derived Phenylpropanoid-Degrading Bacterium, Pseudomonas putida JYR-1. PMID:31896631
Complete Genome Sequence of Strain BW-2, a Magnetotactic Gammaproteobacterium in the Family Ectothiorhodospiraceae, Isolated from a Brackish Spring in Death Valley, California. PMID:31896630
Draft Genome Sequence of an Escherichia coli Strain Harboring bla CTX-M-115, bla CMY-2, Aminoglycoside, Tetracycline, and Sulfonamide Resistance Genes, Isolated from a Costa Rican Wastewater Treatment Plant. PMID:31896625
Complete Genome Sequence of Pandoraea pnomenusa TF-18, a Multidrug-Resistant Organism Isolated from the Rhizosphere of Rice (Oryza sativa L. subsp. japonica). PMID:31896624
High-quality draft genome and characterization of commercially potent probiotic Lactobacillus strains. PMID:31896243
BacPipe: A Rapid, User-Friendly Whole-Genome Sequencing Pipeline for Clinical Diagnostic Bacteriology. PMID:31887656
Structure of HhaI endonuclease with cognate DNA at an atomic resolution of 1.0 Å. PMID:31879785
Diverse Fluoroquinolone Resistance Plasmids From Retail Meat E. coli in the United States. PMID:31866986
Francisella opportunistica sp. nov., isolated from human blood and cerebrospinal fluid. PMID:31860434
Comparative Genomics of 86 Whole-Genome Sequences in the Six Species of the Elizabethkingia Genus Reveals Intraspecific and Interspecific Divergence. PMID:31844108
Paenibacillus oralis sp. nov., Isolated from Human Subgingival Dental Plaque of Gingivitis Lesion. PMID:31832844
Draft Genome Sequence of Dermacoccus nishinomiyaensis TSA37, Isolated from Wood Ash. PMID:31831617
Draft Whole-Genome Sequences of Two Western European Borrelia miyamotoi Isolates. PMID:31831613
Whole-Genome Sequence of Bacillus megaterium Strain SGAir0080, Isolated from an Indoor Air Sample. PMID:31831612
Complete Genome Sequence of a Staphylococcus aureus Isolate from a Nasopharyngeal Swab from a Mine Worker in South Africa. PMID:31831607
A novel one-class classification approach to accurately predict disease-gene association in acute myeloid leukemia cancer. PMID:31825992
The Pseudomonas aeruginosa accessory genome elements influence virulence towards Caenorhabditis elegans. PMID:31823826
Global Assessment of Mycobacterium avium subsp. hominissuis Genetic Requirement for Growth and Virulence. PMID:31822597
Rhizobium deserti sp. Nov Isolated from Biological Soil Crusts Collected at Mu Us Sandy Land, China. PMID:31820041
Paenibacillus lutrae sp. nov., A Chitinolytic Species Isolated from A River Otter in Castril Natural Park, Granada, Spain. PMID:31810255
Metagenome-Assembled Genome of Halomonas sp. Isolate SL48-SHIP-3 from the Microbial Mat of Salt Lake Number 48 (Novosibirsk Region, Russia). PMID:31806750
Complete Genome Sequence of Fish Pathogen Flavobacterium columnare Strain B185, Originating from Finland. PMID:31806749
Complete Genome Sequence of the Ebosin-Producing Strain Streptomyces sp. 139. PMID:31806748
Complete Genome Sequences of Two Vaccine Strains and One Field Isolate of Mycoplasma gallisepticum. PMID:31806746
Draft Genome Sequence of Heavy Metal-Resistant Aeromonas veronii CTe-01, Isolated from a Peruvian Wastewater Treatment Plant. PMID:31806744
Draft Genome Sequence of a Metronidazole-Resistant Bacteroides fragilis Strain Isolated in Ecuador. PMID:31806742
Complete Genome Sequence of Nocardia sp. Strain CS682, a Producer of Antibacterial Compound Nargenicin A1. PMID:31806741
Complete Genome Sequences of Two Salmonella enterica subsp. enterica Serovar Anatum Strains Isolated from Papaya. PMID:31806740
Draft Genome Sequences of Two Textile Azo Dye-Degrading Shewanella sp. Strains Isolated from a Textile Effluent in Peru. PMID:31806739
Exploiting the Feedstock Flexibility of the Emergent Synthetic Biology Chassis Vibrio natriegens for Engineered Natural Product Production. PMID:31801279
A Rare Thioquinolobactin Siderophore Present in a Bioactive Pseudomonas sp. DTU12.1. PMID:31800028
Scandinavium goeteborgense gen. nov., sp. nov., a New Member of the Family Enterobacteriaceae Isolated From a Wound Infection, Carries a Novel Quinolone Resistance Gene Variant. PMID:31781055
Complete Circular Genome Sequence of a Multidrug-Resistant Escherichia coli Strain from Cuba Obtained with Nanopore and Illumina Hybrid Assembly. PMID:31776226
Draft Genome Sequence of Enterobacter hormaechei Strain MHSD6, a Plant Endophyte Isolated from Medicinal Plant Pellaea calomelanos. PMID:31776223
Complete Genome Sequence of Rhodococcus erythropolis X5, a Psychrotrophic Hydrocarbon-Degrading Biosurfactant-Producing Bacterium. PMID:31776221
Complete Genome Sequence of Lactobacillus harbinensis Strain NSMJ42, Isolated from Makgeolli, a Traditional Korean Alcoholic Beverage. PMID:31776219
Draft Genome Sequence of an Acinetobacter baumannii Isolate Recovered from a Horse with Conjunctivitis in Germany. PMID:31776218
Complete Genome Sequence of Escherichia coli Antibiotic-Resistant Isolate AR Bank #0349. PMID:31776216
Paraflavitalea soli gen. nov., sp. nov., isolated from greenhouse soil. PMID:31760613
A Mesophilic Aeromonas salmonicida Strain Isolated from an Unsuspected Host, the Migratory Bird Pied Avocet. PMID:31757113
Draft Genome Sequences of Type Strains of Adlercreutzia muris and Ellagibacter urolithinifaciens, Belonging to the Family Eggerthellaceae. PMID:31753955
Draft Whole-Genome Sequences of Campylobacter Strains Isolated from Brushtail Possums in New Zealand. PMID:31753948
Draft Genome Sequence of Multidrug-Resistant Vibrio parahaemolyticus Strain PH698, Infecting Penaeid Shrimp in the Philippines. PMID:31753942
Complete Genome Sequence of Curtobacterium sp. Strain SGAir0471, Isolated from Singapore Air Samples. PMID:31753940
Draft Whole-Genome Sequences of Xylella fastidiosa subsp. fastidiosa Strains TPD3 and TPD4, Isolated from Grapevines in Hou-li, Taiwan. PMID:31753936
Draft Genome Sequence of Bacillus safensis Strain Sami, Isolated from Leaf Veins of Ficus religiosa. PMID:31753935
Comparative genomics reveals a novel genetic organization of the sad cluster in the sulfonamide-degrader 'Candidatus Leucobacter sulfamidivorax' strain GP. PMID:31752666
Lysobacter segetis sp. nov., Isolated from Soil. PMID:31728699
Analysis of the Complete Genome Sequence of the Widely Studied Strain Bradyrhizobium betae PL7HG1T Reveals the Presence of Photosynthesis Genes and a Putative Plasmid. PMID:31727720
Draft Genome Sequence of the Halophilic Pararhodobacter-Like Strain CCB-MM2, Which Has Polyhydroxyalkanoate-Synthesizing Potential. PMID:31727719
Draft Genome Sequences of Longimonas halophila KCTC 42399 and Longibacter salinarum KCTC 52045. PMID:31727717
Complete Genome Sequence of a New Bacteroidaceae Bacterium Isolated from Anaerobic Biomass Digestion. PMID:31727715
Complete Genome Sequence and Methylome Analysis of Sphaerotilus natans subsp. sulfidivorans D-507. PMID:31727714
Complete Genome Sequence of Escherichia coli O157:H7 Strain Al Ain, Isolated from Camel Feces in the United Arab Emirates. PMID:31727711
Whole-Genome Sequencing of Xanthomonadaceae Strain Alg18-2.2, Isolated from the Saline Lake Gudzhirganskoe in the Republic of Buryatia, Russia. PMID:31727708
Complete Genome Sequence of Terriglobus albidus Strain ORNL, an Acidobacterium Isolated from the Populus deltoides Rhizosphere. PMID:31727704
Genome Sequence of Pseudomonas sp. Strain ST1, Isolated from Olive (Olea europaea L.) Knot Galls in Croatia. PMID:31727702
Draft Genome Sequences of 12 Histophilus somni Strains Isolated from Feedlot Cattle in Alberta, Canada. PMID:31727699
Draft Genome Sequence of Bacillus velezensis Strain ZeaDK315Endo16. PMID:31727695
Characteristics of a Colistin-Resistant Escherichia coli ST695 Harboring the Chromosomally-Encoded mcr-1 Gene. PMID:31726755
Bacteriophage targeting of gut bacterium attenuates alcoholic liver disease. PMID:31723265
Genomic Insights into the Carbon and Energy Metabolism of a Thermophilic Deep-Sea Bacterium Deferribacter autotrophicus Revealed New Metabolic Traits in the Phylum Deferribacteres. PMID:31717820
The Resistome, Mobilome, Virulome and Phylogenomics of Multidrug-Resistant Escherichia coli Clinical Isolates from Pretoria, South Africa. PMID:31712587
Draft Genome Sequence of the Symbiotically Competent Cyanobacterium Nostoc sp. Strain KVJ20. PMID:31699770
The Draft Whole-Genome Sequence of the Antibiotic Producer Empedobacter haloabium ATCC 31962 Provides Indications for Its Taxonomic Reclassification. PMID:31699766
Draft Genome Sequence of Nonomuraea sp. Strain C10, a Producer of Brartemicin, Isolated from a Mud Dauber Wasp Nest in Nepal. PMID:31699765
Draft Genome Sequence of Janthinobacterium sp. Strain SLB01, Isolated from the Diseased Sponge Lubomirskia baicalensis. PMID:31699764
Complete Genome Sequences of Two Shiga Toxin-Producing Escherichia coli Strains Isolated from Crows. PMID:31699762
Genome Sequence of Arthrobacter sp. UKPF54-2, a Plant Growth-Promoting Rhizobacterial Strain Isolated from Paddy Soil. PMID:31699760
Draft Genome Sequence of Phyllobacterium endophythicum mTS5, Isolated from Lupinus micranthus in Tunisia. PMID:31699759
Complete hybrid genome assembly of clinical multidrug-resistant Bacteroides fragilis isolates enables comprehensive identification of antimicrobial-resistance genes and plasmids. PMID:31697231
The Empusa code generator and its application to GBOL, an extendable ontology for genome annotation. PMID:31685817
An Integrated Pipeline for Annotation and Visualization of Metagenomic Contigs. PMID:31681429
Complete Genome Sequences of Cellvibrio japonicus Strains with Improved Growth When Using α-Diglucosides. PMID:31672746
Genome Sequence of a Salmonella enterica subsp. enterica Serovar Corvallis Strain Isolated from Human Blood. PMID:31672744
Complete Genome Sequencing of Elizabethkingia sp. Strain 2-6. PMID:31672739
Genome Sequence Announcement of Bacillus paranthracis Strain ICIS-279, Isolated from Human Intestine. PMID:31672737
Complete Genome Sequence of the Nosocomial Pathogen Acinetobacter nosocomialis Strain M2. PMID:31672736
Comparative Study on A Novel Pathogen of European Seabass. Diversity of Aeromonas veronii in the Aegean Sea. PMID:31671797
Identification of the symbiosis island of Bradyrhizobium paxllaeri LMTR 21T. PMID:31667798
Data on draft genome sequence of Bacillus sp. strain MHSD28, a bacterial endophyte isolated from Dicoma anomala. PMID:31667287
Maintenance of Sympatric and Allopatric Populations in Free-Living Terrestrial Bacteria. PMID:31662456
Genome analysis provides insights into microaerobic toluene-degradation pathway of Zoogloea oleivorans BucT. PMID:31659381
Whole-Genome Sequencing of a Salmonella enterica subsp. enterica Serovar Infantis Strain Isolated from Broiler Chicken in Peru. PMID:31649094
Genome Sequences of Novel Azospirillum sp. Strains B21 and Sh1, Isolated from Raised Sphagnum Bogs, and Type Strains Azospirillum lipoferum 59b and Azospirillum oryzae COC8. PMID:31649088
Draft Genome Sequence of a Granaticin-Producing Strain of Streptomyces parvus Isolated from a Roman Tomb in the Necropolis of Carmona, Spain. PMID:31649083
Complete Genome Sequence of the Multidrug-Resistant Pseudomonas aeruginosa Endemic Houston-1 Strain, Isolated from a Pediatric Patient with Cystic Fibrosis and Assembled Using Oxford Nanopore and Illumina Sequencing. PMID:31649076
Methylome Characterization of Burkholderia pseudomallei Strain 982 at Single-Base Resolution. PMID:31649075
Whole-Genome Sequences of One Arthrobacter Strain and Three Pseudarthrobacter Strains Isolated from the Namib Desert. PMID:31649073
Prediction of microbial communities for urban metagenomics using neural network approach. PMID:31639050
Genome-Based Metabolic Reconstruction of a Novel Uncultivated Freshwater Magnetotactic coccus "Ca. Magnetaquicoccus inordinatus" UR-1, and Proposal of a Candidate Family "Ca. Magnetaquicoccaceae". PMID:31632385
Description and complete genome sequences of Bradyrhizobium symbiodeficiens sp. nov., a non-symbiotic bacterium associated with legumes native to Canada. PMID:31626586
Draft Genome Sequence of Mycolicibacterium sp. Strain 018/SC-01/001, Isolated from the Marine Sponge Iotrochota sp. PMID:31624171
Draft Genome Sequences of 10 Bacterial Strains Isolated from an Abandoned Coal Mine in Southeast Kansas. PMID:31624170
Whole-Genome Sequence of a Pantoea sp. Strain Isolated from an Olive (Olea europaea L.) Knot. PMID:31624169
Complete Genome Sequence of Clostridioides difficile Ribotype 255 Strain Mta-79, Assembled Using Oxford Nanopore and Illumina Sequencing. PMID:31624167
Draft Genome Sequence of Geobacillus sp. Strain LEMMJ02, a Thermophile Isolated from Deception Island, an Active Volcano in Antarctica. PMID:31624166
Whole-Genome Sequence of Escherichia coli Serotype O157:H7 Strain ATCC 43888. PMID:31624165
Complete Genome Sequences of Four Microbacterium Strains Isolated from Metal- and Radionuclide-Rich Soils. PMID:31624160
Complete Genome Sequence of Strain PM004, a Novel Cultured Member of the Human Oral Microbiome from the Candidate Phylum Saccharibacteria (TM7). PMID:31624157
Complete Genome Sequence of Strain AC001, a Novel Cultured Member of the Human Oral Microbiome from the Candidate Phylum Saccharibacteria (TM7). PMID:31624156
Characterization of an Environmental Multidrug-Resistant Acinetobacter seifertii and Comparative Genomic Analysis Reveals Co-occurrence of Antimicrobial Resistance and Metal Tolerance Determinants. PMID:31620107
Origin and Evolution of Hybrid Shiga Toxin-Producing and Uropathogenic Escherichia coli Strains of Sequence Type 141. PMID:31619530
Amphibian skin-associated Pigmentiphaga: Genome sequence and occurrence across geography and hosts. PMID:31603945
Database resources of the National Center for Biotechnology Information. PMID:31602479
Draft Genome Sequences of Bacteroides pyogenes Strains Isolated from the Uterus of Holstein Dairy Cows with Metritis. PMID:31601669
Draft Genome Sequence of a New Pseudomonas sp. Strain, ef1, Associated with the Psychrophilic Antarctic Ciliate Euplotes focardii. PMID:31601665
Eleven High-Quality Reference Genome Sequences and 360 Draft Assemblies of Shiga Toxin-Producing Escherichia coli Isolates from Human, Food, Animal, and Environmental Sources in Canada. PMID:31601655
Draft Genome Sequence of Brevibacillus sp. Strain LEMMJ03, Isolated from an Antarctic Volcano. PMID:31582458
Draft Genome Sequences of Five Proteobacteria Isolated from Lechuguilla Cave, New Mexico, USA, and Insights into Taxonomy and Quorum Sensing. PMID:31582457
Draft Genome Sequence of Microbacterium sp. Gd 4-13, Isolated from Gydanskiy Peninsula Permafrost Sediments of Marine Origin. PMID:31582456
Whole-Genome Sequence of High-Risk Clone Sequence Type 111 of Pseudomonas aeruginosa Strain NUBRI-P, Isolated from a Wounded Sudanese Patient. PMID:31582453
Draft Genome Sequence of Methicillin-Resistant Staphylococcus aureus Strain AW7, Isolated from a Patient with Bacteremia. PMID:31582437
Complete Genome Sequence of Cycloclasticus sp. Strain PY97N, Which Includes Two Heavy Metal Resistance Genomic Islands. PMID:31582435
Complete Genome Sequence of Rhodococcus sp. Strain SGAir0479, Isolated from Indoor Air Collected in Singapore. PMID:31582433
Comparative Genomics Reveals a Well-Conserved Intrinsic Resistome in the Emerging Multidrug-Resistant Pathogen Cupriavidus gilardii. PMID:31578249
Complete genome sequence of Rhodococcus sp. NJ-530, a DMSP-degrading actinobacterium isolated from Antarctic sea ice. PMID:31576282
Streptococcus koreensis sp. nov., Isolated from Human Subgingival Dental Plaque of Periodontitis Lesion. PMID:31570960
Genome Mining and Comparative Pathogenomic Analysis of An Endemic Methicillin-Resistant Staphylococcus Aureus (MRSA) Clone, ST612-CC8-t1257-SCCmec_IVd(2B), Isolated in South Africa. PMID:31569754
Genome Sequence of Lactobacillus fermentum 47-7, a Good In Vitro Probiotic Strain Isolated from a Healthy Thai Infant. PMID:31558638
Genome Sequence of Mariprofundus sp. Strain EBB-1, a Novel Marine Autotroph Isolated from an Iron-Sulfur Mineral. PMID:31558636
Draft Genome Sequences of Three Novel Acinetobacter Isolates from an Irish Commercial Pig Farm. PMID:31558633
Virulence Factor Identification in the Banana Pathogen Dickeya zeae MS2. PMID:31540986
Complete Genome Sequence of a Pseudomonas aeruginosa Isolate from a Kidney Stone. PMID:31537684
Draft Genome Sequence of Streptomyces sp. Strain AM-2504, Identified by 16S rRNA Comparative Analysis as a Streptomyces kasugaensis Strain. PMID:31537672
Draft Genome Sequences of Mycoplasma mycoides subsp. mycoides Strains APF9 and AP108, Isolated in Nigeria in 2014 to 2016. PMID:31537664
Complete Genome Sequence of Lysinibacillus sp. Strain SGAir0095, Isolated from Tropical Air Samples Collected in Singapore. PMID:31537660
Whole-genome sequence data and analysis of Saccharibacillus sp. ATSA2 isolated from Kimchi cabbage seeds. PMID:31534997
Whole genome sequencing data and analysis of a rifampicin-resistant Mycobacterium tuberculosis strain SBH162 from Sabah, Malaysia. PMID:31534995
AssessORF: combining evolutionary conservation and proteomics to assess prokaryotic gene predictions. PMID:31532487
In eubacteria, unlike eukaryotes, there is no evidence for selection favouring fail-safe 3' additional stop codons. PMID:31527909
Draft Genome Sequence of Ciprofloxacin and Ceftriaxone Resistant Campylobacter jejuni MM26-781 Assigned to Novel ST Isolated From Common Pigeon in Lithuania. PMID:31523125
Complete Genome Sequences of Three Mycoplasma anserisalpingitis (Mycoplasma sp. 1220) Strains. PMID:31515351
Draft Genome Sequences of Six Lactobacillus gasseri and Three Lactobacillus paragasseri Strains Isolated from the Female Bladder. PMID:31515350
Draft Genome Sequence of Marinobacter sp. Strain LZ-6, Isolated from the Toxic Dinoflagellate Alexandrium catenella. PMID:31515344
Draft Genome Sequence of Mycolicibacterium sp. Strain CH28, a Potential Degrader of Diisopropyl Ether, Isolated from Pharmaceutical Wastewater. PMID:31515342
Genome Sequences of 17 Pasteurella multocida Strains Involved in Cases of Rabbit Pasteurellosis. PMID:31515341
Genome Sequence of the Tropical Atmosphere Bacterium Pontibacter sp. Strain SGAir0037. PMID:31515337
Complete Genome Sequence of Citricoccus sp. Strain SGAir0253, Isolated from Indoor Air in Singapore. PMID:31515336
Complete Genome Sequences of Brenneria rubrifaciens Strain 6D370 and Brenneria nigrifluens Strain ATCC 13028, Causative Agents of Bark Cankers in Walnut. PMID:31515335
Whole-Genome Sequence of Corynebacterium xerosis Strain GS1, Isolated from Yak in Gansu Province, China. PMID:31515333
Complete Genome Sequence of Agrobacterium sp. Strain 33MFTa1.1, Isolated from Thlaspi arvense Roots. PMID:31515332
Whole genome sequence analysis reveals high genetic variation of newly isolated Acidithiobacillus ferrooxidans IO-2C. PMID:31506467
Origin and diversification of Xanthomonas citri subsp. citri pathotypes revealed by inclusive phylogenomic, dating, and biogeographic analyses. PMID:31500575
Genomic Analysis of γ-Hexachlorocyclohexane-Degrading Sphingopyxis lindanitolerans WS5A3p Strain in the Context of the Pangenome of Sphingopyxis. PMID:31500174
Draft Genome Assembly of the Entomopathogenic Bacterium Photorhabdus luminescens subsp. sonorensis Caborca. PMID:31488529
Differential transcriptome analysis of enterohemorrhagic Escherichia coli strains reveals differences in response to plant-derived compounds. PMID:31488056
The complete genome sequence of the thermophilic bacterium Laceyella sacchari FBKL4.010 reveals the basis for tetramethylpyrazine biosynthesis in Moutai-flavor Daqu. PMID:31482696
Massive Gene Flux Drives Genome Diversity between Sympatric Streptomyces Conspecifics. PMID:31481382
Genome Analysis Revealing the Potential Mechanisms for the Heavy Metal Resistance of Pseudomonas sp. P11, Isolated from Industrial Wastewater Sediment. PMID:31471685
Draft Genome Sequences of 11 Lactobacillus jensenii Strains Isolated from the Female Bladder. PMID:31467111
Complete Genome Sequence of Streptomyces sp. Strain SGAir0924, an Actinobacterium Isolated from Outdoor Air in Singapore. PMID:31467108
Draft Genome Sequence of Streptomyces sp. Strain RKND-216, an Antibiotic Producer Isolated from Marine Sediment in Prince Edward Island, Canada. PMID:31467107
Whole-Genome Sequences of 35 Incompatibility Group I1 Plasmid-Carrying Salmonella enterica Isolates from Food Animal and Clinical Sources. PMID:31467104
Draft Genome Sequence of a Chitinimonas Species from Hudson Valley Waterways That Expresses Violacein Pigment. PMID:31467098
Form III RubisCO-mediated transaldolase variant of the Calvin cycle in a chemolithoautotrophic bacterium. PMID:31451656
A Quorum-Sensing Inhibitor Strain of Vibrio alginolyticus Blocks Qs-Controlled Phenotypes in Chromobacterium violaceum and Pseudomonas aeruginosa. PMID:31450549
Lautropia dentalis sp. nov., Isolated from Human Dental Plaque of a Gingivitis Lesion. PMID:31446477
Complete Genome Sequence of Pseudomonas sp. Strain SGAir0191, Isolated from Tropical Air Collected in Singapore. PMID:31439709
Complete Genome Sequence of Microbacterium sp. Strain SGAir0570, Isolated from Tropical Air Collected in Singapore. PMID:31439708
Complete Genome Sequence of a Carbapenem-Resistant Escherichia coli Isolate with bla NDM-5 from a Dog in the United States. PMID:31439705
Draft Genome Sequence of Pseudomonas sp. Strain ICMP 22404, Isolated from Solanum lycopersicum Plants with Pith Necrosis Symptoms. PMID:31439695
Genome Sequences and Methylation Patterns of Natrinema versiforme BOL5-4 and Natrinema pallidum BOL6-1, Two Extremely Halophilic Archaea from a Bolivian Salt Mine. PMID:31416876
Draft Genome Sequence of the Histamine-Producing Bacterium Enterobacter kobei Strain 42-12. PMID:31416873
Draft Genome Sequences of Four Aeromonas salmonicida subsp. achromogenes Strains, 23051, 23053, 23055, and 23056, Isolated from Senegalese Sole (Solea senegalensis). PMID:31416869
Complete Genome Sequence of Hydrocarbon-Degrading Halotolerant Acinetobacter radioresistens DD78, Isolated from the Aconcagua River Mouth in Central Chile. PMID:31416868
Complete Genome Sequence of Dehalococcoides mccartyi Strain FL2, a Trichloroethene-Respiring Anaerobe Isolated from Pristine Freshwater Sediment. PMID:31416865
Draft Genome Sequences of Citrobacter freundii and Citrobacter murliniae Strains Isolated from the Feces of Preterm Infants. PMID:31416863
Draft Genome Sequence of Raoultella ornithinolytica P079F W, Isolated from the Feces of a Preterm Infant. PMID:31416862
Large Plasmid Complement Resolved: Complete Genome Sequencing of Lactobacillus plantarum MF1298, a Candidate Probiotic Strain Associated with Unfavorable Effect. PMID:31416278
Complete genome and plasmid sequence of a novel Bacillus sp. BD59S, a parasporal protein synthesizing bacterium. PMID:31406640
Genetic Potential of the Biocontrol Agent Pseudomonas brassicacearum (Formerly P. trivialis) 3Re2-7 Unraveled by Genome Sequencing and Mining, Comparative Genomics and Transcriptomics. PMID:31405015
Comparative Genomics of Marine Sponge-Derived Streptomyces spp. Isolates SM17 and SM18 With Their Closest Terrestrial Relatives Provides Novel Insights Into Environmental Niche Adaptations and Secondary Metabolite Biosynthesis Potential. PMID:31404169
Complete Genome Sequence of Caloramator sp. Strain E03, a Novel Ethanologenic, Thermophilic, Obligately Anaerobic Bacterium. PMID:31395644
Draft Genome Sequence of Manganese-Oxidizing Bacterium Massilia sp. Strain Mn16-1_5, Isolated from Serpentine Soil in Taitung, Taiwan. PMID:31395643
Complete Genome Sequence and Methylome Analysis of Thermoactinomyces vulgaris 2H. PMID:31395639
Complete Genome Sequence of Brachybacterium sp. Strain SGAir0954, Isolated from Singapore Air. PMID:31395638
Complete Genome Sequence of Agrococcus sp. Strain SGAir0287, Isolated from Tropical Air Collected in Singapore. PMID:31395637
Complete Genome Sequence of Nissabacter sp. Strain SGAir0207, Isolated from an Air Sample Collected in Singapore. PMID:31395634
First Whole-Genome Sequence of a Highly Resistant Klebsiella pneumoniae Sequence Type 14 Strain Isolated from Sudan. PMID:31395633
Whole-Genome Sequence of Acinetobacter baumannii Strain NUBRI-A, Isolated from a Hospitalized Patient in Khartoum, Sudan. PMID:31395632
Genome Sequences of Two Azospirillum sp. Strains, TSA2S and TSH100, Plant Growth-Promoting Rhizobacteria with N2O Mitigation Abilities. PMID:31395630
Draft Genome Sequences of Potentially Pathogenic Clostridium perfringens Strains from Environmental Surface Water in the North West Province of South Africa. PMID:31395628
Genomic and physiological analyses reveal that extremely thermophilic Caldicellulosiruptor changbaiensis deploys uncommon cellulose attachment mechanisms. PMID:31392469
Genome Sequencing Revealed the Biotechnological Potential of an Obligate Thermophile Geobacillus thermoleovorans Strain RL Isolated from Hot Water Spring. PMID:31388213
Independent Evolution with the Gene Flux Originating from Multiple Xanthomonas Species Explains Genomic Heterogeneity in Xanthomonas perforans. PMID:31375496
Metagenome-Assembled Genome Sequence of Phormidium sp. Strain SL48-SHIP, Isolated from the Microbial Mat of Salt Lake Number 48 (Novosibirsk Region, Russia). PMID:31371542
Whole-Genome Sequences of Four Indian Isolates of Azospirillum brasilense. PMID:31371541
Complete Genome Sequence of Desulfovibrio desulfuricans IC1, a Sulfonate-Respiring Anaerobe. PMID:31371536
Whole-Genome Sequences of Two Multidrug-Resistant Acinetobacter baumannii Strains Isolated from Patients with Urinary Tract Infection in Ghana. PMID:31371532
Draft Genome Sequence of Mediterraneibacter sp. nov. Strain gm002, Isolated from Human Feces. PMID:31371530
Proteomics and Docking Study Targeting Penicillin-Binding Protein and Penicillin-Binding Protein2a of Methicillin-Resistant Staphylococcus aureus Strain SO-1977 Isolated from Sudan. PMID:31360059
Next Generation DNA-Seq and Differential RNA-Seq Allow Re-annotation of the Pyrococcus furiosus DSM 3638 Genome and Provide Insights Into Archaeal Antisense Transcription. PMID:31354685
Mucilaginibacter terrigena sp. nov. sp., A Novel Member of the Family Sphingobacteriaceae. PMID:31350573
Lachnoanaerobaculum gingivalis sp. nov., Isolated from Human Subgingival Dental Plaque of a Gingivitis Lesion. PMID:31350572
FDA-ARGOS is a database with public quality-controlled reference genomes for diagnostic use and regulatory science. PMID:31346170
Draft Whole-Genome Sequences of Haemophilus influenzae Biogroup aegyptius Strains Isolated from Five Brazilian Purpuric Fever Cases and One Conjunctivitis Case. PMID:31346025
Genome Sequence of the Radiation-Resistant Bacterium Deinococcus radiophilus ATCC 27603T. PMID:31346023
Complete Genome Sequence of Kosakonia sp. Strain CCTCC M2018092, a Fucose-Rich Exopolysaccharide Producer. PMID:31346019
Draft Genome Sequence of Enterobacter sp. Strain AD2-3, Isolated from a Postmining Site in Benguet, Philippines. PMID:31346017
Whole-Genome Sequences of Pantoea agglomerans BL3, Pseudomonas fluorescens BL, and Pseudomonas stutzeri CM14, Isolated from Hops (Humulus lupulus). PMID:31346016
Draft Genome Sequences of Antimicrobial-Resistant Shigella Clinical Isolates from Pakistan. PMID:31346012
Insights From the Genome Sequence of Mycobacterium paragordonae, a Potential Novel Live Vaccine for Preventing Mycobacterial Infections: The Putative Role of Type VII Secretion Systems for an Intracellular Lifestyle Within Free-Living Environmental Predators. PMID:31333625
Streptococcus chosunense sp. nov., Isolated from Human Postoperative Maxillary Cyst. PMID:31332483
Complete Genome Sequence of Luteibacter pinisoli MAH-14. PMID:31320443
Genome Sequence of the Moderately Halophilic Yellow Sea Bacterium Lentibacillus salicampi ATCC BAA-719T. PMID:31320435
Draft Genome Sequence of Salmonella bongori N19-781, a Clinical Strain from a Patient with Diarrhea. PMID:31320434
Draft Genome Sequence of Pseudomonas aeruginosa Strain BWH047, a Sequence Type 235 Multidrug-Resistant Clinical Isolate Expressing High Levels of Colistin Resistance. PMID:31320415
Complete Genome Sequence of GD1696, a Low-Virulence Strain of Human-Associated ST398 Methicillin-Susceptible Staphylococcus aureus. PMID:31296690
Complete Genome Sequence of GD1108, a Moderate-Virulence Strain of Human-Associated ST398 Methicillin-Susceptible Staphylococcus aureus. PMID:31296689
Closed Genome Sequences of Three Salmonella enterica Strains Belonging to Serovars Saintpaul, Weltevreden, and Thompson, Isolated from Mexico. PMID:31296688
Complete Genome Sequence of Kocuria indica CE7, Isolated from Human Skin. PMID:31296687
Complete Genome Sequence of Thermoactinomyces vulgaris Strain CDF, a Thermophilic Bacterium Capable of Degrading Chicken Feathers. PMID:31296681
Draft Genome Sequence of Deinococcus sp. Strain S9, Isolated from Microbial Mat Deposits of Hot Springs Located atop the Himalayan Ranges at Manikaran, India. PMID:31296675
Draft Genome Sequence of Enterococcus durans OSY-EGY, a Multiple-Antimicrobial-Peptide Producer Isolated from Egyptian Hard Cheese. PMID:31296674
Complete Genome Sequence of Thalassococcus sp. Strain S3, a Marine Roseobacter Clade Member Capable of Degrading Carbazole. PMID:31296670
Draft Genome Sequences of 42 Environmental Vibrio vulnificus Strains Isolated from the Northern Gulf of Mexico. PMID:31296669
Bap and Cell Surface Hydrophobicity Are Important Factors in Staphylococcus xylosus Biofilm Formation. PMID:31293539
Diversification of Vibrio anguillarum Driven by the Bacteriophage CHOED. PMID:31281297
Complete Genome Sequence of GD487, a High-Virulence Strain of Human-Associated ST398 Methicillin-Susceptible Staphylococcus aureus. PMID:31270205
Draft Genome Sequences of Shiga Toxin-Producing Escherichia coli O157:H7 Strains Recovered from a Major Production Region for Leafy Greens in California. PMID:31270203
Methylomes of Two Extremely Halophilic Archaea Species, Haloarcula marismortui and Haloferax mediterranei. PMID:31270201
Draft Genome Sequence of Strain LSUCC0112, a Gulf of Mexico Representative of the Oligotrophic Marine Gammaproteobacteria. PMID:31270194
Complete Genome Sequence of Leuconostoc kimchii Strain NKJ218, Isolated from Homemade Kimchi. PMID:31270190
Paenibacillus nuruki sp. nov., isolated from Nuruk, a Korean fermentation starter. PMID:31250399
Draft Whole-Genome Sequences of 16 Campylobacter jejuni Isolates Obtained from Wild Birds. PMID:31248999
Draft Genome Sequences of Endophytic Pseudomonas spp. Isolated from Grapevine Tissue and Antagonistic to Grapevine Trunk Disease Pathogens. PMID:31248998
Mobilome of Brevibacterium aurantiacum Sheds Light on Its Genetic Diversity and Its Adaptation to Smear-Ripened Cheeses. PMID:31244798
Visualization and prediction of CRISPR incidence in microbial trait-space to identify drivers of antiviral immune strategy. PMID:31239539
Long-read based de novo assembly of low-complexity metagenome samples results in finished genomes and reveals insights into strain diversity and an active phage system. PMID:31238873
Urinary tract colonization is enhanced by a plasmid that regulates uropathogenic Acinetobacter baumannii chromosomal genes. PMID:31235751
Serotype-specific evolutionary patterns of antimicrobial-resistant Salmonella enterica. PMID:31226931
Draft Genome Sequence of Strain LSUCC0057, a Member of the SAR92 Clade of Gammaproteobacteria. PMID:31221657
Draft Genome Sequence of Alteromonas sp. Strain RKMC-009, Isolated from Xestospongia muta via In Situ Culturing Using an Isolation Chip Diffusion Chamber. PMID:31221650
Complete Genome Sequence of the Plant Growth-Promoting Rhizobacterium Pseudomonas fluorescens LBUM677. PMID:31221648
Whole-Genome Sequence of Lactobacillus acidophilus PNW3, Isolated from Weaned Piglets of the Indigenous South African Windsnyer Pig Breed. PMID:31221645
Virulence gene profiles of Shigella species isolated from stool specimens in India: its association with clinical manifestation and antimicrobial resistance. PMID:31221039
Antimicrobial resistance, virulence & plasmid profiles among clinical isolates of Shigella serogroups. PMID:31219090
Prevotella koreensis sp. nov., Isolated from Human Subgingival Dental Plaque of Periodontitis Lesion. PMID:31214821
Genomic Diversity of Two Hydrocarbon-Degrading and Plant Growth-Promoting Pseudomonas Species Isolated from the Oil Field of Bóbrka (Poland). PMID:31212674
Draft genome sequences of Mycolicibacterium peregrinum isolated from a pig with lymphadenitis and from soil on the same Japanese pig farm. PMID:31208450
Draft Genome Sequence of FK506-Producing Streptomyces tsukubensis Strain VKM Ac-2618D. PMID:31196928
Whole-Genome Shotgun Sequence of Drug-Resistant Staphylococcus aureus Strain SA9, Isolated from a Slaughterhouse Chicken Carcass in South Africa. PMID:31196926
Draft Genome Sequence of Kroppenstedtia sanguinis X0209T, a Clinical Isolate Recovered from Human Blood. PMID:31196918
Comparative genomic analysis of Pectobacterium carotovorum subsp. brasiliense SX309 provides novel insights into its genetic and phenotypic features. PMID:31195968
Genomic analysis of methicillin-resistant Staphylococcus aureus strain SO-1977 from Sudan. PMID:31185900
Genome Sequence of Kordia sp. Strain SMS9 Identified in a Non-Axenic Culture of the Diatom Skeletonema marinoi. PMID:31171940
Draft Genome Sequence of Salipaludibacillus keqinensis ACCC 60430T, an Aerobic Halophilic Bacterium Isolated from a Salt Lake. PMID:31171616
Draft Genome Sequence of Urease-Producing Pseudorhodobacter sp. Strain E13, Isolated from the Yellow Sea in Gunsan, South Korea. PMID:31171612
Draft Genome Sequences of Two Streptococcus pneumoniae Strains Causing Invasive Infections in Children in Qatar. PMID:31171608
Draft Genome Sequences of Helcococcus ovis Strains Isolated at Time of Metritis Diagnosis from the Uterus of Holstein Dairy Cows. PMID:31147432
Genome Sequences of Bacillus sporothermodurans Strains Isolated from Ultra-High-Temperature Milk. PMID:31147427
Elucidating Viral Communities During a Phytoplankton Bloom on the West Antarctic Peninsula. PMID:31139164
An Integrated Systems Approach Unveils New Aspects of Microoxia-Mediated Regulation in Bradyrhizobium diazoefficiens. PMID:31134003
Draft Genome Sequence of Nitrosomonas sp. Strain APG5, a Betaproteobacterial Ammonia-Oxidizing Bacterium Isolated from Beach Sand. PMID:31123020
Draft Genome Sequences of Photobacterium damselae subsp. piscicida SNW-8.1 and PP3, Two Fish-Isolated Strains Containing a Type III Secretion System. PMID:31123016
Draft Genome Sequence of Providencia rettgeri APW139_S1, an NDM-18-Producing Clinical Strain Originating from Hospital Effluent in South Africa. PMID:31123013
Whole-Genome Sequences of Salmonella enterica Serovar I 4,[5],12:i:- Isolates from Swine. PMID:31123012
Complete Genome Sequence of Plant Growth-Promoting Bacillus pumilus TUAT1. PMID:31123011
Complete genome sequence of Salmonella enterica serovar Sendai shows H antigen convergence with S. Miami and recent divergence from S. Paratyphi A. PMID:31117944
A complete genome sequence for Pseudomonas syringae pv. pisi PP1 highlights the importance of multiple modes of horizontal gene transfer during phytopathogen evolution. PMID:31116476
Ceftazidime-Avibactam in Combination With Fosfomycin: A Novel Therapeutic Strategy Against Multidrug-Resistant Pseudomonas aeruginosa. PMID:31099835
Antarctic Streptomyces fildesensis So13.3 strain as a promising source for antimicrobials discovery. PMID:31097761
Draft Genome Sequences of Type VI Secretion System-Encoding Vibrio fischeri Strains FQ-A001 and ES401. PMID:31097508
Complete Genome Sequence of Escherichia coli MT102, a Plasmid-Free Recipient Resistant to Rifampin, Azide, and Streptomycin, Used in Conjugation Experiments. PMID:31097507
Genome Sequence of a Bovine Isolate of Pasteurella multocida Strain 232. PMID:31097504
Draft Genome Sequence of Enterococcus faecalis Strain CECT7121, a Corn Silage Isolate with Antibacterial Activity against Gram-Positive Pathogens. PMID:31097498
Pseudomonas hutmensis sp. nov., a New Fluorescent Member of Pseudomonas putida Group. PMID:31079192
Draft Genome Sequence of a Cold-Adapted Pseudomonas sp. Strain, BGI-2, Isolated from the Ice of Batura Glacier, Pakistan. PMID:31072903
Complete Genome Sequence of Streptococcus pneumoniae Serotype 19F Strain EF3030. PMID:31072896
Draft Genome Sequences of Pseudomonas sp. Strains Isolated from Wheat in Germany. PMID:31072895
Draft Genome Sequence of Clinical Isolate Alcaligenaceae sp. Strain 429. PMID:31072889
Genome Sequence and Methylation Patterns of Halorubrum sp. Strain BOL3-1, the First Haloarchaeon Isolated and Cultured from Salar de Uyuni, Bolivia. PMID:31072883
Human contamination in bacterial genomes has created thousands of spurious proteins. PMID:31064768
Genomic Characterization of Arcobacter butzleri Isolated From Shellfish: Novel Insight Into Antibiotic Resistance and Virulence Determinants. PMID:31057492
Streptococcus periodonticum sp. nov., Isolated from Human Subgingival Dental Plaque of Periodontitis Lesion. PMID:31053905
Complete genome sequence of bile-isolated Enterococcus avium strain 352. PMID:31049078
Complete Genome Sequences of Two USA300-Related Community-Associated Methicillin-Resistant Staphylococcus aureus Clinical Isolates. PMID:31048386
First Complete Genome Sequence of Haematobacter massiliensis OT1 (Chromosome and Multiple Plasmids), Isolated from Human Skin. PMID:31048379
The MACADAM database: a MetAboliC pAthways DAtabase for Microbial taxonomic groups for mining potential metabolic capacities of archaeal and bacterial taxonomic groups. PMID:31032842
Streptococcus gwangjuense sp. nov., Isolated from Human Pericoronitis. PMID:31028412
Agricultural Origins of a Highly Persistent Lineage of Vancomycin-Resistant Enterococcus faecalis in New Zealand. PMID:31028029
O-Antigen Gene Clusters of Plesiomonas shigelloides Serogroups and Its Application in Development of a Molecular Serotyping Scheme. PMID:31024508
Genomic and Physiological Traits of the Marine Bacterium Alcaligenes aquatilis QD168 Isolated From Quintero Bay, Central Chile, Reveal a Robust Adaptive Response to Environmental Stressors. PMID:31024465
Draft Genome Sequence of Anaerosphaera sp. Strain GS7-6-2, a Coccal Bacterium Isolated from a Biogas-Related Environment. PMID:31023818
Draft Genome Sequences of Two Fusobacterium necrophorum Strains Isolated from the Uterus of Dairy Cows with Metritis. PMID:31023816
Draft Genome Sequences of Four Salmonella enterica subsp. enterica Serovar Gallinarum Strains Isolated from Layer Breeder Flocks in an Outbreak of Fowl Typhoid in Colombia. PMID:31023811
Complete Genome Sequences of Two Methicillin-Susceptible Staphylococcus aureus Clinical Strains Closely Related to Community-Associated Methicillin-Resistant S. aureus USA300. PMID:31023802
Isolation, Whole-Genome Sequencing, and Annotation of Yimella sp. RIT 621, a Strain That Produces Antibiotic Compounds against Escherichia coli ATCC 25922 and Bacillus subtilis BGSC 168. PMID:31023801
Characterization of an NDM-5 carbapenemase-producing Escherichia coli ST156 isolate from a poultry farm in Zhejiang, China. PMID:31023222
Selective Maintenance of Multiple CRISPR Arrays Across Prokaryotes. PMID:31021246
Complete genome sequence of natural rubber-degrading, gram-negative bacterium, Rhizobacter gummiphilus strain NS21T. PMID:31011550
Genomic Features, Comparative Genomic Analysis, and Antimicrobial Susceptibility Patterns of Chryseobacterium arthrosphaerae Strain ED882-96 Isolated in Taiwan. PMID:31010035
Denitrifying Bacteria Active in Woodchip Bioreactors at Low-Temperature Conditions. PMID:31001220
Draft Genome Sequence of Lactobacillus plantarum EBKLp545, Isolated from Piglet Feces. PMID:31000563
Complete Genome Sequence of Achromobacter spanius UQ283, a Soilborne Isolate Exhibiting Plant Growth-Promoting Properties. PMID:31000552
Draft Genome Sequences of Two Glycoalkaloid-Degrading Arthrobacter Strains Isolated from Green Potato Peel. PMID:31000551
Complete Genome Sequence of a Bioactive Pseudomonas sp. Strain, DTU12.3, Isolated from Soil in Denmark. PMID:31000544
First Draft Genome Sequence of Xanthomonas axonopodis pv. eucalyptorum, Causal Agent of Bacterial Leaf Blight on Eucalypt. PMID:31000543
Genomic Islands in the Full-Genome Sequence of an NAD-Hemin-Independent Avibacterium paragallinarum Strain Isolated from Peru. PMID:31000542
Accessory genome of the multi-drug resistant ocular isolate of Pseudomonas aeruginosa PA34. PMID:30986237
Genes Associated With Psychrotolerant Bacillus cereus Group Isolates. PMID:30984157
Draft Genome Sequences of a Putative Prokaryotic Consortium (IPPAS B-1204) Consisting of a Cyanobacterium (Leptolyngbya sp.) and an Alphaproteobacterium (Porphyrobacter sp.). PMID:30975816
Complete Genome Sequence of Abscisic Acid-Metabolizing Rhizobacterium Rhodococcus sp. Strain P1Y. PMID:30975812
Draft Genome Sequences of 48 Vancomycin-Resistant Enterococcus faecium Strains Isolated from Inpatients with Bacteremia and Urinary Tract Infection. PMID:30975810
Characterization and Transcriptome Studies of Autoinducer Synthase Gene from Multidrug Resistant Acinetobacter baumannii Strain 863. PMID:30965610
Draft Genome Sequences of 38 Serratia marcescens Isolates Associated with Acroporid Serratiosis. PMID:30948466
Draft Genome Sequence of Bradyrhizobium sp. Strain LVM 105, a Nitrogen-Fixing Symbiont of Chamaecrista fasciculata (Michx.) Greene. PMID:30948465
Draft Genome Sequence of Aryl Hydrocarbon Receptor Activator Strains Lactobacillus reuteri R2lc and 2010. PMID:30948464
Complete Genome Sequence of Lactobacillus crispatus AB70, Isolated from a Vaginal Swab from a Healthy Pregnant Korean Woman. PMID:30938710
Complete Genome Sequence of Halorubrum ezzemoulense Strain Fb21. PMID:30938699
Complete Genome Sequence and Methylome Analysis of Deinococcus wulumuqiensis 479. PMID:30938698
Complete Genome Sequences of 20 Nontyphoidal Salmonella Isolates from Rwanda. PMID:30938694
High-Quality Whole-Genome Sequence of an Estradiol-Degrading Strain, Novosphingobium tardaugens NBRC 16725. PMID:30938330
Complete Genome Sequence of an Anaerobic Benzene-Degrading Bacterium, Azoarcus sp. Strain DN11. PMID:30938329
Draft Genome Sequence of Arthrobacter globiformis mrc11, an Antimicrobial Agent Isolated from a Khangkhui Cave Deposit. PMID:30938326
Draft Genome Sequence of Campylobacter fetus subsp. fetus CITCf01, Isolated from a Patient with Subacute Bacterial Endocarditis. PMID:30938325
The Draft Genome Sequence of Pseudomonas frederiksbergensis Strain 11-D3 Reveals Its Ability To Mobilize Phosphorus. PMID:30938323
Complete Genome Sequence of a USA100 Methicillin-Resistant Staphylococcus aureus Strain. PMID:30938319
Fusobacterium pseudoperiodonticum sp. nov., Isolated from the Human Oral Cavity. PMID:30937514
Comparative genomics of human Lactobacillus crispatus isolates reveals genes for glycosylation and glycogen degradation: implications for in vivo dominance of the vaginal microbiota. PMID:30925932
Draft Genome Sequence and Annotation of Oribacterium sp. Strain C9, Isolated from a Cattle Rumen. PMID:30923245
Complete Genome Sequence of Brevundimonas diminuta ATCC(B) 19146. PMID:30923241
Just the Two of Us? A Family of Pseudomonas Megaplasmids Offers a Rare Glimpse into the Evolution of Large Mobile Elements. PMID:30918968
Streptomyces tirandamycinicus sp. nov., a Novel Marine Sponge-Derived Actinobacterium With Antibacterial Potential Against Streptococcus agalactiae. PMID:30918502
Whole Genome Analysis of Lactobacillus plantarum Strains Isolated From Kimchi and Determination of Probiotic Properties to Treat Mucosal Infections by Candida albicans and Gardnerella vaginalis. PMID:30894844
Adaptation of metal and antibiotic resistant traits in novel β-Proteobacterium Achromobacter xylosoxidans BHW-15. PMID:30886770
Emergence of New Delhi Metallo-β-Lactamase (NDM-5) in Klebsiella quasipneumoniae from Neonates in a Nigerian Hospital. PMID:30867330
Draft Genome Sequence of Halobacillus trueperi SS1, Isolated from Lunsu, a Saltwater Body in the Northwest Himalayas. PMID:30863831
Draft Genome Sequence and Annotation of Acinetobacter junii MHI21018, Isolated from Bovine Colostrum. PMID:30863829
Draft Genome Sequence of a Canine Uropathogenic Escherichia coli Strain Isolated in New Zealand. PMID:30863826
Genomic Insights of Halophilic Planococcus maritimus SAMP MCC 3013 and Detail Investigation of Its Biosurfactant Production. PMID:30863371
Pathogenic potential of non-typhoidal Salmonella serovars isolated from aquatic environments in Mexico. PMID:30859492
Inference of Convergent Gene Acquisition Among Pseudomonas syringae Strains Isolated From Watermelon, Cantaloupe, and Squash. PMID:30837979
Draft Genome Sequence of Porphyromonas gingivalis Strain 381 Okayama (381OKJP) Stock Culture. PMID:30834390
High-Quality Complete Genome Sequences of Three Pseudomonas aeruginosa Isolates Retrieved from Patients Hospitalized in Intensive Care Units. PMID:30834388
Genome Sequence of Rhizobium jaguaris CCGE525T, a Strain Isolated from Calliandra grandiflora Nodules from a Rain Forest in Mexico. PMID:30834387
Complete Genome Sequence of the Silicimonas algicola Type Strain, a Representative of the Marine Roseobacter Group Isolated from the Cell Surface of the Marine Diatom Thalassiosira delicatula. PMID:30834382
Closed Genome Sequences of Clinical Neisseria gonorrhoeae Strains Obtained from Combined Oxford Nanopore and Illumina Sequencing. PMID:30834380
Complete Genome Sequence of Caldicellulosiruptor changbaiensis CBS-Z, an Extremely Thermophilic, Cellulolytic Bacterium Isolated from a Hot Spring in China. PMID:30834376
Draft Genome Sequence of a Marine Photoferrotrophic Bacterium, Rhodovulum robiginosum DSM 12329T. PMID:30834373
Multiple Genome Sequences of Lactobacillus pentosus Strains Isolated from Biofilms on the Skin of Fermented Green Table Olives. PMID:30834370
Complete Genome Sequence of Helicobacter pylori Strain GD63, Isolated from a Vietnamese Patient with a Gastric Ulcer. PMID:30834368
Complete Genome Sequence of Mannheimia varigena Isolated from Bovine Milk. PMID:30834366
Complete Genome Sequence of Fusobacterium necrophorum subsp. necrophorum ATCC 25286. PMID:30834361
Genome Sequencing and Annotation of Bacillus subtilis UBBS-14 to Ensure Probiotic Safety. PMID:30820257
Complete Genome Sequence of 3-Chlorobenzoate-Degrading Bacterium Cupriavidus necator NH9 and Reclassification of the Strains of the Genera Cupriavidus and Ralstonia Based on Phylogenetic and Whole-Genome Sequence Analyses. PMID:30809202
Draft Genome Sequence of Bacillus velezensis OSY-GA1, Which Encodes Multiple Antimicrobial Metabolites and Expresses Antimicrobial Activity against Foodborne Pathogens. PMID:30801071
Complete Genome Assembly of Yersinia pseudotuberculosis IP2666pIB1. PMID:30801065
Draft Genomic Sequence of Escherichia coli Sequence Type 131, Isolated from Retail Chicken Skin. PMID:30801064
Draft Genome Sequences of Two Bacillus spp. and an Oceanobacillus sp. Strain Isolated from Marine Macroalgae. PMID:30801060
Complete Genome Sequences of Bacteriocin-Producing Streptococcus thermophilus Strains ST106 and ST109. PMID:30801058
Complete genome sequence of the abscisic acid-utilizing strain Novosphingobium sp. P6W. PMID:30800605
Complete genome sequence of acetate-producing Klebsiella pneumoniae L5-2 isolated from infant feces. PMID:30800595
First high-quality draft genome of Ochrobactrum haematophilum P6BS-III, a highly glyphosate-tolerant strain isolated from agricultural soil in Argentina. PMID:30800585
Unraveling the hidden universe of small proteins in bacterial genomes. PMID:30796087
Draft genome sequence of Enterococcus faecium SP15, a potential probiotic strain isolated from spring water. PMID:30795795
Characterization of a Highly Virulent Edwardsiella anguillarum Strain Isolated From Greek Aquaculture, and a Spontaneously Induced Prophage Therein. PMID:30787917
Genomic Features, Comparative Genomics, and Antimicrobial Susceptibility Patterns of Elizabethkingia bruuniana. PMID:30783197
Draft Genome Sequence of Enterococcus plantarum Strain TRW2, Isolated from Lettuce. PMID:30746515
Genome sequence of the H2-producing Clostridium beijerinckii strain Br21 isolated from a sugarcane vinasse treatment plant. PMID:30730526
Extracellular polysaccharide synthesis in a bloom-forming strain of Microcystis aeruginosa: implications for colonization and buoyancy. PMID:30718739
Genomic analyses of two Alteromonas stellipolaris strains reveal traits with potential biotechnological applications. PMID:30718637
Whole-Genome Shotgun Sequencing and Characterization of Probiotic Strain Clostridium butyricum UBCB 70 To Assess Its Safety. PMID:30714044
Complete Genome Sequence of the Marine Hydrocarbon Degrader Alcaligenes aquatilis QD168, Isolated from Crude Oil-Polluted Sediment of Quintero Bay, Central Chile. PMID:30714040
Complete Genome Sequence of Microbacterium foliorum NRRL B-24224, a Host for Bacteriophage Discovery. PMID:30714032
Draft Genome Sequence of the Marine Bacterium Alteromonas sp. Strain KS69. PMID:30714027
Chryseolinea soli sp. nov., isolated from soil. PMID:30706341
Complete Genome Sequence of Bacillus licheniformis TAB7, a Compost-Deodorizing Strain with Potential for Plant Growth Promotion. PMID:30701261
Draft Genome Sequence of Atopobacter sp. Strain AH10, Isolated from a Vaginal Swab from Macaca fascicularis. PMID:30701258
Complete Genome Sequence of Thalassotalea euphylliae Strain H2. PMID:30701255
Complete Genome Sequence of the Putative Phosphonate Producer Streptomyces sp. Strain I6, Isolated from Indonesian Mangrove Sediment. PMID:30701253
Complete Genome Sequence and Methylome Analysis of Micrococcus luteus SA211, a Halophilic, Lithium-Tolerant Actinobacterium from Argentina. PMID:30701250
Draft Genome Sequence of Arthrobacter oryzae TNBS02, a Bacterium Containing Heavy Metal Resistance Genes, Isolated from Soil of Antarctica. PMID:30701242
Whole-Genome Sequences of Five Geobacillus stearothermophilus Strains Isolated from Processing Lines of Powdered Infant Formula. PMID:30701238
Draft Genome Sequence of Hyperthermophilic, Halotolerant Parageobacillus toebii PW12, Isolated from the Tattapani Hot Spring, Northwest Himalayas. PMID:30701231
Identification of novel autoinducer-2 receptors in Clostridia reveals plasticity in the binding site of the LsrB receptor family. PMID:30696769
Draft Genome Sequences of Four Rhodobacter sphaeroides Strains Isolated from a Marine Ecosystem. PMID:30687844
Whole-Genome Sequences of Staphylococcus aureus Isolates from Cystic Fibrosis Lung Infections. PMID:30687841
Draft Genome Sequences of Legionella taurinensis Recovered from a Hot Water System in Austria, 2018. PMID:30687833
Complete Genome Sequence of Nocardia farcinica W6977T Obtained by Combining Illumina and PacBio Reads. PMID:30687825
Whole-Genome Sequences of Ralstonia solanacearum Strains P816, P822, and P824, Emerging Pathogens of Blueberry in Florida. PMID:30687821
Draft Genome Sequence of Bacillus coagulans ZB29, a Commercial Probiotic Strain. PMID:30687815
VAPiD: a lightweight cross-platform viral annotation pipeline and identification tool to facilitate virus genome submissions to NCBI GenBank. PMID:30674273
The Complete Genome and Physiological Analysis of the Eurythermal Firmicute Exiguobacterium chiriqhucha Strain RW2 Isolated From a Freshwater Microbialite, Widely Adaptable to Broad Thermal, pH, and Salinity Ranges. PMID:30671032
Ochrobactrum quorumnocens sp. nov., a quorum quenching bacterium from the potato rhizosphere, and comparative genome analysis with related type strains. PMID:30668584
Aquella oligotrophica gen. nov. sp. nov.: A new member of the family Neisseriaceae isolated from laboratory tap water. PMID:30656855
Draft Genome Sequence of Sinorhizobium meliloti Strain CXM1-105. PMID:30643907
Draft Genome Sequences of Type Strains of Gordonibacter faecihominis, Paraeggerthella hongkongensis, Parvibacter caecicola,Slackia equolifaciens, Slackia faecicanis, and Slackia isoflavoniconvertens. PMID:30643901
Draft Genome Sequences of Two Closely Related Marichromatium Isolates, Photosynthetic Gammaproteobacteria from Marine Ecosystems. PMID:30643899
Complete Genome Sequence of Hypervirulent Streptococcus pyogenesemm3 Strain 1838. PMID:30643894
Draft Genome Sequences of Three Escherichia coli Sequence Type 131 Strains. PMID:30643890
Complete Genome Sequence of Pseudomonas sp. Strain phDV1, an Isolate Capable of Efficient Degradation of Aromatic Hydrocarbons. PMID:30643876
Complete Genome Sequence of Staphylococcus epidermidis CSF41498. PMID:30643875
Draft Genome Sequence of Pediatric Otitis Media Isolate Streptococcus pneumoniae Strain EF3030, Which Forms In Vitro Biofilms That Closely Mimic In Vivo Biofilms. PMID:30643873
Closed Genome Sequence of Escherichia coli K-12 Group Strain C600. PMID:30643872
Draft Genome Sequence of the Novonestmycin-Producing Strain Streptomyces sp. Z26, Isolated from Potato Rhizosphere in Morocco. PMID:30637404
Genome Sequence of Bacillus velezensis 5RB, an Overproducer of 2,3-Butanediol. PMID:30637401
Complete Reference Genome Assembly for Commensalibacter sp. Strain AMU001, an Acetic Acid Bacterium Isolated from the Gut of Honey Bees. PMID:30637398
Draft Genome Sequence of the Lantibiotic-Producing Strain Streptococcus salivarius HS0302. PMID:30637392
Complete Genome Sequences of Three Shiga Toxin-Producing Escherichia coli O111:H8 Strains Exhibiting an Aggregation Phenotype. PMID:30637386
Draft Genome Sequence of the Cyanotroph Pseudomonas monteilii BCN3. PMID:30637384
Draft Genome Sequence of Halorubrum sp. Strain 48-1-W from a Saline Lake in the Novosibirsk Region, Russia. PMID:30637381
Invertible promoters mediate bacterial phase variation, antibiotic resistance, and host adaptation in the gut. PMID:30630933
Genomic and in-situ Transcriptomic Characterization of the Candidate Phylum NPL-UPL2 From Highly Alkaline Highly Reducing Serpentinized Groundwater. PMID:30619209
Genotypic differences between strains of the opportunistic pathogen Corynebacterium bovis isolated from humans, cows, and rodents. PMID:30586440
Insights into Xylan Degradation and Haloalkaline Adaptation through Whole-Genome Analysis of Alkalitalea saponilacus, an Anaerobic Haloalkaliphilic Bacterium Capable of Secreting Novel Halostable Xylanase. PMID:30577500
The Draft Genome Sequence of Burkholderia sp. Strain Nafp2/4-1b Confirms Its Ability To Produce the Plant Growth-Promoting Traits Pyoverdine Siderophores, 1-Aminocyclopropane-1-Carboxylate Deaminase, and the Phytohormone Auxin. PMID:30574585
Whole-Genome Sequence of a Novel Sequence Type 3136 Carbapenem-Resistant Klebsiella pneumoniae Strain Isolated from a Hospitalized Patient in Durban, South Africa. PMID:30574583
Myalgic Encephalomyelitis/Chronic Fatigue Syndrome in the Era of the Human Microbiome: Persistent Pathogens Drive Chronic Symptoms by Interfering With Host Metabolism, Gene Expression, and Immunity. PMID:30564562
Genome sequence of Methylocystis hirsuta CSC1, a polyhydroxyalkanoate producing methanotroph. PMID:30548837
Whole-Genome Sequences of Two Pseudomonas fluorescens Strains Isolated from Roots of Tomato and Cucumber Plants. PMID:30533937
High-Quality Draft Genome Sequence of the Type Strain of Allorhizobium vitis, the Primary Causal Agent of Grapevine Crown Gall. PMID:30533933
Draft Genome Sequence of the Cadmium-Resistant Strain JJU2, Belonging to the Family Hapalosiphonaceae of the Cyanobacteria. PMID:30533925
Complete Genome Sequence of the Marine Carbazole-Degrading Bacterium Erythrobacter sp. Strain KY5. PMID:30533913
Complete Genome Sequence of Rhizobium sp. Strain 11515TR, Isolated from Tomato Rhizosphere in the Philippines. PMID:30533911
Near-Complete Genome Sequences of Streptomyces sp. Strains AC1-42T and AC1-42W, Isolated from Bat Guano from Cabalyorisa Cave, Mabini, Pangasinan, Philippines. PMID:30533909
Draft Genome Sequence of the Pristinamycin-Producing Strain Streptomyces sp. SW4, Isolated from Soil in Nusa Kambangan, Indonesia. PMID:30533905
Draft Genome Sequences of Isolates from Sediments of the River Elbe That Are Highly Tolerant to Diclofenac. PMID:30533899
Genome Sequence of a Plant Growth-Promoting Rhizobacterium, Pseudomonas sp. Strain 31-12. PMID:30533898
Genome Sequence of Oenococcus oeni UNQOe19, the First Fully Assembled Genome Sequence of a Patagonian Psychrotrophic Oenological Strain. PMID:30533887
Complete Genome Sequences of Sequence Type 71 (ST71) and ST97 Staphylococcus aureus Isolates from Bovine Milk. PMID:30533883
Draft Genome Sequence of Salmonella enterica subsp. enterica Serovar Enteritidis MS 501, a Potential Human Pathogen Isolated from Red Lettuce (Lactuca sativa var. capitata) in Karlsruhe, Germany. PMID:30533880
Complete Genome Sequence of Aeromonas rivipollensis KN-Mc-11N1, Isolated from a Wild Nutria (Myocastor coypus) in South Korea. PMID:30533878
Complete Genome Sequence of Pseudomonas aeruginosa K34-7, a Carbapenem-Resistant Isolate of the High-Risk Sequence Type 233. PMID:30533874
Draft Genome Sequence of a Novel Serratia sp. Strain with Antifungal Activity. PMID:30533854
Draft Genome Sequences of 72 Isolates from All Four Species of Shigella. PMID:30533843
Complete Genome Sequence of Bradyrhizobium ottawaense OO99T, an Efficient Nitrogen-Fixing Symbiont of Soybean. PMID:30533842
Complete Genome Sequence of the Soil Bacterium Pseudomonas kribbensis Strain 46-2T. PMID:30533839
Complete Genome Sequence of Streptomyces sp. Strain SHP22-7, a New Species Isolated from Mangrove of Enggano Island, Indonesia. PMID:30533825
Draft Genome Sequence of Pseudomonas sp. LS-2, Isolated from a Diseased Gastrodia elata Plant. PMID:30533816
Full-Genome Sequence of Thalassotalea euphylliae H1, Isolated from a Montipora capitata Coral Located in Hawai'i. PMID:30533814
Complete Genome Sequence of Sulfitobacter sp. Strain D7, a Virulent Bacterium Isolated from an Emiliania huxleyi Algal Bloom in the North Atlantic. PMID:30533799
Complete Genome Sequence of Streptacidiphilus sp. Strain 15-057A, Obtained from Bronchial Lavage Fluid. PMID:30533790
Complete Genome Sequence of the Hydrocarbon-Degrading Strain Achromobacter sp. B7, Isolated during Petroleum Hydrocarbon Bioremediation in the Valparaiso Region, Chile. PMID:30533787
Complete Genome Sequence of Lactococcus lactis subsp. lactis Strain 14B4, Which Inhibits the Growth of Salmonella enterica Serotype Poona In Vitro. PMID:30533785
Draft Genome Sequence of the Industrially Significant Bacterium Bacillus amyloliquefaciens NRRL 942. PMID:30533784
Draft Genome Sequence of Helicobacter cinaedi, Compiled by Direct Whole-Genome Sequencing of a Blood Culture-Positive Isolate in Hong Kong. PMID:30533780
Complete Genome Sequence of Bacillus subtilis Strain WB800N, an Extracellular Protease-Deficient Derivative of Strain 168. PMID:30533776
Whole-Genome Sequence of Sphingomonas sp. Strain FARSPH, a Novel Sf9 Insect Cell Culture Contaminant. PMID:30533768
Whole-Genome Sequencing and Annotation of Exiguobacterium sp. RIT 452, an Antibiotic-Producing Strain Isolated from a Pond Located on the Campus of the Rochester Institute of Technology. PMID:30533762
Complete Genome Sequence of a Wild-Type Isolate of Caulobacter vibrioides Strain CB2. PMID:30533761
Draft Genome Sequences of 57 Salmonella enterica Strains from Selected U.S. Swine Feed Mills. PMID:30533758
Draft Genome Sequence of the Industrially Significant Bacterium Pseudomonas fluorescens ATCC 13525. PMID:30533753
Draft Genome Sequences for a Diverse Set of Seven Haemophilus and Aggregatibacter Species. PMID:30533737
Complete Genome Sequences of Three Leptospira mayottensis Strains from Tenrecs That Are Endemic in the Malagasy Region. PMID:30533730
Draft Genome Sequences of 10 Clinical K2-Type Klebsiella pneumoniae Strains Isolated in Russia. PMID:30533720
Draft Genome Sequence of the Xanthocidin-Producing Strain Streptomyces sp. AcE210, Isolated from a Root Nodule of Alnus glutinosa (L.). PMID:30533708
Draft Genome Sequence of Xylella fastidiosa subsp. fastidiosa Strain IVIA5235, Isolated from Prunus avium in Mallorca Island, Spain. PMID:30533706
Complete Genome Sequence of α-1,3-Glucanase-Producing Strain Paracoccus mutanolyticus RSP-02. PMID:30533700
Draft Whole-Genome Sequences of Seven Listeria monocytogenes Strains with Variations in Virulence and Stress Responses. PMID:30533688
Complete Genome Sequence of Pseudomonas plecoglossicida XSDHY-P, a Strain That Is Pathogenic for the Marine Fish Larimichthys crocea. PMID:30533684
Draft Genome Sequence of the Nitrogen-Fixing Endophyte Azoarcus communis SWub3. PMID:30533682
Draft Whole-Genome Shotgun Sequence of Streptomyces sp. Strain ETH9427. PMID:30533680
Draft Genome Sequences of Violacein-Producing Duganella sp. Isolates from a Waterway in Eastern Pennsylvania. PMID:30533678
Near-Complete Genome Sequence of Ralstonia solanacearum T523, a Phylotype I Tomato Phytopathogen Isolated from the Philippines. PMID:30533677
Complete Genome Sequence of a Wild-Type Isolate of Caulobacter vibrioides Strain CB1. PMID:30533673
Complete Genome Sequences of Mycoplasma anatis, M. anseris, and M. cloacale Type Strains. PMID:30533671
Complete Genome Sequences of Two Rhodobacter Strains. PMID:30533667
Genome Sequence of a Plant-Pathogenic Bacterium, "Candidatus Phytoplasma asteris" Strain TW1. PMID:30533656
Draft Genome Sequence of the Extensively Drug-Resistant Pseudomonas aeruginosa Clinical Isolate TUEPA7472. PMID:30533654
Draft Genome Sequences of Pathotype Strains for Three Pathovars Belonging to Three Xanthomonas Species. PMID:30533651
Draft Genome Sequences of Two Cystic Fibrosis Strains of Stenotrophomonas maltophilia, AU30115 and AU32848. PMID:30533649
Genome Sequence of the Oocydin A-Producing Rhizobacterium Serratia plymuthica 4Rx5. PMID:30533641
Draft Genome Sequence of Streptomyces cavourensis YBQ59, an Endophytic Producer of Antibiotics Bafilomycin D, Nonactic Acid, Prelactone B, and 5,11-Epoxy-10-Cadinanol. PMID:30533639
Complete Genome Sequence of Marinobacterium aestuarii ST58-10T, a Benzene-Degrading Bacterium Isolated from Estuarine Sediment. PMID:30533631
Draft Genome Sequences of Seven Strains of Shiga Toxin-Producing Escherichia coli O111 with Variation in Their Sensitivity to Novobiocin. PMID:30533630
Whole-Genome Sequences of Two Arthrobacter sp. Strains, 4041 and 4042, Potentially Usable in Agriculture and Environmental Depollution. PMID:30533628
Draft Genome Sequences of Mycolicibacter senuensis Isolate GF74 and Mycobacterium colombiense Isolates GF28 and GF76 from a Swine Farm in Japan. PMID:30533627
Whole-Genome Sequence of Pseudomonas sp. Strain 1239, Isolated from Soil in Western France. PMID:30533625
Draft Genome Sequence of Bacillus safensis Strain JG-B5T, Isolated from a Uranium Mining Waste Pile. PMID:30533621
Draft Genome Sequences of Nine Campylobacter hyointestinalis subsp. lawsonii Strains. PMID:30533618
Genome Sequence of the Probiotic Strain Bacillus velezensis Variant polyfermenticus GF423. PMID:30533616
Whole-Genome Sequence of Pseudomonas putida Strain 1312, a Potential Biostimulant Developed for Agriculture. PMID:30533614
Genome Sequence of Kurthia Type Species Kurthia zopfii Strain ATCC 33403T. PMID:30533610
Draft Genome Sequence of Vibrio vulnificus 86573B, a Bacterium Isolated from Diseased Tilapia in Taiwan. PMID:30533606
Sucrose-Induced Proteomic Response and Carbohydrate Utilization of Lactobacillus sakei TMW 1.411 During Dextran Formation. PMID:30532743
Proteotyping bacteria: Characterization, differentiation and identification of pneumococcus and other species within the Mitis Group of the genus Streptococcus by tandem mass spectrometry proteomics. PMID:30532202
Insights Into Limnothrix sp. Metabolism Based on Comparative Genomics. PMID:30515147
Genome analysis of Mycobacterium avium subspecies hominissuis strain 109. PMID:30512015
Phenotypic and genomic comparison of Photorhabdus luminescens subsp. laumondii TT01 and a widely used rifampicin-resistant Photorhabdus luminescens laboratory strain. PMID:30497380
A Strain of an Emerging Indian Xanthomonas oryzae pv. oryzae Pathotype Defeats the Rice Bacterial Blight Resistance Gene xa13 Without Inducing a Clade III SWEET Gene and Is Nearly Identical to a Recent Thai Isolate. PMID:30483230
Potentially Mobile Denitrification Genes Identified in Azospirillum sp. Strain TSH58. PMID:30413471
Complete genome sequence of Bacillus velezensis ZY-1-1 reveals the genetic basis for its hemicellulosic/cellulosic substrate-inducible xylanase and cellulase activities. PMID:30402367
Insights into the draft genome sequence of bioactives-producing Bacillus thuringiensis DNG9 isolated from Algerian soil-oil slough. PMID:30344888
Draft genome sequences of 'Candidatus Chloroploca asiatica' and 'Candidatus Viridilinea mediisalina', candidate representatives of the Chloroflexales order: phylogenetic and taxonomic implications. PMID:30338027
Genome sequencing and assessment of plant growth-promoting properties of a Serratia marcescens strain isolated from vermicompost. PMID:30326830
ARGONAUT-I: Activity of Cefiderocol (S-649266), a Siderophore Cephalosporin, against Gram-Negative Bacteria, Including Carbapenem-Resistant Nonfermenters and Enterobacteriaceae with Defined Extended-Spectrum β-Lactamases and Carbapenemases. PMID:30323050
Whole-Genome Sequence of the Novel Antarctobacter heliothermus Strain SMS3, Found in Association with the Marine Diatom Skeletonema marinoi. PMID:30310524
Complete genome sequence of the halophile bacterium Kushneria konosiri X49T, isolated from salt-fermented Konosirus punctatus. PMID:30305867
Fast and global detection of periodic sequence repeats in large genomic resources. PMID:30304510
Comparative Genomics among Closely Related Streptomyces Strains Revealed Specialized Metabolite Biosynthetic Gene Cluster Diversity. PMID:30279346
Achieving Accurate Sequence and Annotation Data for Caulobacter vibrioides CB13. PMID:30259084
Draft genome sequence of Pantoea ananatis strain MHSD5 isolated from surface sterilized leaves of medicinal plant, Pellaea calomelanos obtained in South Africa. PMID:30229047
Internal RNAs overlapping coding sequences can drive the production of alternative proteins in archaea. PMID:30175688
Genomic and Functional Characterization of Environmental Strains of SDS-Degrading Pseudomonas spp., Providing a Source of New Sulfatases. PMID:30174655
Attack of the clones: whole genome-based characterization of two closely related enterohemorrhagic Escherichia coli O26 epidemic lineages. PMID:30170539
PirVP genes causing AHPND identified in a new Vibrio species (Vibrio punensis) within the commensal Orientalis clade. PMID:30166588
Presence of Cu-Type (NirK) and cd1-Type (NirS) Nitrite Reductase Genes in the Denitrifying Bacterium Bradyrhizobium nitroreducens sp. nov. PMID:30158366
Pushing the limits of de novo genome assembly for complex prokaryotic genomes harboring very long, near identical repeats. PMID:30137508
Integrated analysis of the impact of age on genetic and clinical aspects of hepatocellular carcinoma. PMID:30125264
Complete genome sequence of Rhodothermaceae bacterium RA with cellulolytic and xylanolytic activities. PMID:30105201
Extrachromosomal circular elements targeted by CRISPR-Cas in Dehalococcoides mccartyi are linked to mobilization of reductive dehalogenase genes. PMID:30104577
Citrobacter freundii fitness during bloodstream infection. PMID:30087402
A glutamine riboswitch is a key element for the regulation of glutamine synthetase in cyanobacteria. PMID:30085248
Taxonogenomics reveal multiple novel genomospecies associated with clinical isolates of Stenotrophomonas maltophilia. PMID:30084764
Genomic Diversity of Listeria monocytogenes Isolated from Clinical and Non-Clinical Samples in Chile. PMID:30072604
Closed Genome and Comparative Phylogenetic Analysis of the Clinical Multidrug Resistant Shigella sonnei Strain 866. PMID:30060169
Efficient Exploitation of Multiple Novel Bacteriocins by Combination of Complete Genome and Peptidome. PMID:30057579
BioMuta and BioXpress: mutation and expression knowledgebases for cancer biomarker discovery. PMID:30053270
Comparative genomics of Salmonella enterica serovar Montevideo reveals lineage-specific gene differences that may influence ecological niche association. PMID:30052174
Complete Genome Sequence of Clostridium kluyveri JZZ Applied in Chinese Strong-Flavor Liquor Production. PMID:30030563
Characterization of the AmpC β-Lactamase from Burkholderia multivorans. PMID:30012762
Sequence heterogeneity of the PenA carbapenemase in clinical isolates of Burkholderia multivorans. PMID:29983287
Genome Sequence of Pantoea ananatis SGAir0210, Isolated from Outdoor Air in Singapore. PMID:29976614
Genome Sequence of Bacillus velezensis SGAir0473, Isolated from Tropical Air Collected in Singapore. PMID:29976613
Complete Genome Sequence of the Bacterium Serratia marcescens SGAir0764, Isolated from Singapore Air. PMID:29976612
Genome Sequence of Geobacillus thermoleovorans SGAir0734, Isolated from Singapore Air. PMID:29976611
Draft Genome Sequence of Bioactive Strain Streptomyces sp. SMS_SU21, Isolated from Soil Sediment of the Sundarbans Mangrove Ecosystem. PMID:29976609
Restricted Localization of Photosynthetic Intracytoplasmic Membranes (ICMs) in Multiple Genera of Purple Nonsulfur Bacteria. PMID:29970460
Complete Genome Sequence of Acinetobacter schindleri SGAir0122 Isolated from Singapore Air. PMID:29954893
Genome Sequences of Shewanella baltica and Shewanella morhuae Strains Isolated from the Gastrointestinal Tract of Freshwater Fish. PMID:29930054
Whole-Genome Sequences of Listeria monocytogenes Sequence Type 6 Isolates Associated with a Large Foodborne Outbreak in South Africa, 2017 to 2018. PMID:29930052
Complete Genome Sequence of Lactobacillus plantarum Strain LQ80, Selected for Preparation of Fermented Liquid Feed for Pigs. PMID:29930046
Complete Genome Sequence of Escherichia coli ME8067, an Azide-Resistant Laboratory Strain Used for Conjugation Experiments. PMID:29930039
Genome Sequence of a Canadian Vibrio parahaemolyticus Isolate with Unique Mobilizing Capacity. PMID:29903822
Genomic Insights into Nematicidal Activity of a Bacterial Endophyte, Raoultella ornithinolytica MG against Pine Wilt Nematode. PMID:29887781
Complete Genome Sequence of Listeria monocytogenes DFPST0073, Isolated from Imported Mexican Soft Cheese. PMID:29880597
Draft Genome Sequence of Rhodococcus opacus Strain 04-OD7, Which Can Mobilize Phosphate. PMID:29880596
Draft Genome Sequence of Brazilian Leptospira interrogans Serovar Pomona Strain GR5, Isolated from Apparently Healthy Gilt. PMID:29880594
Complete Genome Sequence of Klebsiella quasipneumoniae Strain S05, a Fouling-Causing Bacterium Isolated from a Membrane Bioreactor. PMID:29880592
Data on genome sequencing, analysis and annotation of a pathogenic Bacillus cereus 062011msu. PMID:29876371
Distinctive characters of Nostoc genomes in cyanolichens. PMID:29866043
Complete Genome Sequence of Multidrug-Resistant Edwardsiella ictaluri Strain MS-17-156. PMID:29853512
Complete Genome Sequence of the Virulent Aeromonas salmonicida subsp. masoucida Strain RFAS1. PMID:29853510
Complete Genome Sequence of Pseudomonas stutzeri Type Strain SGAir0442, Isolated from Singapore Air Samples. PMID:29853498
Draft Genome Sequence of Carbapenem-Resistant Klebsiella pneumoniae XPY20 Collected from a Bloodstream Infection Patient. PMID:29798924
Complete Genome Sequence of Escherichia coli J53, an Azide-Resistant Laboratory Strain Used for Conjugation Experiments. PMID:29798920
Modeling leaderless transcription and atypical genes results in more accurate gene prediction in prokaryotes. PMID:29773659
Draft Genome Sequence of a "Candidatus Liberibacter europaeus" Strain Assembled from Broom Psyllids (Arytainilla spartiophila) from New Zealand. PMID:29773636
Draft Genome Sequence of the Fish Pathogen Flavobacterium columnare Strain MS-FC-4. PMID:29773635
Complete Genome Sequence of Oyster Isolate Vibrio vulnificus Env1. PMID:29773632
First Complete Genome Sequence of Yersinia massiliensis. PMID:29773629
Complete Genome Sequences of the Potential Zoonotic Pathogens Staphylococcus felis and Staphylococcus kloosii. PMID:29773625
Genome Sequences of 13 Isolates of Salmonella enterica Serovar Typhimurium var. Copenhagen Obtained from Wild Pigeons in Canada. PMID:29773622
The genome sequence of Dyella jiangningensis FCAV SCS01 from a lignocellulose-decomposing microbial consortium metagenome reveals potential for biotechnological applications. PMID:29767666
Draft Genome Sequences of Plant-Associated Bacillus Strains Isolated from the Qinghai-Tibetan Plateau. PMID:29748403
Complete Genome Sequence of Staphylococcus haemolyticus Type Strain SGAir0252. PMID:29748397
High quality draft genome sequences of Mycoplasma agassizii strains PS6T and 723 isolated from Gopherus tortoises with upper respiratory tract disease. PMID:29725499
Complete Genome Sequence of Acinetobacter indicus Type Strain SGAir0564 Isolated from Tropical Air Collected in Singapore. PMID:29724855
Complete Genome Sequence of Multidrug-Resistant Plesiomonas shigelloides Strain MS-17-188. PMID:29724851
Draft Genome Sequences of Nine New Carnobacterium maltaromaticum Strains Isolated from Diseased Sharks. PMID:29724839
Draft Genome Sequence of Bacillus pumilus SCAL1, an Endophytic Heat-Tolerant Plant Growth-Promoting Bacterium. PMID:29724830
Complete Genome Sequence of Lelliottia nimipressuralis Type Strain SGAir0187, Isolated from Tropical Air Collected in Singapore. PMID:29724826
Draft Genome Sequence of Mycobacterium virginiense Strain GF75, Isolated from the Mud of a Swine Farm in Japan. PMID:29700164
Complete Genome Sequence of Methylomonas denitrificans Strain FJG1, an Obligate Aerobic Methanotroph That Can Couple Methane Oxidation with Denitrification. PMID:29700144
Characterisation of an efficient atrazine-degrading bacterium, Arthrobacter sp. ZXY-2: an attempt to lay the foundation for potential bioaugmentation applications. PMID:29692866
Genetic exchange and reassignment in Porphyromonas gingivalis. PMID:29686783
High quality draft genome sequence of Mycoplasma testudineum strain BH29T, isolated from the respiratory tract of a desert tortoise. PMID:29682170
Investigating the Central Metabolism of Clostridium thermosuccinogenes. PMID:29678919
Draft Genome Sequence of Pseudomonas sp. Strain LLC-1 (NBRC 111237), Capable of Metabolizing Lignin-Derived Low-Molecular-Weight Compounds. PMID:29674554
Complete Genome Sequence of Shewanella sp. WE21, a Rare Isolate with Multiple Novel Large Genomic Islands. PMID:29674546
Complete Genome Sequence of Marinobacter flavimaris LMG 23834T, Which Is Potentially Useful in Bioremediation. PMID:29674544
Complete Genome Sequence of a Putative New Bacterial Strain, I507, Isolated from the Indian Ocean. PMID:29674539
Assessing the benefits of horizontal gene transfer by laboratory evolution and genome sequencing. PMID:29673327
Draft Genome Sequences of Four Clinical Legionella pneumophila Isolates from Ontario, Canada. PMID:29650583
Draft Genome Sequence of Raoultella ornithinolytica Strain HH3. PMID:29650579
Draft Genome Sequences of Three Ochrobactrum spp. Isolated from Different Avian Hosts in Pakistan. PMID:29650578
Genome Sequences of Five Mycobacterium bovis Strains Isolated from Farmed Animals and Wildlife in Canada. PMID:29650575
Draft Whole-Genome Sequence of the Fluorene-Degrading Sphingobium sp. Strain LB126, Isolated from Polycyclic Aromatic Hydrocarbon-Contaminated Soil. PMID:29650572
Recognition of the polycistronic nature of human genes is critical to understanding the genotype-phenotype relationship. PMID:29626081
Draft Genome Sequence of Enterococcus faecium Strain J19, Isolated from Cabbage. PMID:29622613
Genomic Analysis of a Pan-Resistant Isolate of Klebsiella pneumoniae, United States 2016. PMID:29615503
Draft Genome Sequence of Pseudomonas gingeri Strain LMG 5327, the Causative Agent of Ginger Blotch in Agaricus bisporus. PMID:29599158
Draft Genome Sequence of Bacillus paralicheniformis F47, Isolated from an Algerian Salty Lake. PMID:29599156
Complete Genome Sequence of Microcystis aeruginosa NIES-2481 and Common Genomic Features of Group G M. aeruginosa. PMID:29576807
Genomic and physiological analyses of an indigenous strain, Enterococcus faecium 17OM39. PMID:29556852
Complete Genome Sequences of the Probiotic Lactic Acid Bacteria Lactobacillus helveticus D75 and D76. PMID:29545307
Draft Genome Sequence of a Dictyoglomus sp. from an Enrichment Culture of a New Zealand Geothermal Spring. PMID:29545298
Complete Genome Sequence of the Environmental Burkholderia pseudomallei Sequence Type 131 Isolate MSHR1435, Associated with a Chronic Melioidosis Infection. PMID:29545292
Draft Genome Sequences of Five Novel Ochrobactrum spp. Isolated from Different Avian Hosts in Nigeria. PMID:29545289
Genomic characterisation of Leptospira inadai serogroup Lyme isolated from captured rat in Brazil and comparative analysis with human reference strain. PMID:29538491
Complete Genome Sequence of the Symbiotic Strain Bradyrhizobium icense LMTR 13T, Isolated from Lima Bean (Phaseolus lunatus) in Peru. PMID:29519840
Draft Genome Sequences of Six Vibrio diazotrophicus Strains Isolated from Deep Subsurface Sediments of the Baltic Sea. PMID:29519824
Complete Genome Sequence of a New Zealand Isolate of the Bovine Pathogen Streptococcus uberis. PMID:29496837
Draft Genome Sequence of Enterobacter sp. Strain EA-1, an Electrochemically Active Microorganism Isolated from Tropical Sediment. PMID:29496835
Closed Genome Sequence of Vibrio cholerae O1 El Tor Inaba Strain A1552. PMID:29496831
Pseudomonas orientalis F9: A Potent Antagonist against Phytopathogens with Phytotoxic Effect in the Apple Flower. PMID:29479340
Complete Genome Sequence and Genomic Characterization of Lactobacillus acidophilus LA1 (11869BP). PMID:29472862
Draft Genome Sequence of an Extracellular Protease-Producing Bacterium, Stenotrophomonas bentonitica VV6, Isolated from Arctic Seawater. PMID:29472346
Culture-Facilitated Comparative Genomics of the Facultative Symbiont Hamiltonella defensa. PMID:29452355
Comparative Genomics of Completely Sequenced Lactobacillus helveticus Genomes Provides Insights into Strain-Specific Genes and Resolves Metagenomics Data Down to the Strain Level. PMID:29441050
Complete Genome Sequence of Industrial Dairy Strain Streptococcus thermophilus DGCC 7710. PMID:29439051
Draft Genome Sequences of Acinetobacter and Bacillus Strains Isolated from Spacecraft-Associated Surfaces. PMID:29439046
Draft Genome Sequence of the Siderophore-Degrading Soil Bacterium Mesorhizobium loti Strain LU. PMID:29439037
Draft Genome Sequence of an Active Heterotrophic Nitrifier-Denitrifier, Cupriavidus pauculus UM1. PMID:29439036
Draft Genome Sequence of Burkholderia sp. Strain WAC0059, a Bacterium Isolated from the Medicinal Fungus Antrodia cinnamomea. PMID:29439035
Draft Genome Sequence of Escherichia coli Strain M15-4, a Typical Enteropathogenic E. coli Strain Isolated in Mexico. PMID:29437096
Complete genome sequence of Pseudomonas alcaliphila JAB1 (=DSM 26533), a versatile degrader of organic pollutants. PMID:29435100
Draft Genome Sequence of the Antimycin-Producing Bacterium Streptomyces sp. Strain SM8, Isolated from the Marine Sponge Haliclona simulans. PMID:29371360
Draft Genome Sequence of Pseudomonas putida CA-3, a Bacterium Capable of Styrene Degradation and Medium-Chain-Length Polyhydroxyalkanoate Synthesis. PMID:29371359
Complete Genome Sequence of Kyrpidia sp. Strain EA-1, a Thermophilic Knallgas Bacterium, Isolated from the Azores. PMID:29348358
Draft Genome Sequence of Bacillus subtilis 2C-9B, a Strain with Biocontrol Potential against Chili Pepper Root Pathogens and Tolerance to Pb and Zn. PMID:29348357
Whole-Genome Sequence of a Mycobacterium goodii Isolate from a Pediatric Patient in South Africa. PMID:29348348
Draft Genome Sequences of Strains TRE 1, TRE D, TRE H, and TRI 7, Isolated from Tamarins and Belonging to Four Putative Novel Bifidobacterium Species. PMID:29348339
Draft Genome Sequences of Phenotypically Distinct Janthinobacterium sp. Isolates Cultured from the Hudson Valley Watershed. PMID:29348334
Draft Whole-Genome Sequence of Deinococcus sp. UR1, a Putative Novel Species Isolated from an External Stainless Steel Surface in the Canadian Prairies. PMID:29326211
Complete Genome Sequence of Escherichia coli Strain WG5. PMID:29326209
Genomics of Corynebacterium striatum, an emerging multidrug-resistant pathogen of immunocompromised patients. PMID:29326010
Physiological and Comparative Genomic Analysis of Arthrobacter sp. SRS-W-1-2016 Provides Insights on Niche Adaptation for Survival in Uraniferous Soils. PMID:29324691
Draft Genome Sequence of a Red-Pigmented Janthinobacterium sp. Native to the Hudson Valley Watershed. PMID:29301893
Draft Genome Sequence of a Violacein-Producing Iodobacter sp. from the Hudson Valley Watershed. PMID:29301892
Draft Genome Sequence of Rhodococcus sp. Strain NCIMB 12038, a Naphthalene-Degrading Bacterium. PMID:29301890
Draft Genome Sequences of Pseudomonas putida UV4 and UV4/95, Toluene Dioxygenase-Expressing Producers of cis-1,2-Dihydrodiols. PMID:29301889
Draft Genome Sequence of the Predatory Marine Bacterium Halobacteriovorax sp. Strain JY17. PMID:29301887
Complete Genome Sequence of Elizabethkingia miricola Strain EM798-26 Isolated from the Blood of a Cancer Patient. PMID:29301886
Draft Genome Sequence of USA100 Methicillin-Resistant Staphylococcus aureus Strain 209. PMID:29301880
Comparative genomics of pathogenic Leptospira interrogans serovar Canicola isolated from swine and human in Brazil. PMID:29236931
Complete genome sequence of N2-fixing model strain Klebsiella sp. nov. M5al, which produces plant cell wall-degrading enzymes and siderophores. PMID:29234606
Complete Genome Sequence of Lactobacillus plantarum 10CH, a Potential Probiotic Lactic Acid Bacterium with Potent Antimicrobial Activity. PMID:29192090
Closed Genome Sequence of Chryseobacterium piperi Strain CTMT/ATCC BAA-1782, a Gram-Negative Bacterium with Clostridial Neurotoxin-Like Coding Sequences. PMID:29192076
Genomic Analysis of a Pathogenic Bacterium, Paeniclostridium sordellii CBA7122 Containing the Highest Number of rRNA Operons, Isolated from a Human Stool Sample. PMID:29187822
Capnocytophaga endodontalis sp. nov., Isolated from a Human Refractory Periapical Abscess. PMID:29181783
Draft Genome Sequence of Burkholderia puraquae Type Strain CAMPA 1040, Isolated from Hospital Settings in Córdoba, Argentina. PMID:29167247
Draft Genome Sequences of Aggregatibacter actinomycetemcomitans Strains 310a and 310b. PMID:29167243
Cloning and Molecular Characterization of an Alpha-Glucosidase (MalH) from the Halophilic Archaeon Haloquadratum walsbyi. PMID:29160840
Draft Genome Sequence of Entomopathogenic Brevibacillus laterosporus Strain Lak 1210, an Alkaliphilic Chitin Degrader. PMID:29146855
Draft Genome Sequence of Agrobacterium tumefaciens Biovar 1 Strain 186, Isolated from Walnut. PMID:29146852
Draft Genome Sequences of 23 Salmonella enterica Strains Isolated from Cattle in Ibadan, Nigeria, Representing 21 Salmonella Serovars. PMID:29146845
Draft Genome Sequences of Eight Streptogramin-Resistant Enterococcus Species Isolated from Animal and Environmental Sources in the United States. PMID:29146833
Identification of nonserotypeable Shigella spp. using genome sequencing: a step forward. PMID:29134117
Complete Genome Sequence of Bacillus altitudinis Type Strain SGAir0031 Isolated from Tropical Air Collected in Singapore. PMID:29122878
Whole-Genome Sequences of Variants of Bacillus anthracis Sterne and Their Toxin Gene Deletion Mutants. PMID:29122874
RefSeq: an update on prokaryotic genome annotation and curation. PMID:29112715
Recent development of antiSMASH and other computational approaches to mine secondary metabolite biosynthetic gene clusters. PMID:29112695
Draft genome sequence of a biosurfactant producing, Bacillus aquimaris strain SAMM MCC 3014 isolated from Indian Arabian coastline sea water. PMID:29109799
DFAST: a flexible prokaryotic genome annotation pipeline for faster genome publication. PMID:29106469
Complete and Draft Genome Sequences of Eight Oceanic Pseudomonas aeruginosa Strains. PMID:29097479
Draft Genome Sequence of a Mexican Community-Associated Methicillin-Resistant Staphylococcus epidermidis Strain. PMID:29097472
Draft Genome Sequences of Two Lactobacillus casei Strains Isolated from Cheddar Cheese and a Fermented Milk Drink. PMID:29097471
Genome Sequences of 34 Shiga Toxin-Producing Escherichia coli Isolates from Swine and Other Sources. PMID:29097467
Whole-Genome Sequence of Escherichia coli Serotype O157:H7 Strain B6914-ARS. PMID:29097463
Genomic features, phylogenetic relationships, and comparative genomics of Elizabethkingia anophelis strain EM361-97 isolated in Taiwan. PMID:29085032
Genomic Analysis of Bacillus licheniformis CBA7126 Isolated from a Human Fecal Sample. PMID:29081747
Draft Whole-Genome Sequence of Psychrotrophic Arthrobacter sp. Strain 7749, Isolated from Antarctic Marine Sediments with Applications in Enantioselective Alcohol Oxidation. PMID:29074668
Draft genome sequence of a thermostable, alkaliphilic α-amylase and protease producing Bacillus amyloliquefaciens strain KCP2. PMID:29071169
Comparative Genomics of Facultative Bacterial Symbionts Isolated from European Orius Species Reveals an Ancestral Symbiotic Association. PMID:29067021
Genome Sequences of Two NDM-1 Metallo-β-Lactamase-Producing Multidrug-Resistant Strains of Klebsiella pneumoniae with a High Degree of Similarity, One of Which Contains Prophage. PMID:29051261
Draft Genome Sequence of Halophilic Hahella sp. Strain CCB-MM4, Isolated from Matang Mangrove Forest in Perak, Malaysia. PMID:29051257
Complete genome sequence of Paenibacillus yonginensis DCY84T, a novel plant Symbiont that promotes growth via induced systemic resistance. PMID:29046742
Nanopore Long-Read Guided Complete Genome Assembly of Hydrogenophaga intermedia, and Genomic Insights into 4-Aminobenzenesulfonate, p-Aminobenzoic Acid and Hydrogen Metabolism in the Genus Hydrogenophaga. PMID:29046667
Complete Genome Sequence of Porphyrobacter sp. Strain CACIAM 03H1, a Proteobacterium Obtained from a Nonaxenic Culture of Microcystis aeruginosa. PMID:29025942
Draft Genome Sequences of Two Novel Sub-Antarctic Williamsia Species. PMID:29025939
Draft Genome Sequence of Salmonella enterica Serovar Senftenberg 070885 and Its Linalool-Adapted Mutant. PMID:29025934
Complete Genome Sequences of Four Brucella Strains Isolated from China. PMID:29025933
Population-Genomic Insights into Variation in Prevotella intermedia and Prevotella nigrescens Isolates and Its Association with Periodontal Disease. PMID:28983469
Draft Genome Sequence Analysis of Multidrug-Resistant Escherichia coli Strains Isolated in 2013 from Humans and Chickens in Nigeria. PMID:28983000
Microbial genome analysis: the COG approach. PMID:28968633
Identifying and sequencing a Mycobacterium sp. strain F4 as a potential bioremediation agent for quinclorac. PMID:28968436
Draft Genome Sequence of Marinobacter vinifirmus Type Strain FB1. PMID:28963221
Draft Genome Sequence of a Gordonia sp. Isolated from the Soil of a Red Alder Plant. PMID:28963216
Draft Genome Sequence of the Type Strain Pseudomonas umsongensis DSM 16611. PMID:28963215
Draft Genome Sequence of the Type Strain Pseudomonas jessenii DSM 17150. PMID:28963214
Draft Genome Sequence of Lactobacillus salivarius L28 Isolated from Ground Beef. PMID:28963206
Draft Genome Sequences of Three Novel Low-Abundance Species Strains Isolated from Kefir Grain. PMID:28963201
Genome Sequence for Shiga Toxin-Producing Escherichia coli O26:H11, Associated with a Cluster of Hemolytic-Uremic Syndrome Cases in South Africa, 2017. PMID:28935743
Draft Genome Sequence of Listeria monocytogenes Strain ATCC 7644. PMID:28935737
Complete Genome Sequences of emm111 Type Streptococcus pyogenes Strain GUR, with Antitumor Activity, and Its Derivative Strain GURSA1 with an Inactivated emm Gene. PMID:28935732
Insights from the draft genome into the pathogenicity of a clinical isolate of Elizabethkingia meningoseptica Em3. PMID:28932346
Complete Circular Genome Sequence and Temperature Independent Adaptation to Anaerobiosis of Listeria weihenstephanensis DSM 24698. PMID:28919887
Draft Genome Sequence of the Type Strain Sphingopyxis bauzanensis DSM 22271. PMID:28912333
Draft Genome Sequence of the Plant Pathogen Streptomyces sp. Strain 11-1-2. PMID:28912321
Chromosome and Large Linear Plasmid Sequences of a Borrelia miyamotoi Strain Isolated from Ixodes pacificus Ticks from California. PMID:28912318
Draft Genome Sequence of Corynebacterium kefirresidentii SB, Isolated from Kefir. PMID:28912312
Phylogeographic, genomic, and meropenem susceptibility analysis of Burkholderia ubonensis. PMID:28910350
Draft Genome Sequence of Zobellella denitrificans ZD1 (JCM 13380), a Salt-Tolerant Denitrifying Bacterium Capable of Producing Poly(3-Hydroxybutyrate). PMID:28883143
Draft Genome Sequence of the Type Strain Sphingopyxis witflariensis DSM 14551. PMID:28883138
Draft Genome Sequences of Three Sub-Antarctic Rhodococcus spp., Including Two Novel Psychrophilic Genomospecies. PMID:28883137
Genome sequence of the sulfur-oxidizing Bathymodiolus thermophilus gill endosymbiont. PMID:28878861
Draft Genome Sequence of the Anoxygenic Phototrophic Bacterium Phaeospirillum fulvum MGU-K5. PMID:28839039
Whole-Genome Sequences of Salmonella enterica subsp. enterica Serovar Typhimurium Strains TT6675 and TT9097 Employed in the Isolation and Characterization of a Giant Phage Mutant Collection. PMID:28839032
Complete Genome Sequence of Escherichia coli ABWA45, an rmtB-Encoding Wastewater Isolate. PMID:28839027
Complete Genome Sequence of Citrobacter freundii 705SK3, an OXA-48-Encoding Wastewater Isolate. PMID:28818914
Draft Genome Sequence of Klebsiella pneumoniae 704SK6, an OXA-48- and CTX-M-15-Encoding Wastewater Isolate. PMID:28818913
Complete Genome Sequence of Enterobacter cloacae 704SK10, an OXA-48-Encoding Wastewater Isolate. PMID:28818912
Draft Genome Sequence of Bacillus sp. Strain K2I17, Isolated from the Rhizosphere of Deschampsia antarctica Desv. PMID:28818897
Draft Genome Sequence of Chilean Antarctic Pseudomonas sp. Strain K2I15. PMID:28818894
Complete Genome Sequence of Sulfuriferula sp. Strain AH1, a Sulfur-Oxidizing Autotroph Isolated from Weathered Mine Tailings from the Duluth Complex in Minnesota. PMID:28798167
Whole genome sequence of two Rathayibacter toxicus strains reveals a tunicamycin biosynthetic cluster similar to Streptomyces chartreusis. PMID:28796837
Draft Genome Sequence of Mycobacterium peregrinum Isolated from an HIV-Positive Patient in South Africa. PMID:28774988
Draft Genome Sequence of Stenotrophomonas bentonitica BII-R7T, a Selenite-Reducing Bacterium Isolated from Spanish Bentonites. PMID:28774976
The genome of the cotton bacterial blight pathogen Xanthomonas citri pv. malvacearum strain MSCT1. PMID:28770027
Complete Genome Sequence of Campylobacter concisus ATCC 33237T and Draft Genome Sequences for an Additional Eight Well-Characterized C. concisus Strains. PMID:28729281
Draft genome sequence of Bradyrhizobium paxllaeri LMTR 21T isolated from Lima bean (Phaseolus lunatus) in Peru. PMID:28721334
Comparative genomic analysis of Paenibacillus sp. SSG-1 and its closely related strains reveals the effect of glycometabolism on environmental adaptation. PMID:28720902
Draft Genome Sequence of Alkalinema sp. Strain CACIAM 70d, a Cyanobacterium Isolated from an Amazonian Freshwater Environment. PMID:28705982
Complete Genome Sequences of Lactococcus lactis subsp. lactis bv. diacetylactis FM03 and Leuconostoc mesenteroides FM06 Isolated from Cheese. PMID:28705980
Draft Whole-Genome Assemblies of Drug-Resistant Clinical Isolates of Klebsiella pneumoniae from the Philippines. PMID:28705960
Genome sequence of Bradyrhizobium sp. LMTR 3, a diazotrophic symbiont of Lima bean (Phaseolus lunatus). PMID:28702356
Complete genome sequence of the Bifidobacterium animalis subspecies lactis BL3, preventive probiotics for acute colitis and colon cancer. PMID:28702200
Draft Genome Sequences of Three Mycobacterium bovis Strains Identified in Cattle and Wildlife in France. PMID:28684564
Draft Genome Sequence of a Multidrug-Resistant Serratia marcescens Strain, Isolated from a Patient with Peritoneal Cancer in South Africa. PMID:28663295
Draft genome sequence of Massilia sp. KIM isolated from South African grassland biome soils. PMID:28652975
The draft genome sequence of Hymenobacter sp. CRA2 isolated from Nama Karoo shrub land soils from South Africa. PMID:28652974
Complete Genome Sequence of Staphylococcus lutrae ATCC 700373, a Potential Pathogen Isolated from Deceased Otters. PMID:28642379
Draft Genome Sequences of Six Enterococcus faecalis Strains Isolated from Malaysian Clinical and Environmental Origins. PMID:28619812
Full-Genome Sequence of Listeria monocytogenes Strain H34, Isolated from a Newborn with Sepsis in Uruguay. PMID:28619811
Draft Genome Sequence of the Vancomycin-Resistant Clinical Isolate Staphylococcus aureus VRS3b. PMID:28572324
Draft Genome Sequence of Streptomyces sp. B9173, a Producer of Indole Diketopiperazine Maremycins. PMID:28572321
Complete Genome Sequencing of Streptomyces sp. Strain MOE7, Which Produces an Extracellular Polysaccharide with Antioxidant and Antitumor Activities. PMID:28572320
A Metagenomic Approach to Cyanobacterial Genomics. PMID:28536564
Draft Genome Sequences of Five Enterococcus Species Isolated from the Gut of Patients with Suspected Clostridium difficile Infection. PMID:28522725
Draft Genome Sequence of the Luminescent Strain Vibrio campbellii LB102, Isolated from a Black Tiger Shrimp (Penaeus monodon) Broodstock Rearing System. PMID:28522707
Draft Genome Sequences of Three Bacterial Isolates from Cultures of the Marine Diatom Thalassiosira rotula. PMID:28473397
Draft Whole-Genome Sequences of Multidrug-Resistant Escherichia coli O157:H7 Strains Isolated from Feedlot Cattle Treated with Growth-Promoting Agents. PMID:28473385
Complete Genome Sequence of Lactobacillus curvatus Strain WiKim38 Isolated from Kimchi. PMID:28473381
A Robust Framework for Microbial Archaeology. PMID:28460196
Complete Genome Sequence of Bordetella pertussis Pelita III, the Production Strain for an Indonesian Whole-Cell Pertussis Vaccine. PMID:28450511
Complete Genome Sequence of Lactobacillus casei LC5, a Potential Probiotics for Atopic Dermatitis. PMID:28439274
Complete genome sequence of Kosakonia oryzae type strain Ola 51T. PMID:28428833
Draft Genome Sequences of Three Listeria monocytogenes Isolates from Foods in China. PMID:28428307
Within-Host Evolution of Burkholderia pseudomallei during Chronic Infection of Seven Australasian Cystic Fibrosis Patients. PMID:28400528
Draft genome sequence of Bacillus oleronius DSM 9356 isolated from the termite Reticulitermes santonensis. PMID:28386530
Draft Genome Sequences of Six Strains of Streptococcus pneumoniae from Serotypes 5, 6A, 6B, 18C, 19A, and 23F. PMID:28385844
Genome Sequences of Two Naphthalene-Degrading Strains of Pseudomonas balearica, Isolated from Polluted Marine Sediment and from an Oil Refinery Site. PMID:28385841
Draft Genome Sequence of Microbacterium oleivorans Strain A9, a Bacterium Isolated from Chernobyl Radionuclide-Contaminated Soil. PMID:28385837
Genomic and transcriptomic landscape of Escherichia coli BL21(DE3). PMID:28379538
Comparative Genomics Analysis of a New Exiguobacterium Strain from Salar de Huasco Reveals a Repertoire of Stress-Related Genes and Arsenic Resistance. PMID:28377753
Complete genome sequencing and antibiotics biosynthesis pathways analysis of Streptomyces lydicus 103. PMID:28317865
TfoI produced by Tepidimonas fonticaldi PL17, a moderate thermophilic bacterium, is an isoschizomer of MseI. PMID:28315976
Draft Genome Sequence of Bacillus licheniformis VSD4, a Diesel Fuel-Degrading and Plant Growth-Promoting Phyllospheric Bacterium. PMID:28302775
Comparative Genome Analyses of Vibrio anguillarum Strains Reveal a Link with Pathogenicity Traits. PMID:28293680
Draft Genome Sequence of Lactobacillus reuteri 121, a Source of α-Glucan and β-Fructan Exopolysaccharides. PMID:28280024
In silico Comparison of 19 Porphyromonas gingivalis Strains in Genomics, Phylogenetics, Phylogenomics and Functional Genomics. PMID:28261563
Draft Genome Sequences of Nine Cyanobacterial Strains from Diverse Habitats. PMID:28254973
Draft Genome Sequence of Rhodococcus erythropolis VSD3, a Diesel Fuel-Degrading and Plant Growth-Promoting Bacterium Isolated from Hedera helix Leaves. PMID:28232452
Complete Genome Sequence of Mycoplasma pullorum Isolated from Domestic Chickens. PMID:28232441
High-Quality Genome Sequence of Xanthomonas axonopodis pv. glycines Strain 12609 Isolated in Taiwan. PMID:28232426
-Genomic data mining of the marine actinobacteria Streptomyces sp. H-KF8 unveils insights into multi-stress related genes and metabolic pathways involved in antimicrobial synthesis. PMID:28229018
Metagenome-Assembled Draft Genome Sequence of a Novel Microbial Stenotrophomonas maltophilia Strain Isolated from Caenorhabditisremanei Tissue. PMID:28209833
Making life difficult for Clostridium difficile: augmenting the pathogen's metabolic model with transcriptomic and codon usage data for better therapeutic target characterization. PMID:28209199
Not all predicted CRISPR-Cas systems are equal: isolated cas genes and classes of CRISPR like elements. PMID:28166719
Draft genome sequence of Lactobacillus plantarum strains E2C2 and E2C5 isolated from human stool culture. PMID:28163824
Toward a Complete North American Borrelia miyamotoi Genome. PMID:28153903
Whole-Genome Sequence and Annotation of Salmonella enterica subsp. enterica Serovar Enteritidis Phage Type 8 Strain EN1660. PMID:28126943
Genome Report: Identification and Validation of Antigenic Proteins from Pajaroellobacter abortibovis Using De Novo Genome Sequence Assembly and Reverse Vaccinology. PMID:28040777
Whole Genome Sequence and Comparative Genomics of the Novel Lyme Borreliosis Causing Pathogen, Borrelia mayonii. PMID:28030649
Complete Genome Sequence of the Industrial Bacterium Ketogulonicigenium vulgare SKV. PMID:28007860
Complete Genome Sequence of Community-Acquired Klebsiella pneumoniae KP36, a Strain Isolated from a Patient with an Upper Urinary Tract Infection. PMID:27979951
The antiSMASH database, a comprehensive database of microbial secondary metabolite biosynthetic gene clusters. PMID:27924032
MicroScope in 2017: an expanding and evolving integrated resource for community expertise of microbial genomes. PMID:27899624
The Draft Genome Sequence of Actinokineospora bangkokensis 44EHWT Reveals the Biosynthetic Pathway of the Antifungal Thailandin Compounds with Unusual Butylmalonyl-CoA Extender Units. PMID:27886115
First Report on the Draft Genome Sequences of Corynebacterium diphtheriae Isolates from India. PMID:27881543
Complete Genome Sequence of Aggregatibacter actinomycetemcomitans Strain IDH781. PMID:27834722
Draft Genome Sequence of Mycobacterium bovis Strain D-10-02315 Isolated from Wild Boar. PMID:27834714
Complete Genome Sequence of Lactobacillus rhamnosus Strain LRB. PMID:27811096
Genome Sequence of Clostridium paraputrificum 373-A1 Isolated in Chile from a Patient Infected with Clostridium difficile. PMID:27811092
Draft Genome Sequence of Elizabethkingia anophelis Strain EM361-97 Isolated from the Blood of a Cancer Patient. PMID:27789647
Complete Genome Sequence of Pigmentation-Negative Yersinia pestis Strain Cadman. PMID:27789646
Reference sequence (RefSeq) database at NCBI: current status, taxonomic expansion, and functional annotation PubMed citations: 1726.

1726 articles citing: Reference sequence (RefSeq) database at NCBI: current status, taxonomic expansion, and functional annotation

Emu: species-level microbial community profiling of full-length 16S rRNA Oxford Nanopore sequencing data. PMID:35773532
Microbial ecology of biofiltration used for producing safe drinking water. PMID:35771243
The impact of rare germline variants on human somatic mutation processes. PMID:35764656
A comprehensive genomic reporting structure for communicating all clinically significant primary and secondary findings. PMID:35739291
The chromatin remodeller ATRX facilitates diverse nuclear processes, in a stochastic manner, in both heterochromatin and euchromatin. PMID:35710802
Improvement of eukaryotic protein predictions from soil metagenomes. PMID:35710557
The source of the Black Death in fourteenth-century central Eurasia. PMID:35705810
Microbial isolates with Anti-Pseudogymnoascus destructans activities from Western Canadian bat wings. PMID:35701553
The human "contaminome": bacterial, viral, and computational contamination in whole genome sequences from 1000 families. PMID:35701436
Large-scale genomic analyses reveal insights into pleiotropy across circulatory system diseases and nervous system disorders. PMID:35701404
Larix species range dynamics in Siberia since the Last Glacial captured from sedimentary ancient DNA. PMID:35681049
Combining SNP-to-gene linking strategies to identify disease genes and assess disease omnigenicity. PMID:35668300
Expressions of resistome is linked to the key functions and stability of active rumen microbiome. PMID:35659381
Ecogenomics sheds light on diverse lifestyle strategies in freshwater CPR. PMID:35659305
Flexible protein database based on amino acid k-mers. PMID:35650262
Time-series transcriptomic screening of factors contributing to the cross-tolerance to UV radiation and anhydrobiosis in tardigrades. PMID:35643424
Dosage-sensitive miRNAs trigger modulation of gene expression during genomic imbalance in maize. PMID:35641525
Novel Bioinformatics Strategies Driving Dynamic Metaproteomic Studies. PMID:35612752
Multiaspect Examinations of Possible Alternative Mappings of Identified Variant Peptides: A Case Study on the HEK293 Cell Line. PMID:35601313
Reactive Astrocytes Derived From Human Induced Pluripotent Stem Cells Suppress Oligodendrocyte Precursor Cell Differentiation. PMID:35600072
Genome-wide sequencing and the clinical diagnosis of genetic disease: The CAUSES study. PMID:35599849
TCMPG: an integrative database for traditional Chinese medicine plant genomes. PMID:35591924
AMR-meta: a k-mer and metafeature approach to classify antimicrobial resistance from high-throughput short-read metagenomics data. PMID:35583675
Multiple long-range host shifts of major Wolbachia supergroups infecting arthropods. PMID:35581290
Reference Genome Assembly of the Big Berry Manzanita (Arctostaphylos glauca). PMID:35575079
Gardnerella vaginalis in Recurrent Urinary Tract Infection Is Associated with Dysbiosis of the Bladder Microbiome. PMID:35566419
Allele-specific aberration of imprinted domain chromosome architecture associates with large offspring syndrome. PMID:35542046
Unambiguous identification of fungi: where do we stand and how accurate and precise is fungal DNA barcoding? PMID:35534839
Choice of 16S Ribosomal RNA Primers Impacts Male Urinary Microbiota Profiling. PMID:35531325
Novel Viral DNA Polymerases From Metagenomes Suggest Genomic Sources of Strand-Displacing Biochemical Phenotypes. PMID:35531281
CHD Chromatin Remodeling Protein Diversification Yields Novel Clades and Domains Absent in Classic Model Organisms. PMID:35524943
Revealing potential functions of hypothetical proteins induced by genistein in the symbiosis island of Bradyrhizobium japonicum commercial strain SEMIA 5079 (= CPAC 15). PMID:35513812
SPIN enables high throughput species identification of archaeological bone by proteomics. PMID:35513387
A unique gut microbiota signature in pulmonary arterial hypertension: A pilot study. PMID:35506110
Open label safety and efficacy pilot to study mitigation of equine recurrent uveitis through topical suppressor of cytokine signaling-1 mimetic peptide. PMID:35505065
virMine 2.0: Identifying Viral Sequences in Microbial Communities. PMID:35499341
UPIMAPI, reCOGnizer and KEGGCharter: Bioinformatics tools for functional annotation and visualization of (meta)-omics datasets. PMID:35495109
More Positive or More Negative? Metagenomic Analysis Reveals Roles of Virome in Human Disease-Related Gut Microbiome. PMID:35493727
Metagenome-assembled genomes of phytoplankton microbiomes from the Arctic and Atlantic Oceans. PMID:35484634
Low Complexity Regions in Mammalian Proteins are Associated with Low Protein Abundance and High Transcript Abundance. PMID:35482425
Comprehensive human amniotic fluid metagenomics supports the sterile womb hypothesis. PMID:35477737
Probe design for simultaneous, targeted capture of diverse metagenomic targets. PMID:35474894
Micro-dissection and integration of long and short reads to create a robust catalog of kidney compartment-specific isoforms. PMID:35468141
A novel structure-based approach for identification of vertebrate susceptibility to SARS-CoV-2: Implications for future surveillance programmes. PMID:35460633
Inherited and De Novo Variation in Lithuanian Genomes: Introduction to the Analysis of the Generational Shift. PMID:35456375
Isolation and Characterisation of Bacteriophage Selective for Key Acinetobacter baumannii Capsule Chemotypes. PMID:35455440
Alternative Splicing of Neuropeptide Prohormone and Receptor Genes Associated with Pain Sensitivity Was Detected with Zero-Inflated Models. PMID:35453627
In vivo temporal resolution of acute promyelocytic leukemia progression reveals a role of Klf4 in suppressing early leukemic transformation. PMID:35450883
Epidemiology of Klebsiella michiganensis Carrying Multidrug-Resistant IncHI5 Plasmids in the Southeast Coastal Area of China. PMID:35444429
The Human Pangenome Project: a global resource to map genomic diversity. PMID:35444317
Evaluating ribosomal frameshifting in CCR5 mRNA decoding. PMID:35444316
Tandem Exon Duplications Expanding the Alternative Splicing Repertoire. PMID:35441045
The Rad9-Rad1-Hus1 DNA repair clamp is found in Microsporidia. PMID:35439302
Nuclear and cytoplasmic poly(A) binding proteins (PABPs) favor distinct transcripts and isoforms. PMID:35438785
A conditional gene-based association framework integrating isoform-level eQTL data reveals new susceptibility genes for schizophrenia. PMID:35412455
Inferring Species Compositions of Complex Fungal Communities from Long- and Short-Read Sequence Data. PMID:35404122
Extensive Variation in Gene Expression is Revealed in 13 Fertility-Related Genes Using RNA-Seq, ISO-Seq, and CAGE-Seq From Brahman Cattle. PMID:35401673
RGMQL: scalable and interoperable computing of heterogeneous omics big data and metadata in R/Bioconductor. PMID:35392801
A joint NCBI and EMBL-EBI transcript set for clinical genomics and research. PMID:35388217
Unsupervised Mining of HLA-I Peptidomes Reveals New Binding Motifs and Potential False Positives in the Community Database. PMID:35386688
A high-quality assembly reveals genomic characteristics, phylogenetic status, and causal genes for leucism plumage of Indian peafowl. PMID:35383847
acorde unravels functionally interpretable networks of isoform co-usage from single cell data. PMID:35383181
PlasmidHostFinder: Prediction of Plasmid Hosts Using Random Forest. PMID:35382558
Inter-species geographic signatures for tracing horizontal gene transfer and long-term persistence of carbapenem resistance. PMID:35379360
miR160 Interacts in vivo With Pinus pinaster AUXIN RESPONSE FACTOR 18 Target Site and Negatively Regulates Its Expression During Conifer Somatic Embryo Development. PMID:35371172
Phylogeny-Aware Analysis of Metagenome Community Ecology Based on Matched Reference Genomes while Bypassing Taxonomy. PMID:35369727
A multi-omics approach to elucidate the mechanisms of action of a dietary muramidase administered to broiler chickens. PMID:35365750
Next-generation sequencing: insights to advance clinical investigations of the microbiome. PMID:35362479
Whole-genome sequencing reveals that variants in the Interleukin 18 Receptor Accessory Protein 3'UTR protect against ALS. PMID:35361972
Comparative genomic analysis of vertebrate mitochondrial reveals a differential of rearrangements rate between taxonomic class. PMID:35361853
Machine Learning and Deep Learning Applications in Metagenomic Taxonomy and Functional Annotation. PMID:35359727
Benchmarking metagenomics classifiers on ancient viral DNA: a simulation study. PMID:35356467
Impact of gene annotation choice on the quantification of RNA-seq data. PMID:35354358
A Chromosome-Scale Hybrid Genome Assembly of the Extinct Tasmanian Tiger (Thylacinus cynocephalus). PMID:35349647
IncFIB-4.1 and IncFIB-4.2 Single-Replicon Plasmids: Small Backbones with Large Accessory Regions. PMID:35345473
Performance of Five Metagenomic Classifiers for Virus Pathogen Detection Using Respiratory Samples from a Clinical Cohort. PMID:35335664
CRISPR-Cas Systems in Gut Microbiome of Children with Autism Spectrum Disorders. PMID:35330117
Fragments of rDNA Genes Scattered over the Human Genome Are Targets of Small RNAs. PMID:35328433
Identification of New Vulnerabilities in Conjunctival Melanoma Using Image-Based High Content Drug Screening. PMID:35326726
A Novel In Planta Enrichment Method Employing Fusarium graminearum-Infected Wheat Spikes to Select for Competitive Biocontrol Bacteria. PMID:35324719
Deciphering Active Prophages from Metagenomes. PMID:35323045
Clostridioides difficile Infection Dysregulates Brain Dopamine Metabolism. PMID:35323033
Reconstruction of a generic genome-scale metabolic network for chicken: Investigating network connectivity and finding potential biomarkers. PMID:35316277
Distinct Expansion of Group II Introns During Evolution of Prokaryotes and Possible Factors Involved in Its Regulation. PMID:35295308
Genome-Wide Identification of Novel sRNAs in Streptococcus mutans. PMID:35285723
Chromosome-level genome assembly, annotation, and phylogenomics of the gooseneck barnacle Pollicipes pollicipes. PMID:35277961
Genome-wide association study reveals candidate genes relevant to body weight in female turkeys (Meleagris gallopavo). PMID:35271651
Pollen Monitoring by Optical Microscopy and DNA Metabarcoding: Comparative Study and New Insights. PMID:35270312
Dysregulation of Human Somatic piRNA Expression in Parkinson's Disease Subtypes and Stages. PMID:35269612
Species Identification in Plant-Associated Prokaryotes and Fungi Using DNA. PMID:35265781
The effects of the Green-Mediterranean diet on cardiometabolic health are linked to gut microbiome modifications: a randomized controlled trial. PMID:35264213
VIM-encoding IncpSTY plasmids and chromosome-borne integrative and mobilizable elements (IMEs) and integrative and conjugative elements (ICEs) in Pseudomonas. PMID:35264204
Brain delivering RNA-based therapeutic strategies by targeting mTOR pathway for axon regeneration after central nervous system injury. PMID:35259823
Immunomodulatory potential of in vivo natural killer T (NKT) activation by NKTT320 in Mauritian-origin cynomolgus macaques. PMID:35243248
The Role of Intestinal Microbiota in Regulating the Metabolism of Bile Acids Is Conserved Across Vertebrates. PMID:35242120
Cysteine dependence of Lactobacillus iners is a potential therapeutic target for vaginal microbiota modulation. PMID:35241796
Role of mobile genetic elements in the global dissemination of the carbapenem resistance gene blaNDM. PMID:35241674
CLC Anion/Proton Exchangers Regulate Secretory Vesicle Filling and Granule Exocytosis in Chromaffin Cells. PMID:35241492
Secondary structural ensembles of the SARS-CoV-2 RNA genome in infected cells. PMID:35236847
The ER membrane complex (EMC) can functionally replace the Oxa1 insertase in mitochondria. PMID:35231030
Refining a Protocol for Faecal Microbiota Engraftment in Animal Models After Successful Antibiotic-Induced Gut Decontamination. PMID:35223890
In-Silico Detection of Oral Prokaryotic Species With Highly Similar 16S rRNA Sequence Segments Using Different Primer Pairs. PMID:35223533
Fast and Easy Nanopore Sequencing Workflow for Rapid Genetic Testing of Familial Hypercholesterolemia. PMID:35222550
Endogenous CRISPR-Cas Systems in Group I Clostridium botulinum and Clostridium sporogenes Do Not Directly Target the Botulinum Neurotoxin Gene Cluster. PMID:35222299
Genome-wide association studies dissect the genetic architecture of seed shape and size in common bean. PMID:35218340
PRDM9 losses in vertebrates are coupled to those of paralogs ZCWPW1 and ZCWPW2. PMID:35217607
Novel nitrite reductase domain structure suggests a chimeric denitrification repertoire in the phylum Chloroflexi. PMID:35212484
Identification and Validation of Ikaros (IKZF1) as a Cancer Driver Gene for Marek's Disease Virus-Induced Lymphomas. PMID:35208856
Infection of Human Retinal Pigment Epithelial Cells with Dengue Virus Strains Isolated during Outbreaks in Singapore. PMID:35208767
Comparative Genomics of Clostridium baratii Reveals Strain-Level Diversity in Toxin Abundance. PMID:35208668
The Role of VHL in the Development of von Hippel-Lindau Disease and Erythrocytosis. PMID:35205407
A 16S Next Generation Sequencing Based Molecular and Bioinformatics Pipeline to Identify Processed Meat Products Contamination and Mislabelling. PMID:35203124
Spotlight on alternative frame coding: Two long overlapping genes in Pseudomonas aeruginosa are translated and under purifying selection. PMID:35198897
Evidence of episodic positive selection in Corynebacterium diphtheriae complex of species and its implementations in identification of drug and vaccine targets. PMID:35190783
Contamination detection in genomic data: more is not enough. PMID:35189924
A comparison of experimental assays and analytical methods for genome-wide identification of active enhancers. PMID:35177836
Robust Transcriptional Profiling and Identification of Differentially Expressed Genes With Low Input RNA Sequencing of Adult Hippocampal Neural Stem and Progenitor Populations. PMID:35173579
The genome of the forest insect pest Pissodes strobi reveals genome expansion and evidence of a Wolbachia endosymbiont. PMID:35171977
Analysis of Ribosome Profiling Data. PMID:35171478
Isolation and Characterization of Novel Lytic Phages Infecting Multidrug-Resistant Escherichia coli. PMID:35171030
Comparison of Magnoliaceae Plastomes: Adding Neotropical Magnolia to the Discussion. PMID:35161429
Comparative Flower Transcriptome Network Analysis Reveals DEGs Involved in Chickpea Reproductive Success during Salinity. PMID:35161414
PABP prevents the untimely decay of select mRNA populations in human cells. PMID:35156721
A long-read amplicon approach to scaling up the metabarcoding of lichen herbarium specimens. PMID:35153530
Bacteroides thetaiotaomicron uses a widespread extracellular DNase to promote bile-dependent biofilm formation. PMID:35145026
Computational analysis and prediction of PE_PGRS proteins using machine learning. PMID:35140886
Comparative Transcriptome Analysis in Taraxacum koksaghyz to Identify Genes that Determine Root Volume and Root Length. PMID:35140739
A platform for oncogenomic reporting and interpretation. PMID:35140225
In silico prediction of HIV-1-host molecular interactions and their directionality. PMID:35134057
Single-cell genomics for resolution of conserved bacterial genes and mobile genetic elements of the human intestinal microbiota using flow cytometry. PMID:35130125
Saliva RNA Biomarkers of Gastrointestinal Dysfunction in Children With Autism and Neurodevelopmental Disorders: Potential Implications for Precision Medicine. PMID:35126215
Mouse genomic and cellular annotations. PMID:35124726
Analysis of missense variants in the human genome reveals widespread gene-specific clustering and improves prediction of pathogenicity. PMID:35120630
An investigation to identify tumor microenvironment-related genes of prognostic value in lung squamous cell carcinoma based on The Cancer Genome Atlas. PMID:35116510
Noncoding genetic variation in GATA3 increases acute lymphoblastic leukemia risk through local and global changes in chromatin conformation. PMID:35115686
Merging NMR Data and Computation Facilitates Data-Centered Research. PMID:35111815
Frequencies and characteristics of genome-wide recombination in Streptococcus agalactiae, Streptococcus pyogenes, and Streptococcus suis. PMID:35087075
An evaluation of pipelines for DNA variant detection can guide a reanalysis protocol to increase the diagnostic ratio of genetic diseases. PMID:35087072
Large-scale characterization of the macrolide resistome reveals high diversity and several new pathogen-associated genes. PMID:35084301
Phage Annotation Guide: Guidelines for Assembly and High-Quality Annotation. PMID:35083439
GWAS identifies candidate susceptibility loci and microRNA biomarkers for acute encephalopathy with biphasic seizures and late reduced diffusion. PMID:35079012
Comparative assessment of genes driving cancer and somatic evolution in non-cancer tissues: an update of the Network of Cancer Genes (NCG) resource. PMID:35078504
The estimates of effective population size based on linkage disequilibrium are virtually unaffected by natural selection. PMID:35077457
A simple guide to de novo transcriptome assembly and annotation. PMID:35076693
CANT-HYD: A Curated Database of Phylogeny-Derived Hidden Markov Models for Annotation of Marker Genes Involved in Hydrocarbon Degradation. PMID:35069469
Clin.iobio: A Collaborative Diagnostic Workflow to Enable Team-Based Precision Genomics. PMID:35055388
Methylphosphonate Degradation and Salt-Tolerance Genes of Two Novel Halophilic Marivita Metagenome-Assembled Genomes from Unrestored Solar Salterns. PMID:35052488
Development of Epigenetic Clocks for Key Ruminant Species. PMID:35052436
Prediction and analysis of functional RNA structures within the integrative genomics viewer. PMID:35047817
Darwinian genomics and diversity in the tree of life. PMID:35042807
53BP1-ACLY-SLBP-coordinated activation of replication-dependent histone biogenesis maintains genomic integrity. PMID:35037047
Loss of full-length pumilio 1 abrogates miRNA-221-induced gene p27 silencing-mediated cell proliferation in the heart. PMID:35036057
Horizontal transfer and evolution of wall teichoic acid gene cassettes in Bacillus subtilis. PMID:35035886
Pregnancy exposure to phthalates and DNA methylation in male placenta - An epigenome-wide association study. PMID:35032864
MGcount: a total RNA-seq quantification tool to address multi-mapping and multi-overlapping alignments ambiguity in non-coding transcripts. PMID:35030988
The amniotic fluid proteome changes with gestational age in normal pregnancy: a cross-sectional study. PMID:35022423
Secondary loss of miR-3607 reduced cortical progenitor amplification during rodent evolution. PMID:35020425
A scaffold-level genome assembly of a minute pirate bug, Orius laevigatus (Hemiptera: Anthocoridae), and a comparative analysis of insecticide resistance-related gene families with hemipteran crop pests. PMID:35012450
Mycobacterium chelonae Infection Identified by Metagenomic Next-Generation Sequencing as the Probable Cause of Acute Contained Rupture of a Biological Composite Graft-A Case Report. PMID:35008807
Unveiling a Ghost Proteome in the Glioblastoma Non-Coding RNAs. PMID:35004666
Dual Host and Pathogen RNA-Seq Analysis Unravels Chicken Genes Potentially Involved in Resistance to Highly Pathogenic Avian Influenza Virus Infection. PMID:35003125
The metabolic core of the prokaryotic community from deep-sea sediments of the southern Gulf of Mexico shows different functional signatures between the continental slope and abyssal plain. PMID:34993013
The Human Proteoform Atlas: a FAIR community resource for experimentally derived proteoforms. PMID:34986596
Development of a Genomics-Based Approach To Identify Putative Hypervirulent Nontyphoidal Salmonella Isolates: Salmonella enterica Serovar Saintpaul as a Model. PMID:34986312
The Mouse Gastrointestinal Bacteria Catalogue enables translation between the mouse and human gut microbiotas via functional mapping. PMID:34971560
Caspase-8 Variant G Regulates Rheumatoid Arthritis Fibroblast-Like Synoviocyte Aggressive Behavior. PMID:34963199
Cold Acclimation in Brachypodium Is Accompanied by Changes in Above-Ground Bacterial and Fungal Communities. PMID:34961295
LABRADOR-A Computational Workflow for Virus Detection in High-Throughput Sequencing Data. PMID:34960810
Identification of a Novel Geminivirus in Fraxinus rhynchophylla in Korea. PMID:34960653
Taxonomy and Functional Diversity in the Fecal Microbiome of Beef Cattle Reared in Brazilian Traditional and Semi-Intensive Production Systems. PMID:34956130
Whole-Genome Sequencing-Based Antimicrobial Resistance Characterization and Phylogenomic Investigation of 19 Multidrug-Resistant and Extended-Spectrum Beta-Lactamase-Positive Escherichia coli Strains Collected From Hospital Patients in Benin in 2019. PMID:34956117
Prochlorococcus have low global mutation rate and small effective population size. PMID:34949817
Brassinazole Resistant 1 Activity Is Organ-Specific and Genotype-Dependent in Barley Seedlings. PMID:34948366
Evolutionary Characterization of the Short Protein SPAAR. PMID:34946813
NanoLuc luciferase as a quantitative yeast two-hybrid reporter. PMID:34940882
Common Features in lncRNA Annotation and Classification: A Survey. PMID:34940758
NGS read classification using AI. PMID:34936673
Class similarity network for coding and long non-coding RNA classification. PMID:34930120
Net Charges of the Ribosomal Proteins of the S10 and spc Clusters of Halophiles Are Inversely Related to the Degree of Halotolerance. PMID:34908470
Genome analysis provides insight into hyper-virulence of Streptococcus suis LSM178, a human strain with a novel sequence type 1005. PMID:34907269
Long-term gut microbiome dynamics in Drosophila melanogaster reveal environment-specific associations between bacterial taxa at the family level. PMID:34905708
A reference-quality, fully annotated genome from a Puerto Rican individual. PMID:34897437
Microbial co-occurrence complicates associations of gut microbiome with US immigration, dietary intake and obesity. PMID:34893089
Constructing gene regulatory networks using epigenetic data. PMID:34887443
The MAPK Signaling Pathway Presents Novel Molecular Targets for Therapeutic Intervention after Traumatic Spinal Cord Injury: A Comparative Cross-Species Transcriptional Analysis. PMID:34884738
Malaria protection due to sickle haemoglobin depends on parasite genotype. PMID:34883497
Functional organization of the maternal and paternal human 4D Nucleome. PMID:34877507
RefSeq Functional Elements as experimentally assayed nongenic reference standards and functional interactions in human and mouse. PMID:34876495
PAAR Proteins Are Versatile Clips That Enrich the Antimicrobial Weapon Arsenals of Prokaryotes. PMID:34874775
Streptococcus pneumoniae: a Plethora of Temperate Bacteriophages With a Role in Host Genome Rearrangement. PMID:34869076
Genetic Diversity and Characteristics of bla NDM-Positive Plasmids in Escherichia coli. PMID:34867846
ECTyper: in silico Escherichia coli serotype and species prediction from raw and assembled whole-genome sequence data. PMID:34860150
Genome-wide analysis of mitochondrial DNA copy number reveals loci implicated in nucleotide metabolism, platelet activation, and megakaryocyte proliferation. PMID:34859289
Next-Generation Sequencing to Detect Pathogens in Pediatric Febrile Neutropenia: A Single-Center Retrospective Study of 112 Cases. PMID:34859110
GenBank. PMID:34850943
miRTarBase update 2022: an informative resource for experimentally validated miRNA-target interactions. PMID:34850920
The Sequence Read Archive: a decade more of explosive growth. PMID:34850094
A k-mer based approach for classifying viruses without taxonomy identifies viral associations in human autism and plant microbiomes. PMID:34849195
recount3: summaries and queries for large-scale RNA-seq expression and splicing. PMID:34844637
Combining dense and sparse labeling in optical DNA mapping. PMID:34843574
Gene sharing among plasmids and chromosomes reveals barriers for antibiotic resistance gene transfer. PMID:34839702
Gcorn fungi: A Web Tool for Detecting Biases between Gene Evolution and Speciation in Fungi. PMID:34829248
Comparing whole-genome shotgun sequencing and DNA metabarcoding approaches for species identification and quantification of pollen species mixtures. PMID:34824813
Persistence and plasticity in bacterial gene regulation. PMID:34824476
Metagenomics of Antarctic Marine Sediment Reveals Potential for Diverse Chemolithoautotrophy. PMID:34817234
Induced cell-autonomous neutropenia systemically perturbs hematopoiesis in Cebpa enhancer-null mice. PMID:34814180
Towards Real-Time and Affordable Strain-Level Metagenomics-Based Foodborne Outbreak Investigations Using Oxford Nanopore Sequencing Technologies. PMID:34803953
A standardized gnotobiotic mouse model harboring a minimal 15-member mouse gut microbiota recapitulates SOPF/SPF phenotypes. PMID:34795236
Evaluating the potential for respiratory metagenomics to improve treatment of secondary infection and detection of nosocomial transmission on expanded COVID-19 intensive care units. PMID:34784976
Virtual screening and in vitro validation identifies the first reported inhibitors of Salmonella enterica HPPK. PMID:34778775
Culture-Independent Exploration of the Hypersaline Ecosystem Indicates the Environment-Specific Microbiome Evolution. PMID:34777269
Comprehensive analyses of bioinformatics applications in the fight against COVID-19 pandemic. PMID:34773807
LncRNAs in domesticated animals: from dog to livestock species. PMID:34773482
Performance of 16S Metagenomic Profiling in Formalin-Fixed Paraffin-Embedded versus Fresh-Frozen Colorectal Cancer Tissues. PMID:34771584
Perfect and imperfect views of ultraconserved sequences. PMID:34764456
APPRIS: selecting functionally important isoforms. PMID:34755885
Co-evolution based machine-learning for predicting functional interactions between human genes. PMID:34753957
RESCRIPt: Reproducible sequence taxonomy reference database management. PMID:34748542
Hymenoptera Genome Database: new genomes and annotation datasets for improved go enrichment and orthologue analyses. PMID:34747465
An Ebola, Neisseria and Trypanosoma human protein interaction census reveals a conserved human protein cluster targeted by various human pathogens. PMID:34745452
Contamination in Reference Sequence Databases: Time for Divide-and-Rule Tactics. PMID:34745061
Multiple bacterial virulence factors focused on adherence and biofilm formation associate with outcomes in cirrhosis. PMID:34743650
Evaluation of WGS performance for bacterial pathogen characterization with the Illumina technology optimized for time-critical situations. PMID:34739368
Deep-Learning-Derived Evaluation Metrics Enable Effective Benchmarking of Computational Tools for Phosphopeptide Identification. PMID:34737085
Genotype-Phenotype Correlation of the Childhood-Onset Bethlem Myopathy in the Mediterranean Region of Turkey. PMID:34728949
Amygdala DCX and blood Cdk14 are implicated as cross-species indicators of individual differences in fear, extinction, and resilience to trauma exposure. PMID:34728797
Identification of high-confidence human poly(A) RNA isoform scaffolds using nanopore sequencing. PMID:34728536
Predominant Biphenyl Dioxygenase From Legacy Polychlorinated Biphenyl (PCB)-Contaminated Soil Is a Part of Unusual Gene Cluster and Transforms Flavone and Flavanone. PMID:34721309
The Gillenia trifoliata genome reveals dynamics correlated with growth and reproduction in Rosaceae. PMID:34719690
High-quality reference genome and annotation aids understanding of berry development for evergreen blueberry (Vaccinium darrowii). PMID:34719668
CompoDynamics: a comprehensive database for characterizing sequence composition dynamics. PMID:34718745
VEuPathDB: the eukaryotic pathogen, vector and host bioinformatics resource center. PMID:34718728
MetazExp: a database for gene expression and alternative splicing profiles and their analyses based on 53 615 public RNA-seq samples in 72 metazoan species. PMID:34718719
Proteome-pI 2.0: proteome isoelectric point database update. PMID:34718696
ARTS-DB: a database for antibiotic resistant targets. PMID:34718689
Inner nuclear protein Matrin-3 coordinates cell differentiation by stabilizing chromatin architecture. PMID:34716321
MOSGA 2: Comparative genomics and validation tools. PMID:34712396
AKIRIN2 controls the nuclear import of proteasomes in vertebrates. PMID:34711951
Selection on ancestral genetic variation fuels repeated ecotype formation in bottlenose dolphins. PMID:34705499
The Dynamic Codon Biaser: calculating prokaryotic codon usage biases. PMID:34699346
Distribution of Genes Related to Probiotic Effects Across Lacticaseibacillus rhamnosus Revealed by Population Structure. PMID:34699013
Comparison of PCR versus PCR-Free DNA Library Preparation for Characterising the Human Faecal Virome. PMID:34696523
Identifying Protein Interactomes of Target RNAs Using HyPR-MS. PMID:34694612
A Mutation-Selection Model of Protein Evolution under Persistent Positive Selection. PMID:34694387
MINTIA: a metagenomic INserT integrated assembly and annotation tool. PMID:34692239
Insight Into Ecology, Metabolic Potential, and the Taxonomic Composition of Bacterial Communities in the Periodic Water Pond on King George Island (Antarctica). PMID:34690951
Adaptation and genomic erosion in fragmented Pseudomonas aeruginosa populations in the sinuses of people with cystic fibrosis. PMID:34686349
MINTIE: identifying novel structural and splice variants in transcriptomes using RNA-seq data. PMID:34686194
FTO and PLAG1 Genes Expression and FTO Methylation Predict Changes in Circulating Levels of Adipokines and Gastrointestinal Peptides in Children. PMID:34684585
Orchestrating an Optimized Next-Generation Sequencing-Based Cloud Workflow for Robust Viral Identification during Pandemics. PMID:34681121
Methanogenesis and Salt Tolerance Genes of a Novel Halophilic Methanosarcinaceae Metagenome-Assembled Genome from a Former Solar Saltern. PMID:34681003
A Single Base Insertion in F9 Causing Hemophilia B in a Family of Newfoundland-Parti Standard Poodle Hybrid Dogs. PMID:34680886
Characterization of blaKPC-2-Carrying Plasmid pR31-KPC from a Pseudomonas aeruginosa Strain Isolated in China. PMID:34680814
Shortening Epitopes to Survive: The Case of SARS-CoV-2 Lambda Variant. PMID:34680128
Genome sequencing of the NIES Cyanobacteria collection with a focus on the heterocyst-forming clade. PMID:34677568
Draft genome and description of Waterburya agarophytonicola gen. nov. sp. nov. (Pleurocapsales, Cyanobacteria): a seaweed symbiont. PMID:34674103
Improved detection of disease-associated gut microbes using 16S sequence-based biomarkers. PMID:34666677
Draft genome sequence, annotation and SSR mining data of Oryctes rhinoceros Linn. (Coleoptera: Scarabaeidae), the coconut rhinoceros beetle. PMID:34660857
Impact of human papillomavirus on the tumor microenvironment in oropharyngeal squamous cell carcinoma. PMID:34655477
Rapid incidence estimation from SARS-CoV-2 genomes reveals decreased case detection in Europe during summer 2020. PMID:34650062
Short single-stranded DNAs with putative non-canonical structures comprise a new class of plasma cell-free DNA. PMID:34649537
Investigating the association of CD36 gene polymorphisms (rs1761667 and rs1527483) with T2DM and dyslipidemia: Statistical analysis, machine learning based prediction, and meta-analysis. PMID:34648514
Gene.iobio: an interactive web tool for versatile, clinically-driven variant interrogation and prioritization. PMID:34645894
TIGER: The gene expression regulatory variation landscape of human pancreatic islets. PMID:34644572
The population frequency of human mitochondrial DNA variants is highly dependent upon mutational bias. PMID:34643212
Breed-specific reference sequence optimized mapping accuracy of NGS analyses for pigs. PMID:34641784
Dye-Mediated Photo-Oxidation Biomaterial Fixation: Analysis of Bioinductivity and Mechanical Properties of Bovine Pericardium for Use in Cardiac Surgery. PMID:34639108
The Ensembl COVID-19 resource: ongoing integration of public SARS-CoV-2 data. PMID:34634797
Chip Protein U-Box Domain Truncation Affects Purkinje Neuron Morphology and Leads to Behavioral Changes in Zebrafish. PMID:34630034
Impact of human gene annotations on RNA-seq differential expression analysis. PMID:34625021
TRIP6 functions in brain ciliogenesis. PMID:34620853
Whole genome sequencing identifies loci specifically associated with thoracic aortic wall defects and abdominal aortic aneurysms in patients with European ancestry. PMID:34617051
Chromosome-Scale Genome Assembly and Transcriptome Assembly of Kawakawa Euthynnus affinis; A Tuna-Like Species. PMID:34616435
CyanoOmicsDB: an integrated omics database for functional genomic analysis of cyanobacteria. PMID:34614159
Sequence and structure comparison of ATP synthase F0 subunits 6 and 8 in notothenioid fish. PMID:34613983
Interplay between Bacterial Clones and Plasmids in the Spread of Antibiotic Resistance Genes in the Gut: Lessons from a Temporal Study in Veal Calves. PMID:34613750
Tracing Eukaryotic Ribosome Biogenesis Factors Into the Archaeal Domain Sheds Light on the Evolution of Functional Complexity. PMID:34603269
Neurogenomic divergence during speciation by reinforcement of mating behaviors in chorus frogs (Pseudacris). PMID:34600496
Gene Duplications Are At Least 50 Times Less Frequent than Gene Transfers in Prokaryotic Genomes. PMID:34599337
Productive visualization of high-throughput sequencing data using the SeqCode open portable platform. PMID:34599234
Isolation, characterization, and genome assembly of Barnettozyma botsteinii sp. nov. and novel strains of Kurtzmaniella quercitrusa isolated from the intestinal tract of the termite Macrotermes bellicosus. PMID:34586397
Histone H1 Mutations in Lymphoma: A Link(er) between Chromatin Organization, Developmental Reprogramming, and Cancer. PMID:34580064
Computational Methods to Study Human Transcript Variants in COVID-19 Infected Lung Cancer Cells. PMID:34575842
Metatranscriptomic Analysis of Human Lung Metagenomes from Patients with Lung Cancer. PMID:34573440
Novel Approach Combining Transcriptional and Evolutionary Signatures to Identify New Multiciliation Genes. PMID:34573434
Polymerase θ Coordinates Multiple Intrinsic Enzymatic Activities during DNA Repair. PMID:34573292
Potential Therapeutic Effect of Micrornas in Extracellular Vesicles from Mesenchymal Stem Cells against SARS-CoV-2. PMID:34572043
Switching an active site helix in dihydrofolate reductase reveals limits to subdomain modularity. PMID:34571014
PANNZER-A practical tool for protein function prediction. PMID:34562305
Effect of food source availability in the salivary gland transcriptome of the unique burying beetle Nicrophorus pustulatus (Coleoptera: Silphidae). PMID:34555059
OncoSplicing: an updated database for clinically relevant alternative splicing in 33 human cancers. PMID:34554251
Integrated Multi-omics, Virtual Screening and Molecular Docking Analysis of Methicillin-Resistant Staphylococcus aureus USA300 for the Identification of Potential Therapeutic Targets: An In-Silico Approach. PMID:34548853
Microbial river-to-sea continuum: gradients in benthic and planktonic diversity, osmoregulation and nutrient cycling. PMID:34544488
The Pseudoalteromonas multipartite genome: distribution and expression of pangene categories, and a hypothesis for the origin and evolution of the chromid. PMID:34544144
Proteomic Tools for the Analysis of Cytoskeleton Proteins. PMID:34542864
Finding functional associations between prokaryotic virus orthologous groups: a proof of concept. PMID:34525942
DIMPL: a bioinformatics pipeline for the discovery of structured noncoding RNA motifs in bacteria. PMID:34524415
DNA Repair in Staphylococcus aureus. PMID:34523959
Pregnancy exposure to synthetic phenols and placental DNA methylation - An epigenome-wide association study in male infants from the EDEN cohort. PMID:34523531
Identification of Genes Encoding Antimicrobial Proteins in Langerhans Cells. PMID:34512625
Identification and Characterization of Antimicrobial Peptides From Butterflies: An Integrated Bioinformatics and Experimental Study. PMID:34512599
Mammary-specific expression of Trim24 establishes a mouse model of human metaplastic breast cancer. PMID:34508101
Phylogenetic analyses, protein modeling and active site prediction of two pathogenesis related (PR2 and PR3) genes from bread wheat. PMID:34506613
Microbial Plankton Community Structure and Function Responses to Vitamin B12 and B1 Amendments in an Upwelling System. PMID:34495690
A genome-wide association study with 1,126,563 individuals identifies new risk loci for Alzheimer's disease. PMID:34493870
Interpretable, Scalable, and Transferrable Functional Projection of Large-Scale Transcriptome Data Using Constrained Matrix Decomposition. PMID:34490045
CircRNF111 Protects Against Insulin Resistance and Lipid Deposition via Regulating miR-143-3p/IGF2R Axis in Metabolic Syndrome. PMID:34485272
Differential contribution to gene expression prediction of histone modifications at enhancers or promoters. PMID:34473698
Rates of contributory de novo mutation in high and low-risk autism families. PMID:34471188
Loss of SNORA73 reprograms cellular metabolism and protects against steatohepatitis. PMID:34471131
Viral Characteristics of the Warm Atlantic and Cold Arctic Water Masses in the Nordic Seas. PMID:34469192
Metagenomic analysis of MWWTP effluent treated via solar photo-Fenton at neutral pH: Effects upon microbial community, priority pathogens, and antibiotic resistance genes. PMID:34467925
Molecular and functional profiling identifies therapeutically targetable vulnerabilities in plasmablastic lymphoma. PMID:34465776
Horizontal transfer and subsequent explosive expansion of a DNA transposon in sea kraits (Laticauda). PMID:34464541
The expression of delta opioid receptor mRNA in adult male zebra finches (Taenopygia guttata). PMID:34464410
Evidence for and localization of proposed causative variants in cattle and pig genomes. PMID:34461824
Human reference gut microbiome catalog including newly assembled genomes from under-represented Asian metagenomes. PMID:34446072
Advances in Computational Methodologies for Classification and Sub-Cellular Locality Prediction of Non-Coding RNAs. PMID:34445436
Investigation of LINC00493/SMIM26 Gene Suggests Its Dual Functioning at mRNA and Protein Level. PMID:34445188
Distribution of Denitrification among Haloarchaea: A Comprehensive Study. PMID:34442748
An Update on Trichoderma Mitogenomes: Complete De Novo Mitochondrial Genome of the Fungal Biocontrol Agent Trichoderma harzianum (Hypocreales, Sordariomycetes), an Ex-Neotype Strain CBS 226.95, and Tracing the Evolutionary Divergences of Mitogenomes in Trichoderma. PMID:34442643
Biomolecule and Bioentity Interaction Databases in Systems Biology: A Comprehensive Review. PMID:34439912
Seasonal Variability of the Airborne Eukaryotic Community Structure at a Coastal Site of the Central Mediterranean. PMID:34437389
The value of primary transcripts to the clinical and non-clinical genomics community: Survey results and roadmap for improvements. PMID:34435752
A body map of somatic mutagenesis in morphologically normal human tissues. PMID:34433965
Common and unique strategies of myoglobin evolution for deep-sea adaptation of diving mammals. PMID:34430810
The landscape of alternative polyadenylation in single cells of the developing mouse embryo. PMID:34429411
Microbiome Structure and Function in Woodchip Bioreactors for Nitrate Removal in Agricultural Drainage Water. PMID:34421841
Characterizing miRNA-lncRNA Interplay. PMID:34417757
tRNAscan-SE 2.0: improved detection and functional classification of transfer RNA genes. PMID:34417604
Histone H4 lysine 20 mono-methylation directly facilitates chromatin openness and promotes transcription of housekeeping genes. PMID:34417450
A bacterial bile acid metabolite modulates Treg activity through the nuclear hormone receptor NR4A1. PMID:34416161
The Ascidia Ciona robusta Provides Novel Insights on the Evolution of the AP-1 Transcriptional Complex. PMID:34414189
Ten simple rules for creating reusable pathway models for computational analysis and visualization. PMID:34411100
Usage of Metatranscriptomics to Understand Oral Disease. PMID:34410646
The whale shark genome reveals patterns of vertebrate gene family evolution. PMID:34409936
Genome-Wide Association Study Using Whole-Genome Sequencing Identifies a Genomic Region on Chromosome 6 Associated With Comb Traits in Nandan-Yao Chicken. PMID:34408769
Ribovore: ribosomal RNA sequence analysis for GenBank submissions and database curation. PMID:34384346
Fold Evolution before LUCA: Common Ancestry of SH3 Domains and OB Domains. PMID:34383917
Chaperonin Abundance Enhances Bacterial Fitness. PMID:34381811
Identifying genetic variants for age of migraine onset in a Han Chinese population in Taiwan. PMID:34380431
Epigenomic mediation after adverse childhood experiences: a systematic review and meta-analysis. PMID:34377567
Urine peptidome analysis in cardiorenal syndrome reflects molecular processes. PMID:34376786
Sphingobacterium pedocola sp. nov. a novel halotolerant bacterium isolated from agricultural soil. PMID:34363180
Interactions Networks for Primary Heart Sarcomas. PMID:34359782
Segmentation-based analysis of single-cell immunoblots. PMID:34357587
FLAME: A Web Tool for Functional and Literature Enrichment Analysis of Multiple Gene Lists. PMID:34356520
A Reassessment of Copy Number Variations in Congenital Heart Defects: Picturing the Whole Genome. PMID:34356064
ACO2 clinicobiological dataset with extensive phenotype ontology annotation. PMID:34354088
Linking Inflammatory Bowel Disease Symptoms to Changes in the Gut Microbiome Structure and Function. PMID:34349736
Methane-derived carbon flows into host-virus networks at different trophic levels in soil. PMID:34349022
Host adaptation in gut Firmicutes is associated with sporulation loss and altered transmission cycle. PMID:34348764
Revealing protein-protein interactions at the transcriptome scale by sequencing. PMID:34348091
Distinct gut microbial compositional and functional changes associated with impaired inhibitory control in patients with cirrhosis. PMID:34346283
Using de novo assembly to identify structural variation of eight complex immune system gene regions. PMID:34343164
Comprehensive Strain-Level Analysis of the Gut Microbe Faecalibacterium prausnitzii in Patients with Liver Cirrhosis. PMID:34342541
Public good exploitation in natural bacterioplankton communities. PMID:34321201
BUSCO Update: Novel and Streamlined Workflows along with Broader and Deeper Phylogenetic Coverage for Scoring of Eukaryotic, Prokaryotic, and Viral Genomes. PMID:34320186
Identification and Quantification of Bovine Digital Dermatitis-Associated Microbiota across Lesion Stages in Feedlot Beef Cattle. PMID:34313462
The clinical importance of tandem exon duplication-derived substitutions. PMID:34302486
Quantitative disease risk scores from EHR with applications to clinical risk stratification and genetic studies. PMID:34302027
Experimental and molecular predictions of the adjuvanticity of snail mucin on hepatitis B vaccine in albino mice. PMID:34297725
Discovery of genomic variation across a generation. PMID:34296264
Assessing the Diversity and Metabolic Potential of Psychrotolerant Arsenic-Metabolizing Microorganisms From a Subarctic Peatland Used for Treatment of Mining-Affected Waters by Culture-Dependent and -Independent Techniques. PMID:34295311
Genomic characterization of Achromobacter species isolates from chronic and occasional lung infection in cystic fibrosis patients. PMID:34292148
Integrated Analysis of lncRNAs, mRNAs, and TFs to Identify Regulatory Networks Underlying MAP Infection in Cattle. PMID:34290737
The MpsAB Bicarbonate Transporter Is Superior to Carbonic Anhydrase in Biofilm-Forming Bacteria with Limited CO2 Diffusion. PMID:34287032
A New Contact Killing Toxin Permeabilizes Cells and Belongs to a Broadly Distributed Protein Family. PMID:34287011
Identification of Underlying Hub Genes Associated with Hypertrophic Cardiomyopathy by Integrated Bioinformatics Analysis. PMID:34285551
Sequencing for germline mutations in Swedish breast cancer families reveals novel breast cancer risk genes. PMID:34282249
Screening for gene doping transgenes in horses via the use of massively parallel sequencing. PMID:34276046
Metagenomics: a path to understanding the gut microbiome. PMID:34259891
Population differentiated copy number variation of Bos taurus, Bos indicus and their African hybrids. PMID:34253178
Topology-based sparsification of graph annotations. PMID:34252940
Identification of floR Variants Associated With a Novel Tn4371-Like Integrative and Conjugative Element in Clinical Pseudomonas aeruginosa Isolates. PMID:34235095
Targeted protein degradation reveals a direct role of SPT6 in RNAPII elongation and termination. PMID:34233157
Achromobacter spp. genetic adaptation in cystic fibrosis. PMID:34232117
Highly pleiotropic variants of human traits are enriched in genomic regions with strong background selection. PMID:34228221
Zetaproteobacteria Pan-Genome Reveals Candidate Gene Cluster for Twisted Stalk Biosynthesis and Export. PMID:34220764
Chromosomal Integration of Huge and Complex bla NDM-Carrying Genetic Elements in Enterobacteriaceae. PMID:34211858
Revealing the Viral Community in the Hadal Sediment of the New Britain Trench. PMID:34209474
Temperature Sensitivity and Composition of Nitrate-Reducing Microbiomes from a Full-Scale Woodchip Bioreactor Treating Agricultural Drainage Water. PMID:34207422
A DNA Regulatory Element Haplotype at Zinc Finger Genes Is Associated with Host Resilience to Small Ruminant Lentivirus in Two Sheep Populations. PMID:34206933
No Evidence Known Viruses Play a Role in the Pathogenesis of Onchocerciasis-Associated Epilepsy. An Explorative Metagenomic Case-Control Study. PMID:34206564
Predicting Lifestyle from Positive Selection Data and Genome Properties in Oomycetes. PMID:34202069
Gut Serpinome: Emerging Evidence in IBD. PMID:34200095
Characterization of Human Genes Modulated by Porphyromonas gingivalis Highlights the Ribosome, Hypothalamus, and Cholinergic Neurons. PMID:34194426
Genome reduction and relaxed selection is associated with the transition to symbiosis in the basidiomycete genus Podaxis. PMID:34189441
Genome-wide association analysis of serum alanine and aspartate aminotransferase, and the modifying effects of BMI in 388k European individuals. PMID:34184762
Systematic refinement of gene annotations by parsing mRNA 3' end sequencing datasets. PMID:34183122
Recent advances in the structural diversity of reaction centers. PMID:34173168
SplitStrains, a tool to identify and separate mixed Mycobacterium tuberculosis infections from WGS data. PMID:34165419
Discovery of Viral Myosin Genes With Complex Evolutionary History Within Plankton. PMID:34163457
Evolutionary and phylogenetic insights from a nuclear genome sequence of the extinct, giant, "subfossil" koala lemur Megaladapis edwardsi. PMID:34162703
LncRNAs and Available Databases. PMID:34160796
Next-generation sequencing diagnostics of bacteremia in pediatric sepsis. PMID:34160425
Determining subpopulation methylation profiles from bisulfite sequencing data of heterogeneous samples using DXM. PMID:34157105
A Systems-Based Key Innovation-Driven Approach Infers Co-option of Jaw Developmental Programs During Cancer Progression. PMID:34150777
The pan-cancer lncRNA PLANE regulates an alternative splicing program to promote cancer pathogenesis. PMID:34145290
The RNA Atlas expands the catalog of human non-coding RNAs. PMID:34140680
CRISPR-Associated Primase-Polymerases are implicated in prokaryotic CRISPR-Cas adaptation. PMID:34140468
Identification of a dual orange/far-red and blue light photoreceptor from an oceanic green picoplankton. PMID:34135337
Predicting Antimicrobial Resistance Using Partial Genome Alignments. PMID:34128695
Prognostic implications of troponin T variations in inherited cardiomyopathies using systems biology. PMID:34127679
Population-scale peach genome analyses unravel selection patterns and biochemical basis underlying fruit flavor. PMID:34127667
Identical sequences found in distant genomes reveal frequent horizontal transfer across the bacterial domain. PMID:34121661
Positive selection as a key player for SARS-CoV-2 pathogenicity: Insights into ORF1ab, S and E genes. PMID:34118359
A pan-genome method to determine core regions of the Bacillus subtilis and Escherichia coli genomes. PMID:34113437
Characterization of the small RNA transcriptomes of cell protrusions and cell bodies of highly metastatic hepatocellular carcinoma cells via RNA sequencing. PMID:34113396
Binary Metabolic Phenotypes and Phenotype Diversity Metrics for the Functional Characterization of Microbial Communities. PMID:34113324
Runx1 shapes the chromatin landscape via a cascade of direct and indirect targets. PMID:34111109
In Silico Evaluation of Cyclophilin Inhibitors as Potential Treatment for SARS-CoV-2. PMID:34109257
Computational Studies of the Structural Basis of Human RPS19 Mutations Associated With Diamond-Blackfan Anemia. PMID:34108988
The genetic architecture of age-related hearing impairment revealed by genome-wide association analysis. PMID:34108613
Development of a time-series shotgun metagenomics database for monitoring microbial communities at the Pacific coast of Japan. PMID:34108585
Ecology of inorganic sulfur auxiliary metabolism in widespread bacteriophages. PMID:34108477
R2DT is a framework for predicting and visualising RNA secondary structure using templates. PMID:34108470
Genomic insights into body size evolution in Carnivora support Peto's paradox. PMID:34107880
Inferring environmental transmission using phylodynamics: a case-study using simulated evolution of an enteric pathogen. PMID:34102084
gbpA and chiA genes are not uniformly distributed amongst diverse Vibrio cholerae. PMID:34100695
RNA structure probing reveals the structural basis of Dicer binding and cleavage. PMID:34099665
Identification of over 200-fold more hairpin ribozymes than previously known in diverse circular RNAs. PMID:34096583
Guideline-Adherent Clinical Validation of a Comprehensive 170-Gene DNA/RNA Panel for Determination of Small Variants, Copy Number Variations, Splice Variants, and Fusions on a Next-Generation Sequencing Platform in the CLIA Setting. PMID:34093633
Hijacking the Mustard-Oil Bomb: How a Glucosinolate-Sequestering Flea Beetle Copes With Plant Myrosinases. PMID:34093609
Rootstock effects on scion gene expression in maritime pine. PMID:34078936
Structural and phylogenetic analyses of resistance to next-generation aminoglycosides conferred by AAC(2') enzymes. PMID:34078922
Sporadic isolation of Tetratrichomonas species from the cattle urogenital tract. PMID:34078489
Identification of Novel Genomic-Variant Patterns of OR56A5, OR52L1, and CTSD in Retinitis Pigmentosa Patients by Whole-Exome Sequencing. PMID:34070492
Altered Nasal Microbiota Composition Associated with Development of Polyserositis by Mycoplasma hyorhinis. PMID:34069250
An Unsupervised Algorithm for Host Identification in Flaviviruses. PMID:34069049
The AraC-Type Transcriptional Regulator GliR (PA3027) Activates Genes of Glycerolipid Metabolism in Pseudomonas aeruginosa. PMID:34064685
Methylation and Expression of FTO and PLAG1 Genes in Childhood Obesity: Insight into Anthropometric Parameters and Glucose-Lipid Metabolism. PMID:34063412
Unraveling a Lignocellulose-Decomposing Bacterial Consortium from Soil Associated with Dry Sugarcane Straw by Genomic-Centered Metagenomics. PMID:34063014
Comparative analysis of de novo genomes reveals dynamic intra-species divergence of NLRs in pepper. PMID:34059006
GeneMark-HM: improving gene prediction in DNA sequences of human microbiome. PMID:34056597
Deep conservation of ribosome stall sites across RNA processing genes. PMID:34056595
Evaluation of acidogenesis products' effect on biogas production performed with metagenomics and isotopic approaches. PMID:34051845
MTR3D: identifying regions within protein tertiary structures under purifying selection. PMID:34050760
snpXplorer: a web application to explore human SNP-associations and annotate SNP-sets. PMID:34048563
Whole-Genome Analysis of Mycobacterium avium subsp. paratuberculosis IS900 Insertions Reveals Strain Type-Specific Modalities. PMID:34040595
Phylogenetic analysis of mutational robustness based on codon usage supports that the standard genetic code does not prefer extreme environments. PMID:34040064
Multiple integrated metabolic strategies allow foraminiferan protists to thrive in anoxic marine sediments. PMID:34039603
Chromosome-Level Reference Genome Assembly for the American Pika (Ochotona princeps). PMID:34036348
The transcriptional landscape of a rewritten bacterial genome reveals control elements and genome design principles. PMID:34031412
Ecology and molecular targets of hypermutation in the global microbiome. PMID:34031405
An epigenetic clock to estimate the age of living beluga whales. PMID:34025766
Longitudinal stability of salivary microRNA biomarkers in children and adolescents with autism spectrum disorder. PMID:34025747
AnnotSV and knotAnnotSV: a web server for human structural variations annotations, ranking and analysis. PMID:34023905
Bacterial Evolutionary Precursors of Eukaryotic Copper-Zinc Superoxide Dismutases. PMID:34021750
On the Comparison of Incompatibility of Split Systems Across Different Numbers of Taxa. PMID:34021420
digIS: towards detecting distant and putative novel insertion sequence elements in prokaryotic genomes. PMID:34016050
Proposal for Human Respiratory Syncytial Virus Nomenclature below the Species Level. PMID:34013862
The small-molecule protein ligand interface stabiliser E7820 induces differential cell line specific responses of integrin α2 expression. PMID:34006252
Mathematical modeling of multiple pathways in colorectal carcinogenesis using dynamical systems with Kronecker structure. PMID:34003820
Protein synthesis inhibitor omacetaxine is effective against hepatocellular carcinoma. PMID:34003798
Mass burial genomics reveals outbreak of enteric paratyphoid fever in the Late Medieval trade city Lübeck. PMID:33997698
ToRQuEMaDA: tool for retrieving queried Eubacteria, metadata and dereplicating assemblies. PMID:33996287
Genome-wide analysis of primary microRNA expression using H3K36me3 ChIP-seq data. PMID:33995896
Birth of a Regulatory Long Non-coding RNA/Gene, linc-UR-UB. PMID:33995491
Mutant PRPF8 Causes Widespread Splicing Changes in Spliceosome Components in Retinitis Pigmentosa Patient iPSC-Derived RPE Cells. PMID:33994920
100-My history of bornavirus infections hidden in vertebrate genomes. PMID:33990470
DoChaP: the domain change presenter. PMID:33988713
RNA editing at a limited number of sites is sufficient to prevent MDA5 activation in the mouse brain. PMID:33983932
Comparative genomics and analysis of the mechanism of PQQ overproduction in Methylobacterium. PMID:33983497
Selective Requirement of MYB for Oncogenic Hyperactivation of a Translocated Enhancer in Leukemia. PMID:33980539
A consensus on the Aquaporin Gene Family in the Allotetraploid Plant, Nicotiana tabacum. PMID:33977216
Polyadenylation-related isoform switching in human evolution revealed by full-length transcript structure. PMID:33973996
Diversity and distribution of viruses inhabiting the deepest ocean on Earth. PMID:33972725
Comprehensive discovery of novel structured noncoding RNAs in 26 bacterial genomes. PMID:33970790
A high-quality bonobo genome refines the analysis of hominid evolution. PMID:33953399
Intergenic RNA mainly derives from nascent transcripts of known genes. PMID:33952325
The genomic basis of evolutionary differentiation among honey bees. PMID:33947700
A versatile polypharmacology platform promotes cytoprotection and viability of human pluripotent and differentiated cells. PMID:33941937
Deep sequencing of pre-translational mRNPs reveals hidden flux through evolutionarily conserved alternative splicing nonsense-mediated decay pathways. PMID:33941243
Listening to the Whispers in Neuroimmune Crosstalk: A Comprehensive Workflow to Investigate Neurotrophin Receptor p75NTR Under Endogenous, Low Abundance Conditions. PMID:33936068
Tamock: simulation of habitat-specific benchmark data in metagenomics. PMID:33932979
CladeOScope: functional interactions through the prism of clade-wise co-evolution. PMID:33928243
Complete Genome Sequence of an Antimicrobial-Producing Bacillus velezensis Sam8H1 Isolate from the Makgadikgadi Saltpans of Botswana. PMID:33927034
Sigma factor dependent translational activation in Bacillus subtilis. PMID:33927010
Distribution of β-Lactamase Genes in Clinical Isolates from California Central Valley Hospital Deviates from the United States Nationwide Trends. PMID:33925352
The MarR-Type Regulator PA3458 Is Involved in Osmoadaptation Control in Pseudomonas aeruginosa. PMID:33921535
Direct Phenotyping and Principal Component Analysis of Type Traits Implicate Novel QTL in Bovine Mastitis through Genome-Wide Association. PMID:33920522
The impact of sequencing depth on the inferred taxonomic composition and AMR gene content of metagenomic samples. PMID:33902704
Sex Differences in Alzheimer's Disease: Insights From the Multiomics Landscape. PMID:33896621
Isolation and genomic characterization of five novel strains of Erysipelotrichaceae from commercial pigs. PMID:33888068
iBLAST: Incremental BLAST of new sequences via automated e-value correction. PMID:33886589
Personalised virtual gene panels reduce interpretation workload and maintain diagnostic rates of proband-only clinical exome sequencing for rare disorders. PMID:33879512
Glucagon-Like Peptide 1 Receptor Agonists and Chronic Lower Respiratory Disease Exacerbations Among Patients With Type 2 Diabetes. PMID:33875487
Extensive microbial diversity within the chicken gut microbiome revealed by metagenomics and culture. PMID:33868800
Replication Region Analysis Reveals Non-lambdoid Shiga Toxin Converting Bacteriophages. PMID:33868197
Janus-faced EPHB4-associated disorders: novel pathogenic variants and unreported intrafamilial overlapping phenotypes. PMID:33864021
Genome-wide analysis of lncRNA stability in human. PMID:33861746
Minor intron retention drives clonal hematopoietic disorders and diverse cancer predisposition. PMID:33846634
Life-extended glycosylated IL-2 promotes Treg induction and suppression of autoimmunity. PMID:33828163
An extended catalogue of tandem alternative splice sites in human tissue transcriptomes. PMID:33826604
T-DNA regions from 350 Agrobacterium genomes: maps and phylogeny. PMID:33826062
Novel Chromosome-Borne Accessory Genetic Elements Carrying Multiple Antibiotic Resistance Genes in Pseudomonas aeruginosa. PMID:33816340
Urinary Microbiome Characteristics in Female Patients with Acute Uncomplicated Cystitis and Recurrent Cystitis. PMID:33807946
The Mitochondrial Genome of a Plant Fungal Pathogen Pseudocercospora fijiensis (Mycosphaerellaceae), Comparative Analysis and Diversification Times of the Sigatoka Disease Complex Using Fossil Calibrated Phylogenies. PMID:33803147
Nanopore Sequencing Reveals Global Transcriptome Signatures of Mitochondrial and Ribosomal Gene Expressions in Various Human Cancer Stem-like Cell Populations. PMID:33800955
Non-Coding RNA Signatures of B-Cell Acute Lymphoblastic Leukemia. PMID:33799946
A noncanonical microRNA derived from the snaR-A noncoding RNA targets a metastasis inhibitor. PMID:33795480
Occurrence and diversity of viruses associated with cyanobacterial communities in a Brazilian freshwater reservoir. PMID:33791954
Comparative Genomics and Environmental Distribution of Large dsDNA Viruses in the Family Asfarviridae. PMID:33790885
Carbohydrate-controlled serine protease inhibitor (serpin) production in Bifidobacterium longum subsp. longum. PMID:33790385
Elucidation of the Complicated Scenario of Primate APOBEC3 Gene Evolution. PMID:33789992
Bacterial community structure alterations within the colorectal cancer gut microbiome. PMID:33789570
Clinical Experience of Cerebrospinal Fluid-Based Liquid Biopsy Demonstrates Superiority of Cell-Free DNA over Cell Pellet Genomic DNA for Molecular Profiling. PMID:33781965
Integrating Systems and Synthetic Biology to Understand and Engineer Microbiomes. PMID:33781078
Biomarker potentials of miRNA-associated circRNAs in breast cancer (MCF-7) cells: an in vitro and in silico study. PMID:33774752
The metabolic network of the last bacterial common ancestor. PMID:33772086
Cannabidiol Inhibits SARS-CoV-2 Replication and Promotes the Host Innate Immune Response. PMID:33758843
Candida pathogens induce protective mitochondria-associated type I interferon signalling and a damage-driven response in vaginal epithelial cells. PMID:33753919
Disrupting upstream translation in mRNAs is associated with human disease. PMID:33750777
Identification of 11 candidate structured noncoding RNA motifs in humans by comparative genomics. PMID:33750298
mtDNAcombine: tools to combine sequences from multiple studies. PMID:33750296
Subtelomeres are fast-evolving regions of the Streptomyces linear chromosome. PMID:33749576
Evolution of mammalian longevity: age-related increase in autophagy in bats compared to other mammals. PMID:33744862
Hybrid assembly of an agricultural slurry virome reveals a diverse and stable community with the potential to alter the metabolism and virulence of veterinary pathogens. PMID:33743832
Classifying gastric cancer using FLORA reveals clinically relevant molecular subtypes and highlights LINC01614 as a biomarker for patient prognosis. PMID:33742127
Mucin O-glycans suppress quorum-sensing pathways and genetic transformation in Streptococcus mutans. PMID:33737747
High mutation burden in the checkpoint and micro-RNA processing genes in myelodysplastic syndrome. PMID:33730109
Recovery of complete genomes and non-chromosomal replicons from activated sludge enrichment microbial communities with long read metagenome sequencing. PMID:33727564
Germline sequence analysis of RABL3 in a large series of pancreatic ductal adenocarcinoma patients reveals no evidence of deleterious variants. PMID:33724601
Key bacterial taxa and metabolic pathways affecting gut short-chain fatty acid profiles in early life. PMID:33723382
Alternatively Splicing Interactomes Identify Novel Isoform-Specific Partners for NSD2. PMID:33718354
Holocene chloroplast genetic variation of shrubs (Alnus alnobetula, Betula nana, Salix sp.) at the siberian tundra-taiga ecotone inferred from modern chloroplast genome assembly and sedimentary ancient DNA analyses. PMID:33717447
Using Single-Cell RNA-Seq Data to Trace Tissue Cells Responsive to Thyroid Hormones. PMID:33716967
Shotgun transcriptome, spatial omics, and isothermal profiling of SARS-CoV-2 infection reveals unique host responses, viral diversification, and drug interactions. PMID:33712587
The Global Landscape of SARS-CoV-2 Genomes, Variants, and Haplotypes in 2019nCoVR. PMID:33704069
Genomic analysis of dibenzofuran-degrading Pseudomonas veronii strain Pvy reveals its biodegradative versatility. PMID:33693598
Biodegradation of lignin monomers and bioconversion of ferulic acid to vanillic acid by Paraburkholderia aromaticivorans AR20-38 isolated from Alpine forest soil. PMID:33687503
Identifying loci with different allele frequencies among cases of eight psychiatric disorders using CC-GWAS. PMID:33686288
The very early evolution of protein translocation across membranes. PMID:33684113
A Molecular Interaction Map of Klebsiella pneumoniae and Its Human Host Reveals Potential Mechanisms of Host Cell Subversion. PMID:33679637
Mutant Huntingtin stalls ribosomes and represses protein synthesis in a cellular model of Huntington disease. PMID:33674575
Characterization of Kazachstania slooffiae, a Proposed Commensal in the Porcine Gut. PMID:33671322
A Combined Metagenomics and Metatranscriptomics Approach to Unravel Costa Rican Cocoa Box Fermentation Processes Reveals Yet Unreported Microbial Species and Functionalities. PMID:33664725
Scaffold-Mediated Developmental Effects on Human Induced Pluripotent Stem Cell-Derived Cardiomyocytes Are Preserved After External Support Removal. PMID:33659246
Genome Sequencing of a Historic Staphylococcus aureus Collection Reveals New Enterotoxin Genes and Sheds Light on the Evolution and Genomic Organization of This Key Virulence Gene Family. PMID:33649144
The Genomic Capabilities of Microbial Communities Track Seasonal Variation in Environmental Conditions of Arctic Lagoons. PMID:33643234
Complete genome sequencing of Peyer's patches-derived Lactobacillus taiwanensis CLG01, a potential probiotic with antibacterial and immunomodulatory activity. PMID:33639835
Evolutionary analyses of the major variant surface antigen-encoding genes reveal population structure of Plasmodium falciparum within and between continents. PMID:33630855
Discovery and surveillance of viruses from salmon in British Columbia using viral immune-response biomarkers, metatranscriptomics, and high-throughput RT-PCR. PMID:33623707
Fitness Cost Evolution of Natural Plasmids of Staphylococcus aureus. PMID:33622733
Comparative Genomics Reveals Early Emergence and Biased Spatiotemporal Distribution of SARS-CoV-2. PMID:33605421
Recurrent evolution of vertebrate transcription factors by transposase capture. PMID:33602827
LINE retrotransposons characterize mammalian tissue-specific and evolutionarily dynamic regulatory regions. PMID:33602314
Proximity proteomics in a marine diatom reveals a putative cell surface-to-chloroplast iron trafficking pathway. PMID:33591270
Bacteria have numerous distinctive groups of phage-plasmids with conserved phage and variable plasmid gene repertoires. PMID:33590101
Proteogenomic and metabolomic characterization of human glioblastoma. PMID:33577785
Sequence variation, common tissue expression patterns and learning models: a genome-wide survey of vertebrate ribosomal proteins. PMID:33575632
Factorial study of the RNA-seq computational workflow identifies biases as technical gene signatures. PMID:33575596
Diversity and evolution of bacterial bioluminescence genes in the global ocean. PMID:33575578
RNAsamba: neural network-based assessment of the protein-coding potential of RNA sequences. PMID:33575571
Genetic control of the human brain proteome. PMID:33571421
The kinetic landscape of an RNA-binding protein in cells. PMID:33568810
Identification of a unique endoplasmic retention motif in the Xenopus GIRK5 channel and its contribution to oocyte maturation. PMID:33565726
The origin of the expressed retrotransposed gene ACTBL2 and its influence on human melanoma cells' motility and focal adhesion formation. PMID:33558623
Monitoring the microbiome for food safety and quality using deep shotgun sequencing. PMID:33558514
Identity: rapid alignment-free prediction of sequence alignment identity scores using self-supervised general linear models. PMID:33554117
Fecal Microbiota Transplant in Cirrhosis Reduces Gut Microbial Antibiotic Resistance Genes: Analysis of Two Trials. PMID:33553973
Genetic factors contributing to skeletal class III malocclusion: a systematic review and meta-analysis. PMID:33550467
Genome-scale phylogenetic analyses confirm Olpidium as the closest living zoosporic fungus to the non-flagellated, terrestrial fungi. PMID:33547391
A Meta-Analysis of the Effects of High-LET Ionizing Radiations in Human Gene Expression. PMID:33546472
Topologically associating domain boundaries that are stable across diverse cell types are evolutionarily constrained and enriched for heritability. PMID:33545030
Intrinsic disorder in protein domains contributes to both organism complexity and clade-specific functions. PMID:33542394
Comparison between 16S rRNA and shotgun sequencing data for the taxonomic characterization of the gut microbiota. PMID:33542369
PhasiRNAnalyzer: an integrated analyser for plant phased siRNAs. PMID:33541212
Enhancers predominantly regulate gene expression during differentiation via transcription initiation. PMID:33539786
Next Generation HGVS Nomenclature Checker. PMID:33538839
Clinical, histopathologic and molecular features of idiopathic and diabetic nodular mesangial sclerosis in humans. PMID:33537765
Genome annotation of disease-causing microorganisms. PMID:33537706
Structural changes in the oral microbiome of the adolescent patients with moderate or severe dental fluorosis. PMID:33536555
Bacterial associations in the healthy human gut microbiome across populations. PMID:33531651
Genomic and functional analyses of fungal and bacterial consortia that enable lignocellulose breakdown in goat gut microbiomes. PMID:33526884
Human population dynamics and Yersinia pestis in ancient northeast Asia. PMID:33523963
VirSorter2: a multi-classifier, expert-guided approach to detect diverse DNA and RNA viruses. PMID:33522966
The human origin recognition complex is essential for pre-RC assembly, mitosis, and maintenance of nuclear structure. PMID:33522487
Mannose binding lectin gene 2 (rs1800450) missense variant may contribute to development and severity of COVID-19 infection. PMID:33515713
CE16 acetylesterases: in silico analysis, catalytic machinery prediction and comparison with related SGNH hydrolases. PMID:33505839
DM3Loc: multi-label mRNA subcellular localization prediction and analysis based on multi-head self-attention mechanism. PMID:33503258
ViralRecall-A Flexible Command-Line Tool for the Detection of Giant Virus Signatures in 'Omic Data. PMID:33498458
Identification of Lead Compounds against Scm (fms10) in Enterococcus faecium Using Computer Aided Drug Designing. PMID:33494233
Expression and prognostic analyses of SCAMPs in pancreatic adenocarcinoma. PMID:33493138
Genome-Wide Histone Modifications and CTCF Enrichment Predict Gene Expression in Sheep Macrophages. PMID:33488675
BMPR1B gene in brachydactyly type 2-A family with de novo R486W mutation and a disease phenotype. PMID:33486847
Coconut genome assembly enables evolutionary analysis of palms and highlights signaling pathways involved in salt tolerance. PMID:33483627
An integrated approach to determine the abundance, mutation rate and phylogeny of the SARS-CoV-2 genome. PMID:33479725
Identification and Downstream Analyses of Domains Amplified in Plant Genomes: The Case of StAR-Related Lipid Transfer (START) Domains in Rice. PMID:33471342
A platform for curated products from novel open reading frames prompts reinterpretation of disease variants. PMID:33468550
Metagenomics Approaches for the Detection and Surveillance of Emerging and Recurrent Plant Pathogens. PMID:33467169
A high-throughput predictive method for sequence-similar fold switchers. PMID:33462801
Anomalous Phylogenetic Behavior of Ribosomal Proteins in Metagenome-Assembled Asgard Archaea. PMID:33462601
Phytoplankton consortia as a blueprint for mutually beneficial eukaryote-bacteria ecosystems based on the biocoenosis of Botryococcus consortia. PMID:33462312
DeepLPI: a multimodal deep learning method for predicting the interactions between lncRNAs and protein isoforms. PMID:33461501
FGFR4 c.1162G > A (p.Gly388Arg) Polymorphism Analysis in Turkish Patients with Retinoblastoma. PMID:33456465
Signal Synthase-Type versus Catabolic Monooxygenases: Retracing 3-Hydroxylation of 2-Alkylquinolones and Their N-Oxides by Pseudomonas aeruginosa and Other Pulmonary Pathogens. PMID:33452035
Prokaryotic virus host predictor: a Gaussian model for host prediction of prokaryotic viruses in metagenomics. PMID:33441133
BiG-SLiCE: A highly scalable tool maps the diversity of 1.2 million biosynthetic gene clusters. PMID:33438731
Algorithms meet sequencing technologies - 10th edition of the RECOMB-Seq workshop. PMID:33437938
Uncovering multi-faceted taxonomic and functional diversity of soil bacteriomes in tropical Southeast Asian countries. PMID:33436774
Significantly improving the quality of genome assemblies through curation. PMID:33420778
Alternative Splicing Increases Sirtuin Gene Family Diversity and Modulates Their Subcellular Localization and Function. PMID:33418837
Universal and taxon-specific trends in protein sequences as a function of age. PMID:33416492
Alterations to Placental Glucocorticoid Receptor Expression with Alcohol Consumption. PMID:33409870
MicrobeAnnotator: a user-friendly, comprehensive functional annotation pipeline for microbial genomes. PMID:33407081
A multi-omic study for uncovering molecular mechanisms associated with hyperammonemia-induced cerebellar function impairment in rats. PMID:33404927
Polarization of microbial communities between competitive and cooperative metabolism. PMID:33398106
Different mutant RUNX1 oncoproteins program alternate haematopoietic differentiation trajectories. PMID:33397648
SYN-View: A Phylogeny-Based Synteny Exploration Tool for the Identification of Gene Clusters Linked to Antibiotic Resistance. PMID:33396183
Atlas of ACE2 gene expression reveals novel insights into transmission of SARS-CoV-2. PMID:33392409
A glimpse of antimicrobial resistance gene diversity in kefir and yoghurt. PMID:33384459
β-Galactosidases from a Sequence-Based Metagenome: Cloning, Expression, Purification and Characterization. PMID:33379234
Neuron type-specific increase in lamin B1 contributes to nuclear dysfunction in Huntington's disease. PMID:33369245
Synthetic Sequencing Standards: A Guide to Database Choice for Rumen Microbiota Amplicon Sequencing Analysis. PMID:33363527
Comprehensive Profiling of Gene Expression in the Cerebral Cortex and Striatum of BTBRTF/ArtRbrc Mice Compared to C57BL/6J Mice. PMID:33362469
αα-Hub domains and intrinsically disordered proteins: A decisive combo. PMID:33361159
A review on viral data sources and search systems for perspective mitigation of COVID-19. PMID:33348368
Comparative genomics of Klebsiella michiganensis BD177 and related members of Klebsiella sp. reveal the symbiotic relationship with Bactrocera dorsalis. PMID:33339499
The lncRNA Toolkit: Databases and In Silico Tools for lncRNA Analysis. PMID:33339309
The Neuromodulator-Encoding sadA Gene Is Widely Distributed in the Human Skin Microbiome. PMID:33335515
Epidemiology of a SKin Ulceration Disease (SKUD) in the sea cucumber Holothuria scabra with a review on the SKUDs in Holothuroidea (Echinodermata). PMID:33335179
NCBI's Virus Discovery Codeathon: Building "FIVE" -The Federated Index of Viral Experiments API Index. PMID:33322070
Isolation of a member of the candidate phylum 'Atribacteria' reveals a unique cell membrane structure. PMID:33318506
Functional Screening Techniques to Identify Long Non-Coding RNAs as Therapeutic Targets in Cancer. PMID:33317042
Genome Reduction Is Associated with Bacterial Pathogenicity across Different Scales of Temporal and Ecological Divergence. PMID:33313861
PSORTdb 4.0: expanded and redesigned bacterial and archaeal protein subcellular localization database incorporating new secondary localizations. PMID:33313828
Chronic exposure to environmental cadmium affects growth and survival, cellular stress, and glucose metabolism in juvenile channel catfish (Ictalurus punctatus). PMID:33310672
Identification of type VI secretion system toxic effectors using adaptors as markers. PMID:33304467
The Missing Tailed Phages: Prediction of Small Capsid Candidates. PMID:33302408
Origin of a Giant Sex Chromosome. PMID:33300980
Characterization of an IncR Plasmid with Two Copies of ISCR-Linked qnrB6 from ST968 Klebsiella pneumoniae. PMID:33299848
Mitochondrial DNAs provide insight into trypanosome phylogeny and molecular evolution. PMID:33297939
Msuite: A High-Performance and Versatile DNA Methylation Data-Analysis Toolkit. PMID:33294868
NCBI Genome Workbench: Desktop Software for Comparative Genomics, Visualization, and GenBank Data Submission. PMID:33289898
Bacterial Metabolites of Human Gut Microbiota Correlating with Depression. PMID:33287416
Transcriptional Analysis of Metabolic Pathways and Regulatory Mechanisms of Essential Oil Biosynthesis in the Leaves of Cinnamomum camphora (L.) Presl. PMID:33281883
SkewIT: The Skew Index Test for large-scale GC Skew analysis of bacterial genomes. PMID:33275607
Pathological Cardiopulmonary Evaluation of Rats Chronically Exposed to Traffic-Related Air Pollution. PMID:33275451
Computational identification of biomarker genes for lung cancer considering treatment and non-treatment studies. PMID:33272232
GENCODE 2021. PMID:33270111
Amino Acid and Carbohydrate Metabolism Are Coordinated to Maintain Energetic Balance during Drought in Sugarcane. PMID:33266228
Systematic Review of Sequencing Studies and Gene Expression Profiling in Familial Meniere Disease. PMID:33260921
In Situ Growth of Halophilic Bacteria in Saline Fracture Fluids from 2.4 km below Surface in the Deep Canadian Shield. PMID:33255232
Essential gene prediction using limited gene essentiality information-An integrative semi-supervised machine learning strategy. PMID:33253254
The conserved aromatic residue W122 is a determinant of potyviral coat protein stability, replication, and cell-to-cell movement in plants. PMID:33245804
Accessing NCBI data using the NCBI Sequence Viewer and Genome Data Viewer (GDV). PMID:33239395
Conserved Genomic Terminals of SARS-CoV-2 as Coevolving Functional Elements and Potential Therapeutic Targets. PMID:33239366
Associations of the gut microbiome and clinical factors with acute GVHD in allogeneic HSCT recipients. PMID:33232475
The Order of Trait Emergence in the Evolution of Cyanobacterial Multicellularity. PMID:33231627
Functional advantages of triplication of the 3B coding region of the FMDV genome. PMID:33230899
microRNA-221 Inhibits Latent TGF-β1 Activation through Targeting Thrombospondin-1 to Attenuate Kidney Failure-Induced Cardiac Fibrosis. PMID:33230477
Genome-wide association study of prevalent and persistent cervical high-risk human papillomavirus (HPV) infection. PMID:33225922
The UCSC Genome Browser database: 2021 update. PMID:33221922
Developmental assays using invasive cane toads, Rhinella marina, reveal safety concerns of a common formulation of the rice herbicide, butachlor. PMID:33221087
MolluscDB: an integrated functional and evolutionary genomics database for the hyper-diverse animal phylum Mollusca. PMID:33219670
Polygenic Risk Score of Longevity Predicts Longer Survival Across an Age Continuum. PMID:33216869
Draft Genome Sequence of Mycobacteroides sp. Strain LB1, Isolated from the Sputum of a Cystic Fibrosis Patient. PMID:33214293
Comparative analysis of human microglial models for studies of HIV replication and pathogenesis. PMID:33213476
DeepBL: a deep learning-based approach for in silico discovery of beta-lactamases. PMID:33212503
BRENDA, the ELIXIR core data resource in 2021: new developments and updates. PMID:33211880
Rfam 14: expanded coverage of metagenomic, viral and microRNA families. PMID:33211869
RCSB Protein Data Bank: powerful new tools for exploring 3D structures of biological macromolecules for basic and applied research and education in fundamental biology, biomedicine, biotechnology, bioengineering and energy sciences. PMID:33211854
Proteome-Scale Detection of Differential Conservation Patterns at Protein and Subprotein Levels with BLUR. PMID:33211099
Widespread endogenization of giant viruses shapes genomes of green algae. PMID:33208937
Functional Specialization of Human Salivary Glands and Origins of Proteins Intrinsic to Human Saliva. PMID:33207190
Characterizing the function of EPB41L4A in the predisposition to papillary thyroid carcinoma. PMID:33203992
Staphylococcal DNA Repair Is Required for Infection. PMID:33203752
In Silico Identification of SOX1 Post-Translational Modifications Highlights a Shared Protein Motif. PMID:33202879
iCLIP analysis of RNA substrates of the archaeal exosome. PMID:33198623
OrthoDB in 2020: evolutionary and functional annotations of orthologs. PMID:33196836
GenBank. PMID:33196830
Biases in genome reconstruction from metagenomic data. PMID:33194386
Catabolic Machinery of the Human Gut Microbes Bestow Resilience Against Vanillin Antimicrobial Nature. PMID:33193247
OpenProt 2021: deeper functional annotation of the coding potential of eukaryotic genomes. PMID:33179748
jMorp updates in 2020: large enhancement of multi-omics data resources on the general Japanese population. PMID:33179747
LectomeXplore, an update of UniLectin for the discovery of carbohydrate-binding proteins based on a new lectin classification. PMID:33174598
Comprehensive profiling of extracellular RNA in HPV-induced cancers using an improved pipeline for small RNA-seq analysis. PMID:33173155
Adaptive response to iterative passages of five Lactobacillus species in simulated vaginal fluid. PMID:33172400
Understanding the causes of errors in eukaryotic protein-coding gene prediction: a case study of primate proteomes. PMID:33172385
Heavily Armed Ancestors: CRISPR Immunity and Applications in Archaea with a Comparative Analysis of CRISPR Types in Sulfolobales. PMID:33172134
Clinical and Genomic Characteristics of Adult Diffuse Midline Glioma. PMID:33171023
A genomic catalog of Earth's microbiomes. PMID:33169036
Comparative assessments of indel annotations in healthy and cancer genomes with next-generation sequencing data. PMID:33167946
COG database update: focus on microbial diversity, model organisms, and widespread pathogens. PMID:33167031
Coevolving Plasmids Drive Gene Flow and Genome Plasticity in Host-Associated Intracellular Bacteria. PMID:33157023
Computational strategies to combat COVID-19: useful tools to accelerate SARS-CoV-2 and coronavirus research. PMID:33147627
Liquid Biopsy Enables Quantification of the Abundance and Interindividual Variability of Hepatic Enzymes and Transporters. PMID:33141922
Expression of a novel brain specific isoform of C3G is regulated during development. PMID:33139841
Virosaurus A Reference to Explore and Capture Virus Genetic Diversity. PMID:33139591
NGS for (Hemato-) Oncology in Belgium: Evaluation of Laboratory Performance and Feasibility of a National External Quality Assessment Program. PMID:33138022
KinaseMD: kinase mutations and drug response database. PMID:33137204
Ensembl 2021. PMID:33137190
IMG/VR v3: an integrated ecological and evolutionary framework for interrogating genomes of uncultivated viruses. PMID:33137183
A spectrum of verticality across genes. PMID:33137105
Transfer learning enables prediction of CYP2D6 haplotype function. PMID:33137098
Galaxy and Apollo as a biologist-friendly interface for high-quality cooperative phage genome annotation. PMID:33137082
Genome-wide mutational signatures revealed distinct developmental paths for human B cell lymphomas. PMID:33136155
Modelling of pathogen-host systems using deeper ORF annotations and transcriptomics to inform proteomics analyses. PMID:33133425
Comprehensive screening of genomic and metagenomic data reveals a large diversity of tetracycline resistance genes. PMID:33125315
The Transfer of the Ferredoxin Gene From the Chloroplast to the Nuclear Genome Is Ancient Within the Paraphyletic Genus Thalassiosira. PMID:33123095
Aging Atlas: a multi-omics database for aging biology. PMID:33119753
LncRBase V.2: an updated resource for multispecies lncRNAs and ClinicLSNP hosting genetic variants in lncRNAs for cancer patients. PMID:33112702
REDIportal: millions of novel A-to-I RNA editing events from thousands of RNAseq experiments. PMID:33104797
Aminoglycoside riboswitch control of the expression of integron associated aminoglycoside resistance adenyltransferases. PMID:33103573
Genomic and transcriptomic landscapes and evolutionary dynamics of molluscan glycoside hydrolase families with implications for algae-feeding biology. PMID:33101612
Sixty-One Volatiles Have Phylogenetic Signals Across Bacterial Domain and Fungal Kingdom. PMID:33101231
Neuronal Protein Farnesylation Regulates Hippocampal Synaptic Plasticity and Cognitive Function. PMID:33098528
RNA sequencing of whole blood in dogs with primary immune-mediated hemolytic anemia (IMHA) reveals novel insights into disease pathogenesis. PMID:33091028
DualSeqDB: the host-pathogen dual RNA sequencing database for infection processes. PMID:33084904
Genomic Features of a Food-Derived Pseudomonas aeruginosa Strain PAEM and Biofilm-Associated Gene Expression under a Marine Bacterial α-Galactosidase. PMID:33081309
NAMS webserver: coding potential assessment and functional annotation of plant transcripts. PMID:33080021
Whole exome sequencing reveals pathogenic variants in MYO3A, MYO15A and COL9A3 and differential frequencies in ancestral alleles in hearing impairment genes among individuals from Cameroon. PMID:33078831
Large scale, robust, and accurate whole transcriptome profiling from clinical formalin-fixed paraffin-embedded samples. PMID:33077815
Understand variability of COVID-19 through population and tissue variations in expression of SARS-CoV-2 host genes. PMID:33072849
Single Cell Genomics Reveals Viruses Consumed by Marine Protists. PMID:33072003
Characterization of Metabolic Patterns in Mouse Oocytes during Meiotic Maturation. PMID:33068521
Large scale genome reconstructions illuminate Wolbachia evolution. PMID:33067437
Efficient and cost-effective bacterial mRNA sequencing from low input samples through ribosomal RNA depletion. PMID:33066726
Novel NUDT2 variant causes intellectual disability and polyneuropathy. PMID:33058507
IDseq-An open source cloud-based pipeline and analysis service for metagenomic pathogen detection and monitoring. PMID:33057676
Using whole-exome sequencing and protein interaction networks to prioritize candidate genes for germline cutaneous melanoma susceptibility. PMID:33057211
Characterization and evolutionary origin of novel C<sub>2</sub>H<sub>2</sub> zinc finger protein (ZNF648) required for both erythroid and megakaryocyte differentiation in humans. PMID:33054117
Seeker: alignment-free identification of bacteriophage genomes by deep learning. PMID:33045744
ViruSurf: an integrated database to investigate viral sequences. PMID:33045721
A prognostic gene expression signature for oropharyngeal squamous cell carcinoma. PMID:33038770
Human ABCB1 with an ABCB11-like degenerate nucleotide binding site maintains transport activity by avoiding nucleotide occlusion. PMID:33031417
Vibrionaceae core, shell and cloud genes are non-randomly distributed on Chr 1: An hypothesis that links the genomic location of genes with their intracellular placement. PMID:33023476
lncRNAKB, a knowledgebase of tissue-specific functional annotation and trait association of long noncoding RNA. PMID:33020484
Multiomic analysis and immunoprofiling reveal distinct subtypes of human angiosarcoma. PMID:33016928
Complete Genome Sequencing and Transcriptome Analysis of Nitrogen Metabolism of Succinivibrio dextrinosolvens Strain Z6 Isolated From Dairy Cow Rumen. PMID:33013723
Investigating the demographic history of Japan using ancient oral microbiota. PMID:33012223
Characterization of universal features of partially methylated domains across tissues and species. PMID:33008446
Reanalysis of Gene Expression Profiles of CD4+ T Cells Treated with HIV-1 Latency Reversal Agents. PMID:33007800
Top-ranked expressed gene transcripts of human protein-coding genes investigated with GTEx dataset. PMID:33004865
More than just a ticket canceller: the mitochondrial processing peptidase tailors complex precursor proteins at internal cleavage sites. PMID:32997570
Soil origin and plant genotype structure distinct microbiome compartments in the model legume Medicago truncatula. PMID:32988416
Reversal of diet-induced hepatic steatosis by peripheral CB1 receptor blockade in mice is p53/miRNA-22/SIRT1/PPARα dependent. PMID:32987186
Evaluation of the potency of FDA-approved drugs on wild type and mutant SARS-CoV-2 helicase (Nsp13). PMID:32980406
TREND-DB-a transcriptome-wide atlas of the dynamic landscape of alternative polyadenylation. PMID:32976578
A survey of RNA secondary structural propensity encoded within human herpesvirus genomes: global comparisons and local motifs. PMID:32974099
Atypical Retinal Phenotype in a Patient With Alström Syndrome and Biallelic Novel Pathogenic Variants in ALMS1, Including a de novo Variation. PMID:32973878
Comparative Analysis of the Secretome and Interactome of Trypanosoma cruzi and Trypanosoma rangeli Reveals Species Specific Immune Response Modulating Proteins. PMID:32973747
Sequence analysis of SARS-CoV-2 genome reveals features important for vaccine design. PMID:32973171
Exploration into the origins and mobilization of di-hydrofolate reductase genes and the emergence of clinical resistance to trimethoprim. PMID:32969787
Review on the Computational Genome Annotation of Sequences Obtained by Next-Generation Sequencing. PMID:32962098
PRAM: a novel pooling approach for discovering intergenic transcripts from large-scale RNA sequencing experiments. PMID:32958497
FlaGs and webFlaGs: discovering novel biology through the analysis of gene neighbourhood conservation. PMID:32956448
High-resolution epitope mapping of anti-Hu and anti-Yo autoimmunity by programmable phage display. PMID:32954318
Investigation into the effect of divergent feed efficiency phenotype on the bovine rumen microbiota across diet and breed. PMID:32948787
A Reference Genome Sequence for Giant Sequoia. PMID:32948606
Identification and Distribution of Novel Cressdnaviruses and Circular molecules in Four Penguin Species in South Georgia and the Antarctic Peninsula. PMID:32947826
Generalizability of "GWAS Hits" in Clinical Populations: Lessons from Childhood Cancer Survivors. PMID:32946765
One locus with two roles: microRNA-independent functions of microRNA-host-gene locus-encoded long noncoding RNAs. PMID:32945142
Next-generation sequencing of newborn screening genes: the accuracy of short-read mapping. PMID:32944285
Quantitative Data-Independent Acquisition Glycoproteomics of Sparkling Wine. PMID:32938748
Identifying the causes and consequences of assembly gaps using a multiplatform genome assembly of a bird-of-paradise. PMID:32937018
Unraveling the Spiraling Radiation: A Phylogenomic Analysis of Neotropical Costus L. PMID:32922414
Incomplete annotation has a disproportionate impact on our understanding of Mendelian and complex neurogenetic disorders. PMID:32917675
Genesis of Non-Coding RNA Genes in Human Chromosome 22-A Sequence Connection with Protein Genes Separated by Evolutionary Time. PMID:32899105
High-throughput single-cell functional elucidation of neurodevelopmental disease-associated genes reveals convergent mechanisms altering neuronal differentiation. PMID:32887689
Reconstruction of clone- and haplotype-specific cancer genome karyotypes from bulk tumor samples. PMID:32887685
TBDB: a database of structurally annotated T-box riboswitch:tRNA pairs. PMID:32882008
Evolutionary and Functional Analysis of Korean Native Pig Using Single Nucleotide Polymorphisms. PMID:32868490
Deciphering Aspergillus fumigatus cyp51A-mediated triazole resistance by pyrosequencing of respiratory specimens. PMID:32862231
A complete and flexible workflow for metaproteomics data analysis based on MetaProteomeAnalyzer and Prophane. PMID:32859984
Microbial natural product databases: moving forward in the multi-omics era. PMID:32856641
Investigating Cell Signaling with Gene Expression Datasets. PMID:32855998
Salmonella enterica serovar Typhimurium inhibits the innate immune response and promotes apoptosis in a ribosomal/TRP53-dependent manner in swine neutrophils. PMID:32854785
Analytical Performance Validation of Next-Generation Sequencing Based Clinical Microbiology Assays Using a K-mer Analysis Workflow. PMID:32849463
Functionally uncoupled transcription-translation in Bacillus subtilis. PMID:32848247
A Single Human VH-gene Allows for a Broad-Spectrum Antibody Response Targeting Bacterial Lipopolysaccharides in the Blood. PMID:32846123
First Steps in the Analysis of Prokaryotic Pan-Genomes. PMID:32843837
A rare bacterial RNA motif is implicated in the regulation of the purF gene whose encoded enzyme synthesizes phosphoribosylamine. PMID:32843366
PINCER: improved CRISPR/Cas9 screening by efficient cleavage at conserved residues. PMID:32821942
The Polycomb-associated factor PHF19 controls hematopoietic stem cell state and differentiation. PMID:32821835
Y chromosome in health and diseases. PMID:32817785
Presence of toxin-antitoxin systems in picocyanobacteria and their ecological implications. PMID:32814864
Leukemic stem cell phenotype is associated with mutational profile in acute myeloid leukemia. PMID:32811132
A specific combination of dual index adaptors decreases the sensitivity of amplicon sequencing with the Illumina platform. PMID:32810209
Interplay between Position-Dependent Codon Usage Bias and Hydrogen Bonding at the 5' End of ORFeomes. PMID:32788408
Population analysis of the Korean native duck using whole-genome sequencing data. PMID:32787779
Proteomics in Non-model Organisms: A New Analytical Frontier. PMID:32786681
A comprehensive CHO SWATH-MS spectral library for robust quantitative profiling of 10,000 proteins. PMID:32782267
Identification of Circovirus Genome in a Chinstrap Penguin (Pygoscelis antarcticus) and Adélie Penguin (Pygoscelis adeliae) on the Antarctic Peninsula. PMID:32781620
Analysis of the Antifungal Properties of Bacillus velezensis B-4 Through a Bioassay and Complete-Genome Sequencing. PMID:32765583
A Practical Method to Implement Strain-Level Metagenomics-Based Foodborne Outbreak Investigation and Source Tracking in Routine. PMID:32764329
Pentose degradation in archaea: Halorhabdus species degrade D-xylose, L-arabinose and D-ribose via bacterial-type pathways. PMID:32761262
NCBI Taxonomy: a comprehensive update on curation, resources and tools. PMID:32761142
Prognostic impact of TP53 mutation, monosomal karyotype, and prior myeloid disorder in nonremission acute myeloid leukemia at allo-HSCT. PMID:32760007
Bactopia: a Flexible Pipeline for Complete Analysis of Bacterial Genomes. PMID:32753501
The origin and evolution of viruses inferred from fold family structure. PMID:32748179
Guidelines for human gene nomenclature. PMID:32747822
Model-based analysis of chromatin interactions from dCas9-Based CAPTURE-3C-seq. PMID:32735574
Phylogenomic Analyses of Non-Dikarya Fungi Supports Horizontal Gene Transfer Driving Diversification of Secondary Metabolism in the Amphibian Gastrointestinal Symbiont, Basidiobolus. PMID:32727924
Batch-Learning Self-Organizing Map Identifies Horizontal Gene Transfer Candidates and Their Origins in Entire Genomes. PMID:32719664
Unambiguous identification of fungi: where do we stand and how accurate and precise is fungal DNA barcoding? PMID:32714773
The RNA exosome shapes the expression of key protein-coding genes. PMID:32710631
High-Quality Resolution of the Outbreak-Related Zika Virus Genome and Discovery of New Viruses Using Ion Torrent-Based Metatranscriptomics. PMID:32708079
Differentially expressed lncRNAs, miRNAs and mRNAs with associated ceRNA networks in a mouse model of myocardial ischemia/reperfusion injury. PMID:32705277
Cell type-specific novel long non-coding RNA and circular RNA in the BLUEPRINT hematopoietic transcriptomes atlas. PMID:32703790
Family-based exome sequencing combined with linkage analyses identifies rare susceptibility variants of MUC4 for gastric cancer. PMID:32701958
Conservation of Cdc14 phosphatase specificity in plant fungal pathogens: implications for antifungal development. PMID:32694511
Association Between the Gut Microbiota and Blood Pressure in a Population Cohort of 6953 Individuals. PMID:32691653
Conserved Genomic Terminals of SARS-CoV-2 as Co-evolving Functional Elements and Potential Therapeutic Targets. PMID:32676601
Complete genome sequences of Streptococcus pyogenes type strain reveal 100%-match between PacBio-solo and Illumina-Oxford Nanopore hybrid assemblies. PMID:32669560
Gut microbiome signatures of nursing home residents carrying Enterobacteria producing extended-spectrum β-lactamases. PMID:32665016
Classification of 16S rRNA reads is improved using a niche-specific database constructed by near-full length sequencing. PMID:32658916
Single-Cell Genomics of Novel Actinobacteria With the Wood-Ljungdahl Pathway Discovered in a Serpentinizing System. PMID:32655506
Molecular neuroanatomy of anorexia nervosa. PMID:32651428
Chromosome-level de novo assembly of the pig-tailed macaque genome using linked-read sequencing and HiC proximity scaffolding. PMID:32649757
Mismatch-tolerant, alignment-free sequence classification using multiple spaced seeds and multiindex Bloom filters. PMID:32641514
Using iCn3D and the World Wide Web for structure-based collaborative research: Analyzing molecular interactions at the root of COVID-19. PMID:32637961
Descent of Bacteria and Eukarya From an Archaeal Root of Life. PMID:32636606
A redox-active switch in fructosamine-3-kinases expands the regulatory repertoire of the protein kinase superfamily. PMID:32636308
RNA is essential for PRC2 chromatin occupancy and function in human pluripotent stem cells. PMID:32632336
Fully Phased Sequence of a Diploid Human Genome Determined de Novo from the DNA of a Single Individual. PMID:32631951
Sequence Compression Benchmark (SCB) database-A comprehensive evaluation of reference-free compressors for FASTA-formatted sequences. PMID:32627830
Identifying States of Collateral Sensitivity during the Evolution of Therapeutic Resistance in Ewing's Sarcoma. PMID:32623338
High-resolution temporal profiling of the human gut microbiome reveals consistent and cascading alterations in response to dietary glycans. PMID:32620143
LEMMI: a continuous benchmarking platform for metagenomics classifiers. PMID:32616517
Genomic characterization of the most barotolerant Listeria monocytogenes RO15 strain compared to reference strains used to evaluate food high pressure processing. PMID:32615922
A Chromatin Accessibility Atlas of the Developing Human Telencephalon. PMID:32610082
Structural Genomics of repA, repB 1-Carrying IncFIB Family pA1705-qnrS, P911021-tetA, and P1642-tetA, Multidrug-Resistant Plasmids from Klebsiella pneumoniae. PMID:32606838
Expression of DOCK9 and DOCK11 Analyzed with Commercial Antibodies: Focus on Regulation of Mutually Exclusive First Exon Isoforms. PMID:32605015
Comparative analysis of metabolic and transcriptomic features of Nothobranchius furzeri. PMID:32603650
MetaRibo-Seq measures translation in microbiomes. PMID:32601270
Targeted RNA sequencing enhances gene expression profiling of ultra-low input samples. PMID:32597303
Trans-generational epigenetic regulation associated with the amelioration of Duchenne Muscular Dystrophy. PMID:32596946
Macrophages and Associated Ligands in the Aged Injured Nerve: A Defective Dynamic That Contributes to Reduced Axonal Regrowth. PMID:32595489
Reservoirs of antimicrobial resistance genes in retail raw milk. PMID:32591006
Only a Single Taxonomically Restricted Gene Family in the Drosophila melanogaster Subgroup Can Be Identified with High Confidence. PMID:32589737
Diphthamide-deficiency syndrome: a novel human developmental disorder and ribosomopathy. PMID:32576952
Advanced paternal age as a risk factor for neurodevelopmental disorders: a translational study. PMID:32576230
Urine 6-Bromotryptophan: Associations with Genetic Variants and Incident End-Stage Kidney Disease. PMID:32572055
CandiMeth: Powerful yet simple visualization and quantification of DNA methylation at candidate genes. PMID:32568373
Clinical and Genomic Epidemiology of Carbapenem-Nonsusceptible Citrobacter spp. at a Tertiary Health Care Center over 2 Decades. PMID:32554477
Metabolomics as an Emerging Tool in the Search for Astrobiologically Relevant Biomarkers. PMID:32551936
The Power of Three in Cannabis Shotgun Proteomics: Proteases, Databases and Search Engines. PMID:32549361
Heterotrophic Thaumarchaea with Small Genomes Are Widespread in the Dark Ocean. PMID:32546674
Directed remodeling of the mouse gut microbiome inhibits the development of atherosclerosis. PMID:32541956
Met-Flow, a strategy for single-cell metabolic analysis highlights dynamic changes in immune subpopulations. PMID:32533056
Acellular bioscaffolds redirect cardiac fibroblasts and promote functional tissue repair in rodents and humans with myocardial injury. PMID:32528051
Targeting CD33 in Chemoresistant AML Patient-Derived Xenografts by CAR-CIK Cells Modified with an Improved SB Transposon System. PMID:32526203
Recent molecular insights into canonical pre-mRNA 3'-end processing. PMID:32522085
Evaluating Eucalyptus leaf colonization by Brasilonema octagenarum (Cyanobacteria, Scytonemataceae) using in planta experiments and genomics. PMID:32518725
Gut-Brain Axis and Neurodegeneration: State-of-the-Art of Meta-Omics Sciences for Microbiota Characterization. PMID:32516966
IRESbase: A Comprehensive Database of Experimentally Validated Internal Ribosome Entry Sites. PMID:32512182
Shotgun Transcriptome and Isothermal Profiling of SARS-CoV-2 Infection Reveals Unique Host Responses, Viral Diversification, and Drug Interactions. PMID:32511352
Sequence analysis of SARS-CoV-2 genome reveals features important for vaccine design. PMID:32511300
Evolution of Salmonella enterica serotype Typhimurium driven by anthropogenic selection and niche adaptation. PMID:32511244
Identifying genetic variants and pathways associated with extreme levels of fetal hemoglobin in sickle cell disease in Tanzania. PMID:32503527
Proteasome subunit PSMC3 variants cause neurosensory syndrome combining deafness and cataract due to proteotoxic stress. PMID:32500975
Cell density alters bacterial community structure in culture-enriched 16S rRNA gene microbiota profiling. PMID:32493423
A tissue level atlas of the healthy human virome. PMID:32493363
Supernumerary B chromosomes of Aegilops speltoides undergo precise elimination in roots early in embryo development. PMID:32488019
An Independent Locus Upstream of ASIP Controls Variation in the Shade of the Bay Coat Colour in Horses. PMID:32486210
Comprehensive database and evolutionary dynamics of U12-type introns. PMID:32484558
Skeletal muscle enhancer interactions identify genes controlling whole-body metabolism. PMID:32483258
Similar yet different: phylogenomic analysis to delineate Salmonella and Citrobacter species boundaries. PMID:32471418
Dental Calculus as a Tool to Study the Evolution of the Mammalian Oral Microbiome. PMID:32467975
Flexible Mixture Model Approaches That Accommodate Footprint Size Variability for Robust Detection of Balancing Selection. PMID:32462188
The recurrent SETBP1 c.2608G > A, p.(Gly870Ser) variant in a patient with Schinzel-Giedion syndrome: an illustrative case of the utility of whole exome sequencing in a critically ill neonate. PMID:32460883
CodAn: predictive models for precise identification of coding regions in eukaryotic transcripts. PMID:32460307
Expression of RUNX1-ETO Rapidly Alters the Chromatin Landscape and Growth of Early Human Myeloid Precursor Cells. PMID:32460028
Complete Mitochondrial Genome of the Fungal Biocontrol Agent Trichoderma atroviride: Genomic Features, Comparative Analysis and Insight Into the Mitochondrial Evolution in Trichoderma. PMID:32457712
Overlapping Vitamin A Interventions with Provitamin A Carotenoids and Preformed Vitamin A Cause Excessive Liver Retinol Stores in Male Mongolian Gerbils. PMID:32455433
Macrophage development and activation involve coordinated intron retention in key inflammatory regulators. PMID:32449925
Impact of C-terminal amino acid composition on protein expression in bacteria. PMID:32449593
Discovery of 20 novel ribosomal leader candidates in bacteria and archaea. PMID:32448158
VADR: validation and annotation of virus sequence submissions to GenBank. PMID:32448124
An Unusual Amino Acid Substitution Within Hummingbird Cytochrome c Oxidase Alters a Key Proton-Conducting Channel. PMID:32444359
TraPS-VarI: Identifying genetic variants altering phosphotyrosine based signalling motifs. PMID:32439998
Gene expression of functionally-related genes coevolves across fungal species: detecting coevolution of gene expression using phylogenetic comparative methods. PMID:32434474
Chromosomal-Level Genome Assembly of the Sea Urchin Lytechinus variegatus Substantially Improves Functional Genomic Analyses. PMID:32433766
ARTS 2.0: feature updates and expansion of the Antibiotic Resistant Target Seeker for comparative genome mining. PMID:32427317
Secretome-Based Screening in Target Discovery. PMID:32425085
Metagenomic Analysis of Regularly Microwave-Treated and Untreated Domestic Kitchen Sponges. PMID:32423128
Identification of Upstream Transcriptional Regulators of Ischemic Cardiomyopathy Using Cardiac RNA-Seq Meta-Analysis. PMID:32423033
The Evolution of Human Cancer Gene Duplications across Mammals. PMID:32421773
Progress, Challenges, and Surprises in Annotating the Human Genome. PMID:32421357
Large-scale network analysis captures biological features of bacterial plasmids. PMID:32415210
Construction of habitat-specific training sets to achieve species-level assignment in 16S rRNA gene datasets. PMID:32414415
CSN: unsupervised approach for inferring biological networks based on the genome alone. PMID:32414319
Missense NR2F1 variant in monozygotic twins affected with the Bosch-Boonstra-Schaaf optic atrophy syndrome. PMID:32412696
Comprehensive Mining and Characterization of CRISPR-Cas Systems in Bifidobacterium. PMID:32408568
Dynamics of the Stool Virome in Very Early-Onset Inflammatory Bowel Disease. PMID:32406906
Discovery of thermophilic Bacillales using reduced-representation genotyping for identification. PMID:32404118
Terminating contamination: large-scale search identifies more than 2,000,000 contaminated entries in GenBank. PMID:32398145
Podocytic infolding in Schimke immuno-osseous dysplasia with novel SMARCAL1 mutations: a case report. PMID:32393263
Assessment of a Potential Role of Dickeya dadantii DSM 18020 as a Pectinase Producer for Utilization in Poultry Diets Based on in silico Analyses. PMID:32390987
Tree Root Zone Microbiome: Exploring the Magnitude of Environmental Conditions and Host Tree Impact. PMID:32390986
Bioinformatics Resources for Plant Abiotic Stress Responses: State of the Art and Opportunities in the Fast Evolving -Omics Era. PMID:32384671
Knowledge-based structural models of SARS-CoV-2 proteins and their complexes with potential drugs. PMID:32379896
Tissue memory CD4+ T cells expressing IL-7 receptor-alpha (CD127) preferentially support latent HIV-1 infection. PMID:32353080
EM-mosaic detects mosaic point mutations that contribute to congenital heart disease. PMID:32349777
Ribosomal Protein S27/Metallopanstimulin-1 (RPS27) in Glioma-A New Disease Biomarker? PMID:32349320
A complete domain-to-species taxonomy for Bacteria and Archaea. PMID:32341564
Identification of an unauthorized genetically modified bacteria in food enzyme through whole-genome sequencing. PMID:32341433
VarFish: comprehensive DNA variant analysis for diagnostics and research. PMID:32338743
rG4-seeker enables high-confidence identification of novel and non-canonical rG4 motifs from rG4-seq experiments. PMID:32338139
Comparative Metatranscriptomics of Periodontitis Supports a Common Polymicrobial Shift in Metabolic Function and Identifies Novel Putative Disease-Associated ncRNAs. PMID:32328037
GlyGen data model and processing workflow. PMID:32324859
Alternative proteins are functional regulators in cell reprogramming by PKA activation. PMID:32324228
gammaBOriS: Identification and Taxonomic Classification of Origins of Replication in Gammaproteobacteria using Motif-based Machine Learning. PMID:32317695
The Potential Role of Complement System in the Progression of Ovarian Clear Cell Carcinoma Inferred from the Gene Ontology-Based Immunofunctionome Analysis. PMID:32316695
Salmonella Pathogenicity Island 1 (SPI-1): The Evolution and Stabilization of a Core Genomic Type Three Secretion System. PMID:32316180
DolphinNext: a distributed data processing platform for high throughput genomics. PMID:32306927
Human Leukocyte Antigen Susceptibility Map for Severe Acute Respiratory Syndrome Coronavirus 2. PMID:32303592
Whole-genome genotyping and resequencing reveal the association of a deletion in the complex interferon alpha gene cluster with hypothyroidism in dogs. PMID:32299354
Ischaemic post-conditioning in rats: Responder and non-responder differ in transcriptome of mitochondrial proteins. PMID:32297702
Translation-Targeting RiPPs and Where to Find Them. PMID:32296456
Prot2HG: a database of protein domains mapped to the human genome. PMID:32293014
First de novo whole genome sequencing and assembly of the bar-headed goose. PMID:32292659
A comprehensive annotation and differential expression analysis of short and long non-coding RNAs in 16 bat genomes. PMID:32289119
A Tale of Two Families: Whole Genome and Segmental Duplications Underlie Glutamine Synthetase and Phosphoenolpyruvate Carboxylase Diversity in Narrow-Leafed Lupin (Lupinus angustifolius L.). PMID:32276381
Noncoding regions underpin avian bill shape diversification at macroevolutionary scales. PMID:32269134
Pseudomonas putida KT2440 is naturally endowed to withstand industrial-scale stress conditions. PMID:32267616
Improving the usability and comprehensiveness of microbial databases. PMID:32264902
A Novel Divergent Geminivirus Identified in Asymptomatic New World Cactaceae Plants. PMID:32260283
Dynamic genome evolution and complex virocell metabolism of globally-distributed giant viruses. PMID:32249765
Hepatitis B Virus HBx Protein Mediates the Degradation of Host Restriction Factors through the Cullin 4 DDB1 E3 Ubiquitin Ligase Complex. PMID:32235678
Global expression and CpG methylation analysis of primary endothelial cells before and after TNFa stimulation reveals gene modules enriched in inflammatory and infectious diseases and associated DMRs. PMID:32231389
A large-scale comparative study of isoform expressions measured on four platforms. PMID:32228441
Structural basis for substrate and product recognition in human phosphoglucomutase-1 (PGM1) isoform 2, a member of the α-D-phosphohexomutase superfamily. PMID:32221390
Formation of human long intergenic non-coding RNA genes, pseudogenes, and protein genes: Ancestral sequences are key players. PMID:32214344
CDK1 dependent phosphorylation of hTERT contributes to cancer progression. PMID:32214089
Novel IncR/IncP6 Hybrid Plasmid pCRE3-KPC Recovered from a Clinical KPC-2-Producing Citrobacter braakii Isolate. PMID:32213624
Systems analysis of RhoGEF and RhoGAP regulatory proteins reveals spatially organized RAC1 signalling from integrin adhesions. PMID:32203420
Benchmarking the MinION: Evaluating long reads for microbial profiling. PMID:32198413
Safety Considerations for Malaria Volunteer Infection Studies: A Mini-Review. PMID:32189610
Isolation of Drug-Resistant Gallibacterium anatis from Calves with Unresponsive Bronchopneumonia, Belgium. PMID:32186507
Consumption of Fermented Foods Is Associated with Systematic Differences in the Gut Microbiome and Metabolome. PMID:32184365
Effects of High-Dose Ionizing Radiation in Human Gene Expression: A Meta-Analysis. PMID:32178397
An Efficient, Scalable, and Exact Representation of High-Dimensional Color Information Enabled Using de Bruijn Graph Search. PMID:32176522
Mutated ATP10B increases Parkinson's disease risk by compromising lysosomal glucosylceramide export. PMID:32172343
Brown marmorated stink bug, Halyomorpha halys (Stål), genome: putative underpinnings of polyphagy, insecticide resistance potential and biology of a top worldwide pest. PMID:32171258
Comparative genomic analysis of inbred rat strains reveals the existence of ancestral polymorphisms. PMID:32166433
Mapping of the chicken cleft primary palate mutation on chromosome 11 and sequencing of the 4.9 Mb linked region. PMID:32162363
Analysis of Identification Method for Bacterial Species and Antibiotic Resistance Genes Using Optical Data From DNA Oligomers. PMID:32153541
Bacterial Genes Outnumber Archaeal Genes in Eukaryotic Genomes. PMID:32142116
Microbial and Viral Communities and Their Antibiotic Resistance Genes Throughout a Hospital Wastewater Treatment System. PMID:32140141
Bacterial Group II Intron Genomic Neighborhoods Reflect Survival Strategies: Hiding and Hijacking. PMID:32134458
Disruption of the kringle 1 domain of prothrombin leads to late onset mortality in zebrafish. PMID:32132579
Comparative genomic analysis reveals high intra-serovar plasticity within Salmonella Napoli isolated in 2005-2017. PMID:32131727
Hierarchy in Hfq Chaperon Occupancy of Small RNA Targets Plays a Major Role in Their Regulation. PMID:32130912
Expert curation of the human and mouse olfactory receptor gene repertoires identifies conserved coding regions split across two exons. PMID:32126975
Human Hepatocyte Nuclear Factor 4-α Encodes Isoforms with Distinct Transcriptional Functions. PMID:32123031
Genome-wide discovery, and computational and transcriptional characterization of an AIG gene family in the freshwater snail Biomphalaria glabrata, a vector for Schistosoma mansoni. PMID:32122294
Genome-wide Association Analysis in Humans Links Nucleotide Metabolism to Leukocyte Telomere Length. PMID:32109421
PSORTm: a bacterial and archaeal protein subcellular localization prediction tool for metagenomics data. PMID:32108861
The complex genetic landscape of familial MDS and AML reveals pathogenic germline variants. PMID:32098966
Improving Characterization of Understudied Human Microbiomes Using Targeted Phylogenetics. PMID:32098835
Tximeta: Reference sequence checksums for provenance identification in RNA-seq. PMID:32097405
Pre- and post-sequencing recommendations for functional annotation of human fecal metagenomes. PMID:32093654
A guide to naming human non-coding RNA genes. PMID:32090359
neoANT-HILL: an integrated tool for identification of potential neoantigens. PMID:32087727
Metaphylogenetic analysis of global sewage reveals that bacterial strains associated with human disease show less degree of geographic clustering. PMID:32080241
Differential Allele-Specific Expression Uncovers Breast Cancer Genes Dysregulated by Cis Noncoding Mutations. PMID:32078798
Predicting clinical benefit of immunotherapy by antigenic or functional mutations affecting tumour immunogenicity. PMID:32075964
Assembly-free single-molecule sequencing recovers complete virus genomes from natural microbial communities. PMID:32075851
An atlas of transposable element-derived alternative splicing in cancer. PMID:32075558
Contents, Construction Methods, Data Resources, and Functions Comparative Analysis of Bacteria Databases. PMID:32071553
Long-read sequencing identifies the pathogenic nucleotide repeat expansion in RFC1 in a Japanese case of CANVAS. PMID:32066831
Whole-exome sequencing of 81 individuals from 27 multiply affected bipolar disorder families. PMID:32066727
Reconstructing the evolutionary history of nitrogenases: Evidence for ancestral molybdenum-cofactor utilization. PMID:32065506
A Novel Prognostic Index Based on Alternative Splicing in Papillary Renal Cell Carcinoma. PMID:32063918
Metabolic dependencies govern microbial syntrophies during methanogenesis in an anaerobic digestion ecosystem. PMID:32061251
Double-stranded DNA virioplankton dynamics and reproductive strategies in the oligotrophic open ocean water column. PMID:32060418
Proteogenomic Characterization of Endometrial Carcinoma. PMID:32059776
Exploration of databases and methods supporting drug repurposing: a comprehensive survey. PMID:32055842
Microbial resolution of whole genome shotgun and 16S amplicon metagenomic sequencing using publicly available NEON data. PMID:32053657
NCBP2 modulates neurodevelopmental defects of the 3q29 deletion in Drosophila and Xenopus laevis models. PMID:32053595
CLEAR: coverage-based limiting-cell experiment analysis for RNA-seq. PMID:32039730
LINC01420 RNA structure and influence on cell physiology. PMID:32039714
Candidate gene screen for potential interaction partners and regulatory targets of the Hox gene labial in the spider Parasteatoda tepidariorum. PMID:32036446
Single-cell ATAC-Seq in human pancreatic islets and deep learning upscaling of rare cells reveals cell-specific type 2 diabetes regulatory signatures. PMID:32029221
Genomic diversity affects the accuracy of bacterial single-nucleotide polymorphism-calling pipelines. PMID:32025702
Pan-cancer analysis of whole genomes identifies driver rearrangements promoted by LINE-1 retrotransposition. PMID:32024998
Identification and characterization of novel filament-forming proteins in cyanobacteria. PMID:32024928
Organizing genome engineering for the gigabase scale. PMID:32019919
Whole-proteome tree of life suggests a deep burst of organism diversity. PMID:32019884
Estradiol-17β-Induced Changes in the Porcine Endometrial Transcriptome In Vivo. PMID:32019139
Structure-Mediated RNA Decay by UPF1 and G3BP1. PMID:32017897
Construction of a prognosis‑associated long noncoding RNA‑mRNA network for multiple myeloma based on microarray and bioinformatics analysis. PMID:32016443
Concentration-Dependent Recruitment of Mammalian Odorant Receptors. PMID:32015097
Discovery of several thousand highly diverse circular DNA viruses. PMID:32014111
Unveiling ncRNA regulatory axes in atherosclerosis progression. PMID:32009226
LAMPA, LArge Multidomain Protein Annotator, and its application to RNA virus polyproteins. PMID:32003788
Simulating metagenomic stable isotope probing datasets with MetaSIPSim. PMID:32000676
Genome-Wide Association Study of Brain Connectivity Changes for Alzheimer's Disease. PMID:31996736
Characterization and diversity of the complete set of GH family 3 enzymes from Rhodothermus marinus DSM 4253. PMID:31992772
The round goby genome provides insights into mechanisms that may facilitate biological invasions. PMID:31992286
QuantTB - a method to classify mixed Mycobacterium tuberculosis infections within whole genome sequencing data. PMID:31992201
Assessment of branch point prediction tools to predict physiological branch points and their alteration by variants. PMID:31992191
Genetic architecture study of rheumatoid arthritis and juvenile idiopathic arthritis. PMID:31988799
Diversity and metabolism of Woeseiales bacteria, global members of marine sediment communities. PMID:31988474
Large-Scale Exome Sequencing Study Implicates Both Developmental and Functional Changes in the Neurobiology of Autism. PMID:31981491
Reducing the structure bias of RNA-Seq reveals a large number of non-annotated non-coding RNA. PMID:31980822
Compartment and hub definitions tune metabolic networks for metabolomic interpretations. PMID:31972021
Mobilizable antibiotic resistance genes are present in dust microbial communities. PMID:31971995
Paenibacillus odorifer, the Predominant Paenibacillus Species Isolated from Milk in the United States, Demonstrates Genetic and Phenotypic Conservation of Psychrotolerance but Clade-Associated Differences in Nitrogen Metabolic Pathways. PMID:31969477
Solving the transcription start site identification problem with ADAPT-CAGE: a Machine Learning algorithm for the analysis of CAGE data. PMID:31965016
Microbial composition of Kombucha determined using amplicon sequencing and shotgun metagenomics. PMID:31957879
Metagenomic Shotgun Analyses Reveal Complex Patterns of Intra- and Interspecific Variation in the Intestinal Microbiomes of Codfishes. PMID:31953333
Meta-Analysis of Dilated Cardiomyopathy Using Cardiac RNA-Seq Transcriptomic Datasets. PMID:31948008
Epigenetic plasticity of enhancers in cancer. PMID:31944157
Enhanced genome assembly and a new official gene set for Tribolium castaneum. PMID:31937263
Unique and non-redundant function of csf1r paralogues in regulation and evolution of post-embryonic development of the zebrafish. PMID:31932352
GLAPD: Whole Genome Based LAMP Primer Design for a Set of Target Genomes. PMID:31921040
Genome-Scale Metabolic Reconstruction of Acetobacter pasteurianus 386B, a Candidate Functional Starter Culture for Cocoa Bean Fermentation. PMID:31921009
SWeeP: representing large biological sequences datasets in compact vectors. PMID:31919449
A Transcriptome-Wide Association Study Identifies Novel Candidate Susceptibility Genes for Pancreatic Cancer. PMID:31917448
CAMITAX: Taxon labels for microbial genomes. PMID:31909794
The study on copy number alteration of clear cell renal cancer in Chinese population. PMID:31892969
Sparse Binary Relation Representations for Genome Graph Annotation. PMID:31891531
Few SINEs of life: Alu elements have little evidence for biological relevance despite elevated translation. PMID:31886458
Parallel Reaction Monitoring reveals structure-specific ceramide alterations in the zebrafish. PMID:31882772
Local adaptation of a dominant coastal tree to freshwater availability and solar radiation suggested by genomic and ecophysiological approaches. PMID:31882752
NmSEER V2.0: a prediction tool for 2'-O-methylation sites based on random forest and multi-encoding combination. PMID:31874624
Terminal neuron localization to the upper cortical plate is controlled by the transcription factor NEUROD2. PMID:31873146
RSAT variation-tools: An accessible and flexible framework to predict the impact of regulatory variants on transcription factor binding. PMID:31871587
Evolutionary Diversity of Prophage DNA in Klebsiella pneumoniae Chromosomes. PMID:31866991
Metabolic Modeling Elucidates the Transactions in the Rumen Microbiome and the Shifts Upon Virome Interactions. PMID:31866953
Regulatory context drives conservation of glycine riboswitch aptamers. PMID:31860665
A diverse uncultivated microbial community is responsible for organic matter degradation in the Black Sea sulphidic zone. PMID:31858660
A tRNA-Derived Small RNA Regulates Ribosomal Protein S28 Protein Levels after Translation Initiation in Humans and Mice. PMID:31851915
A Bioinformatics Approach to Explore MicroRNAs as Tools to Bridge Pathways Between Plants and Animals. Is DNA Damage Response (DDR) a Potential Target Process? PMID:31850028
Current challenges and best-practice protocols for microbiome analysis. PMID:31848574
Insights into malaria susceptibility using genome-wide data on 17,000 individuals from Africa, Asia and Oceania. PMID:31844061
Conditions of embryo culture from days 5 to 7 of development alter the DNA methylome of the bovine fetus at day 86 of gestation. PMID:31838628
Retrospective Validation of a Metagenomic Sequencing Protocol for Combined Detection of RNA and DNA Viruses Using Respiratory Samples from Pediatric Patients. PMID:31837435
Study on the Infection Mechanism of Penicillium Digitatum on Postharvest Citrus (Citrus Reticulata Blanco) Based on Transcriptomics. PMID:31835573
A genomic predictor of lifespan in vertebrates. PMID:31831772
Evolutionarily novel genes are expressed in transgenic fish tumors and their orthologs are involved in development of progressive traits in humans. PMID:31827597
GenoSurf: metadata driven semantic search system for integrated genomic datasets. PMID:31820804
Statistical methods for testing X chromosome variant associations: application to sex-specific characteristics of bipolar disorder. PMID:31818333
Basis of PD1/PD-L1 Therapies. PMID:31817953
Genomic Diversity of Common Sequence Types of Listeria monocytogenes Isolated from Ready-to-Eat Products of Animal Origin in South Africa. PMID:31817243
Re-annotation of 191 developmental and epileptic encephalopathy-associated genes unmasks de novo variants in SCN1A. PMID:31814998
Current RNA-seq methodology reporting limits reproducibility. PMID:31813948
Type 1, 2, and 1/2-Hybrid IncC Plasmids From China. PMID:31803147
Dashing: fast and accurate genomic distances with HyperLogLog. PMID:31801633
Epigenetic therapy of novel tumour suppressor ZAR1 and its cancer biomarker function. PMID:31801617
Exploiting the Feedstock Flexibility of the Emergent Synthetic Biology Chassis Vibrio natriegens for Engineered Natural Product Production. PMID:31801279
Detecting, Categorizing, and Correcting Coverage Anomalies of RNA-Seq Quantification. PMID:31786209
Sex-Based Analysis of De Novo Variants in Neurodevelopmental Disorders. PMID:31785789
7-Deazaguanine modifications protect phage DNA from host restriction systems. PMID:31784519
New C-Terminal Conserved Regions of Tafazzin, a Catalyst of Cardiolipin Remodeling. PMID:31781330
A Plant Growth-Promoting Microbial Soil Amendment Dynamically Alters the Strawberry Root Bacterial Microbiome. PMID:31776356
Enhancement of de novo sequencing, assembly and annotation of the Mongolian gerbil genome with transcriptome sequencing and assembly from several different tissues. PMID:31775624
Codon Usage in the Iflaviridae Family Is Not Diverse Though the Family Members Are Isolated from Diverse Host Taxa. PMID:31766648
Food authentication from shotgun sequencing reads with an application on high protein powders. PMID:31754632
First Report of Coexistence of Three Different MDR Plasmids, and That of Occurrence of IMP-Encoding Plasmid in Leclercia adecarboxylata. PMID:31749779
A Review on Viral Metagenomics in Extreme Environments. PMID:31749771
ChiTaRS 5.0: the comprehensive database of chimeric transcripts matched with druggable fusions and 3D chromatin maps. PMID:31747015
SPDI: data model for variants and applications at NCBI. PMID:31738401
A Cautionary Report for Pathogen Identification Using Shotgun Metagenomics; A Comparison to Aerobic Culture and Polymerase Chain Reaction for Salmonella enterica Identification. PMID:31736924
DIANA-LncBase v3: indexing experimentally supported miRNA targets on non-coding transcripts. PMID:31732741
Combined gene essentiality scoring improves the prediction of cancer dependency maps. PMID:31732481
SyntDB: defining orthologues of human long noncoding RNAs across primates. PMID:31728519
eIF4A supports an oncogenic translation program in pancreatic ductal adenocarcinoma. PMID:31723131
Seasonal Dynamics of Algae-Infecting Viruses and Their Inferred Interactions with Protists. PMID:31717498
Unlinked rRNA genes are widespread among bacteria and archaea. PMID:31712737
A Bioinformatics Guide to Plant Microbiome Analysis. PMID:31708944
PyGMQL: scalable data extraction and analysis for heterogeneous genomic datasets. PMID:31703553
Complex alternative splicing of human Endonuclease V mRNA, but evidence for only a single protein isoform. PMID:31703097
Linking high GC content to the repair of double strand breaks in prokaryotic genomes. PMID:31703064
Children with vesicoureteric reflux have joint hypermobility and occasional tenascin XB sequence variants. PMID:31702543
Free circular introns with an unusual branchpoint in neuronal projections. PMID:31697236
TCR Fingerprinting and Off-Target Peptide Identification. PMID:31695703
Evaluation of 16S rRNA gene sequencing for species and strain-level microbiome analysis. PMID:31695033
A diagnostic ceiling for exome sequencing in cerebellar ataxia and related neurological disorders. PMID:31692161
Structural characterization of the RH1-LZI tandem of JIP3/4 highlights RH1 domains as a cytoskeletal motor-binding motif. PMID:31690808
Mash Screen: high-throughput sequence containment estimation for genome discovery. PMID:31690338
Effectiveness of integrated interpretation of exome and corresponding transcriptome data for detecting splicing variants of genes associated with autosomal recessive disorders. PMID:31687339
Identification of gene specific cis-regulatory elements during differentiation of mouse embryonic stem cells: An integrative approach using high-throughput datasets. PMID:31682597
A multi-omics digital research object for the genetics of sleep regulation. PMID:31672980
NPInter v4.0: an integrated database of ncRNA interactions. PMID:31670377
A large intragenic deletion in the CLCN1 gene causes Hereditary Myotonia in pigs. PMID:31666547
Gene Composition as a Potential Barrier to Large Recombinations in the Bacterial Pathogen Klebsiella pneumoniae. PMID:31665331
Uncovering extensive post-translation regulation during human cell cycle progression by integrative multi-'omics analysis. PMID:31664894
Fecal Transplant in Children With Clostridioides difficile Gives Sustained Reduction in Antimicrobial Resistance and Potential Pathogen Burden. PMID:31660343
Further evidence of involvement of TMEM132E in autosomal recessive nonsyndromic hearing impairment. PMID:31656313
Release of insulin produced by the choroid plexis is regulated by serotonergic signaling. PMID:31647782
miRTarBase 2020: updates to the experimentally validated microRNA-target interaction database. PMID:31647101
SpliceHetero: An information theoretic approach for measuring spliceomic intratumor heterogeneity from bulk tumor RNA-seq. PMID:31644551
ExonSkipDB: functional annotation of exon skipping event in human. PMID:31642488
Robust taxonomic classification of uncharted microbial sequences and bins with CAT and BAT. PMID:31640809
Prediction of microbial communities for urban metagenomics using neural network approach. PMID:31639050
Evaluation of off-target effects of gapmer antisense oligonucleotides using human cells. PMID:31637814
The Dynamic Chromatin Architecture of the Regenerating Liver. PMID:31629814
A Nearly Complete Genome of Ciona intestinalis Type A (C. robusta) Reveals the Contribution of Inversion to Chromosomal Evolution in the Genus Ciona. PMID:31621849
Increased expression of hub gene CXCL10 in peripheral blood mononuclear cells of patients with systemic lupus erythematosus. PMID:31616519
Whole Genome Sequencing of Familial Non-Medullary Thyroid Cancer Identifies Germline Alterations in MAPK/ERK and PI3K/AKT Signaling Pathways. PMID:31614935
Hinge Region in DNA Packaging Terminase pUL15 of Herpes Simplex Virus: A Potential Allosteric Target for Antiviral Drugs. PMID:31614784
Bioinformatics for Marine Products: An Overview of Resources, Bottlenecks, and Perspectives. PMID:31614509
Mat_peptide: comprehensive annotation of mature peptides from polyproteins in five virus families. PMID:31609421
Advances and Challenges in Metatranscriptomic Analysis. PMID:31608125
Species abundance information improves sequence taxonomy classification accuracy. PMID:31604942
Contribution of retrotransposition to developmental disorders. PMID:31604926
A systematic evaluation of single cell RNA-seq analysis pipelines. PMID:31604912
Database resources of the National Center for Biotechnology Information. PMID:31602479
snoDB: an interactive database of human snoRNA sequences, abundance and interactions. PMID:31598696
Reduced neonatal brain-derived neurotrophic factor is associated with autism spectrum disorders. PMID:31591381
Uncovering Thousands of New Peptides with Sequence-Mask-Search Hybrid De Novo Peptide Sequencing Framework. PMID:31591261
Whole Genome Sequence of Marinobacter salarius Strain SMR5, Shown to Promote Growth in its Diatom Host. PMID:31588249
APAatlas: decoding alternative polyadenylation across human tissues. PMID:31586392
Mutated CEACAMs Disrupt Transforming Growth Factor Beta Signaling and Alter the Intestinal Microbiome to Promote Colorectal Carcinogenesis. PMID:31585122
Neo-Angiogenesis, Transplant Viability, and Molecular Analyses of Vascularized Bone Allotransplantation Surgery in a Large Animal Model. PMID:31579953
RNA Transcription and Splicing Errors as a Source of Cancer Frameshift Neoantigens for Vaccines. PMID:31578439
Antarctic tundra soil metagenome as useful natural resources of cold-active lignocelluolytic enzymes. PMID:31571125
Plasma growth differentiation factors 8 and 11 levels in cats with congestive heart failure secondary to hypertrophic cardiomyopathy. PMID:31568985
The fecal resistome of dairy cattle is associated with diet during nursing. PMID:31562300
The fitness landscape of the African Salmonella Typhimurium ST313 strain D23580 reveals unique properties of the pBT1 plasmid. PMID:31560731
Variation in nomenclature of somatic variants for selection of oncological therapies: Can we reach a consensus soon? PMID:31553104
Characterization of a NDM-1- Encoding Plasmid pHFK418-NDM From a Clinical Proteus mirabilis Isolate Harboring Two Novel Transposons, Tn6624 and Tn6625. PMID:31551967
Targeted transcriptional modulation with type I CRISPR-Cas systems in human cells. PMID:31548729
Sample Preservation and Storage Significantly Impact Taxonomic and Functional Profiles in Metaproteomics Studies of the Human Gut Microbiome. PMID:31546776
BPSL1626: Reverse and Structural Vaccinology Reveal a Novel Candidate for Vaccine Design against Burkholderia pseudomallei. PMID:31544878
Hypermethylation-associated downregulation of microRNA-4456 in hypersexual disorder with putative influence on oxytocin signalling: A DNA methylation analysis of miRNA genes. PMID:31542994
Widespread occurrence of natural genetic transformation of plants by Agrobacterium. PMID:31542868
Characterisation and localisation of the endocannabinoid system components in the adult human testis. PMID:31537814
Discovery of high-confidence human protein-coding genes and exons by whole-genome PhyloCSF helps elucidate 118 GWAS loci. PMID:31537640
Metaviromics Reveals Unknown Viral Diversity in the Biting Midge Culicoides impunctatus. PMID:31533247
Theoretical and Simulation-Based Investigation of the Relationship between Sequencing Effort, Microbial Community Richness, and Diversity in Binning Metagenome-Assembled Genomes. PMID:31530648
Genomic analysis of siderophore β-hydroxylases reveals divergent stereocontrol and expands the condensation domain family. PMID:31527229
Interaction of ArmZ with the DNA-binding domain of MexZ induces expression of mexXY multidrug efflux pump genes and antimicrobial resistance in Pseudomonas aeruginosa. PMID:31527038
A comprehensive, multidisciplinary, precision medicine approach to discover effective therapy for an undiagnosed, progressive, fibroinflammatory disease. PMID:31520587
The first enhancer in an enhancer chain safeguards subsequent enhancer-promoter contacts from a distance. PMID:31514731
Large-Scale Molecular Evolutionary Analysis Uncovers a Variety of Polynucleotide Kinase Clp1 Family Proteins in the Three Domains of Life. PMID:31513263
Early Pleistocene enamel proteome from Dmanisi resolves Stephanorhinus phylogeny. PMID:31511700
Using the structure of genome data in the design of deep neural networks for predicting amyotrophic lateral sclerosis from genotype. PMID:31510706
cloudSPAdes: assembly of synthetic long reads using de Bruijn graphs. PMID:31510642
The Cancer-Associated Genetic Variant Rs3903072 Modulates Immune Cells in the Tumor Microenvironment. PMID:31507631
miRDB: an online database for prediction of functional microRNA targets. PMID:31504780
Fast and accurate average genome size and 16S rRNA gene average copy number computation in metagenomic data. PMID:31488068
Deconvolving multiplexed protease signatures with substrate reduction and activity clustering. PMID:31479443
Sex-Specific Linkages Between Taxonomic and Functional Profiles of Tick Gut Microbiomes. PMID:31475121
The Length of the Expressed 3' UTR Is an Intermediate Molecular Phenotype Linking Genetic Variants to Complex Diseases. PMID:31475030
Getting the Entire Message: Progress in Isoform Sequencing. PMID:31475029
Copy number variation analysis in 83 children with early-onset developmental and epileptic encephalopathy after targeted resequencing of a 109-epilepsy gene panel. PMID:31471553
AVADA: toward automated pathogenic variant evidence retrieval directly from the full-text literature. PMID:31467448
Evidence that the nadA motif is a bacterial riboswitch for the ubiquitous enzyme cofactor NAD. PMID:31467147
Quantitatively Partitioning Microbial Genomic Traits among Taxonomic Ranks across the Microbial Tree of Life. PMID:31462411
Cancer targeting by TCR gene-engineered T cells directed against Kita-Kyushu Lung Cancer Antigen-1. PMID:31455429
Pathogenic Abnormal Splicing Due to Intronic Deletions that Induce Biophysical Space Constraint for Spliceosome Assembly. PMID:31447096
Regulation of Co-transcriptional Pre-mRNA Splicing by m6A through the Low-Complexity Protein hnRNPG. PMID:31445886
Discovery of Genomic Characteristics and Selection Signatures in Korean Indigenous Goats Through Comparison of 10 Goat Breeds. PMID:31440273
A de novo evolved gene in the house mouse regulates female pregnancy cycles. PMID:31436535
Identification of an eight-lncRNA prognostic model for breast cancer using WGCNA network analysis and a Cox‑proportional hazards model based on L1-penalized estimation. PMID:31432096
A two-component protease in Methylorubrum extorquens with high activity toward the peptide precursor of the redox cofactor pyrroloquinoline quinone. PMID:31427437
The Landscape of Genetic Content in the Gut and Oral Human Microbiome. PMID:31415755
Viral composition and context in metagenomes from biofilm and suspended growth municipal wastewater treatment plants. PMID:31410982
Structure-based identification of a potential non-catalytic binding site for rational drug design in the fructose 1,6-biphosphate aldolase from Giardia lamblia. PMID:31409864
Guide for library design and bias correction for large-scale transcriptome studies using highly multiplexed RNAseq methods. PMID:31409293
Gene Fusions Derived by Transcriptional Readthrough are Driven by Segmental Duplication in Human. PMID:31400206
A deep learning genome-mining strategy for biosynthetic gene cluster prediction. PMID:31400112
MpsAB is important for Staphylococcus aureus virulence and growth at atmospheric CO2 levels. PMID:31399577
Applications and Considerations of GToTree: A User-Friendly Workflow for Phylogenomics. PMID:31384124
Phylogenetic, genomic, and biogeographic characterization of a novel and ubiquitous marine invertebrate-associated Rickettsiales parasite, Candidatus Aquarickettsia rohweri, gen. nov., sp. nov. PMID:31384012
Visualization of protein sequence space with force-directed graphs, and their application to the choice of target-template pairs for homology modelling. PMID:31377535
An expanded landscape of human long noncoding RNA. PMID:31350901
Inosine RNA modifications are enriched at the codon wobble position in mouse oocytes and eggs†. PMID:31346607
JMJD6 is a tumorigenic factor and therapeutic target in neuroblastoma. PMID:31346162
Magic-BLAST, an accurate RNA-seq aligner for long and short reads. PMID:31345161
Genomic Evidence for Simultaneous Optimization of Transcription and Translation through Codon Variants in the pmoCAB Operon of Type Ia Methanotrophs. PMID:31337658
Where did you come from, where did you go: Refining metagenomic analysis tools for horizontal gene transfer characterisation. PMID:31335917
Cryptic inoviruses revealed as pervasive in bacteria and archaea across Earth's biomes. PMID:31332386
Structural and evolutionary characteristics of dynamin-related GTPase OPA1. PMID:31328044
Activation of neuronal genes via LINE-1 elements upon global DNA demethylation in human neural progenitors. PMID:31320637
T-BAS Version 2.1: Tree-Based Alignment Selector Toolkit for Evolutionary Placement of DNA Sequences and Viewing Alignments and Specimen Metadata on Curated and Custom Trees. PMID:31320426
geneHummus: an R package to define gene families and their expression in legumes and beyond. PMID:31319791
Computational Biology Solutions to Identify Enhancers-target Gene Pairs. PMID:31316726
Uncovering bacterial and functional diversity in macroinvertebrate mitochondrial-metagenomic datasets by differential centrifugation. PMID:31312027
Altered differentiation is central to HIV-specific CD4+ T cell dysfunction in progressive disease. PMID:31308541
Contributions of Rare Gene Variants to Familial and Sporadic FSGS. PMID:31308072
ParaDB: A manually curated database containing genomic annotation for the human pathogenic fungi Paracoccidioides spp. PMID:31306428
The evolutionary history of LysM-RLKs (LYKs/LYRs) in wild tomatoes. PMID:31296160
Chloroplast and mitochondrial genetic variation of larches at the Siberian tundra-taiga ecotone revealed by de novo assembly. PMID:31291259
Opposite Expression Patterns of Spry3 and p75NTR in Cerebellar Vermis Suggest a Male-Specific Mechanism of Autism Pathogenesis. PMID:31275178
Zn metabolism of monogastric species and consequences for the definition of feeding requirements and the estimation of feed Zn bioavailability. PMID:31273959
What went wrong with variant effect predictor performance for the PCM1 challenge. PMID:31268618
Primer-free FISH probes from metagenomics/metatranscriptomics data permit the study of uncharacterised taxa in complex microbial communities. PMID:31263569
PTBP1 mRNA isoforms and regulation of their translation. PMID:31263002
Proteomic Response of Three Marine Ammonia-Oxidizing Archaea to Hydrogen Peroxide and Their Metabolic Interactions with a Heterotrophic Alphaproteobacterium. PMID:31239395
Pollination Type Recognition from a Distance by the Ovary Is Revealed Through a Global Transcriptomic Analysis. PMID:31238522
Molecular Properties and Evolutionary Origins of a Parvovirus-Derived Myosin Fusion Gene in Guinea Pigs. PMID:31217242
Cross-population analysis for functional characterization of type II diabetes variants. PMID:31216985
Effects of Host, Sample, and in vitro Culture on Genomic Diversity of Pathogenic Mycobacteria. PMID:31214242
Aquatic Adaptation and Depleted Diversity: A Deep Dive into the Genomes of the Sea Otter and Giant Otter. PMID:31212313
miRNA contributions to pediatric-onset multiple sclerosis inferred from GWAS. PMID:31211169
Investigation of new candidate genes in retinoblastoma using the TruSight One "clinical exome" gene panel. PMID:31207142
RNA structural analysis of the MYC mRNA reveals conserved motifs that affect gene expression. PMID:31206539
PacBio amplicon sequencing for metabarcoding of mixed DNA samples from lichen herbarium specimens. PMID:31205446
Diversity patterns of bacteriophages infecting Aggregatibacter and Haemophilus species across clades and niches. PMID:31201356
Convergent eusocial evolution is based on a shared reproductive groundplan plus lineage-specific plastic genes. PMID:31201311
Computational Methods for Mapping, Assembly and Quantification for Coding and Non-coding Transcripts. PMID:31193391
VarMap: a web tool for mapping genomic coordinates to protein sequence and structure and retrieving protein structural annotations. PMID:31192369
ConFindr: rapid detection of intraspecies and cross-species contamination in bacterial whole-genome sequence data. PMID:31183253
BarkBase: Epigenomic Annotation of Canine Genomes. PMID:31181663
Large-scale functional LIPA variant characterization to improve birth prevalence estimates of lysosomal acid lipase deficiency. PMID:31180157
Phosphorylation mapping of Laminin β1-chain: Kinases in association with active sites. PMID:31180068
Dicyemida and Orthonectida: Two Stories of Body Plan Simplification. PMID:31178892
Switching the Post-translational Modification of Translation Elongation Factor EF-P. PMID:31178848
A role for G protein-coupled receptor 137b in bone remodeling in mouse and zebrafish. PMID:31173907
MTR-Viewer: identifying regions within genes under purifying selection. PMID:31170280
Human protein-coding genes and gene feature statistics in 2019. PMID:31164174
RNA editing alterations in a multi-ethnic Alzheimer disease cohort converge on immune and endocytic molecular pathways. PMID:31162550
Horizontal transfer of a retrotransposon between parasitic nematodes and the common shrew. PMID:31160924
Cyberbiosecurity Challenges of Pathogen Genome Databases. PMID:31157218
The perils of intralocus recombination for inferences of molecular convergence. PMID:31154973
Turnover of ribosome-associated transcripts from de novo ORFs produces gene-like characteristics available for de novo gene emergence in wild yeast populations. PMID:31152050
CNIT: a fast and accurate web tool for identifying protein-coding and long non-coding transcripts based on intrinsic sequence composition. PMID:31147700
CoCo: RNA-seq read assignment correction for nested genes and multimapped reads. PMID:31141144
Analysis of Spounaviruses as a Case Study for the Overdue Reclassification of Tailed Phages. PMID:31127947
VCF-Server: A web-based visualization tool for high-throughput variant data mining and management. PMID:31127704
Biological composition and microbial dynamics of sinking particulate organic matter at abyssal depths in the oligotrophic open ocean. PMID:31127042
β-Aminopeptidases: Insight into Enzymes without a Known Natural Substrate. PMID:31126950
Exploiting orthology and de novo transcriptome assembly to refine target sequence information. PMID:31122257
Functional expression and characterization of the envelope glycoprotein E1E2 heterodimer of hepatitis C virus. PMID:31116791
Simple ClinVar: an interactive web server to explore and retrieve gene and disease variants aggregated in ClinVar database. PMID:31114901
Prophage Hunter: an integrative hunting tool for active prophages. PMID:31114893
BEERE: a web server for biomedical entity expansion, ranking and explorations. PMID:31114876
Investigating function roles of hypothetical proteins encoded by the Mycobacterium tuberculosis H37Rv genome. PMID:31113361
Metagenomic recovery of two distinct comammox Nitrospira from the terrestrial subsurface. PMID:31107587
Transcriptome analysis of activated sludge microbiomes reveals an unexpected role of minority nitrifiers in carbon metabolism. PMID:31098412
Gut microbial beta-glucuronidase and glycerol/diol dehydratase activity contribute to dietary heterocyclic amine biotransformation. PMID:31096909
Proneural factors Ascl1 and Neurog2 contribute to neuronal subtype identities by establishing distinct chromatin landscapes. PMID:31086315
Proteomics Standards Initiative Extended FASTA Format. PMID:31081335
Ice-Age Climate Adaptations Trap the Alpine Marmot in a State of Low Genetic Diversity. PMID:31080084
A Quantitative and Predictive Model for RNA Binding by Human Pumilio Proteins. PMID:31078383
Tissue-specific genes as an underutilized resource in drug discovery. PMID:31076736
A Premature Stop Codon in RAF1 Is the Priority Candidate Causative Mutation of the Inherited Chicken Wingless-2 Developmental Syndrome. PMID:31075853
Human contamination in bacterial genomes has created thousands of spurious proteins. PMID:31064768
Horizontal acquisition of hydrogen conversion ability and other habitat adaptations in the Hydrogenovibrio strains SP-41 and XCL-2. PMID:31060509
Microbiome Learning Repo (ML Repo): A public repository of microbiome regression and classification tasks. PMID:31042284
Mate choice and gene expression signatures associated with nutritional adaptation in the medfly (Ceratitis capitata). PMID:31040302
Reiterative Synthesis by the Ribosome and Recognition of the N-Terminal Formyl Group by Biosynthetic Machinery Contribute to Evolutionary Conservation of the Length of Antibiotic Microcin C Peptide Precursor. PMID:31040244
[Detection and interpretation of somatic variants in molecular pathology]. PMID:31037375
Germline-restricted chromosome (GRC) is widespread among songbirds. PMID:31036668
Conserved Secondary Structures in Viral mRNAs. PMID:31035717
Selective Maintenance of Multiple CRISPR Arrays Across Prokaryotes. PMID:31021246
Analysis of Heritability and Genetic Architecture of Pancreatic Cancer: A PanC4 Study. PMID:31015203
Imatinib independent aberrant methylation of NOV/CCN3 in chronic myelogenous leukemia patients: a mechanism upstream of BCR-ABL1 function? PMID:31014357
Resequencing the Genome of Malassezia restricta Strain KCTC 27527. PMID:31000550
The effect of BPIFA1/SPLUNC1 genetic variation on its expression and function in asthmatic airway epithelium. PMID:30996135
virMine: automated detection of viral sequences from complex metagenomic samples. PMID:30993039
The first draft genomes of the ant Formica exsecta, and its Wolbachia endosymbiont reveal extensive gene transfer from endosymbiont to host. PMID:30991952
Genes Associated With Psychrotolerant Bacillus cereus Group Isolates. PMID:30984157
High quality reference genomes for toxigenic and non-toxigenic Vibrio cholerae serogroup O139. PMID:30971707
Gcorn Plant: A Database for Retrieving Functional and Evolutionary Traits of Plant Genes. PMID:30971448
The history, genome and biology of NCTC 30: a non-pandemic Vibrio cholerae isolate from World War One. PMID:30966987
Telomerase Variants in Patients with Cirrhosis Awaiting Liver Transplantation. PMID:30964210
Novel likely pathogenic variants in TMEM126A identified in non-syndromic autosomal recessive optic atrophy: two case reports. PMID:30961538
Ancient pathogen genomics as an emerging tool for infectious disease research. PMID:30953039
Comparative Metagenomics Reveals Enhanced Nutrient Cycling Potential after 2 Years of Biochar Amendment in a Tropical Oxisol. PMID:30952661
Chromosome-scale assemblies reveal the structural evolution of African cichlid genomes. PMID:30942871
Azoreductase activity of dye-decolorizing bacteria isolated from the human gut microbiota. PMID:30940826
Association of leukocyte DNA methylation changes with dietary folate and alcohol intake in the EPIC study. PMID:30940212
Mycobiome Sequencing and Analysis Applied to Fungal Community Profiling of the Lower Respiratory Tract During Fungal Pathogenesis. PMID:30930884
Actionable Pharmacogenetic Variation in the Slovenian Genomic Database. PMID:30930780
Generally applicable transcriptome-wide analysis of translation using anota2seq. PMID:30926999
Probabilistic fine-mapping of transcriptome-wide association studies. PMID:30926970
CircSERPINE2 protects against osteoarthritis by targeting miR-1271 and ETS-related gene. PMID:30923232
Detection of Differentially Expressed Cleavage Site Intervals Within 3' Untranslated Regions Using CSI-UTR Reveals Regulated Interaction Motifs. PMID:30915105
Evolutionary and functional implications of 3' untranslated region length of mRNAs by comprehensive investigation among four taxonomically diverse metazoan species. PMID:30900191
Common miRNA Patterns of Alzheimer's Disease and Parkinson's Disease and Their Putative Impact on Commensal Gut Microbiota. PMID:30890906
Tandem-genotypes: robust detection of tandem repeat expansions from long DNA reads. PMID:30890163
Applying Genome-Resolved Metagenomics to Deconvolute the Halophilic Microbiome. PMID:30875864
Clusterin in Alzheimer's Disease: Mechanisms, Genetics, and Lessons From Other Pathologies. PMID:30872998
MitoZ: a toolkit for animal mitochondrial genome assembly, annotation and visualization. PMID:30864657
Genetic Characterization of a bla VIM-24-Carrying IncP-7β Plasmid p1160-VIM and a bla VIM-4-Harboring Integrative and Conjugative Element Tn6413 From Clinical Pseudomonas aeruginosa. PMID:30863370
Identification of Novel Interaction Partners of Ets-1: Focus on DNA Repair. PMID:30857266
The comparative genomics and complex population history of Papio baboons. PMID:30854422
The cellular landscape of mid-size noncoding RNA. PMID:30843375
Sex-Biased lncRNAs Inversely Correlate With Sex-Opposite Gene Coexpression Networks in Diversity Outbred Mouse Liver. PMID:30840070
Multi-Omics Approaches to Study Long Non-coding RNA Function in Atherosclerosis. PMID:30838214
RefSoil+: a Reference Database for Genes and Traits of Soil Plasmids. PMID:30834332
Genome maps across 26 human populations reveal population-specific patterns of structural variation. PMID:30833565
Mutations in DNA repair genes are associated with increased neoantigen burden and a distinct immunophenotype in lung squamous cell carcinoma. PMID:30824826
Comprehensive sequencing of the myocilin gene in a selected cohort of severe primary open-angle glaucoma patients. PMID:30816137
Further corroboration of distinct functional features in SCN2A variants causing intellectual disability or epileptic phenotypes. PMID:30813884
Exome sequencing in 51 early onset non-familial CRC cases. PMID:30809968
Native mass spectrometry identifies an alternative DNA-binding pathway for BirA from Staphylococcus aureus. PMID:30808984
Reannotation of the Ribonucleotide Reductase in a Cyanophage Reveals Life History Strategies Within the Virioplankton. PMID:30804913
Genetic landscape of chronic obstructive pulmonary disease identifies heterogeneous cell-type and phenotype associations. PMID:30804561
Evolution of the Highly Repetitive PEVK Region of Titin Across Mammals. PMID:30804022
Repository of Enriched Structures of Proteins Involved in the Red Blood Cell Environment (RESPIRE). PMID:30794542
Comparative analysis of KPC-2-encoding chimera plasmids with multi-replicon IncR:IncpA1763-KPC:IncN1 or IncFIIpHN7A8:IncpA1763-KPC:IncN1. PMID:30774396
Variation and inheritance of the Xanthomonas raxX-raxSTAB gene cluster required for activation of XA21-mediated immunity. PMID:30773771
Genetic cause for congenital methemoglobinemia in an Australian Pomeranian dog. PMID:30767280
Identification and Characterization of Known Biallelic Mutations in the IFT27 (BBS19) Gene in a Novel Family With Bardet-Biedl Syndrome. PMID:30761183
Replicon-Based Typing of IncI-Complex Plasmids, and Comparative Genomics Analysis of IncIγ/K1 Plasmids. PMID:30761100
CPPred: coding potential prediction based on the global description of RNA sequence. PMID:30753596
Distinct Cancer-Promoting Stromal Gene Expression Depending on Lung Function. PMID:30742544
Determining the Likelihood of Variant Pathogenicity Using Amino Acid-level Signal-to-Noise Analysis of Genetic Variation. PMID:30735170
Plasmid DNA contaminant in molecular reagents. PMID:30733546
Use of shotgun metagenomics for the identification of protozoa in the gut microbiota of healthy individuals from worldwide populations with various industrialization levels. PMID:30726303
Capturing sequence diversity in metagenomes with comprehensive and scalable probe design. PMID:30718881
The y-ome defines the 35% of Escherichia coli genes that lack experimental evidence of function. PMID:30698741
Genome-Wide Association Analysis of Single-Breath DlCO. PMID:30694715
Sequencing and Genomic Diversity Analysis of IncHI5 Plasmids. PMID:30692976
Integrative Functional Annotation of 52 Genetic Loci Influencing Myocardial Mass Identifies Candidate Regulatory Variants and Target Genes. PMID:30681347
Interaction of germline variants in a family with a history of early-onset clear cell renal cell carcinoma. PMID:30680959
Parent-of-origin effects on quantitative phenotypes in a large Hutterite pedigree. PMID:30675526
Genomic and metagenomic insights into the microbial community of a thermal spring. PMID:30674352
PLZF targets developmental enhancers for activation during osteogenic differentiation of human mesenchymal stem cells. PMID:30672466
Extensive Unexplored Human Microbiome Diversity Revealed by Over 150,000 Genomes from Metagenomes Spanning Age, Geography, and Lifestyle. PMID:30661755
MSC: a metagenomic sequence classification algorithm. PMID:30649204
Functional annotation of orthologs in metagenomes: a case study of genes for the transformation of oceanic dimethylsulfoniopropionate. PMID:30643200
Invited Review: Long non-coding RNAs: important regulators in the development, function and disorders of the central nervous system. PMID:30636336
Evolution of the Natural Transformation Protein, ComEC, in Bacteria. PMID:30627116
Development of Poly(A)-ClickSeq as a tool enabling simultaneous genome-wide poly(A)-site identification and differential expression analysis. PMID:30625385
TogoGenome/TogoStanza: modularized Semantic Web genome database. PMID:30624651
Family A DNA Polymerase Phylogeny Uncovers Diversity and Replication Gene Organization in the Virioplankton. PMID:30619142
Meta-analysis of up to 622,409 individuals identifies 40 novel smoking behaviour associated genetic loci. PMID:30617275
The Network of Cancer Genes (NCG): a comprehensive catalogue of known and candidate cancer genes from cancer sequencing screens. PMID:30606230
An atlas of genetic influences on osteoporosis in humans and mice. PMID:30598549
Numerical Encodings of Amino Acids in Multivariate Gaussian Modeling of Protein Multiple Sequence Alignments. PMID:30597916
High-Throughput Sequencing in Respiratory, Critical Care, and Sleep Medicine Research. An Official American Thoracic Society Workshop Report. PMID:30592451
The structure of the SAM/SAH-binding riboswitch. PMID:30590743
Hidden sequence specificity in loading of single-stranded RNAs onto Drosophila Argonautes. PMID:30590701
Plant stress RNA-seq Nexus: a stress-specific transcriptome database in plant cells. PMID:30587128
RNA element discovery from germ cell to blastocyst. PMID:30576549
Gene code CD274/PD-L1: from molecular basis toward cancer immunotherapy. PMID:30574211
Transcriptomic Characterization of the South American Freshwater Stingray Potamotrygon motoro Venom Apparatus. PMID:30567320
A Curated Resource for Phosphosite-specific Signature Analysis. PMID:30563849
Phylogenetic barriers to horizontal transfer of antimicrobial peptide resistance genes in the human gut microbiota. PMID:30559406
RNA⁻Protein Interactions Prevent Long RNA Duplex Formation: Implications for the Design of RNA-Based Therapeutics. PMID:30558267
Regulators of Salmonella-host interaction identified by peripheral blood transcriptome profiling: roles of TGFB1 and TRP53 in intracellular Salmonella replication in pigs. PMID:30541630
Genetic ancestry, admixture and health determinants in Latin America. PMID:30537949
Biogeography of thermophiles and predominance of Thermus scotoductus in domestic water heaters. PMID:30536130
RefSeq curation and annotation of stop codon recoding in vertebrates. PMID:30535227
New Insights into Human Nostril Microbiome from the Expanded Human Oral Microbiome Database (eHOMD): a Resource for the Microbiome of the Human Aerodigestive Tract. PMID:30534599
Proteotyping bacteria: Characterization, differentiation and identification of pneumococcus and other species within the Mitis Group of the genus Streptococcus by tandem mass spectrometry proteomics. PMID:30532202
Bi-allelic TMEM94 Truncating Variants Are Associated with Neurodevelopmental Delay, Congenital Heart Defects, and Distinct Facial Dysmorphism. PMID:30526868
Long-term colonisation with donor bacteriophages following successful faecal microbial transplantation. PMID:30526683
ComPIL 2.0: An Updated Comprehensive Metaproteomics Database. PMID:30525664
The Transcriptional landscape of Streptococcus pneumoniae TIGR4 reveals a complex operon architecture and abundant riboregulation critical for growth and virulence. PMID:30517198
De novo annotation of the transcriptome of the Northern Wheatear (Oenanthe oenanthe). PMID:30498627
Representativeness of variation benchmark datasets. PMID:30497376
CHESS: a new human gene catalog curated from thousands of large-scale RNA sequencing experiments reveals extensive transcriptional noise. PMID:30486838
Evolutionary diversity and novelty of DNA repair genes in asexual Bdelloid rotifers. PMID:30486781
Pervasive acquisition of CRISPR memory driven by inter-species mating of archaea can limit gene transfer and influence speciation. PMID:30478289
Genome-wide DNA methylation analysis in primary antiphospholipid syndrome neutrophils. PMID:30471352
First reported adult patient with TARP syndrome: A case report. PMID:30462380
Dissemination of Genetic Acquisition/Loss Provides a Variety of Quorum Sensing Regulatory Properties in Pseudoalteromonas. PMID:30453700
Genetic analysis of isoform usage in the human anti-viral response reveals influenza-specific regulation of ERAP2 transcripts under balancing selection. PMID:30446528
The SUPERFAMILY 2.0 database: a significant proteome update and a new webserver. PMID:30445555
Tracing whale myoglobin evolution by resurrecting ancient proteins. PMID:30442991
IRSOM, a reliable identifier of ncRNAs based on supervised self-organizing maps with rejection. PMID:30423081
Microbial Functional Responses to Cholesterol Catabolism in Denitrifying Sludge. PMID:30417110
Polygenic adaptation and convergent evolution on growth and cardiac genetic pathways in African and Asian rainforest hunter-gatherers. PMID:30413626
Named entity linking of geospatial and host metadata in GenBank for advancing biomedical research. PMID:30412219
Lnc2Cancer v2.0: updated database of experimentally supported long non-coding RNAs in human cancers. PMID:30407549
PreMedKB: an integrated precision medicine knowledgebase for interpreting relationships between diseases, genes, variants and drugs. PMID:30407536
The UCSC Genome Browser database: 2019 update. PMID:30407534
Ensembl 2019. PMID:30407521
BioInstaller: a comprehensive R package to construct interactive and reproducible biological data analysis applications based on the R platform. PMID:30402350
Circular RNAs in Muscle Function and Disease. PMID:30400273
MitoMiner v4.0: an updated database of mitochondrial localization evidence, phenotypes and diseases. PMID:30398659
Plasmid ATLAS: plasmid visual analytics and identification in high-throughput sequencing data. PMID:30395323
The antiSMASH database version 2: a comprehensive resource on secondary metabolite biosynthetic gene clusters. PMID:30395294
US Immigration Westernizes the Human Gut Microbiome. PMID:30388453
A planarian nidovirus expands the limits of RNA genome size. PMID:30383829
Improved Macaca fascicularis gene annotation reveals evolution of gene expression profiles in multiple tissues. PMID:30382841
Long-term investigation of microbial community composition and transcription patterns in a biogas plant undergoing ammonia crisis. PMID:30381904
Metagenomic Sequencing of HIV-1 in the Blood and Female Genital Tract Reveals Little Quasispecies Diversity during Acute Infection. PMID:30381486
Lack of detection of a human placenta microbiome in samples from preterm and term deliveries. PMID:30376898
LNCipedia 5: towards a reference set of human long non-coding RNAs. PMID:30371849
piRBase: a comprehensive database of piRNA sequences. PMID:30371818
Cytogenetic and Transcriptomic Analysis of Human Endometrial MSC Retaining Proliferative Activity after Sublethal Heat Shock. PMID:30366433
High-throughput identification and diagnostics of pathogens and pests: Overview and practical recommendations. PMID:30358140
BitterDB: taste ligands and receptors database in 2019. PMID:30357384
Overlapping Patterns of Gene Expression Between Gametophyte and Sporophyte Phases in the Fern Polypodium amorphum (Polypodiales). PMID:30356815
Ecologically informed microbial biomarkers and accurate classification of mixed and unmixed samples in an extensive cross-study of human body sites. PMID:30355348
ConfeitoGUI: A toolkit for size-sensitive community detection from a correlation network. PMID:30352084
Comparative analysis of bla KPC-2- and rmtB-carrying IncFII-family pKPC-LK30/pHN7A8 hybrid plasmids from Klebsiella pneumoniae CG258 strains disseminated among multiple Chinese hospitals. PMID:30349335
From De Novo to "De Nono": The Majority of Novel Protein-Coding Genes Identified with Phylostratigraphy Are Old Genes or Recent Duplicates. PMID:30346517
RaftProt V2: understanding membrane microdomain function through lipid raft proteomes. PMID:30329070
An Increased Abundance of Clostridiaceae Characterizes Arthritis in Inflammatory Bowel Disease and Rheumatoid Arthritis: A Cross-sectional Study. PMID:30321331
Single-cell isoform RNA sequencing characterizes isoforms in thousands of cerebellar cells. PMID:30320766
High-quality genome sequences of uncultured microbes by assembly of read clouds. PMID:30320765
ClinGen Allele Registry links information about genetic variants. PMID:30311374
Mis-splicing of the GALNS gene resulting from deep intronic mutations as a cause of Morquio a disease. PMID:30305043
De Novo Assembly of Two Swedish Genomes Reveals Missing Segments from the Human GRCh38 Reference and Improves Variant Calling of Population-Scale Sequencing Data. PMID:30304863
Genenames.org: the HGNC and VGNC resources in 2019. PMID:30304474
OpenProt: a more comprehensive guide to explore eukaryotic coding potential and proteomes. PMID:30299502
Rare variants of the FMN riboswitch class in Clostridium difficile and other bacteria exhibit altered ligand specificity. PMID:30287481
Genome Sequence of Peacock Reveals the Peculiar Case of a Glittering Bird. PMID:30283495
Genome-Wide Identification, Characterization, and Expression Profiling of the Legume BZR Transcription Factor Gene Family. PMID:30283468
Circular RNAs: Methodological challenges and perspectives in cardiovascular diseases. PMID:30277664
Neuroprotective Effect of Myxobacterial Extracts on Quinolinic Acid-Induced Toxicity in Primary Human Neurons. PMID:30267267
Considerations for Optimization of High-Throughput Sequencing Bioinformatics Pipelines for Virus Detection. PMID:30262776
T cell dynamics and response of the microbiota after gene therapy to treat X-linked severe combined immunodeficiency. PMID:30261899
De novo clustering of long reads by gene from transcriptomics data. PMID:30260405
Genome-scale MicroRNA target prediction through clustering with Dirichlet process mixture model. PMID:30255782
Comparative genomics of five different resistance plasmids coexisting in a clinical multi-drug resistant Citrobacter freundii isolate. PMID:30254476
Neurogenetic profiles delineate large-scale connectivity dynamics of the human brain. PMID:30250030
Origin, Composition, and Structure of the Supernumerary B Chromosome of Drosophila melanogaster. PMID:30249684
Gene regulation by a glycine riboswitch singlet uses a finely tuned energetic landscape for helical switching. PMID:30237163
The Genomic Potentials of NOB and Comammox Nitrospira in River Sediment Are Impacted by Native Freshwater Mussels. PMID:30233538
Calgranulin A (S100A8) Immunostaining: A Future Candidate for Risk Assessment in Patients with Non-Muscle-Invasive Bladder Cancer (NMIBC). PMID:30232708
Flexible and Fast Mapping of Peptides to a Proteome with ProteoMapper. PMID:30230343
Bioprospecting for Genes Encoding Hydrocarbon-Degrading Enzymes from Metagenomic Samples Isolated from Northern Adriatic Sea Sediments. PMID:30228802
Transcriptional fates of human-specific segmental duplications in brain. PMID:30228200
Proline provides site-specific flexibility for in vivo collagen. PMID:30218106
Diversity of Active Viral Infections within the Sphagnum Microbiome. PMID:30217851
Functional Evolution of Avian RIG-I-Like Receptors. PMID:30213147
Flexibility and constraint: Evolutionary remodeling of the sporulation initiation pathway in Firmicutes. PMID:30212463
Are localized prostate cancer biomarkers useful in the clinical practice? PMID:30204063
TAP: a targeted clinical genomics pipeline for detecting transcript variants using RNA-seq data. PMID:30200994
Human adenovirus type 17 from species D transduces endothelial cells and human CD46 is involved in cell entry. PMID:30194327
Recommendations for interpreting the loss of function PVS1 ACMG/AMP variant criterion. PMID:30192042
Utilization of rare codon-rich markers for screening amino acid overproducers. PMID:30190534
From Molecules to Mechanisms: Functional Proteomics and Its Application to Renal Tubule Physiology. PMID:30182799
Regulatory processes that control haploid expression of salmon sperm mRNAs. PMID:30176937
Functional features defining the efficacy of cholesterol-conjugated, self-deliverable, chemically modified siRNAs. PMID:30169779
RNA Sequencing (RNA-Seq) Reveals Extremely Low Levels of Reticulocyte-Derived Globin Gene Transcripts in Peripheral Blood From Horses (Equus caballus) and Cattle (Bos taurus). PMID:30154823
Development and characterization of a novel monoclonal antibody that recognizes an epitope in the central protein interaction domain of RapGEF1 (C3G). PMID:30143974
Genomic and epidemiological monitoring of yellow fever virus transmission potential. PMID:30139911
Metagenomic assembly of new (sub)polar Cyanobacteria and their associated microbiome from non-axenic cultures. PMID:30136922
bioSyntax: syntax highlighting for computational biology. PMID:30134911
Integrated analysis of the impact of age on genetic and clinical aspects of hepatocellular carcinoma. PMID:30125264
BMScan: using whole genome similarity to rapidly and accurately identify bacterial meningitis causing species. PMID:30111301
Regulation of IL-1 signaling by the decoy receptor IL-1R2. PMID:30109367
Synchronous birth is a dominant pattern in receptor-ligand evolution. PMID:30107779
Investigating Effects of Tulathromycin Metaphylaxis on the Fecal Resistome and Microbiome of Commercial Feedlot Cattle Early in the Feeding Period. PMID:30105011
The chromosome-level genome assemblies of two rattans (Calamus simplicifolius and Daemonorops jenkinsiana). PMID:30101322
Biocontrol strain Aspergillus flavus WRRL 1519 has differences in chromosomal organization and an increased number of transposon-like elements compared to other strains. PMID:30099586
Celiac disease biomarkers identified by transcriptome analysis of small intestinal biopsies. PMID:30097691
Curating Clinically Relevant Transcripts for the Interpretation of Sequence Variants. PMID:30096381
Discerning evolutionary trends in post-translational modification and the effect of intrinsic disorder: Analysis of methylation, acetylation and ubiquitination sites in human proteins. PMID:30096183
Comparative transcriptomics of limb regeneration: Identification of conserved expression changes among three species of Ambystoma. PMID:30092345
Combination of novel and public RNA-seq datasets to generate an mRNA expression atlas for the domestic chicken. PMID:30086717
Role of PPAR-β/δ/miR-17/TXNIP pathway in neuronal apoptosis after neonatal hypoxic-ischemic injury in rats. PMID:30086290
Detection and benchmarking of somatic mutations in cancer genomes using RNA-seq data. PMID:30083469
Conducting metagenomic studies in microbiology and clinical research. PMID:30078138
MRGPRX2-mediated mast cell response to drugs used in perioperative procedures and anaesthesia. PMID:30072729
Genomic and Biotechnological Characterization of the Heavy-Metal Resistant, Arsenic-Oxidizing Bacterium Ensifer sp. M14. PMID:30060533
BioMuta and BioXpress: mutation and expression knowledgebases for cancer biomarker discovery. PMID:30053270
eModel-BDB: a database of comparative structure models of drug-target interactions from the Binding Database. PMID:30052959
Consensus assessment of the contamination level of publicly available cyanobacterial genomes. PMID:30044797
A patient-derived xenograft pre-clinical trial reveals treatment responses and a resistance mechanism to karonudib in metastatic melanoma. PMID:30042422
Non-Coding RNAs in Endometrial Physiopathology. PMID:30037059
Homology Inference Based on a Reconciliation Approach for the Comparative Genomics of Protozoa. PMID:30034216
Pseudomonas aeruginosa pyoverdine maturation enzyme PvdP has a noncanonical domain architecture and affords insight into a new subclass of tyrosinases. PMID:30030378
Characterization of the binding mode of JNK-interacting protein 1 (JIP1) to kinesin-light chain 1 (KLC1). PMID:30026235
Coverage and diagnostic yield of Whole Exome Sequencing for the Evaluation of Cases with Dilated and Hypertrophic Cardiomyopathy. PMID:30022097
A Multiwell-Based Detection Platform with Integrated PDMS Concentrators for Rapid Multiplexed Enzymatic Assays. PMID:30018340
Stage-specific differential DNA methylation data analysis during human erythropoiesis in chromosome 16. PMID:30014809
Agulhas Current properties shape microbial community diversity and potential functionality. PMID:30002454
A promoter interaction map for cardiovascular disease genetics. PMID:29988018
Single Cell Multiplex Reverse Transcription Polymerase Chain Reaction After Patch-clamp. PMID:29985318
Loose ends: almost one in five human genes still have unresolved coding status. PMID:29982784
Disentangling the drivers of functional complexity at the metagenomic level in Shark Bay microbial mat microbiomes. PMID:29980796
An antisense RNA capable of modulating the expression of the tumor suppressor microRNA-34a. PMID:29970884
Adaptation and conservation insights from the koala genome. PMID:29967444
The Protozoan Parasite Toxoplasma gondii Selectively Reprograms the Host Cell Translatome. PMID:29967092
PASSPORT-seq: A Novel High-Throughput Bioassay to Functionally Test Polymorphisms in Micro-RNA Target Sites. PMID:29963077
Patients with early-stage oropharyngeal cancer can be identified with label-free serum proteomics. PMID:29961760
Revealing the transcriptomic complexity of switchgrass by PacBio long-read sequencing. PMID:29951114
Evolutionary genomic dynamics of Peruvians before, during, and after the Inca Empire. PMID:29946025
appreci8: a pipeline for precise variant calling integrating 8 tools. PMID:29945233
Blood Serum From Head and Neck Squamous Cell Carcinoma Patients Induces Altered MicroRNA and Target Gene Expression Profile in Treated Cells. PMID:29942793
Removing contaminants from databases of draft genomes. PMID:29939994
Characterization of expression and alternative splicing of the gene cadherin-like and PC esterase domain containing 1 (Cped1). PMID:29935354
Exploring the functional impact of alternative splicing on human protein isoforms using available annotation sources. PMID:29931155
Horizontally transferred genes in the ctenophore Mnemiopsis leidyi. PMID:29922518
From Chromosomes to Genome: Insights into the Evolutionary Relationships and Biogeography of Old World Knifefishes (Notopteridae; Osteoglossiformes). PMID:29921830
σI from Bacillus subtilis: Impact on Gene Expression and Characterization of σI-Dependent Transcription That Requires New Types of Promoters with Extended -35 and -10 Elements. PMID:29914988
TiSAn: estimating tissue-specific effects of coding and non-coding variants. PMID:29912365
Genome-Wide Analysis of Interchromosomal Interaction Probabilities Reveals Chained Translocations and Overrepresentation of Translocation Breakpoints in Genes in a Cutaneous T-Cell Lymphoma Cell Line. PMID:29900125
MMARGE: Motif Mutation Analysis for Regulatory Genomic Elements. PMID:29893919
BLAST-based validation of metagenomic sequence assignments. PMID:29868286
Identification of Sex-associated SNPs of Greater Amberjack (Seriola dumerili). PMID:29861788
Genome-wide survey of parent-of-origin effects on DNA methylation identifies candidate imprinted loci in humans. PMID:29860447
Landscape of Microsatellite Instability Across 39 Cancer Types. PMID:29850653
Taxon Richness of "Megaviridae" Exceeds those of Bacteria and Archaea in the Ocean. PMID:29806626
Short-Term Transcriptional Response of Microbial Communities to Nitrogen Fertilization in a Pine Forest Soil. PMID:29802185
Viromic Analysis of Wastewater Input to a River Catchment Reveals a Diverse Assemblage of RNA Viruses. PMID:29795788
Towards a complete map of the human long non-coding RNA transcriptome. PMID:29795125
Selenoproteins in colon cancer. PMID:29793041
Nanopore sequencing technology: a new route for the fast detection of unauthorized GMO. PMID:29785005
PAF1 complex interactions with SETDB1 mediate promoter H3K9 methylation and transcriptional repression of Hoxa9 and Meis1 in acute myeloid leukemia. PMID:29774127
Genome-wide haplotype association analysis of primary biliary cholangitis risk in Japanese. PMID:29773854
Sequencing of complete mitochondrial genomes confirms synonymization of Hyalomma asiaticum asiaticum and kozlovi, and advances phylogenetic hypotheses for the Ixodidae. PMID:29768482
An overview of technical considerations when using quantitative real-time PCR analysis of gene expression in human exercise research. PMID:29746477
Necklace: combining reference and assembled transcriptomes for more comprehensive RNA-Seq analysis. PMID:29722876
Genetic variation in 117 myelination-related genes in schizophrenia: Replication of association to lipid biosynthesis genes. PMID:29720671
Simultaneous sequencing of coding and noncoding RNA reveals a human transcriptome dominated by a small number of highly expressed noncoding genes. PMID:29703781
Targeted Next-generation Sequencing and Bioinformatics Pipeline to Evaluate Genetic Determinants of Constitutional Disease. PMID:29683450
Most human introns are recognized via multiple and tissue-specific branchpoints. PMID:29666160
A mega-analysis of expression quantitative trait loci (eQTL) provides insight into the regulatory architecture of gene expression variation in liver. PMID:29650998
Tracing the evolution of the heterotrimeric G protein α subunit in Metazoa. PMID:29642851
Reproducible protocols for metagenomic analysis of human faecal phageomes. PMID:29631623
iCopyDAV: Integrated platform for copy number variations-Detection, annotation and visualization. PMID:29621297
Dissemination of KPC-2-Encoding IncX6 Plasmids Among Multiple Enterobacteriaceae Species in a Single Chinese Hospital. PMID:29616001
Model-based detection and analysis of introgressed Neanderthal ancestry in modern humans. PMID:29603507
RNA-mediated gene regulation is less evolvable than transcriptional regulation. PMID:29581298
ViFi: accurate detection of viral integration and mRNA fusion reveals indiscriminate and unregulated transcription in proximal genomic regions in cervical cancer. PMID:29579309
Novel Parvoviruses from Wild and Domestic Animals in Brazil Provide New Insights into Parvovirus Distribution and Diversity. PMID:29565808
A Reference Viral Database (RVDB) To Enhance Bioinformatics Analysis of High-Throughput Sequencing for Novel Virus Detection. PMID:29564396
Association of the Polygenic Scores for Personality Traits and Response to Selective Serotonin Reuptake Inhibitors in Patients with Major Depressive Disorder. PMID:29559929
Taxonomic annotation of public fungal ITS sequences from the built environment - a report from an April 10-11, 2017 workshop (Aberdeen, UK). PMID:29559822
Xanthomonas citri jumbo phage XacN1 exhibits a wide host range and high complement of tRNA genes. PMID:29540765
Examining the Biosynthesis and Xenoantigenicity of Class II Swine Leukocyte Antigen Proteins. PMID:29540579
Refined ab initio gene predictions of Heterorhabditis bacteriophora using RNA-seq. PMID:29530648
Total RNA Sequencing of Rett Syndrome Autopsy Samples Identifies the M4 Muscarinic Receptor as a Novel Therapeutic Target. PMID:29523700
Latest development in the synthesis of ursodeoxycholic acid (UDCA): a critical review. PMID:29520309
Recovering Genomics Clusters of Secondary Metabolites from Lakes Using Genome-Resolved Metagenomics. PMID:29515540
Environmental Metagenomic Assemblies Reveal Seven New Highly Divergent Chlamydial Lineages and Hallmarks of a Conserved Intracellular Lifestyle. PMID:29515524
TERIUS: accurate prediction of lncRNA via high-throughput sequencing data representing RNA-binding protein association. PMID:29504902
Assembly of 913 microbial genomes from metagenomic sequencing of the cow rumen. PMID:29491419
Common schizophrenia alleles are enriched in mutation-intolerant genes and in regions under strong background selection. PMID:29483656
Recently Evolved Tumor Suppressor Transcript TP73-AS1 Functions as Sponge of Human-Specific miR-941. PMID:29474580
A translational silencing function of MCPIP1/Regnase-1 specified by the target site context. PMID:29471506
Embryonic defects induced by maternal obesity in mice derive from Stella insufficiency in oocytes. PMID:29459681
Mutation in an alternative transcript of CDKL5 in a boy with early-onset seizures. PMID:29444904
Transcriptome analysis reveals TMPRSS6 isoforms with distinct functionalities. PMID:29441715
Comparative Genomics of Completely Sequenced Lactobacillus helveticus Genomes Provides Insights into Strain-Specific Genes and Resolves Metagenomics Data Down to the Strain Level. PMID:29441050
Characterization of TTN Novex Splicing Variants across Species and the Role of RBM20 in Novex-Specific Exon Splicing. PMID:29438341
Complete genome sequence of Pseudomonas alcaliphila JAB1 (=DSM 26533), a versatile degrader of organic pollutants. PMID:29435100
Clonal polymorphism and high heterozygosity in the celibate genome of the Amazon molly. PMID:29434351
Molecular Correlates of In Vitro Responses to Dacomitinib and Afatinib in Bladder Cancer. PMID:29430509
Teneurin-3 controls topographic circuit assembly in the hippocampus. PMID:29414938
Bystro: rapid online variant annotation and natural-language filtering at whole-genome scale. PMID:29409527
The pharmacoepigenomics informatics pipeline defines a pathway of novel and known warfarin pharmacogenomics variants. PMID:29400612
Bipolar disorder with binge eating behavior: a genome-wide association study implicates PRR5-ARHGAP8. PMID:29391396
Bacteriophages of the Urinary Microbiome. PMID:29378882
Molecular Genetic Analysis of Human Endometrial Mesenchymal Stem Cells That Survived Sublethal Heat Shock. PMID:29375621
SLALOM, a flexible method for the identification and statistical analysis of overlapping continuous sequence elements in sequence- and time-series data. PMID:29373955
Experience with genomic sequencing in pediatric patients with congenital cardiac defects in a large community hospital. PMID:29368431
Mapping HLA-A2, -A3 and -B7 supertype-restricted T-cell epitopes in the ebolavirus proteome. PMID:29363421
Systematic Analysis of the Binding Surfaces between tRNAs and Their Respective Aminoacyl tRNA Synthetase Based on Structural and Evolutionary Data. PMID:29358943
Know Your Enemy: Successful Bioinformatic Approaches to Predict Functional RNA Structures in Viral RNAs. PMID:29354101
Binding of NUFIP2 to Roquin promotes recognition and regulation of ICOS mRNA. PMID:29352114
Genomic insights into the Acidobacteria reveal strategies for their success in terrestrial environments. PMID:29327410
Base-Resolution Analysis of DNA Methylation Patterns Downstream of Dnmt3a in Mouse Naïve B Cells. PMID:29326230
Sooty mangabey genome sequence provides insight into AIDS resistance in a natural SIV host. PMID:29300007
Domain retention in transcription factor fusion genes and its biological and clinical implications: a pan-cancer study. PMID:29299133
Comparative analysis of phosphoethanolamine transferases involved in polymyxin resistance across 10 clinically relevant Gram-negative bacteria. PMID:29288722
Bidirectional transcription initiation marks accessible chromatin and is not specific to enhancers. PMID:29284524
Association of papillomavirus E6 proteins with either MAML1 or E6AP clusters E6 proteins by structure, function, and evolutionary relatedness. PMID:29281732
Analysis of cross-population differentiation between Thoroughbred and Jeju horses. PMID:29268585
The FtsLB subcomplex of the bacterial divisome is a tetramer with an uninterrupted FtsL helix linking the transmembrane and periplasmic regions. PMID:29233891
A defect in the inner kinetochore protein CENPT causes a new syndrome of severe growth failure. PMID:29228025
Improving taxonomic accuracy for fungi in public sequence databases: applying 'one name one species' in well-defined genera with Trichoderma/Hypocrea as a test case. PMID:29220466
AllerBase: a comprehensive allergen knowledgebase. PMID:29220458
RampDB: a web application and database for the exploration and prediction of receptor activity modifying protein interactions. PMID:29220456
Approaches to ab initio molecular replacement of α-helical transmembrane proteins. PMID:29199978
Genomic Analysis of a Pathogenic Bacterium, Paeniclostridium sordellii CBA7122 Containing the Highest Number of rRNA Operons, Isolated from a Human Stool Sample. PMID:29187822
Bacteriophage Distributions and Temporal Variability in the Ocean's Interior. PMID:29184020
Predicting cancer type from tumour DNA signatures. PMID:29183400
Monitoring transcription initiation activities in rat and dog. PMID:29182598
Rare non-coding variants are associated with plasma lipid traits in a founder population. PMID:29180722
Chromosome level assembly and secondary metabolite potential of the parasitic fungus Cordyceps militaris. PMID:29178836
Gene and genome-centric analyses of koala and wombat fecal microbiomes point to metabolic specialization for Eucalyptus digestion. PMID:29177117
Human Accelerated Regions and Other Human-Specific Sequence Variations in the Context of Evolution and Their Relevance for Brain Development. PMID:29149249
Regulation of gene expression and RNA editing in Drosophila adapting to divergent microclimates. PMID:29146998
Structure of the transcription activator target Tra1 within the chromatin modifying complex SAGA. PMID:29146944
An update on sORFs.org: a repository of small ORFs identified by ribosome profiling. PMID:29140531
NONCODEV5: a comprehensive annotation database for long non-coding RNAs. PMID:29140524
Challenges of ligand identification for the second wave of orphan riboswitch candidates. PMID:29135333
miRTarBase update 2018: a resource for experimentally validated microRNA-target interactions. PMID:29126174
Consensus coding sequence (CCDS) database: a standardized set of human and mouse protein-coding regions supported by expert curation. PMID:29126148
Viral Diagnostics in Plants Using Next Generation Sequencing: Computational Analysis in Practice. PMID:29123534
Complete Genome Sequence of the Fruiting Myxobacterium Melittangium boletus DSM 14713. PMID:29122879
Missing data and technical variability in single-cell RNA-sequencing experiments. PMID:29121214
VarCards: an integrated genetic and clinical database for coding variants in the human genome. PMID:29112736
Rfam 13.0: shifting to a genome-centric resource for non-coding RNA families. PMID:29112718
The MAR databases: development and implementation of databases specific for marine metagenomics. PMID:29106641
The UCSC Genome Browser database: 2018 update. PMID:29106570
An Effective Model of the Retinoic Acid Induced HL-60 Differentiation Program. PMID:29085021
Generalist species drive microbial dispersion and evolution. PMID:29079803
Rare-variant association tests in longitudinal studies, with an application to the Multi-Ethnic Study of Atherosclerosis (MESA). PMID:29076270
Draft Genome Sequence of the Fruiting Myxobacterium Nannocystis exedens DSM 71. PMID:29074673
Whole-Genome Sequence of the Fruiting Myxobacterium Cystobacter fuscus DSM 52655. PMID:29074667
Defining the location of promoter-associated R-loops at near-nucleotide resolution using bisDRIP-seq. PMID:29072160
APPRIS 2017: principal isoforms for multiple gene sets. PMID:29069475
OverGeneDB: a database of 5' end protein coding overlapping genes in human and mouse genomes. PMID:29069459
PopHuman: the human population genomics browser. PMID:29059408
Transcriptional Activities of the Microbial Consortium Living with the Marine Nitrogen-Fixing Cyanobacterium Trichodesmium Reveal Potential Roles in Community-Level Nitrogen Cycling. PMID:29054872
Whole transcriptome analysis identifies differentially regulated networks between osteosarcoma and normal bone samples. PMID:29050494
Virus taxonomy: the database of the International Committee on Taxonomy of Viruses (ICTV). PMID:29040670
Motif independent identification of potential RNA G-quadruplexes by G4RNA screener. PMID:29036425
MG-RAST version 4-lessons learned from a decade of low-budget ultra-high-throughput metagenome analysis. PMID:29028869
Unbiased Taxonomic Annotation of Metagenomic Samples. PMID:29028181
Viral communities of the human gut: metagenomic analysis of composition and dynamics. PMID:29026445
Complete Genome Sequence of the Fruiting Myxobacterium Myxococcus macrosporus Strain DSM 14697, Generated by PacBio Sequencing. PMID:28983009
pSY153-MDR, a p12969-DIM-related mega plasmid carrying blaIMP-45 and armA, from clinical Pseudomonas putida. PMID:28978128
Detection of 224 candidate structured RNAs by comparative analysis of specific subsets of intergenic regions. PMID:28977401
PATRIC as a unique resource for studying antimicrobial resistance. PMID:28968762
VariantValidator: Accurate validation, mapping, and formatting of sequence variation descriptions. PMID:28967166
Reference genome assessment from a population scale perspective: an accurate profile of variability and noise. PMID:28961772
Isoform Evolution in Primates through Independent Combination of Alternative RNA Processing Events. PMID:28957512
Thiamine Acquisition Strategies Impact Metabolism and Competition in the Gut Microbe Bacteroides thetaiotaomicron. PMID:28951891
Potyvirus virion structure shows conserved protein fold and RNA binding site in ssRNA viruses. PMID:28948231
A comprehensive, cell specific microRNA catalogue of human peripheral blood. PMID:28934507
Antisense oligonucleotides targeting translation inhibitory elements in 5' UTRs can selectively increase protein levels. PMID:28934489
Survey of Predictors of Propensity for Protein Production and Crystallization with Application to Predict Resolution of Crystal Structures. PMID:28933304
Combinatorial peptide-based epitope mapping from Ebola virus DNA vaccines and infections reveals residue-level determinants of antibody binding. PMID:28922082
Tremblaya phenacola PPER: an evolutionary beta-gammaproteobacterium collage. PMID:28914880
Seasonal variation in nutrient utilization shapes gut microbiome structure and function in wild giant pandas. PMID:28904137
Coexistence of two novel resistance plasmids, blaKPC-2-carrying p14057A and tetA(A) -carrying p14057B, in Pseudomonas aeruginosa. PMID:28891735
Horizontally Acquired Genes Are Often Shared between Closely Related Bacterial Species. PMID:28890711
Whole-genome sequencing study of serum peptide levels: the Atherosclerosis Risk in Communities study. PMID:28854705
rahu is a mutant allele of Dnmt3c, encoding a DNA methyltransferase homolog required for meiosis and transposon repression in the mouse male germline. PMID:28854222
Genetic characterization of novel class 1 Integrons In0, In1069 and In1287 to In1290, and the inference of In1069-associated integron evolution in Enterobacteriaceae. PMID:28852475
FANTOM5 CAGE profiles of human and mouse reprocessed for GRCh38 and GRCm38 genome assemblies. PMID:28850105
Induction of a novel isoform of the lncRNA HOTAIR in Claudin-low breast cancer cells attached to extracellular matrix. PMID:28846832
A curated catalog of canine and equine keratin genes. PMID:28846680
Microbial Lineages in Sarcoidosis. A Metagenomic Analysis Tailored for Low-Microbial Content Samples. PMID:28846439
Unified Sequence-Based Association Tests Allowing for Multiple Functional Annotations and Meta-analysis of Noncoding Variation in Metabochip Data. PMID:28844485
Rat Genome and Model Resources. PMID:28838068
Viral Infection Identifies Micropeptides Differentially Regulated in smORF-Containing lncRNAs. PMID:28825667
Bioinformatic Analyses of Whole-Genome Sequence Data in a Public Health Laboratory. PMID:28820135
Decoding disease-causing mechanisms of missense mutations from supramolecular structures. PMID:28819267
Association of coral algal symbionts with a diverse viral community responsive to heat shock. PMID:28818037
Sex differences in microRNA-mRNA networks: examination of novel epigenetic programming mechanisms in the sexually dimorphic neonatal hypothalamus. PMID:28810930
Utility of rapid whole-exome sequencing in the diagnosis of Niemann-Pick disease type C presenting with fetal hydrops and acute liver failure. PMID:28802248
Characterization of the Culturable Subpopulations of Lactobacillus in the Chicken Intestinal Tract as a Resource for Probiotic Development. PMID:28798730
The Divided Bacterial Genome: Structure, Function, and Evolution. PMID:28794225
Genome-scale activation screen identifies a lncRNA locus regulating a gene neighbourhood. PMID:28792927
Co-occurrence of 3 different resistance plasmids in a multi-drug resistant Cronobacter sakazakii isolate causing neonatal infections. PMID:28771073
Pan-genome and phylogeny of Bacillus cereus sensu lato. PMID:28768476
Comparative genomics of the tardigrades Hypsibius dujardini and Ramazzottius varieornatus. PMID:28749982
Evolution of the cAMP-dependent protein kinase (PKA) catalytic subunit isoforms. PMID:28742821
Novel risk genes for systemic lupus erythematosus predicted by random forest classification. PMID:28740209
Genomic characterization of novel IncFII-type multidrug resistant plasmids p0716-KPC and p12181-KPC from Klebsiella pneumoniae. PMID:28725038
Genomic analysis of an infant with intractable diarrhea and dilated cardiomyopathy. PMID:28701297
Identification of long non-coding RNA in the horse transcriptome. PMID:28676104
A viral metagenomic approach on a non-metagenomic experiment: Mining next generation sequencing datasets from pig DNA identified several porcine parvoviruses for a retrospective evaluation of viral infections. PMID:28662150
Age-Related Gene Expression in the Frontal Cortex Suggests Synaptic Function Changes in Specific Inhibitory Neuron Subtypes. PMID:28611654
Pan-cancer analysis reveals technical artifacts in TCGA germline variant calls. PMID:28606096
Co-expressed Pathways DataBase for Tomato: a database to predict pathways relevant to a query gene. PMID:28583129
Genetic determinants of inherited susceptibility to hypercholesterolemia - a comprehensive literature review. PMID:28577571
Genomic diagnosis for children with intellectual disability and/or developmental delay. PMID:28554332
Zika virus evolution and spread in the Americas. PMID:28538734
A bacterial negative transcription regulator binding on an inverted repeat in the promoter for epothilone biosynthesis. PMID:28535774
Widespread Influence of 3'-End Structures on Mammalian mRNA Processing and Stability. PMID:28525757
Somatic Tumor Mutations Detected by Targeted Next Generation Sequencing in Minute Amounts of Serum-Derived Cell-Free DNA. PMID:28522829
Coordinates and intervals in graph-based reference genomes. PMID:28521770
CPC2: a fast and accurate coding potential calculator based on sequence intrinsic features. PMID:28521017
Structural adaptations of octaheme nitrite reductases from haloalkaliphilic Thioalkalivibrio bacteria to alkaline pH and high salinity. PMID:28510595
Expansion of the redox-sensitive proteome coincides with the plastid endosymbiosis. PMID:28504699
The use of informativity in the development of robust viromics-based examinations. PMID:28480148
The Antibiotic Resistant Target Seeker (ARTS), an exploration engine for antibiotic cluster prioritization and novel drug target discovery. PMID:28472505
LITTLE FISH, BIG DATA: ZEBRAFISH AS A MODEL FOR CARDIOVASCULAR AND METABOLIC DISEASE. PMID:28468832
Zipper plot: visualizing transcriptional activity of genomic regions. PMID:28464823
A high quality assembly of the Nile Tilapia (Oreochromis niloticus) genome reveals the structure of two sex determination regions. PMID:28464822
A Robust Framework for Microbial Archaeology. PMID:28460196
N-terminal Proteomics Assisted Profiling of the Unexplored Translation Initiation Landscape in Arabidopsis thaliana. PMID:28432195
Sequencing of blaIMP-Carrying IncN2 Plasmids, and Comparative Genomics of IncN2 Plasmids Harboring Class 1 Integrons. PMID:28424761
Nucleosome repositioning during differentiation of a human myeloid leukemia cell line. PMID:28406749
Riboswitch diversity and distribution. PMID:28396576
Evaluation of GRCh38 and de novo haploid genome assemblies demonstrates the enduring quality of the reference assembly. PMID:28396521
Transcriptome-based investigation of cirrus development and identifying microsatellite markers in rattan (Daemonorops jenkinsiana). PMID:28383053
Structure of aryl O-demethylase offers molecular insight into a catalytic tyrosine-dependent mechanism. PMID:28373573
Antagonistic Coevolution of MER Tyrosine Kinase Expression and Function. PMID:28369510
How to Name and Classify Your Phage: An Informal Guide. PMID:28368359
WikiGenomes: an open web application for community consumption and curation of gene annotation data in Wikidata. PMID:28365742
Ensembl core software resources: storage and programmatic access for DNA sequence and genome annotation. PMID:28365736
Biocuration in the structure-function linkage database: the anatomy of a superfamily. PMID:28365730
Genomic structure of the horse major histocompatibility complex class II region resolved using PacBio long-read sequencing technology. PMID:28361880
Simultaneous mapping of active DNA demethylation and sister chromatid exchange in single cells. PMID:28360182
A Newly Determined Member of the meso-Diaminopimelate Dehydrogenase Family with a Broad Substrate Spectrum. PMID:28341677
Bioinformatic analysis of riboswitch structures uncovers variant classes with altered ligand specificity. PMID:28265071
FocusHeuristics - expression-data-driven network optimization and disease gene prediction. PMID:28205611
Fungal Identification Using Molecular Tools: A Primer for the Natural Products Research Community. PMID:28199101
Construction and Analysis of Two Genome-Scale Deletion Libraries for Bacillus subtilis. PMID:28189581
A comprehensive software suite for protein family construction and functional site prediction. PMID:28182651
Individualized analysis reveals CpG sites with methylation aberrations in almost all lung adenocarcinoma tissues. PMID:28178989
Accurately annotate compound effects of genetic variants using a context-sensitive framework. PMID:28158838
TOMATOMICS: A Web Database for Integrated Omics Information in Tomato. PMID:28111364
Practical Approaches for Whole-Genome Sequence Analysis of Heart- and Blood-Related Traits. PMID:28089252
Duplicates, redundancies and inconsistencies in the primary nucleotide databases: a descriptive study. PMID:28077566
SMCHD1 mutations associated with a rare muscular dystrophy can also cause isolated arhinia and Bosma arhinia microphthalmia syndrome. PMID:28067909
ATGC database and ATGC-COGs: an updated resource for micro- and macro-evolutionary studies of prokaryotic genomes and protein family annotation. PMID:28053163
The 24th annual Nucleic Acids Research database issue: a look back and upcoming changes. PMID:28053160
Domain Organization and Evolution of the Highly Divergent 5' Coding Region of Genomes of Arteriviruses, Including the Novel Possum Nidovirus. PMID:28053107
GeneBase 1.1: a tool to summarize data from NCBI gene datasets and its application to an update of human gene statistics. PMID:28025344
Proteomics Research in Cardiovascular Medicine and Biomarker Discovery. PMID:28007144
Alternate-locus aware variant calling in whole genome sequencing. PMID:27964746
DNA methylation in lung cells is associated with asthma endotypes and genetic risk. PMID:27942592
Tools for Sequence-Based miRNA Target Prediction: What to Choose? PMID:27941681
The antiSMASH database, a comprehensive database of microbial secondary metabolite biosynthetic gene clusters. PMID:27924032
MethSMRT: an integrative database for DNA N6-methyladenine and N4-methylcytosine generated by single-molecular real-time sequencing. PMID:27924023
dbSAP: single amino-acid polymorphism database for protein variation detection. PMID:27903894
Virus Variation Resource - improved response to emergent viral outbreaks. PMID:27899678
TransportDB 2.0: a database for exploring membrane transporters in sequenced genomes from all domains of life. PMID:27899676
KEGG: new perspectives on genomes, pathways, diseases and drugs. PMID:27899662
The UCSC Genome Browser database: 2017 update. PMID:27899642
Improvements to PATRIC, the all-bacterial Bioinformatics Database and Analysis Resource Center. PMID:27899627
ChiTaRS-3.1-the enhanced chimeric transcripts and RNA-seq database matched with protein-protein interactions. PMID:27899596
SNP2TFBS - a database of regulatory SNPs affecting predicted transcription factor binding site affinity. PMID:27899579
Ensembl 2017. PMID:27899575
Whole genome sequence analysis of serum amino acid levels. PMID:27884205
The ChIP-Seq tools and web server: a resource for analyzing ChIP-seq and other types of genomic data. PMID:27863463
Single nucleotide polymorphisms within MicroRNAs, MicroRNA targets, and MicroRNA biogenesis genes and their impact on colorectal cancer survival. PMID:27859935
Numerous small hammerhead ribozyme variants associated with Penelope-like retrotransposons cleave RNA as dimers. PMID:27858507
Genenames.org: the HGNC and VGNC resources in 2017. PMID:27799471
NGSmethDB 2017: enhanced methylomes and differential methylation. PMID:27794041
The state of play in higher eukaryote gene annotation. PMID:27773922
IMG/M: integrated genome and metagenome comparative data analysis system. PMID:27738135
PMDBase: a database for studying microsatellite DNA and marker development in plants. PMID:27733507
CeNDR, the Caenorhabditis elegans natural diversity resource. PMID:27701074
Large-Scale microRNA Expression Profiling Identifies Putative Retinal miRNA-mRNA Signaling Pathways Underlying Form-Deprivation Myopia in Mice. PMID:27622715
Aberrant DNA methylation of alternative promoter of DLC1 isoform 1 in meningiomas. PMID:27614886
Tiered Human Integrated Sequence Search Databases for Shotgun Proteomics. PMID:27577934
Mouse models of Down syndrome: gene content and consequences. PMID:27538963
Assuring the Quality of Next-Generation Sequencing in Clinical Microbiology and Public Health Laboratories. PMID:27510831
Clinical Interpretation of Genomic Variations. PMID:27507302
Scaling up discovery of hidden diversity in fungi: impacts of barcoding approaches. PMID:27481788
Role of mRNA structure in the control of protein folding. PMID:27466388
Freshwater Metaviromics and Bacteriophages: A Current Assessment of the State of the Art in Relation to Bioinformatic Challenges. PMID:27375355
Optimizing sgRNA position markedly improves the efficiency of CRISPR/dCas9-mediated transcriptional repression. PMID:27353328
Next generation sequencing technology and genomewide data analysis: Perspectives for retinal research. PMID:27297499
Bioinformatics resources for pollen. PMID:27271281
From data repositories to submission portals: rethinking the role of domain-specific databases in CollecTF. PMID:27114493
Long-read sequence assembly of the gorilla genome. PMID:27034376
Comparative Screening of Digestion Tract Toxic Genes in Proteus mirabilis. PMID:27010388
Posttranscriptional regulation of FOXO expression: microRNAs and beyond. PMID:26920226
Assembly: a resource for assembled genomes at NCBI. PMID:26578580
NCBI reference sequences (RefSeq): a curated non-redundant sequence database of genomes, transcripts and proteins PubMed citations: 1422.

1422 articles citing: NCBI reference sequences (RefSeq): a curated non-redundant sequence database of genomes, transcripts and proteins

Pseudofinder: Detection of Pseudogenes in Prokaryotic Genomes. PMID:35801562
Prior exposure to microcystin alters host gut resistome and is associated with dysregulated immune homeostasis in translatable mouse models. PMID:35799048
Identification of Differentially Expressed Long Noncoding RNAs as Functional Biomarkers and Construction of Function Enrichment Network in Oral Squamous Cell Carcinoma. PMID:35795287
Heterotrophic Sulfur Oxidation of Halomonas titanicae SOB56 and Its Habitat Adaptation to the Hydrothermal Environment. PMID:35774465
Identification of stress-related genes by co-expression network analysis based on the improved turbot genome. PMID:35768602
Gut virome profiling identifies a widespread bacteriophage family associated with metabolic syndrome. PMID:35739117
Thousands of small, novel genes predicted in global phage genomes. PMID:35732113
Nitrogen fixation by diverse diazotrophic communities can support population growth of arboreal ants. PMID:35681192
Neuronal Cells Display Distinct Stability Controls of Alternative Polyadenylation mRNA Isoforms, Long Non-Coding RNAs, and Mitochondrial RNAs. PMID:35664307
The microbiome of cryospheric ecosystems. PMID:35655063
Terpenoid Backbone Biosynthesis among Pig Hippocampal Pathways Impacted by Stressors. PMID:35627199
Dual transcriptome based reconstruction of Salmonella-human integrated metabolic network to screen potential drug targets. PMID:35609089
Exploring synergies between plant metabolic modelling and machine learning. PMID:35521559
Response of the Anaerobic Methanotrophic Archaeon Candidatus "Methanoperedens nitroreducens" to the Long-Term Ferrihydrite Amendment. PMID:35509320
Incorporating local ancestry improves identification of ancestry-associated methylation signatures and meQTLs in African Americans. PMID:35488087
Genomic Sequencing of Bacillus cereus Sensu Lato Strains Isolated from Meat and Poultry Products in South Africa Enables Inter- and Intranational Surveillance and Source Tracking. PMID:35475639
AutoCoV: tracking the early spread of COVID-19 in terms of the spatial and temporal patterns from embedding space by K-mer based deep learning. PMID:35468739
Genomic and metabolic adaptations of biofilms to ecological windows of opportunity in glacier-fed streams. PMID:35444202
Predicting the functional impact of KCNQ1 variants with artificial neural networks. PMID:35442947
Global Grassland Diazotrophic Communities Are Structured by Combined Abiotic, Biotic, and Spatial Distance Factors but Resilient to Fertilization. PMID:35418962
DUX4 is a multifunctional factor priming human embryonic genome activation. PMID:35402882
Whole-genome sequencing as an investigational device for return of hereditary disease risk and pharmacogenomic results as part of the All of Us Research Program. PMID:35346344
Genomic Fishing and Data Processing for Molecular Evolution Research. PMID:35314663
A Novel and Ubiquitous Marine Methylophage Provides Insights into Viral-Host Coevolution and Possible Host-Range Expansion in Streamlined Marine Heterotrophic Bacteria. PMID:35311512
Direct Real-Time PCR for the Detection and Serotyping of Haemophilus influenzae without DNA Extraction. PMID:35306833
GBDR: a Bayesian model for precise prediction of pathogenic microorganisms using 16S rRNA gene sequences. PMID:35296232
Phylogenomics of the genus Glycine sheds light on polyploid evolution and life-strategy transition. PMID:35288665
Secondary structure prediction for RNA sequences including N6-methyladenosine. PMID:35277476
Metagenomics reveals differences in microbial composition and metabolic functions in the rumen of dairy cows with different residual feed intake. PMID:35260198
Whole-genome sequencing of 1,171 elderly admixed individuals from São Paulo, Brazil. PMID:35246524
Role of mobile genetic elements in the global dissemination of the carbapenem resistance gene blaNDM. PMID:35241674
Comparative Genomics of Clostridium baratii Reveals Strain-Level Diversity in Toxin Abundance. PMID:35208668
Integrated meta-omics reveals new ruminal microbial features associated with feed efficiency in dairy cattle. PMID:35172905
Association of Tandem Repeat Number Variabilities in Subunit S of the Type I Restriction-Modification System with Macrolide Resistance in Mycoplasma pneumoniae. PMID:35160167
Increasing prediction performance of colorectal cancer disease status using random forests classification based on metagenomic shotgun sequencing data. PMID:35155839
Chromosome-Level Genome Assembly of the Rare and Endangered Tropical Plant Speranskia yunnanensis (Euphorbiaceae). PMID:35140736
Simultaneous Single-Cell Genome and Transcriptome Sequencing of Termite Hindgut Protists Reveals Metabolic and Evolutionary Traits of Their Endosymbionts. PMID:35107338
Transcriptomic profiling suggests candidate molecular responses to waterlogging in cassava. PMID:35061680
Assessment of the Molecular Heterogeneity of E-Cadherin Expression in Invasive Lobular Breast Cancer. PMID:35053458
A Large-Scale Multiple Genome Comparison of Acidophilic Archaea (pH ≤ 5.0) Extends Our Understanding of Oxidative Stress Responses in Polyextreme Environments. PMID:35052563
Transcriptome analysis of Auricularia fibrillifera fruit-body responses to drought stress and rehydration. PMID:35033026
An in-silico approach to design potential siRNAs against the ORF57 of Kaposi's sarcoma-associated herpesvirus. PMID:35012290
Impact of azithromycin mass drug administration on the antibiotic-resistant gut microbiome in children: a randomized, controlled trial. PMID:34991704
Decoding Cancer Variants of Unknown Significance for Helicase-Nuclease-RPA Complexes Orchestrating DNA Repair During Transcription and Replication. PMID:34966786
Critical Assessment of MetaProteome Investigation (CAMPI): a multi-laboratory comparison of established workflows. PMID:34911965
Genetic epidemiology of autoinflammatory disease variants in Indian population from 1029 whole genomes. PMID:34905135
Whole-Genome Sequencing of Acer catalpifolium Reveals Evolutionary History of Endangered Species. PMID:34878129
Deeplasmid: deep learning accurately separates plasmids from bacterial chromosomes. PMID:34871418
Genome-wide Identification and Analysis of Splicing QTLs in Multiple Sclerosis by RNA-Seq Data. PMID:34868258
Identifying essential genes across eukaryotes by machine learning. PMID:34859210
msRepDB: a comprehensive repetitive sequence database of over 80 000 species. PMID:34850956
Minnesota peat viromes reveal terrestrial and aquatic niche partitioning for local and global viral populations. PMID:34836550
Genome-Wide Landscape of North-Eastern European Populations: A View from Lithuania. PMID:34828336
In silico Methods for Identification of Potential Therapeutic Targets. PMID:34826045
The length scale of multivalent interactions is evolutionarily conserved in fungal and vertebrate phase-separating proteins. PMID:34791214
Establishment of Host-Algal Endosymbioses: Genetic Response to Symbiont Versus Prey in a Sponge Host. PMID:34791195
A Superefficient Ochratoxin A Hydrolase with Promising Potential for Industrial Applications. PMID:34788069
Evaluating the potential for respiratory metagenomics to improve treatment of secondary infection and detection of nosocomial transmission on expanded COVID-19 intensive care units. PMID:34784976
Multiomics study of a heterotardigrade, Echinisicus testudo, suggests the possibility of convergent evolution of abundant heat-soluble proteins in Tardigrada. PMID:34763673
Approximate distance correlation for selecting highly interrelated genes across datasets. PMID:34752449
Identification of Campylobacter jejuni and Chlamydia psittaci from cockatiel (Nymphicus hollandicus) using metagenomics. PMID:34742232
The taxonomy of the Trichophyton rubrum complex: a phylogenomic approach. PMID:34730487
Multivariate genome-wide association study of leaf shape in a Populus deltoides and P. simonii F1 pedigree. PMID:34710178
Discovery and Genetic Characterization of Novel Paramyxoviruses Related to the Genus Henipavirus in Crocidura Species in the Republic of Korea. PMID:34696450
Alternative Splicing Mechanisms Underlying Opioid-Induced Hyperalgesia. PMID:34680965
De Novo Genome Assembly of Chinese Plateau Honeybee Unravels Intraspecies Genetic Diversity in the Eastern Honeybee, Apis cerana. PMID:34680661
Bucky Ball Is a Novel Zebrafish Vasa ATPase Activator. PMID:34680140
Yeast metabolic innovations emerged via expanded metabolic network and gene positive selection. PMID:34676984
Comprehensive discovery of CRISPR-targeted terminally redundant sequences in the human gut metagenome: Viruses, plasmids, and more. PMID:34673779
Transcriptomic and Metabolomic Analyses Reveals That Exogenous Methyl Jasmonate Regulates Galanthamine Biosynthesis in Lycoris longituba Seedlings. PMID:34659286
Sulfur cycling and host-virus interactions in Aquificales-dominated biofilms from Yellowstone's hottest ecosystems. PMID:34650231
Large-scale k-mer-based analysis of the informational properties of genomes, comparative genomics and taxonomy. PMID:34648558
Novel Drivers of Virulence in Clostridioides difficile Identified via Context-Specific Metabolic Network Analysis. PMID:34609164
Gene Duplications Are At Least 50 Times Less Frequent than Gene Transfers in Prokaryotic Genomes. PMID:34599337
Isolation and characterization of a lytic bacteriophage against Pseudomonas aeruginosa. PMID:34588479
Gut Microbiota Predicts Healthy Late-Life Aging in Male Mice. PMID:34579167
Trends and Applications of Omics Technologies to Functional Characterisation of Enzymes and Protein Metabolites Produced by Fungi. PMID:34575737
Sex-Biased Gene Expression and Isoform Profile of Brine Shrimp Artemia franciscana by Transcriptome Analysis. PMID:34573596
GenNet framework: interpretable deep learning for predicting phenotypes from genetic data. PMID:34535759
Evolution of Functional Diversity in the Holozoan Tyrosine Kinome. PMID:34515793
Full-length transcriptome analysis of Spodoptera frugiperda larval brain reveals detoxification genes. PMID:34513339
A chromosome-level genome of Antechinus flavipes provides a reference for an Australian marsupial genus with male death after mating. PMID:34486812
Identification of vaccine targets in pathogens and design of a vaccine using computational approaches. PMID:34475453
Predicting host dependency factors of pathogens in Drosophila melanogaster using machine learning. PMID:34471501
Design of Nucleic Acid Biosensors Based on CRISPR/Cas Systems and Reporter Split Proteins. PMID:34456394
Metagenome-assembled genome of a Chitinophaga sp. and its potential in plant biomass degradation, as well of affiliated Pandoraea and Labrys species. PMID:34448059
Distribution of Denitrification among Haloarchaea: A Comprehensive Study. PMID:34442748
Diving Deep into the Data: A Review of Deep Learning Approaches and Potential Applications in Foodomics. PMID:34441579
Integrated Phenotypic-Genotypic Analysis of Latilactobacillus sakei from Different Niches. PMID:34441495
A high-resolution temporal atlas of the SARS-CoV-2 translatome and transcriptome. PMID:34433827
Genomics pipelines to investigate susceptibility in whole genome and exome sequenced data for variant discovery, annotation, prediction and genotyping. PMID:34395068
ZWA: Viral genome assembly and characterization hindrances from virus-host chimeric reads; a refining approach. PMID:34370725
A Tissue-Specific Landscape of Alternative Polyadenylation, lncRNAs, TFs, and Gene Co-expression Networks in Liriodendron chinense. PMID:34367224
GTXplorer: A portal to navigate and visualize the evolutionary information encoded in fold A glycosyltransferases. PMID:34351427
Ancient viral genomes reveal introduction of human pathogenic viruses into Mexico during the transatlantic slave trade. PMID:34350829
A CpG island promoter drives the CXXC5 gene expression. PMID:34341443
An Exploratory Study for the Association of Gut Microbiome with Efficacy of Immune Checkpoint Inhibitor in Patients with Hepatocellular Carcinoma. PMID:34336726
An Ecological Basis for Dual Genetic Code Expansion in Marine Deltaproteobacteria. PMID:34335502
Genotype-Specific Expression and NLR Repertoire Contribute to Phenotypic Resistance Diversity in Plantago lanceolata. PMID:34322142
Prioritization of potential drug targets and antigenic vaccine candidates against Klebsiella aerogenes using the computational subtractive proteome-driven approach. PMID:34305354
Case Report: About a Case of Hyperammonemia Syndrome Following Lung Transplantation: Could Metagenomic Next-Generation Sequencing Improve the Clinical Management? PMID:34295911
Transcriptome and proteome of the corm, leaf and flower of Hypoxis hemerocallidea (African potato). PMID:34283859
Global Geographic Diversity and Distribution of the Myxobacteria. PMID:34259548
Dual species dynamic transcripts reveal the interaction mechanisms between Chrysanthemum morifolium and Alternaria alternata. PMID:34243707
Transcriptomic analysis of temporal shifts in berry development between two grapevine cultivars of the Pinot family reveals potential genes controlling ripening time. PMID:34233614
Comprehensive transcriptome analysis of peripheral blood unravels key lncRNAs implicated in ABPA and asthma. PMID:34221710
De novo Transcriptome Assembly and Comparative Analysis Highlight the Primary Mechanism Regulating the Response to Selenium Stimuli in Oats (Avena sativa L.). PMID:34220876
Insights into Autotrophic Activities and Carbon Flow in Iron-Rich Pelagic Aggregates (Iron Snow). PMID:34201891
Pharmacogenomic Effects of β-Blocker Use on Femoral Neck Bone Mineral Density. PMID:34195528
Transcript annotation tool (TransAT): an R package for retrieving annotations for transcript-specific genetic variants. PMID:34182919
FINER: enhancing the prediction of tissue-specific functions of isoforms by refining isoform interaction networks. PMID:34169280
Evaluating the lettuce metatranscriptome with MinION sequencing for future spaceflight food production applications. PMID:34140518
Learning the protein language: Evolution, structure, and function. PMID:34139171
A PGE2-MEF2A axis enables context-dependent control of inflammatory gene expression. PMID:34129840
Integrated Multi-omics Investigations Reveal the Key Role of Synergistic Microbial Networks in Removing Plasticizer Di-(2-Ethylhexyl) Phthalate from Estuarine Sediments. PMID:34100638
Screening and identification of genes affecting grain quality and spikelet fertility during high-temperature treatment in grain filling stage of rice. PMID:34098898
Pan-Resistome Insights into the Multidrug Resistance of Acinetobacter baumannii. PMID:34069870
Pan-Genome Analysis Reveals Host-Specific Functional Divergences in Burkholderia gladioli. PMID:34067383
The Evolution of Interdependence in a Four-Way Mealybug Symbiosis. PMID:34061185
Integrating genomics and metabolomics for scalable non-ribosomal peptide discovery. PMID:34050176
Mapping the transcriptomics landscape of post-traumatic stress disorder symptom dimensions in World Trade Center responders. PMID:34031375
DNF: A differential network flow method to identify rewiring drivers for gene regulatory networks. PMID:34025035
Metagenomic NGS optimizes the use of antibiotics in appendicitis patients: bacterial culture is not suitable as the only guidance. PMID:34017469
In vivo assessment of a single adenine mutation in 5'UTR of Endothelin-1 gene in paediatric cases with severe pulmonary hypertension: an observational study. PMID:34011397
Metabolic bifunctionality of Rv0812 couples folate and peptidoglycan biosynthesis in Mycobacterium tuberculosis. PMID:33950161
Delineating the Tnt1 Insertion Landscape of the Model Legume Medicago truncatula cv. R108 at the Hi-C Resolution Using a Chromosome-Length Genome Assembly. PMID:33919286
Extended Evaluation of Viral Diversity in Lake Baikal through Metagenomics. PMID:33916464
A Predictive Approach to Infer the Activity and Natural Variation of Retrotransposon Families in Plants. PMID:33900588
Comparative Transcriptome Analysis of Key Genes and Pathways Activated in Response to Fat Deposition in Two Sheep Breeds With Distinct Tail Phenotype. PMID:33897762
Predictive Models of Genetic Redundancy in Arabidopsis thaliana. PMID:33871641
Interacting impact of maternal inflammatory response and stress on the amygdala transcriptome of pigs. PMID:33856433
A study of transposable element-associated structural variations (TASVs) using a de novo-assembled Korean genome. PMID:33833373
Characterization and In Vitro Efficacy against Listeria monocytogenes of a Newly Isolated Bacteriophage, ɸIZSAM-1. PMID:33807487
Temporal Quantitative Proteomics Analysis of Neuroblastoma Cells Treated with Bovine Milk-Derived Extracellular Vesicles Highlights the Anti-Proliferative Properties of Milk-Derived Extracellular Vesicles. PMID:33805332
Moringa isothiocyanate-1 regulates Nrf2 and NF-κB pathway in response to LPS-driven sepsis and inflammation. PMID:33793581
A protocol combining breath testing and ex vivo fermentations to study the human gut microbiome. PMID:33786457
Preliminary functional analysis of the subgingival microbiota of cats with periodontitis and feline chronic gingivostomatitis. PMID:33767308
The Crown Pearl: a draft genome assembly of the European freshwater pearl mussel Margaritifera margaritifera (Linnaeus, 1758). PMID:33755103
Gene Duplications Trace Mitochondria to the Onset of Eukaryote Complexity. PMID:33739376
Identification of Novel Genetic Regulatory Region for Proprotein Convertase FURIN and Interferon Gamma in T Cells. PMID:33679774
Tutorial: assessing metagenomics software with the CAMI benchmarking toolkit. PMID:33649565
Genome-wide shifts in climate-related variation underpin responses to selective breeding in a widespread conifer. PMID:33649218
Targeting SARS-CoV-2 Nsp3 macrodomain structure with insights from human poly(ADP-ribose) glycohydrolase (PARG) structures with inhibitors. PMID:33636189
Positive selection and gene duplications in tumour suppressor genes reveal clues about how cetaceans resist cancer. PMID:33622125
Multivariate linear mixed model enhanced the power of identifying genome-wide association to poplar tree heights in a randomized complete block design. PMID:33604666
Draft Genome Sequences of Pelagimyophage Mosig EXVC030M and Pelagipodophage Lederberg EXVC029P, Isolated from Devil's Hole, Bermuda. PMID:33602731
CIITA-Transduced Glioblastoma Cells Uncover a Rich Repertoire of Clinically Relevant Tumor-Associated HLA-II Antigens. PMID:33592498
Evolutionary dynamics of transposable elements in bdelloid rotifers. PMID:33543711
BSGatlas: a unified Bacillus subtilis genome and transcriptome annotation atlas with enhanced information access. PMID:33539279
A persistent giant algal virus, with a unique morphology, encodes an unprecedented number of genes involved in energy metabolism. PMID:33536167
Novel prognostic genes and subclasses of acute myeloid leukemia revealed by survival analysis of gene expression data. PMID:33536020
A new Cannabis genome assembly associates elevated cannabidiol (CBD) with hemp introgressed into marijuana. PMID:33521943
Genomic analysis of patients in a South Indian Community with autosomal dominant cortical tremor, myoclonus and epilepsy suggests a founder repeat expansion mutation in the SAMD12 gene. PMID:33501421
Genome Sequence and Adaptation Analysis of the Human and Rice Pathogenic Strain Burkholderia glumae AU6208. PMID:33498266
A Novel Multi-Epitopic Peptide Vaccine Candidate Against Helicobacter pylori: In-Silico Identification, Design, Cloning and Validation Through Molecular Dynamics. PMID:33495694
Network propagation of rare variants in Alzheimer's disease reveals tissue-specific hub genes and communities. PMID:33411734
Diversification of mammalian deltaviruses by host shifting. PMID:33397804
Metagenomics survey unravels diversity of biogas microbiomes with potential to enhance productivity in Kenya. PMID:33395690
Structure and dynamics of membrane protein in SARS-CoV-2. PMID:33353499
CRISPR-Cas systems restrict horizontal gene transfer in Pseudomonas aeruginosa. PMID:33349652
Web-Based Genome Analysis of Bacterial Meningitis Pathogens for Public Health Applications Using the Bacterial Meningitis Genomic Analysis Platform (BMGAP). PMID:33324449
Metagenomic analysis reveals rapid development of soil biota on fresh volcanic ash. PMID:33293603
Bioinformatic analysis and functional predictions of selected regeneration-associated transcripts expressed by zebrafish microglia. PMID:33287696
Overexpression of a Sucrose Synthase Gene Indirectly Improves Cotton Fiber Quality Through Sucrose Cleavage. PMID:33281834
In-depth secretome analysis of Puccinia striiformis f. sp. tritici in infected wheat uncovers effector functions. PMID:33275764
Evolutionary and structural analysis of SARS-CoV-2 specific evasion of host immunity. PMID:33273723
In-silico analysis of myeloid cells across the animal kingdom reveals neutrophil evolution by colony-stimulating factors. PMID:33236983
Phosphoglycerate kinase: structural aspects and functions, with special emphasis on the enzyme from Kinetoplastea. PMID:33234025
OCCAM: prediction of small ORFs in bacterial genomes by means of a target-decoy database approach and machine learning techniques. PMID:33206960
deepBase v3.0: expression atlas and interactive analysis of ncRNAs from thousands of deep-sequencing data. PMID:33175131
Fermented-Food Metagenomics Reveals Substrate-Associated Differences in Taxonomy and Health-Associated and Antibiotic Resistance Determinants. PMID:33172966
QTL-Seq identifies quantitative trait loci of relative electrical conductivity associated with heat tolerance in bottle gourd (Lagenaria siceraria). PMID:33170849
Evaluation of pathogen specific urinary peptides in tick-borne illnesses. PMID:33168903
Testing the Two-Step Model of Plant Root Microbiome Acquisition Under Multiple Plant Species and Soil Sources. PMID:33162946
Inhibiting Sialidase-Induced TGF-β1 Activation Attenuates Pulmonary Fibrosis in Mice. PMID:33144389
LAMP: disease classification derived from layered assessment on modules and pathways in the human gene network. PMID:33126852
IndiGenomes: a comprehensive resource of genetic variants from over 1000 Indian genomes. PMID:33095885
Alternative Splicing Enhances the Transcriptome Complexity of Liriodendron chinense. PMID:33072153
No Assembly Required: Using BTyper3 to Assess the Congruency of a Proposed Taxonomic Framework for the Bacillus cereus Group With Historical Typing Methods. PMID:33072050
Characterization of the Vaginal DNA Virome in Health and Dysbiosis. PMID:33050261
Natural Selection on the Phase-Separation Properties of FUS during 160 My of Mammalian Evolution. PMID:33022038
Viral ecogenomics across the Porifera. PMID:33008461
A computational toolset for rapid identification of SARS-CoV-2, other viruses and microorganisms from sequencing data. PMID:33003197
Genomic characterization of a diazotrophic microbiota associated with maize aerial root mucilage. PMID:32986754
Mapping the bacterial metabolic niche space. PMID:32985497
Comprehensive genome analysis of a pangolin-associated Paraburkholderia fungorum provides new insights into its secretion systems and virulence. PMID:32953261
Experimental autoimmune encephalomyelitis is associated with changes of the microbiota composition in the gastrointestinal tract. PMID:32938979
Estimate of the sequenced proportion of the global prokaryotic genome. PMID:32938501
Bridging the membrane lipid divide: bacteria of the FCB group superphylum have the potential to synthesize archaeal ether lipids. PMID:32929208
The UCSC SARS-CoV-2 Genome Browser. PMID:32908258
Twentieth-century emergence of antimicrobial resistant human- and bovine-associated Salmonella enterica serotype Typhimurium lineages in New York State. PMID:32879348
Lasting and Sex-Dependent Impact of Maternal Immune Activation on Molecular Pathways of the Amygdala. PMID:32848554
Cereulide Synthetase Acquisition and Loss Events within the Evolutionary History of Group III Bacillus cereus Sensu Lato Facilitate the Transition between Emetic and Diarrheal Foodborne Pathogens. PMID:32843545
Large freshwater phages with the potential to augment aerobic methane oxidation. PMID:32839536
Adsorption Sequencing as a Rapid Method to Link Environmental Bacteriophages to Hosts. PMID:32823052
Spectrum of clinical features and genetic variants in mevalonate kinase (MVK) gene of South Indian families suffering from Hyperimmunoglobulin D Syndrome. PMID:32822427
Gene Teller: an extensible Alexa Skill for gene-relevant databases. PMID:32821906
Draft Genome Sequences of Bacillus and Paenibacillus Species Isolated from Seeds of Citrullus lanata (Watermelon), Cucurbita moschata (Butternut Squash), and Cucurbita pepo L. var. pepo L. (Pumpkin). PMID:32816980
Draft Genome Sequences of Seven Strains of Paenibacillus spp. (Phylum Firmicutes) Inhabiting the Seeds of Cucumis melo L. (Cantaloupe) and Exhibiting Plant Probiotic Traits. PMID:32816979
Figures of merit and statistics for detecting faulty species identification with DNA barcodes: A case study in Ramaria and related fungal genera. PMID:32813726
Characterization of a SPM-1 metallo-beta-lactamase-producing Pseudomonas aeruginosa by comparative genomics and phenotypic analysis. PMID:32764694
Draft Genome Sequences of Pantoea agglomerans, Paenibacillus polymyxa, and Pseudomonas sp. Strains, Seed Biogel-Associated Endophytes of Cucumis sativus L. (Cucumber) and Cucumis melo L. (Cantaloupe). PMID:32763934
Contributions of de novo variants to systemic lupus erythematosus. PMID:32724065
MicroRNA and protein-coding gene expression analysis in idiopathic pulmonary fibrosis yields novel biomarker signatures associated to survival. PMID:32711186
Whole‑exome sequencing identifies a novel mutation of SLC20A2 (c.C1849T) as a possible cause of hereditary multiple exostoses in a Chinese family. PMID:32705272
Pathways for horizontal gene transfer in bacteria revealed by a global map of their plasmids. PMID:32681114
Monitoring Hydroxycinnamic Acid Decarboxylation by Lactic Acid Bacteria Using High-Throughput UV-Vis Spectroscopy. PMID:32660090
Glioma-derived exosomes drive the differentiation of neural stem cells to astrocytes. PMID:32649728
Novel Erwinia persicina Infecting Phage Midgardsormr38 Within the Context of Temperate Erwinia Phages. PMID:32636815
Detecting and correcting misclassified sequences in the large-scale public databases. PMID:32579213
Draft Genome Sequence of Streptomyces aureoverticillatus HN6, a Strain Antagonistic against Fusarium oxysporum f. sp. cubense Race 4. PMID:32499365
Structural analysis of the PATZ1 BTB domain homodimer. PMID:32496219
Identification of Selective Novel Hits against Plasmodium falciparum Prolyl tRNA Synthetase Active Site and a Predicted Allosteric Site Using in silico Approaches. PMID:32471245
The World of Cyclic Dinucleotides in Bacterial Behavior. PMID:32466317
Detoxification-related gene expression accompanies anhydrobiosis in the foliar nematode (Aphelenchoides fragariae). PMID:32449331
The Biotechnological Potential of the Marine Diatom Skeletonema dohrnii to the Elevated Temperature and pCO2 Concentration. PMID:32429035
The genome of Mekong tiger perch (Datnioides undecimradiatus) provides insights into the phylogenetic position of Lobotiformes and biological conservation. PMID:32424221
Draft Genome Sequences of Acinetobacter sp. Strain EKM10A, Enterobacter hormaechei EKM10E, and Enterobacter hormaechei EKM11E (Phylum Proteobacteria) Colonizing the Seed Surface Biogel of Echinocystis lobata (Wild Cucumber). PMID:32409531
Draft Genome Sequence of Bacillus sp. Strain EKM601B (Phylum Firmicutes), Living inside the Seeds of Luffa acutangula (Chinese Okra). PMID:32409530
CNN-Peaks: ChIP-Seq peak detection pipeline using convolutional neural networks that imitate human visual inspection. PMID:32404971
Multi-omics reveals that the rumen microbiome and its metabolome together with the host metabolome contribute to individualized dairy cow performance. PMID:32398126
Transcriptomics in Toxicogenomics, Part II: Preprocessing and Differential Expression Analysis for High Quality Data. PMID:32397130
Bioinformatics Resources for Plant Abiotic Stress Responses: State of the Art and Opportunities in the Fast Evolving -Omics Era. PMID:32384671
Pitfalls in Single Clone CRISPR-Cas9 Mutagenesis to Fine-map Regulatory Intervals. PMID:32375333
Metatranscriptomics as a tool to identify fungal species and subspecies in mixed communities - a proof of concept under laboratory conditions. PMID:32355612
Genetic and Immune Changes Associated with Disease Progression under the Pressure of Oncolytic Therapy in A Neuroblastoma Outlier Patient. PMID:32354143
The Biotherapeutic Potential of Lactobacillus reuteri Characterized Using a Target-Specific Selection Process. PMID:32351460
CCMetagen: comprehensive and accurate identification of eukaryotes and prokaryotes in metagenomic data. PMID:32345331
Shared genetic architecture and casual relationship between leptin levels and type 2 diabetes: large-scale cross-trait meta-analysis and Mendelian randomization analysis. PMID:32341051
Dysbiosis in Peripheral Blood Mononuclear Cell Virome Associated With Systemic Lupus Erythematosus. PMID:32328467
Effect for Human Genomic Variation During the BMP4-Induced Conversion From Pluripotent Stem Cells to Trophoblast. PMID:32318089
An immunoinformatic approach driven by experimental proteomics: in silico design of a subunit candidate vaccine targeting secretory proteins of Leishmania donovani amastigotes. PMID:32295617
Systematic detection of horizontal gene transfer across genera among multidrug-resistant bacteria in a single hospital. PMID:32285801
Essential gene prediction in Drosophila melanogaster using machine learning approaches based on sequence and functional features. PMID:32257045
Hierarchically Labeled Database Indexing Allows Scalable Characterization of Microbiomes. PMID:32248063
Deep evolutionary analysis reveals the design principles of fold A glycosyltransferases. PMID:32234211
Comprehensive genome-wide identification of angiosperm upstream ORFs with peptide sequences conserved in various taxonomic ranges using a novel pipeline, ESUCA. PMID:32228449
Transcriptome Ortholog Alignment Sequence Tools (TOAST) for phylogenomic dataset assembly. PMID:32228442
Ultraplexing: increasing the efficiency of long-read sequencing for hybrid assembly with k-mer-based multiplexing. PMID:32171299
The Entner-Doudoroff and Nonoxidative Pentose Phosphate Pathways Bypass Glycolysis and the Oxidative Pentose Phosphate Pathway in Ralstonia solanacearum. PMID:32156794
Nonstructural proteins NS7b and NS8 are likely to be phylogenetically associated with evolution of 2019-nCoV. PMID:32142938
Proposal of a Taxonomic Nomenclature for the Bacillus cereus Group Which Reconciles Genomic Definitions of Bacterial Species with Clinical and Industrial Phenotypes. PMID:32098810
Transcriptome Analysis and Identification of Genes Associated with Starch Metabolism in Castanea henryi Seed (Fagaceae). PMID:32093295
FeGenie: A Comprehensive Tool for the Identification of Iron Genes and Iron Gene Neighborhoods in Genome and Metagenome Assemblies. PMID:32082281
Salinity and Time Can Alter Epibacterial Communities of an Invasive Seaweed. PMID:32010064
Network-Based Metabolism-Centered Screening of Potential Drug Targets in Klebsiella pneumoniae at Genome Scale. PMID:31993376
Expanded complement of Niemann-Pick type C2-like protein genes in Clonorchis sinensis suggests functions beyond sterol binding and transport. PMID:31973758
MetaOmGraph: a workbench for interactive exploratory data analysis of large expression datasets. PMID:31956905
Comparative Genomics Analysis of Lactobacillus ruminis from Different Niches. PMID:31936280
FilTar: using RNA-Seq data to improve microRNA target prediction accuracy in animals. PMID:31930382
Identifying SNAREs by Incorporating Deep Learning Architecture and Amino Acid Embedding Representation. PMID:31920706
SWeeP: representing large biological sequences datasets in compact vectors. PMID:31919449
Integrated analysis of gene modulation profile identifies pathogenic factors and pathways in the liver of diabetic mice. PMID:31890673
Analysis of Soybean Long Non-Coding RNAs Reveals a Subset of Small Peptide-Coding Transcripts. PMID:31882456
HOPS: automated detection and authentication of pathogen DNA in archaeological remains. PMID:31842945
Putative Iron-Sulfur Proteins Are Required for Hydrogen Consumption and Enhance Survival of Mycobacteria. PMID:31824474
Conjoint Analysis of SMRT- and Illumina-Based RNA-Sequencing Data of Fenneropenaeus chinensis Provides Insight Into Sex-Biased Expression Genes Involved in Sexual Dimorphism. PMID:31803244
High-throughput metabolomic and transcriptomic analyses vet the potential route of cerpegin biosynthesis in two varieties of Ceropegia bulbosa Roxb. PMID:31802261
A family of Type VI secretion system effector proteins that form ion-selective pores. PMID:31792213
Computational search for UV radiation resistance strategies in Deinococcus swuensis isolated from Paramo ecosystems. PMID:31790419
Machine Learning Approaches for the Prioritization of Genomic Variants Impacting Pre-mRNA Splicing. PMID:31779139
Evolution of BACON Domain Tandem Repeats in crAssphage and Novel Gut Bacteriophage Lineages. PMID:31766550
Deep Intact Proteoform Characterization in Human Cell Lysate Using High-pH and Low-pH Reversed-Phase Liquid Chromatography. PMID:31755044
A Mini-Atlas of Gene Expression for the Domestic Goat (Capra hircus). PMID:31749840
In-depth serum virome analysis in patients with acute liver failure with indeterminate etiology. PMID:31741097
Arabidopsis ZINC FINGER PROTEIN1 Acts Downstream of GL2 to Repress Root Hair Initiation and Elongation by Directly Suppressing bHLH Genes. PMID:31732703
Genome draft of the Arabidopsis relative Pachycladon cheesemanii reveals novel strategies to tolerate New Zealand's high ultraviolet B radiation environment. PMID:31718535
Improved Draft Genome Sequence of Microbacterium sp. Strain LKL04, a Bacterial Endophyte Associated with Switchgrass Plants. PMID:31699756
Comparative Genomics Analysis Reveals High Levels of Differential Retrotransposition among Primates from the Hominidae and the Cercopithecidae Families. PMID:31651947
A ligand-gated strand displacement mechanism for ZTP riboswitch transcription control. PMID:31636437
Computational methods and tools for binding site recognition between proteins and small molecules: from classical geometrical approaches to modern machine learning strategies. PMID:31628659
Archaeal nitrification is constrained by copper complexation with organic matter in municipal wastewater treatment plants. PMID:31624348
Obtaining Genome Sequences of Mutualistic Bacteria in Single Microcystis Colonies. PMID:31614621
Bioinformatic Exploration of Metal-Binding Proteome of Zoonotic Pathogen Orientia tsutsugamushi. PMID:31608099
Bi-allelic Variants in IQSEC1 Cause Intellectual Disability, Developmental Delay, and Short Stature. PMID:31607425
PIRATE: A fast and scalable pangenomics toolbox for clustering diverged orthologues in bacteria. PMID:31598686
A large-scale whole-genome comparison shows that experimental evolution in response to antibiotics predicts changes in naturally evolved clinical Pseudomonas aeruginosa. PMID:31570397
Demographic and environmental drivers of metagenomic viral diversity in vampire bats. PMID:31561274
Environmental and epigenetic regulation of Rider retrotransposons in tomato. PMID:31525177
A comprehensive, multidisciplinary, precision medicine approach to discover effective therapy for an undiagnosed, progressive, fibroinflammatory disease. PMID:31520587
N-GlycositeAtlas: a database resource for mass spectrometry-based human N-linked glycoprotein and glycosylation site mapping. PMID:31516400
ePath: an online database towards comprehensive essential gene annotation for prokaryotes. PMID:31506471
Eukaryote Genes Are More Likely than Prokaryote Genes to Be Composites. PMID:31466252
A Phase Ib Study of the Combination of Personalized Autologous Dendritic Cell Vaccine, Aspirin, and Standard of Care Adjuvant Chemotherapy Followed by Nivolumab for Resected Pancreatic Adenocarcinoma-A Proof of Antigen Discovery Feasibility in Three Patients. PMID:31440238
Shared data science infrastructure for genomics data. PMID:31438850
The predominance of nucleotidyl activation in bacterial phosphonate biosynthesis. PMID:31420548
Viral taxonomy derived from evolutionary genome relationships. PMID:31412051
Comparative Genomics Reveals Ecological and Evolutionary Insights into Sponge-Associated Thaumarchaeota. PMID:31409660
Transcriptome annotation and characterization of novel toxins in six scorpion species. PMID:31409288
Large-Scale Analyses of Human Microbiomes Reveal Thousands of Small, Novel Genes. PMID:31402174
Full annotation of serum virome in Chinese blood donors with elevated alanine aminotransferase levels. PMID:31393615
An improved genome assembly of the fluke Schistosoma japonicum. PMID:31390359
Identification of potential drug targets and vaccine candidates in Clostridium botulinum using subtractive genomics approach. PMID:31359994
Atmospheric carbon monoxide oxidation is a widespread mechanism supporting microbial survival. PMID:31358912
Dtar-Finder: program for drug target identification and characterization in bacteria. PMID:31354197
Before and After: Comparison of Legacy and Harmonized TCGA Genomic Data Commons' Data. PMID:31344359
Chromosome assembly of Collichthys lucidus, a fish of Sciaenidae with a multiple sex chromosome system. PMID:31341172
Transcriptome analysis of acerola fruit ripening: insights into ascorbate, ethylene, respiration, and softening metabolisms. PMID:31338671
Transcriptome profiling of Gerbera hybrida reveals that stem bending is caused by water stress and regulation of abscisic acid. PMID:31331262
Biosynthetic Potential of a Novel Antarctic Actinobacterium Marisediminicola antarctica ZS314T Revealed by Genomic Data Mining and Pigment Characterization. PMID:31266176
GWAS of QRS duration identifies new loci specific to Hispanic/Latino populations. PMID:31251759
Dynamics of Vaginal and Rectal Microbiota Over Several Menstrual Cycles in Female Cynomolgus Macaques. PMID:31249812
Patterns of genetic structure and adaptive positive selection in the Lithuanian population from high-density SNP data. PMID:31235771
Atlas of Subcellular RNA Localization Revealed by APEX-Seq. PMID:31230715
Evolutionary history of the human multigene families reveals widespread gene duplications throughout the history of animals. PMID:31221090
Transcriptome-wide identification of microRNAs and functional insights inferred from microRNA-target pairs in Physalis angulata L. PMID:31184247
Prevalence of Periodontal Disease and Periodontopathic Bacteria in Anti-Cyclic Citrullinated Protein Antibody-Positive At-Risk Adults Without Arthritis. PMID:31173126
Lactobacillus rhamnosus GG reverses mortality of neonatal mice against Salmonella challenge. PMID:31160970
Species-Specific Conservation of Linear Antigenic Sites on Vaccinia Virus A27 Protein Homologs of Orthopoxviruses. PMID:31146446
Opioid-Induced Hyperalgesia Is Associated with Dysregulation of Circadian Rhythm and Adaptive Immune Pathways in the Mouse Trigeminal Ganglia and Nucleus Accumbens. PMID:31129808
Fido-SNP: the first webserver for scoring the impact of single nucleotide variants in the dog genome. PMID:31114899
Involvement of Salicylic Acid in Anthracnose Infection in Tea Plants Revealed by Transcriptome Profiling. PMID:31108845
Bi-allelic Variants in DYNC1I2 Cause Syndromic Microcephaly with Intellectual Disability, Cerebral Malformations, and Dysmorphic Facial Features. PMID:31079899
Anti-inflammatory Gut Microbial Pathways Are Decreased During Crohn's Disease Exacerbations. PMID:31066440
Determining the Cause of Recurrent Miscarriages in a Couple: Importance of NOR in the Era of NGS. PMID:31058056
Plasmid detection and assembly in genomic and metagenomic data sets. PMID:31048319
Mutations in PIK3C2A cause syndromic short stature, skeletal abnormalities, and cataracts associated with ciliary dysfunction. PMID:31034465
DNAscan: personal computer compatible NGS analysis, annotation and visualisation. PMID:31029080
GSK2801, a BAZ2/BRD9 Bromodomain Inhibitor, Synergizes with BET Inhibitors to Induce Apoptosis in Triple-Negative Breast Cancer. PMID:31000582
Listeria monocytogenes infectious periaortitis: a case report from the infectious disease standpoint. PMID:30991963
Prediction of Bioactive Peptides from Chlorella sorokiniana Proteins Using Proteomic Techniques in Combination with Bioinformatics Analyses. PMID:30978907
The Distribution of Tryptophan-Dependent Indole-3-Acetic Acid Synthesis Pathways in Bacteria Unraveled by Large-Scale Genomic Analysis. PMID:30974826
Long noncoding RNAs in vascular smooth muscle cells regulate vascular calcification. PMID:30971745
Estimating the total genome length of a metagenomic sample using k-mers. PMID:30967110
Adaptive plasticity of IL-10+ and IL-35+ Treg cells cooperatively promotes tumor T cell exhaustion. PMID:30936494
The First Transcriptome Assembly of Yenyuan Stream Salamander (Batrachuperus yenyuanensis) Provides Novel Insights into Its Molecular Evolution. PMID:30934682
The Genome and mRNA Transcriptome of the Cosmopolitan Calanoid Copepod Acartia tonsa Dana Improve the Understanding of Copepod Genome Size Evolution. PMID:30918947
Genomic Analysis of Pseudomonas sp. Strain SCT, an Iodate-Reducing Bacterium Isolated from Marine Sediment, Reveals a Possible Use for Bioremediation. PMID:30910818
Molecular Responses of Maize Shoot to a Plant Derived Smoke Solution. PMID:30875914
PanRV: Pangenome-reverse vaccinology approach for identifications of potential vaccine candidates in microbial pangenome. PMID:30871454
Characterization of Emetic and Diarrheal Bacillus cereus Strains From a 2016 Foodborne Outbreak Using Whole-Genome Sequencing: Addressing the Microbiological, Epidemiological, and Bioinformatic Challenges. PMID:30809204
Early responses given distinct tactics to infection of Peronophythora litchii in susceptible and resistant litchi cultivar. PMID:30808947
DeepRibo: a neural network for precise gene annotation of prokaryotes by combining ribosome profiling signal and binding site patterns. PMID:30753697
Comparative transcriptome analysis reveals K+ transporter gene contributing to salt tolerance in eggplant. PMID:30744551
CAMISIM: simulating metagenomes and microbial communities. PMID:30736849
Computational discovery and annotation of conserved small open reading frames in fungal genomes. PMID:30717662
Linking genetic, metabolic, and phenotypic diversity among Saccharomyces cerevisiae strains using multi-omics associations. PMID:30715293
Whole-genome sequencing identifies complex contributions to genetic risk by variants in genes causing monogenic systemic lupus erythematosus. PMID:30707351
Environmental filtering of bacterial functional diversity along an aridity gradient. PMID:30696918
Tissue-Specific Transcriptome Analysis Reveals Candidate Genes for Terpenoid and Phenylpropanoid Metabolism in the Medicinal Plant Ferula assafoetida. PMID:30679248
Cell type-specific gene expression patterns associated with posttraumatic stress disorder in World Trade Center responders. PMID:30664621
Integrative genomic analysis predicts novel functional enhancer-SNPs for bone mineral density. PMID:30656451
Chromosome-level assembly of the water buffalo genome surpasses human and goat genomes in sequence contiguity. PMID:30651564
Where the plasmids roam: large-scale sequence analysis reveals plasmids with large host ranges. PMID:30625112
Gene Network Dysregulation in the Trigeminal Ganglia and Nucleus Accumbens of a Model of Chronic Migraine-Associated Hyperalgesia. PMID:30618656
Methanogenesis on Early Stages of Life: Ancient but Not Primordial. PMID:30612264
Identification of Viral Taxon-Specific Genes (VTSG): Application to Caliciviridae. PMID:30602084
Analysis of Dendrobium huoshanense transcriptome unveils putative genes associated with active ingredients synthesis. PMID:30594136
Using Transcriptome Analysis to Identify Genes Involved in Switchgrass Flower Reversion. PMID:30564266
Interplay Between Amphetamine and Activity Level in Gene Networks of the Mouse Striatum. PMID:30559594
Human ESC-Derived Chimeric Mouse Models of Huntington's Disease Reveal Cell-Intrinsic Defects in Glial Progenitor Cell Differentiation. PMID:30554964
Excess of retrogene traffic in pig X chromosome. PMID:30535819
Structural and chemical biology of deacetylases for carbohydrates, proteins, small molecules and histones. PMID:30534609
Complete Genome Sequence of Streptomyces sp. Strain SHP22-7, a New Species Isolated from Mangrove of Enggano Island, Indonesia. PMID:30533825
Proteotyping bacteria: Characterization, differentiation and identification of pneumococcus and other species within the Mitis Group of the genus Streptococcus by tandem mass spectrometry proteomics. PMID:30532202
Bi-allelic TMEM94 Truncating Variants Are Associated with Neurodevelopmental Delay, Congenital Heart Defects, and Distinct Facial Dysmorphism. PMID:30526868
Biallelic variants in FBXL3 cause intellectual disability, delayed motor development and short stature. PMID:30481285
Variant information systems for precision oncology. PMID:30463544
Quantification of somatic mutation flow across individual cell division events by lineage sequencing. PMID:30459213
Classifying human promoters by occupancy patterns identifies recurring sequence elements, combinatorial binding, and spatial interactions. PMID:30442124
Whole-genome epidemiology, characterisation, and phylogenetic reconstruction of Staphylococcus aureus strains in a paediatric hospital. PMID:30424799
Identifying antimicrobial peptides using word embedding with deep recurrent neural networks. PMID:30418485
Microbial Functional Responses to Cholesterol Catabolism in Denitrifying Sludge. PMID:30417110
Visualization-assisted binning of metagenome assemblies reveals potential new pathogenic profiles in idiopathic travelers' diarrhea. PMID:30409177
imGLAD: accurate detection and quantification of target organisms in metagenomes. PMID:30405973
MaMADS2 repression in banana fruits modifies hormone synthesis and signalling pathways prior to climacteric stage. PMID:30400866
Comparative transcriptomics identifies genes differentially expressed in the intestine of a new fast-growing strain of common carp with higher unsaturated fatty acid content in muscle. PMID:30395585
Whole-Genome Alignment and Comparative Annotation. PMID:30379572
Genetic Variants Related to Cardiometabolic Traits Are Associated to B Cell Function, Insulin Resistance, and Diabetes Among AmeriCan Indians: The Strong Heart Family Study. PMID:30369944
liqDB: a small-RNAseq knowledge discovery database for liquid biopsy studies. PMID:30357370
Overlapping genes and the proteins they encode differ significantly in their sequence composition from non-overlapping genes. PMID:30339683
Bi-allelic Loss-of-Function Variants in DNMBP Cause Infantile Cataracts. PMID:30290152
Characterization of novel glycosyl hydrolases discovered by cell wall glycan directed monoclonal antibody screening and metagenome analysis of maize aerial root mucilage. PMID:30256843
A graph-based filtering method for top-down mass spectral identification. PMID:30255788
Wastewater treatment plant resistomes are shaped by bacterial composition, genetic exchange, and upregulated expression in the effluent microbiomes. PMID:30250051
PalmXplore: oil palm gene database. PMID:30239681
Fast automated reconstruction of genome-scale metabolic models for microbial species and communities. PMID:30192979
Analysis of evolution and genetic diversity of sweetpotato and its related different polyploidy wild species I. trifida using RAD-seq. PMID:30185158
Population-level analysis of Blastocystis subtype prevalence and variation in the human gut microbiota. PMID:30171064
Phylogenomics Reveal the Dynamic Evolution of Fungal Nitric Oxide Reductases and Their Relationship to Secondary Metabolism. PMID:30165640
A compendium of conserved cleavage and polyadenylation events in mammalian genes. PMID:30143597
Tracing mother-infant transmission of bacteriophages by means of a novel analytical tool for shotgun metagenomic datasets: METAnnotatorX. PMID:30126456
Analysis of RNA nearest neighbor parameters reveals interdependencies and quantifies the uncertainty in RNA secondary structure prediction. PMID:30104207
The Clinical Importance of Campylobacter concisus and Other Human Hosted Campylobacter Species. PMID:30087857
Mobile elements contribute to the uniqueness of human genome with 15,000 human-specific insertions and 14 Mbp sequence increase. PMID:30052927
Insights into Avian Incomplete Dosage Compensation: Sex-Biased Gene Expression Coevolves with Sex Chromosome Degeneration in the Common Whitethroat. PMID:30049999
Proteogenomic Analysis of Surgically Resected Lung Adenocarcinoma. PMID:30017829
Analysis of Temporal Changes in Growth and Gene Expression for Commensal Gut Microbes in Response to the Polyphenol Naringenin. PMID:30013359
KBase: The United States Department of Energy Systems Biology Knowledgebase. PMID:29979655
Development and validation of an updated computational model of Streptomyces coelicolor primary and secondary metabolism. PMID:29973148
Combining Targeted Metabolites Analysis and Transcriptomics to Reveal Chemical Composition Difference and Underlying Transcriptional Regulation in Maca (Lepidium Meyenii Walp.) Ecotypes. PMID:29970867
Complete Genome Sequence of Streptomyces sp. Strain BSE7F, a Bali Mangrove Sediment Actinobacterium with Antimicrobial Activities. PMID:29954912
Investigating the viral ecology of global bee communities with high-throughput metagenomics. PMID:29891995
Identification of the Chromosomal Region Essential for Serovar-Specific Antigen and Virulence of Serovar 1 and 2 Strains of Erysipelothrix rhusiopathiae. PMID:29891546
Microscale Biosignatures and Abiotic Mineral Authigenesis in Little Hot Creek, California. PMID:29887837
Comparative Annotation Toolkit (CAT)-simultaneous clade and personal genome annotation. PMID:29884752
Pathway based therapeutic targets identification and development of an interactive database CampyNIBase of Campylobacter jejuni RM1221 through non-redundant protein dataset. PMID:29883471
Genome Sequencing and Comparative Analysis of Stenotrophomonas acidaminiphila Reveal Evolutionary Insights Into Sulfamethoxazole Resistance. PMID:29867899
EqualTDRL: illustrating equivalent tandem duplication random loss rearrangements. PMID:29843612
Loci under selection and markers associated with host plant and host-related strains shape the genetic structure of Brazilian populations of Spodoptera frugiperda (Lepidoptera, Noctuidae). PMID:29787608
Deep Surveying of the Transcriptional and Alternative Splicing Signatures for Decidual CD8+ T Cells at the First Trimester of Human Healthy Pregnancy. PMID:29780389
Visual impairment and progressive phthisis bulbi caused by recessive pathogenic variant in MARK3. PMID:29771303
Ouroboros resembling competitive endogenous loop (ORCEL) in circular RNAs revealed through transcriptome sequencing dataset analysis. PMID:29764361
What Is the Role of Archaea in Plants? New Insights from the Vegetation of Alpine Bogs. PMID:29743201
Algorithms and strategies in short-read shotgun metagenomic reconstruction of plant communities. PMID:29732264
Insight into Energy Conservation via Alternative Carbon Monoxide Metabolism in Carboxydothermus pertinax Revealed by Comparative Genome Analysis. PMID:29728389
Comparative genomic analysis of Geosporobacter ferrireducens and its versatility of anaerobic energy metabolism. PMID:29721834
Flexible metagenome analysis using the MGX framework. PMID:29690922
Identification of potential key genes and high-frequency mutant genes in prostate cancer by using RNA-Seq data. PMID:29616087
A Whole Genome Assembly of the Horn Fly, Haematobia irritans, and Prediction of Genes with Roles in Metabolism and Sex Determination. PMID:29602812
The C-Terminal Extension Unique to the Long Isoform of the Shelterin Component TIN2 Enhances Its Interaction with TRF2 in a Phosphorylation- and Dyskeratosis Congenita Cluster-Dependent Fashion. PMID:29581185
Homologous Recombination in Core Genomes Facilitates Marine Bacterial Adaptation. PMID:29572211
The mRNA and miRNA transcriptomic landscape of Panax ginseng under the high ambient temperature. PMID:29560829
Microbiome and ecotypic adaption of Holcus lanatus (L.) to extremes of its soil pH range, investigated through transcriptome sequencing. PMID:29554982
Species classifier choice is a key consideration when analysing low-complexity food microbiome data. PMID:29554948
Transcriptome profiling of genes related to light-induced anthocyanin biosynthesis in eggplant (Solanum melongena L.) before purple color becomes evident. PMID:29554865
Occurrence of Harmful Cyanobacteria in Drinking Water from a Severely Drought-Impacted Semi-arid Region. PMID:29541063
Superior ab initio identification, annotation and characterisation of TEs and segmental duplications from genome assemblies. PMID:29538441
Improved Genome Assembly and Annotation for the Rock Pigeon (Columba livia). PMID:29519939
Cysteine peptidases of Eudiplozoon nipponicum: a broad repertoire of structurally assorted cathepsins L in contrast to the scarcity of cathepsins B in an invasive species of haematophagous monogenean of common carp. PMID:29510760
Spliced integrated retrotransposed element (SpIRE) formation in the human genome. PMID:29505568
Genome-resolved metagenomics identifies genetic mobility, metabolic interactions, and unexpected diversity in perchlorate-reducing communities. PMID:29476141
De novo transcriptomic analysis of leaf and fruit tissue of Cornus officinalis using Illumina platform. PMID:29451882
Omics-Based Insights into Flavor Development and Microbial Succession within Surface-Ripened Cheese. PMID:29404426
Evaluating the adaptive evolutionary convergence of carnivorous plant taxa through functional genomics. PMID:29404217
De Novo characterization of transcriptomes from two North American Papaipema stem-borers (Lepidoptera: Noctuidae). PMID:29364900
Unanticipated functional diversity among the TatA-type components of the Tat protein translocase. PMID:29358647
Presence of Apis Rhabdovirus-1 in Populations of Pollinators and Their Parasites from Two Continents. PMID:29312191
Domain retention in transcription factor fusion genes and its biological and clinical implications: a pan-cancer study. PMID:29299133
Nanopore DNA Sequencing and Genome Assembly on the International Space Station. PMID:29269933
Genome-wide CRISPR screen for PARKIN regulators reveals transcriptional repression as a determinant of mitophagy. PMID:29269392
Niche Partitioning of the N Cycling Microbial Community of an Offshore Oxygen Deficient Zone. PMID:29259587
Informatics for cancer immunotherapy. PMID:29253114
Gene expression associated with PTSD in World Trade Center responders: An RNA sequencing study. PMID:29249826
Genome sequence of the Japanese oak silk moth, Antheraea yamamai: the first draft genome in the family Saturniidae. PMID:29186418
Fast batch searching for protein homology based on compression and clustering. PMID:29162030
Insights into gene expression profiles induced by Socs3 depletion in keratinocytes. PMID:29158586
Human Accelerated Regions and Other Human-Specific Sequence Variations in the Context of Evolution and Their Relevance for Brain Development. PMID:29149249
Genome sequence of the small brown planthopper, Laodelphax striatellus. PMID:29136191
RNA editing by ADAR1 leads to context-dependent transcriptome-wide changes in RNA secondary structure. PMID:29129909
Genome-Wide Identification and Expression, Protein-Protein Interaction and Evolutionary Analysis of the Seed Plant-Specific BIG GRAIN and BIG GRAIN LIKE Gene Family. PMID:29118774
The first draft reference genome of the American mink (Neovison vison). PMID:29109430
Chromosome preference of disease genes and vectorization for the prediction of non-coding disease genes. PMID:29108274
SAM-VI RNAs selectively bind S-adenosylmethionine and exhibit similarities to SAM-III riboswitches. PMID:29106323
Sequencing genomes from mixed DNA samples - evaluating the metagenome skimming approach in lichenized fungi. PMID:29097759
KIXBASE: A comprehensive web resource for identification and exploration of KIX domains. PMID:29097748
Target-similarity search using Plasmodium falciparum proteome identifies approved drugs with anti-malarial activity and their possible targets. PMID:29088219
Transcription start site profiling of 15 anatomical regions of the Macaca mulatta central nervous system. PMID:29087374
sRNAnalyzer-a flexible and customizable small RNA sequencing data analysis pipeline. PMID:29069500
PolyA_DB 3 catalogs cleavage and polyadenylation sites identified by deep sequencing in multiple genomes. PMID:29069441
The Challenge of Human Spermatozoa Proteome: A Systematic Review. PMID:29062791
Genome assembly and transcriptome resource for river buffalo, Bubalus bubalis (2n = 50). PMID:29048578
Transcript expression plasticity as a response to alternative larval host plants in the speciation process of corn and rice strains of Spodoptera frugiperda. PMID:29037161
Subterranean mammals show convergent regression in ocular genes and enhancers, along with adaptation to tunneling. PMID:29035697
Identification of 15 candidate structured noncoding RNA motifs in fungi by comparative genomics. PMID:29029611
The chromosomal organization of horizontal gene transfer in bacteria. PMID:29018197
De Novo Assembly and Analysis of Tartary Buckwheat (Fagopyrum tataricum Garetn.) Transcriptome Discloses Key Regulators Involved in Salt-Stress Response. PMID:28972562
A Genome-Wide Association Study Reveals That Genes with Functions for Bone Development Are Associated with Body Conformation in Catfish. PMID:28971324
Microbial diversity in the hypersaline Lake Meyghan, Iran. PMID:28912589
Evidence-based gene models for structural and functional annotations of the oil palm genome. PMID:28886750
FunctionAnnotator, a versatile and efficient web tool for non-model organism annotation. PMID:28874813
Transcriptome analysis of the response of Burmese python to digestion. PMID:28873961
Pseudogenization of the Humanin gene is common in the mitochondrial DNA of many vertebrates. PMID:28825450
RNA-seq analysis of amygdala tissue reveals characteristic expression profiles in schizophrenia. PMID:28809853
Characterization of the Culturable Subpopulations of Lactobacillus in the Chicken Intestinal Tract as a Resource for Probiotic Development. PMID:28798730
Human iPSC Glial Mouse Chimeras Reveal Glial Contributions to Schizophrenia. PMID:28736215
Bovine milk-derived exosomes from colostrum are enriched with proteins implicated in immune response and growth. PMID:28725021
Variant Ranker: a web-tool to rank genomic data according to functional significance. PMID:28716001
Metagenomic binning of a marine sponge microbiome reveals unity in defense but metabolic specialization. PMID:28696422
Distinct Transcriptional and Alternative Splicing Signatures of Decidual CD4+ T Cells in Early Human Pregnancy. PMID:28659920
A genome-wide association scan of biological processes involved in oral lichen planus and oral squamous cell carcinoma. PMID:28640079
De novo transcriptomic analysis and development of EST-SSRs for Sorbus pohuashanensis (Hance) Hedl. PMID:28614366
Site-specific His/Asp phosphoproteomic analysis of prokaryotes reveals putative targets for drug resistance. PMID:28545444
Gene expression of Vibrio parahaemolyticus growing in laboratory isolation conditions compared to those common in its natural ocean environment. PMID:28525966
The Whole-Genome and Transcriptome of the Manila Clam (Ruditapes philippinarum). PMID:28505302
Whole exome sequencing of a consanguineous family identifies the possible modifying effect of a globally rare AK5 allelic variant in celiac disease development among Saudi patients. PMID:28505210
Using NextRAD sequencing to infer movement of herbivores among host plants. PMID:28505182
A Novel Roseosiphophage Isolated from the Oligotrophic South China Sea. PMID:28505134
PhD-SNPg: a webserver and lightweight tool for scoring single nucleotide variants. PMID:28482034
ChimeRScope: a novel alignment-free algorithm for fusion transcript prediction using paired-end RNA-Seq data. PMID:28472320
Seqping: gene prediction pipeline for plant genomes using self-training gene models and transcriptomic data. PMID:28466793
The evolution of logic circuits for the purpose of protein contact map prediction. PMID:28439455
Insight into the evolution of microbial metabolism from the deep-branching bacterium, Thermovibrio ammonificans. PMID:28436819
Genome characteristics of the proteorhodopsin-containing marine flavobacterium Polaribacter dokdonensis DSW-5. PMID:28432541
Draft Genome Sequences of Two Hydrogenogenic Carboxydotrophic Bacteria, Carboxydocella sp. Strains JDF658 and ULO1, Isolated from Two Distinct Volcanic Fronts in Japan. PMID:28428313
Azathioprine, Mercaptopurine, and 5-Aminosalicylic Acid Affect the Growth of IBD-Associated Campylobacter Species and Other Enteric Microbes. PMID:28424670
Typing and Characterization of Bacteria Using Bottom-up Tandem Mass Spectrometry Proteomics. PMID:28420677
HopBase: a unified resource for Humulus genomics. PMID:28415075
The Identification of Macrophage-enriched Glycoproteins Using Glycoproteomics. PMID:28348171
Structural landscape of base pairs containing post-transcriptional modifications in RNA. PMID:28341704
Transcriptional Responses of Chilean Quinoa (Chenopodium quinoa Willd.) Under Water Deficit Conditions Uncovers ABA-Independent Expression Patterns. PMID:28337209
A sensitivity analysis of RNA folding nearest neighbor parameters identifies a subset of free energy parameters with the greatest impact on RNA secondary structure prediction. PMID:28334976
Convergence of Domain Architecture, Structure, and Ligand Affinity in Animal and Plant RNA-Binding Proteins. PMID:28333205
The blood DNA virome in 8,000 humans. PMID:28328962
In search of genome annotation consistency: solid gene clusters and how to use them. PMID:28324432
Enabling comparative modeling of closely related genomes: example genus Brucella. PMID:28324362
A deletion in the Hermansky-Pudlak syndrome 4 (Hps4) gene appears to be responsible for albinism in channel catfish. PMID:28289846
BinSanity: unsupervised clustering of environmental microbial assemblies using coverage and affinity propagation. PMID:28289564
Ordering the mob: Insights into replicon and MOB typing schemes from analysis of a curated dataset of publicly available plasmids. PMID:28286183
Transcriptomes of three species of Tipuloidea (Diptera, Tipulomorpha) and implications for phylogeny of Tipulomorpha. PMID:28264066
Analysis of the complete genome sequence of Nocardia seriolae UTF1, the causative agent of fish nocardiosis: The first reference genome sequence of the fish pathogenic Nocardia species. PMID:28257489
Differentiation of ncRNAs from small mRNAs in Escherichia coli O157:H7 EDL933 (EHEC) by combined RNAseq and RIBOseq - ryhB encodes the regulatory RNA RyhB and a peptide, RyhP. PMID:28245801
Comparative pan genome analysis of oral Prevotella species implicated in periodontitis. PMID:28236274
Patterns and processes of Mycobacterium bovis evolution revealed by phylogenomic analyses. PMID:28201585
Trophic Interactions of Infant Bifidobacteria and Eubacterium hallii during L-Fucose and Fucosyllactose Degradation. PMID:28194144
VacSol: a high throughput in silico pipeline to predict potential therapeutic targets in prokaryotic pathogens using subtractive reverse vaccinology. PMID:28193166
Protein Bioinformatics Databases and Resources. PMID:28150231
The PRC2-binding long non-coding RNAs in human and mouse genomes are associated with predictive sequence features. PMID:28139710
Range expansion underlies historical introgressive hybridization in the Iberian hare. PMID:28120863
Biomartr: genomic data retrieval with R. PMID:28110292
Expression profiling elucidates a molecular gene signature for pulmonary hypertension in sarcoidosis. PMID:28090288
Comparative Genomics of H. pylori and Non-Pylori Helicobacter Species to Identify New Regions Associated with Its Pathogenicity and Adaptability. PMID:28078297
Chromatin dynamics regulate mesenchymal stem cell lineage specification and differentiation to osteogenesis. PMID:28077316
Alga-PrAS (Algal Protein Annotation Suite): A Database of Comprehensive Annotation in Algal Proteomes. PMID:28069893
Comparative Analysis of Type IV Pilin in Desulfuromonadales. PMID:28066394
Comparative genomics of host adaptive traits in Xanthomonas translucens pv. graminis. PMID:28056815
Long Noncoding RNA Identification: Comparing Machine Learning Based Tools for Long Noncoding Transcripts Discrimination. PMID:28042575
Kinase impact assessment in the landscape of fusion genes that retain kinase domains: a pan-cancer study. PMID:28013235
Whole-Genome Sequences of 26 Vibrio cholerae Isolates. PMID:28007852
Plant Proteins Are Smaller Because They Are Encoded by Fewer Exons than Animal Proteins. PMID:27998811
Perspectives on the history of evo-devo and the contemporary research landscape in the genomics era. PMID:27994116
Genome-wide uniformity of human 'open' pre-initiation complexes. PMID:27927716
Text Mining Genotype-Phenotype Relationships from Biomedical Literature for Database Curation and Precision Medicine. PMID:27902695
Circular RNAs are down-regulated in KRAS mutant colon cancer cells and can be transferred to exosomes. PMID:27892494
Genome-wide transcriptome analysis revealed organelle specific responses to temperature variations in algae. PMID:27883062
Transcriptome Analysis and Comparison of Marmota monax and Marmota himalayana. PMID:27806133
Identification of internalin-A-like virulent proteins in Leishmania donovani. PMID:27765050
Morphological and Transcriptomic Analysis of a Beetle Chemosensory System Reveals a Gnathal Olfactory Center. PMID:27751175
lncScore: alignment-free identification of long noncoding RNA from assembled novel transcripts. PMID:27708423
Genomic Survey of a Hyperparasitic Microsporidian Amphiamblys sp. (Metchnikovellidae). PMID:27694476
Phenotype-Genotype Association Analysis of ACTH-Secreting Pituitary Adenoma and Its Molecular Link to Patient Osteoporosis. PMID:27690016
Protein C receptor (PROCR) is a negative regulator of Th17 pathogenicity. PMID:27670590
Improving the performance of the PLB index for ligand-binding site prediction using dihedral angles and the solvent-accessible surface area. PMID:27619067
COME: a robust coding potential calculation tool for lncRNA identification and characterization based on multiple features. PMID:27608726
Patterns of Transcript Abundance of Eukaryotic Biogeochemically-Relevant Genes in the Amazon River Plume. PMID:27598790
Fast genotyping of known SNPs through approximate k-mer matching. PMID:27587672
A Genome-Wide Association Study Identifies Multiple Regions Associated with Head Size in Catfish. PMID:27558670
Identification and functional analysis of long non-coding RNAs in human and mouse early embryos based on single-cell transcriptome data. PMID:27542205
Comparative Genome Analysis of Fusobacterium nucleatum. PMID:27540086
A distributed system for fast alignment of next-generation sequencing data. PMID:27536739
Knockdown of CSE1L Gene in Colorectal Cancer Reduces Tumorigenesis in Vitro. PMID:27521996
The methanogenic redox cofactor F420 is widely synthesized by aerobic soil bacteria. PMID:27505347
Transcriptome analysis of seed dormancy after rinsing and chilling in ornamental peaches (Prunus persica (L.) Batsch). PMID:27501791
Integrative genomics analyses unveil downstream biological effectors of disease-specific polymorphisms buried in intergenic regions. PMID:27482468
(1)H, (13)C and (15)N resonance assignments for the response regulator CheY3 from Rhodobacter sphaeroides. PMID:27468962
Population Genomics of Reduced Vancomycin Susceptibility in Staphylococcus aureus. PMID:27446992
In Silico Design and Experimental Validation of siRNAs Targeting Conserved Regions of Multiple Hepatitis C Virus Genotypes. PMID:27441640
Draft genome sequence of an elite Dura palm and whole-genome patterns of DNA variation in oil palm. PMID:27426468
CAT7 and cat7l Long Non-coding RNAs Tune Polycomb Repressive Complex 1 Function during Human and Zebrafish Development. PMID:27405765
Transcriptome-wide identification and characterization of CAD isoforms specific for podophyllotoxin biosynthesis from Podophyllum hexandrum. PMID:27387305
The Variable Regions of Lactobacillus rhamnosus Genomes Reveal the Dynamic Evolution of Metabolic and Host-Adaptation Repertoires. PMID:27358423
Phosphoproteomic analysis of Methanohalophilus portucalensis FDF1(T) identified the role of protein phosphorylation in methanogenesis and osmoregulation. PMID:27357474
Functional CRISPR screening identifies the ufmylation pathway as a regulator of SQSTM1/p62. PMID:27351204
Functional annotation of noncoding variants and prioritization of cancer-associated lncRNAs in lung cancer. PMID:27347129
Hundreds of Genes Experienced Convergent Shifts in Selective Pressure in Marine Mammals. PMID:27329977
Phages rarely encode antibiotic resistance genes: a cautionary tale for virome analyses. PMID:27326545
High Levels of Antibiotic Resistance Genes and Their Correlations with Bacterial Community and Mobile Genetic Elements in Pharmaceutical Wastewater Treatment Bioreactors. PMID:27294780
Fungal phytopathogens encode functional homologues of plant rapid alkalinization factor (RALF) peptides. PMID:27291634
Characterization of Proteoforms with Unknown Post-translational Modifications Using the MIScore. PMID:27291504
The Common Gut Microbe Eubacterium hallii also Contributes to Intestinal Propionate Formation. PMID:27242734
Design of pathway preferential estrogens that provide beneficial metabolic and vascular effects without stimulating reproductive tissues. PMID:27221711
Identification of glycoproteins associated with HIV latently infected cells using quantitative glycoproteomics. PMID:27195445
Circular sequence comparison: algorithms and applications. PMID:27168761
Synteny Portal: a web-based application portal for synteny block analysis. PMID:27154270
Specific microbiome-dependent mechanisms underlie the energy harvest efficiency of ruminants. PMID:27152936
Regulation of genetic flux between bacteria by restriction-modification systems. PMID:27140615
Ancestral genome reconstruction identifies the evolutionary basis for trait acquisition in polyphosphate accumulating bacteria. PMID:27128993
Molecular evolution of WDR62, a gene that regulates neocorticogenesis. PMID:27114917
A fast and powerful W-test for pairwise epistasis testing. PMID:27112568
Chromosomal-Level Assembly of the Asian Seabass Genome Using Long Sequence Reads and Multi-layered Scaffolding. PMID:27082250
Integrated analysis of proteome and transcriptome changes in the mucopolysaccharidosis type VII mouse hippocampus. PMID:27053151
The Evolution of COP9 Signalosome in Unicellular and Multicellular Organisms. PMID:27044515
Comparative Genomic Analysis Reveals a Possible Novel Non-Tuberculous Mycobacterium Species with High Pathogenic Potential. PMID:27035710
SNP2Structure: A Public and Versatile Resource for Mapping and Three-Dimensional Modeling of Missense SNPs on Human Protein Structures. PMID:26949480
Missed, Not Missing: Phylogenomic Evidence for the Existence of Avian FoxP3. PMID:26938477
Transcriptome Analysis in Domesticated Species: Challenges and Strategies. PMID:26917953
Human genetic variation database, a reference database of genetic variations in the Japanese population. PMID:26911352
Systems Perturbation Analysis of a Large-Scale Signal Transduction Model Reveals Potentially Influential Candidates for Cancer Therapeutics. PMID:26904540
Draft Genome Sequence of Tepidimonas taiwanensis Strain MB2, a Chemolithotrophic Thermophile Isolated from a Hot Spring in Central India. PMID:26893423
Genomic Organization of Human Transcription Initiation Complexes. PMID:26866362
Systematic Evaluation of Sanger Validation of Next-Generation Sequencing Variants. PMID:26847218
The yjdF riboswitch candidate regulates gene expression by binding diverse azaaromatic compounds. PMID:26843526
Dysregulated expression of microRNAs and mRNAs in myocardial infarction. PMID:26807177
Metatranscriptomic analysis of diverse microbial communities reveals core metabolic pathways and microbiome-specific functionality. PMID:26757703
"Reverse Genomics" Predicts Function of Human Conserved Noncoding Elements. PMID:26744417
Effect of chronic uremia on the transcriptional profile of the calcified aorta analyzed by RNA sequencing. PMID:26739890
In Silico Functional Annotation of Genomic Variation. PMID:26724722
CD11b(+)Ly6C(++)Ly6G(-) Cells with Suppressive Activity Towards T Cells Accumulate in Lungs of Influenza a Virus-Infected Mice. PMID:26716013
ISC, a Novel Group of Bacterial and Archaeal DNA Transposons That Encode Cas9 Homologs. PMID:26712934
Regulation of alternative splicing at the single-cell level. PMID:26712315
Whole genome sequence and manual annotation of Clostridium autoethanogenum, an industrially relevant bacterium. PMID:26692227
Genomic analysis of Luteimonas abyssi XH031(T): insights into its adaption to the subseafloor environment of South Pacific Gyre and ecological role in biogeochemical cycle. PMID:26690083
Remodeling of retrotransposon elements during epigenetic induction of adult visual cortical plasticity by HDAC inhibitors. PMID:26673794
HaploReg v4: systematic mining of putative causal variants, cell types, regulators and target genes for human complex traits and disease. PMID:26657631
Kiwifruit Information Resource (KIR): a comparative platform for kiwifruit genomics. PMID:26656885
Identification and Validation of Atypical N-Glycosylation Sites. PMID:26593774
Transcriptome Analysis of Syringa oblata Lindl. Inflorescence Identifies Genes Associated with Pigment Biosynthesis and Scent Metabolism. PMID:26587670
Draft Genome Sequence of Gulbenkiania mobilis Strain MB1, a Sulfur-Metabolizing Thermophile Isolated from a Hot Spring in Central India. PMID:26586874
Novel myristoylation of the sperm-specific hexokinase 1 isoform regulates its atypical localization. PMID:26581589
Comprehensive analysis of protein glycosylation by solid-phase extraction of N-linked glycans and glycosite-containing peptides. PMID:26571101
Union Exon Based Approach for RNA-Seq Gene Quantification: To Be or Not to Be? PMID:26559532
Reference sequence (RefSeq) database at NCBI: current status, taxonomic expansion, and functional annotation. PMID:26553804
Characterization of the biological processes shaping the genetic structure of the Italian population. PMID:26553317
Evaluating the role of a trypsin inhibitor from soap nut (Sapindus trifoliatus L. Var. Emarginatus) seeds against larval gut proteases, its purification and characterization. PMID:26489418
Analysis of 5' gene regions reveals extraordinary conservation of novel non-coding sequences in a wide range of animals. PMID:26482678
Genomic insight into Aquimarina longa SW024 T: its ultra-oligotrophic adapting mechanisms and biogeochemical functions. PMID:26459873
Sequence to Medical Phenotypes: A Framework for Interpretation of Human Whole Genome DNA Sequence Data. PMID:26448358
Assessing the Pathogenicity of Insertion and Deletion Variants with the Variant Effect Scoring Tool (VEST-Indel). PMID:26442818
Detecting Horizontal Gene Transfer between Closely Related Taxa. PMID:26439115
Genomic and metagenomic surveys of hydrogenase distribution indicate H2 is a widely utilised energy source for microbial growth and survival. PMID:26405831
Biochemical analysis of hatchet self-cleaving ribozymes. PMID:26385510
Long-Lasting Gene Conversion Shapes the Convergent Evolution of the Critical Methanogenesis Genes. PMID:26384370
Genomic variant annotation and prioritization with ANNOVAR and wANNOVAR. PMID:26379229
Different combinations of atomic interactions predict protein-small molecule and protein-DNA/RNA affinities with similar accuracy. PMID:26370248
Deciphering Seed Sequence Based Off-Target Effects in a Large-Scale RNAi Reporter Screen for E-Cadherin Expression. PMID:26361354
Evolution of a Novel Antiviral Immune-Signaling Interaction by Partial-Gene Duplication. PMID:26356745
Computational approaches to study the effects of small genomic variations. PMID:26350246
Data integration in biological research: an overview. PMID:26336651
Comparison of stranded and non-stranded RNA-seq transcriptome profiling and investigation of gene overlap. PMID:26334759
Identification of Aberrant Chromosomal Regions in Human Breast Cancer Using Gene Expression Data and Related Gene Information. PMID:26319982
Citing a Data Repository: A Case Study of the Protein Data Bank. PMID:26317409
Evolution of the unspliced transcriptome. PMID:26289325
Curation of the Mammalian Palmitoylome Indicates a Pivotal Role for Palmitoylation in Diseases and Disorders of the Nervous System and Cancers. PMID:26275289
Systems biology definition of the core proteome of metabolism and expression is consistent with high-throughput data. PMID:26261351
Understanding the aristolochic acid toxicities in rat kidneys with regulatory networks. PMID:26243830
RefSeq curation and annotation of antizyme and antizyme inhibitor genes in vertebrates. PMID:26170238
New classes of self-cleaving ribozymes revealed by comparative genomics analysis. PMID:26167874
Differential and coherent processing patterns from small RNAs. PMID:26166713
Utilizing mapping targets of sequences underrepresented in the reference assembly to reduce false positive alignments. PMID:26163063
Revealing Missing Human Protein Isoforms Based on Ab Initio Prediction, RNA-seq and Proteomics. PMID:26156868
Human IgG1 Responses to Surface Localised Schistosoma mansoni Ly6 Family Members Drop following Praziquantel Treatment. PMID:26147973
BioMaS: a modular pipeline for Bioinformatic analysis of Metagenomic AmpliconS. PMID:26130132
De novo Transcriptome Assemblies of Rana (Lithobates) catesbeiana and Xenopus laevis Tadpole Livers for Comparative Genomics without Reference Genomes. PMID:26121473
In silico discovery and modeling of non-coding RNA structure in viruses. PMID:26116541
Possible Human Papillomavirus 38 Contamination of Endometrial Cancer RNA Sequencing Samples in The Cancer Genome Atlas Database. PMID:26085148
A bioinformatics approach to distinguish plant parasite and host transcriptomes in interface tissue by classifying RNA-Seq reads. PMID:26052341
Correlation of Lactobacillus rhamnosus Genotypes and Carbohydrate Utilization Signatures Determined by Phenotype Profiling. PMID:26048937
RAP: RNA-Seq Analysis Pipeline, a new cloud-based NGS web application. PMID:26046471
Detection and analysis of disease-associated single nucleotide polymorphism influencing post-translational modification. PMID:26043787
SMN2 splice modulators enhance U1-pre-mRNA association and rescue SMA mice. PMID:26030728
Systematic transcriptome analysis reveals tumor-specific isoforms for ovarian cancer diagnosis and therapy. PMID:26015570
NIG_MoG: a mouse genome navigator for exploring intersubspecific genetic polymorphisms. PMID:26013919
The biological functions of Naa10 - From amino-terminal acetylation to human disease. PMID:25987439
GermlncRNA: a unique catalogue of long non-coding RNAs and associated regulations in male germ cell development. PMID:25982314
Top-down mass spectrometry of intact membrane protein complexes reveals oligomeric state and sequence information in a single experiment. PMID:25970171
Enhancing de novo transcriptome assembly by incorporating multiple overlap sizes. PMID:25969752
Proteogenomic analysis reveals exosomes are more oncogenic than ectosomes. PMID:25944692
From Gigabyte to Kilobyte: A Bioinformatics Protocol for Mining Large RNA-Seq Transcriptomics Data. PMID:25902288
A genome-wide association study in catfish reveals the presence of functional hubs of related genes within QTLs for columnaris disease resistance. PMID:25888203
Inhibition of cathepsin proteases attenuates migration and sensitizes aggressive N-Myc amplified human neuroblastoma cells to doxorubicin. PMID:25883214
Prokaryotic nucleotide composition is shaped by both phylogeny and the environment. PMID:25861819
Control of bacterial exoelectrogenesis by c-AMP-GMP. PMID:25848023
Impairment of type I but not type III IFN signaling by hepatitis C virus infection influences antiviral responses in primary human hepatocytes. PMID:25826356
Transcriptome profiling of khat (Catha edulis) and Ephedra sinica reveals gene candidates potentially involved in amphetamine-type alkaloid biosynthesis. PMID:25806807
Functional annotation of native enhancers with a Cas9-histone demethylase fusion. PMID:25775043
A comprehensive evaluation of ensembl, RefSeq, and UCSC annotations in the context of RNA-seq read mapping and gene quantification. PMID:25765860
The evolutionary and functional diversity of classical and lesser-known cytoplasmic and organellar translational GTPases across the tree of life. PMID:25756599
Exploring prostate cancer genome reveals simultaneous losses of PTEN, FAS and PAPSS2 in patients with PSA recurrence after radical prostatectomy. PMID:25679447
Environmental genes and genomes: understanding the differences and challenges in the approaches and software for their analyses. PMID:25673291
Genome analysis of Flaviramulus ichthyoenteri Th78(T) in the family Flavobacteriaceae: insights into its quorum quenching property and potential roles in fish intestine. PMID:25652846
A copy number variation map of the human genome. PMID:25645873
Evolution of threonine aldolases, a diverse family involved in the second pathway of glycine biosynthesis. PMID:25644973
Convergent evolution of the genomes of marine mammals. PMID:25621460
Read-mapping using personalized diploid reference genome for RNA sequencing data reduced bias for detecting allele-specific expression. PMID:25621316
RNA-Seq analysis and transcriptome assembly for blackberry (Rubus sp. Var. Lochness) fruit. PMID:25608670
YersiniaBase: a genomic resource and analysis platform for comparative analysis of Yersinia. PMID:25591325
Comparative genomic analysis of evolutionarily conserved but functionally uncharacterized membrane proteins in archaea: Prediction of novel components of secretion, membrane remodeling and glycosylation systems. PMID:25583072
Investigation of factors affecting RNA-seq gene expression calls. PMID:25571173
TIGAR2: sensitive and accurate estimation of transcript isoform expression with longer RNA-Seq reads. PMID:25560536
Bhageerath-H: a homology/ab initio hybrid server for predicting tertiary structures of monomeric soluble proteins. PMID:25521245
The loose evolutionary relationships between transcription factors and other gene products across prokaryotes. PMID:25515977
Analysis of in planta Expressed Orphan Genes in the Rice Blast Fungus Magnaporthe oryzae. PMID:25506301
Evolution and diversity of the Ras superfamily of small GTPases in prokaryotes. PMID:25480683
A computational analysis of the structural determinants of APOBEC3's catalytic activity and vulnerability to HIV-1 Vif. PMID:25461536
Diversity, expression and mRNA targeting abilities of Argonaute-targeting miRNAs among selected vascular plants. PMID:25443390
NCBI viral genomes resource. PMID:25428358
De novo assembly of the grass carp Ctenopharyngodon idella transcriptome to identify miRNA targets associated with motile aeromonad septicemia. PMID:25409340
Reproducible simulations of realistic samples for next-generation sequencing studies using Variant Simulation Tools. PMID:25395236
Splicing mutation analysis reveals previously unrecognized pathways in lymph node-invasive breast cancer. PMID:25394353
PubAngioGen: a database and knowledge for angiogenesis and related diseases. PMID:25392416
Massively parallel determination and modeling of endonuclease substrate specificity. PMID:25389263
iPathCons and iPathDB: an improved insect pathway construction tool and the database. PMID:25388589
BactPepDB: a database of predicted peptides from a exhaustive survey of complete prokaryote genomes. PMID:25377257
Discovery Genetics - The History and Future of Spontaneous Mutation Research. PMID:25364627
Transcriptomic analysis identifies gene networks regulated by estrogen receptor α (ERα) and ERβ that control distinct effects of different botanical estrogens. PMID:25363786
Ecological roles of dominant and rare prokaryotes in acid mine drainage revealed by metagenomics and metatranscriptomics. PMID:25361395
Compartment-specific transcriptomics in a reef-building coral exposed to elevated temperatures. PMID:25354956
Differences in carbon source utilisation distinguish Campylobacter jejuni from Campylobacter coli. PMID:25348335
Genome wide in silico characterization of Dof gene families of pigeonpea (Cajanus cajan (L) Millsp.). PMID:25344821
Origin in Acinetobacter guillouiae and dissemination of the aminoglycoside-modifying enzyme Aph(3')-VI. PMID:25336457
Genomes and gene expression across light and productivity gradients in eastern subtropical Pacific microbial communities. PMID:25333462
The genomic diversification of the whole Acinetobacter genus: origins, mechanisms, and consequences. PMID:25313016
Glycoproteomic study reveals altered plasma proteins associated with HIV elite suppressors. PMID:25285165
CanvasDB: a local database infrastructure for analysis of targeted- and whole genome re-sequencing projects. PMID:25281234
A comparison of key aspects of gene regulation in Streptomyces coelicolor and Escherichia coli using nucleotide-resolution transcription maps produced in parallel by global and differential RNA sequencing. PMID:25266672
Long non-coding RNAs differentially expressed between normal versus primary breast tumor tissues disclose converse changes to breast cancer-related protein-coding genes. PMID:25264628
Screening genes crucial for pediatric pilocytic astrocytoma using weighted gene coexpression network analysis combined with methylation data analysis. PMID:25257306
PLEK: a tool for predicting long non-coding RNAs and messenger RNAs based on an improved k-mer scheme. PMID:25239089
circBase: a database for circular RNAs. PMID:25234927
PeptideManager: a peptide selection tool for targeted proteomic studies involving mixed samples from different species. PMID:25228907
RADB: a database of rheumatoid arthritis-related polymorphisms. PMID:25228593
Estimating overannotation across prokaryotic genomes using BLAST+, UBLAST, LAST and BLAT. PMID:25228073
IGF2BP3-mediated translation in cell protrusions promotes cell invasiveness and metastasis of pancreatic cancer. PMID:25216519
Gene transfers shaped the evolution of de novo NAD+ biosynthesis in eukaryotes. PMID:25169983
STATdb: a specialised resource for the STATome. PMID:25157689
FusoBase: an online Fusobacterium comparative genomic analysis platform. PMID:25149689
H3S28 phosphorylation is a hallmark of the transcriptional response to cellular stress. PMID:25135956
Polymorphism identification and improved genome annotation of Brassica rapa through Deep RNA sequencing. PMID:25122667
The molecular evolution of the Qo motif. PMID:25115012
Mapping of a chromosome 12 region associated with airway hyperresponsiveness in a recombinant congenic mouse strain and selection of potential candidate genes by expression and sequence variation analyses. PMID:25111050
Atypical signaling and functional desensitization response of MAS receptor to peptide ligands. PMID:25068582
Differential Evolution between Monotocous and Polytocous Species. PMID:25049975
Metabolic pathways for the whole community. PMID:25048541
Transcriptome analysis of a petal anthocyanin polymorphism in the arctic mustard, Parrya nudicaulis. PMID:25033465
HelicoBase: a Helicobacter genomic resource and analysis platform. PMID:25030426
Exploring the stability of long intergenic non-coding RNA in K562 cells by comparative studies of RNA-Seq datasets. PMID:24996425
Hijacking of host cellular functions by an intracellular parasite, the microsporidian Anncaliia algerae. PMID:24967735
Comparison of deep-water viromes from the atlantic ocean and the mediterranean sea. PMID:24959907
RNA-Skim: a rapid method for RNA-Seq quantification at transcript level. PMID:24931995
Sorting signal targeting mRNA into hepatic extracellular vesicles. PMID:24921245
Performance comparison of four exome capture systems for deep sequencing. PMID:24912484
A cloud-compatible bioinformatics pipeline for ultrarapid pathogen identification from next-generation sequencing of clinical samples. PMID:24899342
Association of purine asymmetry, strand-biased gene distribution and PolC within Firmicutes and beyond: a new appraisal. PMID:24899249
Structural bioinformatics of the interactome. PMID:24895853
Comparison of strand-specific transcriptomes of enterohemorrhagic Escherichia coli O157:H7 EDL933 (EHEC) under eleven different environmental conditions including radish sprouts and cattle feces. PMID:24885796
Increased genetic diversity of ADME genes in African Americans compared with their putative ancestral source populations and implications for pharmacogenomics. PMID:24884825
Contrasting X-linked and autosomal diversity across 14 human populations. PMID:24836452
Local similarity search to find gene indicators in mitochondrial genomes. PMID:24833343
Enzymatic synthesis of bioinformatically predicted microcin C-like compounds encoded by diverse bacteria. PMID:24803518
Loss of function mutation in the palmitoyl-transferase HHAT leads to syndromic 46,XY disorder of sex development by impeding Hedgehog protein palmitoylation and signaling. PMID:24784881
Long-read sequencing of chicken transcripts and identification of new transcript isoforms. PMID:24736250
Multiscale representation of genomic signals. PMID:24727652
Complete Genome Sequence of the Soybean Symbiont Bradyrhizobium japonicum Strain USDA6T. PMID:24710291
Recurrent epimutations activate gene body promoters in primary glioblastoma. PMID:24709822
A mesophilic, autotrophic, ammonia-oxidizing archaeon of thaumarchaeal group I.1a cultivated from a deep oligotrophic soil horizon. PMID:24705324
Genomic occupancy of Runx2 with global expression profiling identifies a novel dimension to control of osteoblastogenesis. PMID:24655370
Genomics and bioinformatics resources for translational science in Rosaceae. PMID:24634697
Nonsense-mediated mRNA decay immunity can help identify human polycistronic transcripts. PMID:24621851
OMIGA: Optimized Maker-Based Insect Genome Annotation. PMID:24609470
Cell cycle, oncogenic and tumor suppressor pathways regulate numerous long and macro non-protein-coding RNAs. PMID:24594072
Global meta-analysis of transcriptomics studies. PMID:24586684
Effect of bodily fluids from honey bee (Apis mellifera) larvae on growth and genome-wide transcriptional response of the causal agent of American Foulbrood disease (Paenibacillus larvae). PMID:24586572
A tool for mapping Single Nucleotide Polymorphisms using Graphics Processing Units. PMID:24564714
Assessing the impact of human genome annotation choice on RNA-seq expression estimates. PMID:24564364
Genome-wide tissue-specific gene expression, co-expression and regulation of co-expressed genes in adult nematode Ascaris suum. PMID:24516681
Transcriptomic analysis of flower development in wintersweet (Chimonanthus praecox). PMID:24489818
Transcriptome analysis of psoriasis in a large case-control sample: RNA-seq provides insights into disease mechanisms. PMID:24441097
MicroRNAs Implicated in Dysregulation of Gene Expression Following Human Lung Transplantation. PMID:24416715
Golgi enrichment and proteomic analysis of developing Pinus radiata xylem by free-flow electrophoresis. PMID:24416096
Profilin as a regulator of the membrane-actin cytoskeleton interface in plant cells. PMID:24391654
Differentially expressed genes in autosomal dominant osteopetrosis type II osteoclasts reveal known and novel pathways for osteoclast biology. PMID:24336069
Assessment of viral community functional potential from viral metagenomes may be hampered by contamination with cellular sequences. PMID:24335607
Tumor microenvironment-associated modifications of alternative splicing. PMID:24335142
The role of replicates for error mitigation in next-generation sequencing. PMID:24322726
eggNOG v4.0: nested orthology inference across 3686 organisms. PMID:24297252
Structural and gene expression analyses of uptake hydrogenases and other proteins involved in nitrogenase protection in Frankia. PMID:24287649
Activities at the Universal Protein Resource (UniProt). PMID:24253303
Phylo SI: a new genome-wide approach for prokaryotic phylogeny. PMID:24243847
A widespread self-cleaving ribozyme class is revealed by bioinformatics. PMID:24240507
Concurrent loss of Ezh2 and Tet2 cooperates in the pathogenesis of myelodysplastic disorders. PMID:24218139
Signature protein of the PVC superphylum. PMID:24185849
Large-scale mass spectrometric detection of variant peptides resulting from nonsynonymous nucleotide differences. PMID:24175627
Analysis of N-glycoproteins using genomic N-glycosite prediction. PMID:24164404
Sequence signatures extracted from proximal promoters can be used to predict distal enhancers. PMID:24156763
Organization and biology of the porcine serum amyloid A (SAA) gene cluster: isoform specific responses to bacterial infection. PMID:24146912
Riboswitches in eubacteria sense the second messenger c-di-AMP. PMID:24141192
Genome analysis of Pseudoalteromonas flavipulchra JG1 reveals various survival advantages in marine environment. PMID:24131871
Autoreactivity and exceptional CDR plasticity (but not unusual polyspecificity) hinder elicitation of the anti-HIV antibody 4E10. PMID:24086134
Genomic organization of human transcription initiation complexes. PMID:24048476
The VHSE-based prediction of proteasomal cleavage sites. PMID:24040264
A combination of improved differential and global RNA-seq reveals pervasive transcription initiation and events in all stages of the life-cycle of functional RNAs in Propionibacterium acnes, a major contributor to wide-spread human disease. PMID:24034785
Reconstructing an ancestral genotype of two hexachlorocyclohexane-degrading Sphingobium species using metagenomic sequence data. PMID:24030592
The relationship between gene isoform multiplicity, number of exons and protein divergence. PMID:24023641
Identification of myosin XI receptors in Arabidopsis defines a distinct class of transport vesicles. PMID:23995081
Viral proteome size and CD8+ T cell epitope density are correlated: the effect of complexity on selection. PMID:23954420
Comprehensive characterization of 10,571 mouse large intergenic noncoding RNAs from whole transcriptome sequencing. PMID:23951020
Gentrepid V2.0: a web server for candidate disease gene prediction. PMID:23947436
Genome-wide identification and analysis of membrane-bound O-acyltransferase (MBOAT) gene family in plants. PMID:23928653
Global gene expression response of a population exposed to benzene: a pilot study exploring the use of RNA-sequencing technology. PMID:23907980
An integrated tool to study MHC region: accurate SNV detection and HLA genes typing in human MHC region using targeted high-throughput sequencing. PMID:23894464
Variation of the virus-related elements within syntenic genomes of the hyperthermophilic Archaeon Aeropyrum. PMID:23872576
Dynamic expression of 3' UTRs revealed by Poisson hidden Markov modeling of RNA-Seq: implications in gene expression profiling. PMID:23845781
Estrogen represses gene expression through reconfiguring chromatin structures. PMID:23821662
A protein domain-centric approach for the comparative analysis of human and yeast phenotypically relevant mutations. PMID:23819456
ChroMoS: an integrated web tool for SNP classification, prioritization and functional interpretation. PMID:23782616
Sex-stratified genome-wide association studies including 270,000 individuals show sexual dimorphism in genetic loci for anthropometric traits. PMID:23754948
Genome-wide investigation of multifocal and unifocal prostate cancer-are they genetically different? PMID:23736690
A mixture model for expression deconvolution from RNA-seq in heterogeneous tissues. PMID:23735186
Transcriptome and proteome data reveal candidate genes for pollinator attraction in sexually deceptive orchids. PMID:23734209
Comparison of genomes of Brucella melitensis M28 and the B. melitensis M5-90 derivative vaccine strain highlights the translation elongation factor Tu gene tuf2 as an attenuation-related gene. PMID:23716607
Identification of novel arthropod vector G protein-coupled receptors. PMID:23705687
Simultaneous transcriptome analysis of Sorghum and Bipolaris sorghicola by using RNA-seq in combination with de novo transcriptome assembly. PMID:23638091
Discovery and mass spectrometric analysis of novel splice-junction peptides using RNA-Seq. PMID:23629695
Network characteristic analysis of ADR-related proteins and identification of ADR-ADR associations. PMID:23625301
The genome-wide distribution of non-B DNA motifs is shaped by operon structure and suggests the transcriptional importance of non-B DNA structures in Escherichia coli. PMID:23620297
Computational identification of functional introns: high positional conservation of introns that harbor RNA genes. PMID:23605046
Leucoagaricus gongylophorus produces diverse enzymes for the degradation of recalcitrant plant polymers in leaf-cutter ant fungus gardens. PMID:23584789
Re-annotation of protein-coding genes in 10 complete genomes of Neisseriaceae family by combining similarity-based and composition-based methods. PMID:23571676
A tiered hidden Markov model characterizes multi-scale chromatin states. PMID:23570996
Complete chloroplast genome sequence of holoparasite Cistanche deserticola (Orobanchaceae) reveals gene loss and horizontal gene transfer from its host Haloxylon ammodendron (Chenopodiaceae). PMID:23554920
Evaluating purifying selection in the mitochondrial DNA of various mammalian species. PMID:23533597
Identification and characterization of potential therapeutic candidates in emerging human pathogen Mycobacterium abscessus: a novel hierarchical in silico approach. PMID:23527108
Transcriptome sequencing of tumor subpopulations reveals a spectrum of therapeutic options for squamous cell lung cancer. PMID:23527012
GH1-family 6-P-β-glucosidases from human microbiome lactic acid bacteria. PMID:23519420
De-novo assembly and characterization of the transcriptome of Metschnikowia fructicola reveals differences in gene expression following interaction with Penicillium digitatum and grapefruit peel. PMID:23496978
Global regulation of alternative splicing by adenosine deaminase acting on RNA (ADAR). PMID:23474544
A robust method for transcript quantification with RNA-seq data. PMID:23461570
Detection of arboviruses and other micro-organisms in experimentally infected mosquitoes using massively parallel sequencing. PMID:23460918
Proteoform: a single term describing protein complexity. PMID:23443629
Why does a protein's evolutionary rate vary over time? PMID:23436005
Understanding and identifying amino acid repeats. PMID:23418055
Consequences of normalizing transcriptomic and genomic libraries of plant genomes using a duplex-specific nuclease and tetramethylammonium chloride. PMID:23409088
Metabolic effectors secreted by bacterial pathogens: essential facilitators of plastid endosymbiosis? PMID:23371946
Molecular tools for the detection of nitrogen cycling Archaea. PMID:23365509
Evaluation of physical and functional protein-protein interaction prediction methods for detecting biological pathways. PMID:23349851
Cloning, annotation and developmental expression of the chicken intestinal MUC2 gene. PMID:23349743
Whole exome sequencing identifies a mutation for a novel form of corneal intraepithelial dyskeratosis. PMID:23349227
Phylogeny of Toll-like receptor signaling: adapting the innate response. PMID:23326591
Genome-wide association study of irritable vs. elated mania suggests genetic differences between clinical subtypes of bipolar disorder. PMID:23326512
Powerful identification of cis-regulatory SNPs in human primary monocytes using allele-specific gene expression. PMID:23300628
FastAnnotator--an efficient transcript annotation web tool. PMID:23281853
Prediction of novel long non-coding RNAs based on RNA-Seq data of mouse Klf1 knockout study. PMID:23237380
Detection and characterization of regulatory elements using probabilistic conditional random field and hidden Markov models. PMID:23237214
Conservation and early expression of zebrafish tyrosine kinases support the utility of zebrafish as a model for tyrosine kinase biology. PMID:23234507
Two distinct populations of exosomes are released from LIM1863 colon carcinoma cell-derived organoids. PMID:23230278
CBS: an open platform that integrates predictive methods and epigenetics information to characterize conserved regulatory features in multiple Drosophila genomes. PMID:23228284
Genomes of Stigonematalean cyanobacteria (subsection V) and the evolution of oxygenic photosynthesis from prokaryotes to plastids. PMID:23221676
CYP1B1, MYOC, and LTBP2 mutations in primary congenital glaucoma patients in the United States. PMID:23218701
Molecular cytogenetic characterization of a non-robertsonian dicentric chromosome 14;19 identified in a girl with short stature and amenorrhea. PMID:23198188
Complex evolutionary relationships among four classes of modular RNA-binding splicing regulators in eukaryotes: the hnRNP, SR, ELAV-like and CELF proteins. PMID:23179353
Peptidomic discovery of short open reading frame-encoded peptides in human cells. PMID:23160002
NRE: a tool for exploring neutral loci in the human genome. PMID:23151206
The genome of the obligate intracellular parasite Trachipleistophora hominis: new insights into microsporidian genome dynamics and reductive evolution. PMID:23133373
Characteristics and significance of intergenic polyadenylated RNA transcription in Arabidopsis. PMID:23132786
Universal pattern and diverse strengths of successive synonymous codon bias in three domains of life, particularly among prokaryotic genomes. PMID:23132389
Potential translational targets revealed by linking mouse grooming behavioral phenotypes to gene expression using public databases. PMID:23123364
Knowledge building insights on biomarkers of arsenic toxicity to keratinocytes and melanocytes. PMID:23115478
Comparative metagenomic analysis of soil microbial communities across three hexachlorocyclohexane contamination levels. PMID:23029440
Modeling the Thermoproteaceae RNase P RNA. PMID:23018780
Armless mitochondrial tRNAs in Enoplea (Nematoda). PMID:23018779
Bacillus anthracis thioredoxin systems, characterization and role as electron donors for ribonucleotide reductase. PMID:23012357
Charting the landscape of tandem BRCT domain-mediated protein interactions. PMID:22990118
Comparative genomic analysis of Geobacter sulfurreducens KN400, a strain with enhanced capacity for extracellular electron transfer and electricity production. PMID:22967216
Modelling and simulating generic RNA-Seq experiments with the flux simulator. PMID:22962361
Comparative metagenomics of toxic freshwater cyanobacteria bloom communities on two continents. PMID:22952848
29 mammalian genomes reveal novel exaptations of mobile elements for likely regulatory functions in the human genome. PMID:22952639
Functional analysis of transcription factor binding sites in human promoters. PMID:22951020
A high-throughput chromatin immunoprecipitation approach reveals principles of dynamic gene regulation in mammals. PMID:22940246
Transcriptome sequencing in Sezary syndrome identifies Sezary cell and mycosis fungoides-associated lncRNAs and novel transcripts. PMID:22936659
Intragenic enhancers and suppressors of phytoene desaturase mutations in Chlamydomonas reinhardtii. PMID:22912689
Application of next generation sequencing to human gene fusion detection: computational tools, features and perspectives. PMID:22877769
Sequencing the genome of Marssonina brunnea reveals fungus-poplar co-evolution. PMID:22876864
Human developmental enhancers conserved between deuterostomes and protostomes. PMID:22876195
Interaction of the HIV-1 intasome with transportin 3 protein (TNPO3 or TRN-SR2). PMID:22872640
Effect of reference genome selection on the performance of computational methods for genome-wide protein-protein interaction prediction. PMID:22844541
Novel roles for KLF1 in erythropoiesis revealed by mRNA-seq. PMID:22835905
Proximity of H2A.Z containing nucleosome to the transcription start site influences gene expression levels in the mammalian liver and brain. PMID:22821566
The association between H3K4me3 and antisense transcription. PMID:22768981
A map of the cis-regulatory sequences in the mouse genome. PMID:22763441
Domain landscapes of somatic mutations in cancer. PMID:22759657
A minimal ligand binding pocket within a network of correlated mutations identified by multiple sequence and structural analysis of G protein coupled receptors. PMID:22748306
Rational redesign of glucose oxidase for improved catalytic function and stability. PMID:22719855
wANNOVAR: annotating genetic variants for personal genomes via the web. PMID:22717648
RNAiAtlas: a database for RNAi (siRNA) libraries and their specificity. PMID:22700939
Exploring massive, genome scale datasets with the GenometriCorr package. PMID:22693437
Integrated genome analysis suggests that most conserved non-coding sequences are regulatory factor binding sites. PMID:22684627
siRNA off-target effects in genome-wide screens identify signaling pathway members. PMID:22645644
Functional region prediction with a set of appropriate homologous sequences--an index for sequence selection by integrating structure and sequence information with spatial statistics. PMID:22643026
The evolutionary dynamics of functional modules and the extraordinary plasticity of regulons: the Escherichia coli perspective. PMID:22618875
Do natural proteins differ from random sequences polypeptides? Natural vs. random proteins classification using an evolutionary neural network. PMID:22615786
Two surfaces of a conserved interdomain linker differentially affect output from the RST sensing module of the Bacillus subtilis stressosome. PMID:22609918
Cis-acting polymorphisms affect complex traits through modifications of microRNA regulation pathways. PMID:22606281
Genome-wide identification and in silico analysis of poplar peptide deformylases. PMID:22606033
O-miner: an integrative platform for automated analysis and mining of -omics data. PMID:22600742
Predicted Relative Metabolomic Turnover (PRMT): determining metabolic turnover from a coastal marine metagenomic dataset. PMID:22587810
Sequence and analysis of the genome of the pathogenic yeast Candida orthopsilosis. PMID:22563396
SNPnexus: a web server for functional annotation of novel and publicly known genetic variants (2012 update). PMID:22544707
Metabolic classification of microbial genomes using functional probes. PMID:22537274
Rapid identification of high-confidence taxonomic assignments for metagenomic data. PMID:22532608
A genome resource to address mechanisms of developmental programming: determination of the fetal sheep heart transcriptome. PMID:22508961
Overcoming species boundaries in peptide identification with Bayesian information criterion-driven error-tolerant peptide search (BICEPS). PMID:22493179
Hidden treasures in unspliced EST data. PMID:22485013
Cross-species analyses identify the BNIP-2 and Cdc42GAP homology (BCH) domain as a distinct functional subclass of the CRAL_TRIO/Sec14 superfamily. PMID:22479462
Complete genome sequence of Bradyrhizobium sp. S23321: insights into symbiosis evolution in soil oligotrophs. PMID:22452844
The transcript-centric mutations in human genomes. PMID:22449397
Distinct contributions of replication and transcription to mutation rate variation of human genomes. PMID:22449396
Grinder: a versatile amplicon and shotgun sequence simulator. PMID:22434876
Mutations in ROGDI Cause Kohlschütter-Tönz Syndrome. PMID:22424600
The human pancreatic islet transcriptome: expression of candidate genes for type 1 diabetes and the impact of pro-inflammatory cytokines. PMID:22412385
Genetic analysis of the upper phenylacetate catabolic pathway in the production of tropodithietic acid by Phaeobacter gallaeciensis. PMID:22407685
Differential expression of iron acquisition genes by Brucella melitensis and Brucella canis during macrophage infection. PMID:22403618
RNA-Seq quantification of the human small airway epithelium transcriptome. PMID:22375630
Identification of gene-oriented exon orthology between human and mouse. PMID:22369432
Chromatin states accurately classify cell differentiation stages. PMID:22363642
DNA sequencing: clinical applications of new DNA sequencing technologies. PMID:22354974
Characterization of profilin polymorphism in pollen with a focus on multifunctionality. PMID:22348028
From expression cloning to gene modeling: the development of Xenopus gene sequence resources. PMID:22344767
Purifying selection and molecular adaptation in the genome of Verminephrobacter, the heritable symbiotic bacteria of earthworms. PMID:22333491
Distinct co-evolution patterns of genes associated to DNA polymerase III DnaE and PolC. PMID:22333191
The CMG (CDC45/RecJ, MCM, GINS) complex is a conserved component of the DNA replication system in all archaea and eukaryotes. PMID:22329974
Design of a binding scaffold based on variable lymphocyte receptors of jawless vertebrates by module engineering. PMID:22328160
Incorporating molecular and functional context into the analysis and prioritization of human variants associated with cancer. PMID:22319177
Knowledge-based reconstruction of mRNA transcripts with short sequencing reads for transcriptome research. PMID:22312447
SOAPsplice: Genome-Wide ab initio Detection of Splice Junctions from RNA-Seq Data. PMID:22303342
R-SAP: a multi-threading computational pipeline for the characterization of high-throughput RNA-sequencing data. PMID:22287631
Molecular diagnosis of infantile mitochondrial disease with targeted next-generation sequencing. PMID:22277967
Single base mismatches in the mRNA target site allow specific seed region-mediated off-target binding of siRNA targeting human coagulation factor 7. PMID:22258146
Knockdown of menin affects pre-mRNA processing and promoter fidelity at the interferon-gamma inducible IRF1 gene. PMID:22240255
Guidelines for information about therapy experiments: a proposal on best practice for recording experimental data on cancer therapy. PMID:22226027
A higher-order generalized singular value decomposition for comparison of global mRNA expression from multiple organisms. PMID:22216090
SCOREM: statistical consolidation of redundant expression measures. PMID:22210887
SNPdbe: constructing an nsSNP functional impacts database. PMID:22210871
Primary role for endoplasmic reticulum-bound ribosomes in cellular translation identified by ribosome profiling. PMID:22199352
MAKER2: an annotation pipeline and genome-database management tool for second-generation genome projects. PMID:22192575
Mechanisms of intron gain and loss in Drosophila. PMID:22182367
Integration of Elf-4 into stem/progenitor and erythroid regulatory networks through locus-wide chromatin studies coupled with in vivo functional validation. PMID:22158964
A single ancient origin for prototypical serine/arginine-rich splicing factors. PMID:22158759
POLYPHEMUS: R package for comparative analysis of RNA polymerase II ChIP-seq profiles by non-linear normalization. PMID:22156059
A method for computing an inventory of metazoan mitochondrial gene order rearrangements. PMID:22151086
Identifying single copy orthologs in Metazoa. PMID:22144877
Fenfluramine-induced gene dysregulation in human pulmonary artery smooth muscle and endothelial cells. PMID:22140631
A machine learning approach to identify hydrogenosomal proteins in Trichomonas vaginalis. PMID:22140228
HIstome--a relational knowledgebase of human histone proteins and histone modifying enzymes. PMID:22140112
Improved systematic tRNA gene annotation allows new insights into the evolution of mitochondrial tRNA structures and into the mechanisms of mitochondrial genome rearrangements. PMID:22139921
NuRD-mediated deacetylation of H3K27 facilitates recruitment of Polycomb Repressive Complex 2 to direct gene repression. PMID:22139358
Molecular evolution of the transmembrane domains of G protein-coupled receptors. PMID:22132149
De novo assembly and characterization of a maternal and developmental transcriptome for the emerging model crustacean Parhyale hawaiensis. PMID:22118449
Reorganizing the protein space at the Universal Protein Resource (UniProt). PMID:22102590
eggNOG v3.0: orthologous groups covering 1133 organisms at 41 different taxonomic ranges. PMID:22096231
Genome-wide detection of gene extinction in early mammalian evolution. PMID:22094861
Network of Cancer Genes (NCG 3.0): integration and analysis of genetic and network properties of cancer genes. PMID:22080562
The UCSC Archaeal Genome Browser: 2012 update. PMID:22080555
Analysis of genome-wide association study data using the protein knowledge base. PMID:22077927
ENCODE whole-genome data in the UCSC Genome Browser: update 2012. PMID:22075998
Research resource: enhanced genome-wide occupancy of estrogen receptor α by the cochaperone p23 in breast cancer cells. PMID:22074947
Pattern of amino acid substitutions in transmembrane domains of β-barrel membrane proteins for detecting remote homologs in bacteria and mitochondria. PMID:22069449
HaploReg: a resource for exploring chromatin states, conservation, and regulatory motif alterations within sets of genetically linked variants. PMID:22064851
Re-annotation of two hyperthermophilic archaea Pyrococcus abyssi GE5 and Pyrococcus furiosus DSM 3638. PMID:22057919
Global mapping of cell type-specific open chromatin by FAIRE-seq reveals the regulatory role of the NFI family in adipocyte differentiation. PMID:22028663
The complete genome sequence of Thermoproteus tenax: a physiologically versatile member of the Crenarchaeota. PMID:22003381
Using shifts in amino acid frequency and substitution rate to identify latent structural characters in base-excision repair enzymes. PMID:21998646
Reprogramming of mesenchymal stem cells by the synovial sarcoma-associated oncogene SYT-SSX2. PMID:21996728
An experimentally-supported genome-scale metabolic network reconstruction for Yersinia pestis CO92. PMID:21995956
An α/β hydrolase and associated Per-ARNT-Sim domain comprise a bipartite sensing module coupled with diverse output domains. PMID:21980452
Red and problematic green phylogenetic signals among thousands of nuclear genes from the photosynthetic and apicomplexa-related Chromera velia. PMID:21965651
Transcriptome profiling of Pinus radiata juvenile wood with contrasting stiffness identifies putative candidate genes involved in microfibril orientation and cell wall mechanics. PMID:21962175
3DSwap: curated knowledgebase of proteins involved in 3D domain swapping. PMID:21959866
A comparative analysis of exome capture. PMID:21958622
Genomic study of gene expression in the mouse lumbar spinal cord under the conditions of simulated microgravity. PMID:21953221
Phased whole-genome genetic risk in a family quartet using a major allele reference sequence. PMID:21935354
Rational design of temperature-sensitive alleles using computational structure prediction. PMID:21912654
An integrative method for identifying the over-annotated protein-coding genes in microbial genomes. PMID:21903723
SpliceTrap: a method to quantify alternative splicing under single cellular conditions. PMID:21896509
SMURF1 amplification promotes invasiveness in pancreatic cancer. PMID:21887346
Genome-based analysis of the nonhuman primate Macaca fascicularis as a model for drug safety assessment. PMID:21862625
Analysis of DNA methylation in a three-generation family reveals widespread genetic influence on epigenetic regulation. PMID:21852959
Whole-exome sequencing identifies compound heterozygous mutations in WDR62 in siblings with recurrent polymicrogyria. PMID:21834044
Evidence of linkage to chromosomes 10p15.3-p15.1, 14q24.3-q31.1 and 9q33.3-q34.3 in non-syndromic colorectal cancer families. PMID:21829229
Evolutionary variation of papillomavirus E2 protein and E2 binding sites. PMID:21806797
Prediction of functional regulatory SNPs in monogenic and complex disease. PMID:21796725
Targeted enrichment beyond the consensus coding DNA sequence exome reveals exons with higher variant densities. PMID:21787409
Yeast two-hybrid junk sequences contain selected linear motifs. PMID:21785140
COLOMBOS: access port for cross-platform bacterial expression compendia. PMID:21779320
Genetic association of recovery from eating disorders: the role of GABA receptor SNPs. PMID:21750581
Leaderless genes in bacteria: clue to the evolution of translation initiation mechanisms in prokaryotes. PMID:21749696
Spinning gland transcriptomics from two main clades of spiders (order: Araneae)--insights on their molecular, anatomical and behavioral evolution. PMID:21738742
Integrated bio-entity network: a system for biological knowledge discovery. PMID:21738677
Exome-wide DNA capture and next generation sequencing in domestic and wild species. PMID:21729323
The vaccinia virus A56 protein: a multifunctional transmembrane glycoprotein that anchors two secreted viral proteins. PMID:21715594
ncFANs: a web server for functional annotation of long non-coding RNAs. PMID:21715382
High-throughput mapping of the promoters of the mouse olfactory receptor genes reveals a new type of mammalian promoter and provides insight into olfactory receptor gene regulation. PMID:21705439
Conserved tyrosine in the first transmembrane segment of solute:sodium symporters is involved in Na+-coupled substrate co-transport. PMID:21705334
Exome sequencing reveals comprehensive genomic alterations across eight cancer cell lines. PMID:21701589
Unity in variety--the pan-genome of the Chlamydiae. PMID:21690563
CHASM and SNVBox: toolkit for detecting biologically important single nucleotide mutations in cancer. PMID:21685053
A computational approach to candidate gene prioritization for X-linked mental retardation using annotation-based binary filtering and motif-based linear discriminatory analysis. PMID:21668950
Multiple recurrent de novo CNVs, including duplications of the 7q11.23 Williams syndrome region, are strongly associated with autism. PMID:21658581
The Gene3D Web Services: a platform for identifying, annotating and comparing structural domains in protein sequences. PMID:21646335
Analysis of BAC end sequences in oak, a keystone forest tree species, providing insight into the composition of its genome. PMID:21645357
Genome-wide identification of conserved regulatory function in diverged sequences. PMID:21628450
SVA: software for annotating and visualizing sequenced human genomes. PMID:21624899
Global gene disruption in human cells to assign genes to phenotypes by deep sequencing. PMID:21623355
Using single-nucleotide polymorphisms to discriminate disease-associated from carried genomes of Neisseria meningitidis. PMID:21622743
The enigmatic mitochondrial genome of Rhabdopleura compacta (Pterobranchia) reveals insights into selection of an efficient tRNA system and supports monophyly of Ambulacraria. PMID:21599892
Genome-wide RNA-seq analysis of human and mouse platelet transcriptomes. PMID:21596849
Identification of Hyaloperonospora arabidopsidis transcript sequences expressed during infection reveals isolate-specific effectors. PMID:21573066
Escherichia coli genome-wide promoter analysis: identification of additional AtoC binding target elements. PMID:21569465
Transcriptional double-autorepression feedforward circuits act for multicellularity and nervous system development. PMID:21569329
TMKink: a method to predict transmembrane helix kinks. PMID:21563225
Integrating human genome database into electronic health record with sequence alignment and compression mechanism. PMID:21559844
A bioinformatics classifier and database for heme-copper oxygen reductases. PMID:21559461
Widespread expression of piRNA-like molecules in somatic tissues. PMID:21546553
SNPPicker: high quality tag SNP selection across multiple populations. PMID:21535878
Massive-scale RNA-Seq analysis of non ribosomal transcriptome in human trisomy 21. PMID:21533138
Metabolic labeling of RNA uncovers principles of RNA production and degradation dynamics in mammalian cells. PMID:21516085
New motion analysis system for characterization of the chemosensory response kinetics of Rhodobacter sphaeroides under different growth conditions. PMID:21515726
miRanalyzer: an update on the detection and analysis of microRNAs in high-throughput sequencing experiments. PMID:21515631
Analysis of HIV-1 expression level and sense of transcription by high-throughput sequencing of the infected cell. PMID:21507965
Modification of gene duplicability during the evolution of protein interaction network. PMID:21490719
c-di-GMP turn-over in Clostridium difficile is controlled by a plethora of diguanylate cyclases and phosphodiesterases. PMID:21483756
Frequency of KCNC3 DNA variants as causes of spinocerebellar ataxia 13 (SCA13). PMID:21479265
The genome of Erysipelothrix rhusiopathiae, the causative agent of swine erysipelas, reveals new insights into the evolution of firmicutes and the organism's intracellular adaptations. PMID:21478354
Three novel truncating TINF2 mutations causing severe dyskeratosis congenita in early childhood. PMID:21477109
The Structural Biology Knowledgebase: a portal to protein structures, sequences, functions, and methods. PMID:21472436
Aberrantly Expressed Genes in HaCaT Keratinocytes Chronically Exposed to Arsenic Trioxide. PMID:21461292
Mapping and analysis of chromatin state dynamics in nine human cell types. PMID:21441907
Germline fitness-based scoring of cancer mutations. PMID:21441214
Performance, accuracy, and Web server for evolutionary placement of short sequence reads under maximum likelihood. PMID:21436105
HMMerThread: detecting remote, functional conserved domains in entire genomes by combining relaxed sequence-database searches with fold recognition. PMID:21423752
Impact of chromatin structure on sequence variability in the human genome. PMID:21399641
Microarrays and RNA-Seq identify molecular mechanisms driving the end of nephron production. PMID:21396121
Role of p53 serine 46 in p53 target gene regulation. PMID:21394211
Identification of a unique library of complex, but ordered, arrays of repetitive elements in the human genome and implication of their potential involvement in pathobiology. PMID:21376035
Knowledge management for systems biology a general and visually driven framework applied to translational medicine. PMID:21375767
NAViGaTing the micronome--using multiple microRNA prediction databases to identify signalling pathway-associated microRNAs. PMID:21364759
A computational framework for proteome-wide pursuit and prediction of metalloproteins using ICP-MS and MS/MS data. PMID:21356119
A proteomics approach to decipher the molecular nature of planarian stem cells. PMID:21356107
Genetic susceptibility to tuberculosis associated with cathepsin Z haplotype in a Ugandan household contact study. PMID:21354459
Sensitive gene fusion detection using ambiguously mapping RNA-Seq read pairs. PMID:21330288
Benefits of random-priming: exhaustive survey of a cDNA library from lung tissue of a SARS patient. PMID:21328370
Global analysis of disease-related DNA sequence variation in 10 healthy individuals: implications for whole genome-based clinical diagnostics. PMID:21325948
Challenges of ligand identification for riboswitch candidates. PMID:21317561
Cross-platform comparison of microarray data using order restricted inference. PMID:21317143
Genome-wide chromatin occupancy analysis reveals a role for ASH2 in transcriptional pausing. PMID:21310711
Comparative metagenomics of microbial traits within oceanic viral communities. PMID:21307954
Meeting Report: "Metagenomics, Metadata and Meta-analysis" (M3) Workshop at the Pacific Symposium on Biocomputing 2010. PMID:21304719
FunSecKB: the Fungal Secretome KnowledgeBase. PMID:21300622
Characterization of the deleted in autism 1 protein family: implications for studying cognitive disorders. PMID:21283809
RAIphy: phylogenetic classification of metagenomics samples using iterative refinement of relative abundance index profiles. PMID:21281493
Rampant purifying selection conserves positions with posttranslational modifications in human proteins. PMID:21273632
Identification of evolutionarily conserved non-AUG-initiated N-terminal extensions in human coding sequences. PMID:21266472
The maternal and early embryonic transcriptome of the milkweed bug Oncopeltus fasciatus. PMID:21266083
DIA1R is an X-linked gene related to Deleted In Autism-1. PMID:21264219
WordCluster: detecting clusters of DNA words and genomic elements. PMID:21261981
A three-dimensional RNA motif in Potato spindle tuber viroid mediates trafficking from palisade mesophyll to spongy mesophyll in Nicotiana benthamiana. PMID:21258006
Large-scale prediction of long non-coding RNA functions in a coding-non-coding gene co-expression network. PMID:21247874
The Biomolecular Interaction Network Database in PSI-MI 2.5. PMID:21233089
Analysis of nitroso-proteomes in normotensive and severe preeclamptic human placentas. PMID:21228217
Structural and functional analysis of the Rous Sarcoma virus negative regulator of splicing and demonstration of its activation by the 9G8 SR protein. PMID:21183462
Bubble-chip analysis of human origin distributions demonstrates on a genomic scale significant clustering into zones and significant association with transcription. PMID:21173031
Gene duplication and divergence of long wavelength-sensitive opsin genes in the guppy, Poecilia reticulata. PMID:21170644
A molecular inversion probe assay for detecting alternative splicing. PMID:21167051
Metallothionein-like gene from Cicer microphyllum is regulated by multiple abiotic stresses. PMID:21161305
Searching NCBI's dbSNP database. PMID:21154707
Noisy splicing drives mRNA isoform diversity in human cells. PMID:21151575
MU2A--reconciling the genome and transcriptome to determine the effects of base substitutions. PMID:21149339
Toward an automatic method for extracting cancer- and other disease-related point mutations from the biomedical literature. PMID:21138947
HSPVdb--the Human Short Peptide Variation Database for improved mass spectrometry-based detection of polymorphic HLA-ligands. PMID:21125265
An integrative study of a meromictic lake ecosystem in Antarctica. PMID:21124488
Molecular evidence for color discrimination in the Atlantic sand fiddler crab, Uca pugilator. PMID:21113005
lncRNAdb: a reference database for long noncoding RNAs. PMID:21112873
Network analysis of human protein location. PMID:21106131
COMBREX: a project to accelerate the functional annotation of prokaryotic genomes. PMID:21097892
PCRPi-DB: a database of computationally annotated hot spots in protein interfaces. PMID:21097468
Formation, regulation and evolution of Caenorhabditis elegans 3'UTRs. PMID:21085120
Expression of distinct RNAs from 3' untranslated regions. PMID:21075793
The uniqueome: a mappability resource for short-tag sequencing. PMID:21075741
Effective--a database of predicted secreted bacterial proteins. PMID:21071416
An SF1 affinity model to identify branch point sequences in human introns. PMID:21071404
Identification of neuronal RNA targets of TDP-43-containing ribonucleoprotein complexes. PMID:21051541
ASPicDB: a database of annotated transcript and protein variants generated by alternative splicing. PMID:21051348
Ongoing and future developments at the Universal Protein Resource. PMID:21051339
Evolutionary dynamics of spliceosomal intron revealed by in silico analyses of the P-Type ATPase superfamily genes. PMID:21046256
Regulated post-transcriptional RNA cleavage diversifies the eukaryotic transcriptome. PMID:21045082
N-CLAP: global profiling of N-termini by chemoselective labeling of the alpha-amine of proteins. PMID:21041401
Comparative study of antioxidants as cancer preventives through inhibition of HIF-1 alpha activity. PMID:20975915
Annotation and comparative analysis of the glycoside hydrolase genes in Brachypodium distachyon. PMID:20973991
Verification of alternative splicing variants based on domain integrity, truncation length and intrinsic protein disorder. PMID:20972208
NGSmethDB: a database for next-generation sequencing single-cytosine-resolution DNA methylation data. PMID:20965971
The UCSC Genome Browser database: update 2011. PMID:20959295
Ab initio identification of transcription start sites in the Rhesus macaque genome by histone modification and RNA-Seq. PMID:20952408
Archaeal ubiquitin-like proteins: functional versatility and putative ancestral involvement in tRNA modification revealed by comparative genomic analysis. PMID:20936112
De novo assembly and analysis of RNA-seq data. PMID:20935650
Laser microsurgery provides evidence for merotelic kinetochore attachments in fission yeast cells lacking Pcs1 or Clr4. PMID:20935472
Uncovering the human methyltransferasome. PMID:20930037
Metagenomic analysis of the viromes of three North American bat species: viral diversity among different bat species that share a common habitat. PMID:20926577
Assessment of orthologous splicing isoforms in human and mouse orthologous genes. PMID:20920313
New aminoacyl-tRNA synthetase-like protein in insecta with an essential mitochondrial function. PMID:20870726
LNCaP Atlas: gene expression associated with in vivo progression to castration-recurrent prostate cancer. PMID:20868494
Identification of CD8+ T cell epitopes in the West Nile virus polyprotein by reverse-immunology using NetCTL. PMID:20856867
Quantitative comparison of genome-wide DNA methylation mapping technologies. PMID:20852634
Massively parallel sequencing and rare disease. PMID:20846941
Asymmetric and non-uniform evolution of recently duplicated human genes. PMID:20825637
A varying threshold method for ChIP peak-calling using multiple sources of information. PMID:20823314
Investigation of an anomalously accelerating substitution in the folding of a prototypical two-state protein. PMID:20816985
Gene expression following induction of regeneration in Drosophila wing imaginal discs. Expression profile of regenerating wing discs. PMID:20813047
Presaging critical residues in protein interfaces-web server (PCRPi-W): a web server to chart hot spots in protein interfaces. PMID:20808810
Computational analysis of genome-wide DNA methylation during the differentiation of human embryonic stem cells along the endodermal lineage. PMID:20802089
A genome-wide gene function prediction resource for Drosophila melanogaster. PMID:20711346
Genetic validation of whole-transcriptome sequencing for mapping expression affected by cis-regulatory variation. PMID:20707912
FACT: functional annotation transfer between proteins with similar feature architectures. PMID:20696036
RefProtDom: a protein database with improved domain boundaries and homology relationships. PMID:20693322
The New York Consortium on Membrane Protein Structure (NYCOMPS): a high-throughput platform for structural genomics of integral membrane proteins. PMID:20690043
GPCRs, G-proteins, effectors and their interactions: human-gpDB, a database employing visualization tools and data integration techniques. PMID:20689020
Discovery of a new human polyomavirus associated with trichodysplasia spinulosa in an immunocompromized patient. PMID:20686659
DMDM: domain mapping of disease mutations. PMID:20685956
CPEB2, CPEB3 and CPEB4 are coordinately regulated by miRNAs recognizing conserved binding sites in paralog positions of their 3'-UTRs. PMID:20660482
Discovery and characterization of chromatin states for systematic annotation of the human genome. PMID:20657582
Identification of novel exons and transcribed regions by chimpanzee transcriptome sequencing. PMID:20653958
PTMScout, a Web resource for analysis of high throughput post-translational proteomics studies. PMID:20631208
Computational analysis of whole-genome differential allelic expression data in human. PMID:20628616
Optimus Primer: A PCR enrichment primer design program for next-generation sequencing of human exonic regions. PMID:20609249
A comprehensive comparison of transmembrane domains reveals organelle-specific properties. PMID:20603021
Patterns of nucleotides that flank substitutions in human orthologous genes. PMID:20602772
ANNOVAR: functional annotation of genetic variants from high-throughput sequencing data. PMID:20601685
Origins and diversification of a complex signal transduction system in prokaryotes. PMID:20587806
Targeted genome-wide enrichment of functional regions. PMID:20585402
Bioinformatic Identification of Novel Methyltransferases. PMID:20582239
Proteomics-based systems biology modeling of bovine germinal vesicle stage oocyte and cumulus cell interaction. PMID:20574525
Design and evaluation of genome-wide libraries for RNA interference screens. PMID:20550664
Linking promoters to functional transcripts in small samples with nanoCAGE and CAGEscan. PMID:20543846
High-throughput production of human proteins for crystallization: the SGC experience. PMID:20541610
The role of transposable elements in the evolution of non-mammalian vertebrates and invertebrates. PMID:20525173
TFM-Explorer: mining cis-regulatory regions in genomes. PMID:20522509
R spider: a network-based analysis of gene lists by combining signaling and metabolic pathways from Reactome and KEGG databases. PMID:20519200
Evolution of the RpoS regulon: origin of RpoS and the conservation of RpoS-dependent regulation in bacteria. PMID:20506020
Prediction of CpG-island function: CpG clustering vs. sliding-window methods. PMID:20500903
Reconstruction and validation of RefRec: a global model for the yeast molecular interaction network. PMID:20498836
Association study of 182 candidate genes in anorexia nervosa. PMID:20468064
Requirements for catalysis in the Cre recombinase active site. PMID:20462863
Identification of {beta}-catenin binding regions in colon cancer cells using ChIP-Seq. PMID:20460455
Touring Ensembl: a practical guide to genome browsing. PMID:20459808
Two new families of the FtsZ-tubulin protein superfamily implicated in membrane remodeling in diverse bacteria and archaea. PMID:20459678
Estrogen-mediated epigenetic repression of large chromosomal regions through DNA looping. PMID:20442245
What influences DNA replication rate in budding yeast? PMID:20436919
Ab initio reconstruction of cell type-specific transcriptomes in mouse reveals the conserved multi-exonic structure of lincRNAs. PMID:20436462
Direct pathogen detection from swab samples using a new high-throughput sequencing technology. PMID:20412188
High-throughput expression and purification of membrane proteins. PMID:20394823
Unconstrained mining of transcript data reveals increased alternative splicing complexity in the human transcriptome. PMID:20385588
Intronic microRNAs support their host genes by mediating synergistic and antagonistic regulatory effects. PMID:20370903
Protein Bioinformatics Infrastructure for the Integration and Analysis of Multiple High-Throughput "omics" Data. PMID:20369061
Global survey of escape from X inactivation by RNA-sequencing in mouse. PMID:20363980
Genomic organization of duplicated short wave-sensitive and long wave-sensitive opsin genes in the green swordtail, Xiphophorus helleri. PMID:20353595
Expanded role for the nitrogen assimilation control protein in the response of Klebsiella pneumoniae to nitrogen stress. PMID:20348267
Both noncoding and protein-coding RNAs contribute to gene expression evolution in the primate brain. PMID:20333225
Elucidating genome structure evolution by analysis of isoapostatic gene clusters using statistics of variance of gene distances. PMID:20333218
Transcriptome profiling of a toxic dinoflagellate reveals a gene-rich protist and a potential impact on gene expression due to bacterial presence. PMID:20300646
Genome-wide functional analysis of human 5' untranslated region introns. PMID:20222956
A MOD(ern) perspective on literature curation. PMID:20221640
Integrating multiple evidence sources to predict transcription factor binding in the human genome. PMID:20219943
Trinucleotide repeats in human genome and exome. PMID:20215431
Dual coding in alternative reading frames correlates with intrinsic protein disorder. PMID:20212158
Pathway Palette: a rich internet application for peptide-, protein- and network-oriented analysis of MS data. PMID:20198642
Predicting highly-connected hubs in protein interaction networks by QSAR and biological data descriptors. PMID:20198194
Comprehensive survey of SNPs in the Affymetrix exon array using the 1000 Genomes dataset. PMID:20186275
Endothelial cell processing and alternatively spliced transcripts of factor VIII: potential implications for coagulation cascades and pulmonary hypertension. PMID:20174619
Transcriptomic changes arising during light-induced sporulation in Physarum polycephalum. PMID:20163733
BisoGenet: a new tool for gene network building, visualization and analysis. PMID:20163717
MicroScope: a platform for microbial genome annotation and comparative genomics. PMID:20157493
The Homeodomain Resource: a comprehensive collection of sequence, structure, interaction, genomic and functional information on the homeodomain protein family. PMID:20157477
Crystal structure of the APOBEC3G catalytic domain reveals potential oligomerization interfaces. PMID:20152150
Fast and efficient searching of biological data resources--using EB-eye. PMID:20150321
Parameters for accurate genome alignment. PMID:20144198
Trichomonas vaginalis vast BspA-like gene family: evidence for functional diversity from structural organisation and transcriptomics. PMID:20144183
Bioinformatics as a tool for assessing the quality of sub-cellular proteomic strategies and inferring functions of proteins: plant cell wall proteomics as a test case. PMID:20140071
Non-linear classification for on-the-fly fractional mass filtering and targeted precursor fragmentation in mass spectrometry experiments. PMID:20134030
DIGA--a database of improved gene annotation for phytopathogens. PMID:20089203
Integrating multiple genome annotation databases improves the interpretation of microarray gene expression data. PMID:20089164
A systematic investigation of multiheme c-type cytochromes in prokaryotes. PMID:20084531
Investigating protein isoforms via proteomics: a feasibility study. PMID:20077415
Concentration of specific amino acids at the catalytic/active centers of highly-conserved "housekeeping" enzymes of central metabolism in archaea, bacteria and Eukaryota: is there a widely conserved chemical signal of prebiotic assembly? PMID:20069373
From protein sequences to 3D-structures and beyond: the example of the UniProt knowledgebase. PMID:20043185
High-throughput quantification of splicing isoforms. PMID:20038630
Next generation transcriptomes for next generation genomes using est2assembly. PMID:20034392
Large intron 14 rearrangement in APC results in splice defect and attenuated FAP. PMID:20033212
Sequence determinants of human microsatellite variability. PMID:20015383
Gene, region and pathway level analyses in whole-genome studies. PMID:20013942
PCRPi: Presaging Critical Residues in Protein interfaces, a new computational tool to chart hot spots in protein interfaces. PMID:20008102
Advances in translational bioinformatics: computational approaches for the hunting of disease genes. PMID:20007728
Modular prediction of protein structural classes from sequences of twilight-zone identity with predicting sequences. PMID:20003388
Mutation patterns in cancer genomes. PMID:19995982
PhosSNP for systematic analysis of genetic polymorphisms that influence protein phosphorylation. PMID:19995808
H-DBAS: human-transcriptome database for alternative splicing: update 2010. PMID:19969536
Protein comparison at the domain architecture level. PMID:19958515
Gene context analysis in the Integrated Microbial Genomes (IMG) data management system. PMID:19956731
KCNC3: phenotype, mutations, channel biophysics-a study of 260 familial ataxia patients. PMID:19953606
Evaluating annotations of an Agilent expression chip suggests that many features cannot be interpreted. PMID:19948035
ANEXdb: an integrated animal ANnotation and microarray EXpression database. PMID:19936830
H-InvDB in 2009: extended database and data mining resources for human genes and transcripts. PMID:19933760
SCAN: SNP and copy number annotation. PMID:19933162
A re-annotation pipeline for Illumina BeadArrays: improving the interpretation of gene expression data. PMID:19923232
The UCSC Genome Browser database: update 2010. PMID:19906737
SIMAP--a comprehensive database of pre-calculated protein sequence similarities, domains, annotations and clusters. PMID:19906725
MicrobesOnline: an integrated portal for comparative and functional genomics. PMID:19906701
Network of Cancer Genes: a web resource to analyze duplicability, orthology and network properties of cancer genes. PMID:19906700
Gene3D: merging structure and function for a Thousand genomes. PMID:19906693
eggNOG v2.0: extending the evolutionary genealogy of genes with enhanced non-supervised orthologous groups, species and functional annotations. PMID:19900971
MINT, the molecular interaction database: 2009 update. PMID:19897547
InParanoid 7: new algorithms and tools for eukaryotic orthology analysis. PMID:19892828
HHMD: the human histone modification database. PMID:19892823
Discordant Brucella melitensis antigens yield cognate CD8+ T cells in vivo. PMID:19884330
Non-redundant patent sequence databases with value-added annotations at two levels. PMID:19884134
Divergence of exonic splicing elements after gene duplication and the impact on gene structures. PMID:19883501
A noncoding antisense RNA in tie-1 locus regulates tie-1 function in vivo. PMID:19880500
iTriplet, a rule-based nucleic acid sequence motif finder. PMID:19874606
The integrated microbial genomes system: an expanding comparative analysis resource. PMID:19864254
Structural genomics target selection for the New York consortium on membrane protein structure. PMID:19859826
A new procedure for determining the genetic basis of a physiological process in a non-model species, illustrated by cold induced angiogenesis in the carp. PMID:19852815
1+1 = 3: a fusion of 2 enzymes in the methionine salvage pathway of Tetrahymena thermophila creates a trifunctional enzyme that catalyzes 3 steps in the pathway. PMID:19851454
Binding the atypical RA domain of Ste50p to the unfolded Opy2p cytoplasmic tail is essential for the high-osmolarity glycerol pathway. PMID:19846660
REBASE--a database for DNA restriction and modification: enzymes, genes and genomes. PMID:19846593
A statistical model of protein sequence similarity and function similarity reveals overly-specific function predictions. PMID:19844580
Automation of cDNA synthesis and labelling improves reproducibility. PMID:19841682
Proteomics analysis of A33 immunoaffinity-purified exosomes released from the human colon tumor cell line LIM1215 reveals a tissue-specific protein signature. PMID:19837982
Gene expression analysis in cadmium-stressed roots of a low cadmium-accumulating solanaceous plant, Solanum torvum. PMID:19837731
Probe-level analysis of expression microarrays characterizes isoform-specific degradation during mouse oocyte maturation. PMID:19834616
Identification of an ortholog of the eukaryotic RNA polymerase III subunit RPC34 in Crenarchaeota and Thaumarchaeota suggests specialization of RNA polymerases for coding and non-coding RNAs in Archaea. PMID:19828044
BeetleBase in 2010: revisions to provide comprehensive genomic information for Tribolium castaneum. PMID:19820115
Riboswitch detection using profile hidden Markov models. PMID:19814811
Effect of read-mapping biases on detecting allele-specific expression from RNA-sequencing data. PMID:19808877
EMAGE mouse embryo spatial gene expression database: 2010 update. PMID:19767607
Three-dimensional structural view of the central metabolic network of Thermotoga maritima. PMID:19762644
FIGfams: yet another set of protein families. PMID:19762480
Identifiability of isoform deconvolution from junction arrays and RNA-Seq. PMID:19762346
Assessing the genomic evidence for conserved transcribed pseudogenes under selection. PMID:19754956
Genome-wide prioritization of disease genes and identification of disease-disease associations from an integrated human functional linkage network. PMID:19728866
Comparative analyses of plant transcription factor databases. PMID:19721806
Personalized copy number and segmental duplication maps using next-generation sequencing. PMID:19718026
Transcriptome analysis describing new immunity and defense genes in peripheral blood mononuclear cells of rheumatoid arthritis patients. PMID:19710928
Photosystem I gene cassettes are present in marine virus genomes. PMID:19710652
Prokaryotic homologs of Argonaute proteins are predicted to function as key components of a novel system of defense against mobile genetic elements. PMID:19706170
Identification of novel endogenous antisense transcripts by DNA microarray analysis targeting complementary strand of annotated genes. PMID:19698135
Novel insights into adipogenesis from omics data. PMID:19689276
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Virus-host coevolution: common patterns of nucleotide motif usage in Flaviviridae and their hosts. PMID:19617912
Mapping identifiers for the integration of genomic datasets with the R/Bioconductor package biomaRt. PMID:19617889
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Dependence of mouse embryonic stem cells on threonine catabolism. PMID:19589965
OHMM: a Hidden Markov Model accurately predicting the occupancy of a transcription factor with a self-overlapping binding motif. PMID:19583839
Methods for incorporating the hypermutability of CpG dinucleotides in detecting natural selection operating at the amino acid sequence level. PMID:19581348
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Whole-proteome phylogeny of large dsDNA virus families by an alignment-free method. PMID:19553209
Positional conservation and amino acids shape the correct diagnosis and population frequencies of benign and damaging personal amino acid mutations. PMID:19546171
The development of a comparison approach for Illumina bead chips unravels unexpected challenges applying newest generation microarrays. PMID:19538710
Identification of candidate structured RNAs in the marine organism 'Candidatus Pelagibacter ubique'. PMID:19531245
PSI-2: structural genomics to cover protein domain family space. PMID:19523904
Functional equivalency inferred from "authoritative sources" in networks of homologous proteins. PMID:19521530
Meta Analysis of Gene Expression Data within and Across Species. PMID:19516959
The role of geography in human adaptation. PMID:19503611
The consensus coding sequence (CCDS) project: Identifying a common protein-coding gene set for the human and mouse genomes. PMID:19498102
ProGMap: an integrated annotation resource for protein orthology. PMID:19494185
Closing gaps in the human genome using sequencing by synthesis. PMID:19490611
Origin of saxitoxin biosynthetic genes in cyanobacteria. PMID:19484122
Physical and functional interactions between Escherichia coli MutL and the Vsr repair endonuclease. PMID:19474347
Lineage-specific biology revealed by a finished genome assembly of the mouse. PMID:19468303
Bioinformatic approaches to identifying orthologs and assessing evolutionary relationships. PMID:19467333
Epigenomic profiling indicates a role for DNA methylation in early postnatal liver development. PMID:19457928
Public databases and software for the pathway analysis of cancer genomes. PMID:19455256
Horizontal gene transfer of an entire metabolic pathway between a eukaryotic alga and its DNA virus. PMID:19451591
SEPT9 gene sequencing analysis reveals recurrent mutations in hereditary neuralgic amyotrophy. PMID:19451530
Noisy splicing, more than expression regulation, explains why some exons are subject to nonsense-mediated mRNA decay. PMID:19442261
Web services at the European Bioinformatics Institute-2009. PMID:19435877
Sim4cc: a cross-species spliced alignment program. PMID:19429899
The diversity present in 5140 human mitochondrial genomes. PMID:19426953
Identification of microbial DNA in human cancer. PMID:19426505
GeneSet2miRNA: finding the signature of cooperative miRNA activities in the gene lists. PMID:19420064
Approximate Bayesian feature selection on a large meta-dataset offers novel insights on factors that effect siRNA potency. PMID:19420052
Insignia: a DNA signature search web server for diagnostic assay development. PMID:19417071
Web API for biology with a workflow navigation system. PMID:19417067
Exploring the relationship between polymorphic (TG/CA)n repeats in intron 1 regions and gene expression. PMID:19403458
Candidate effector gene identification in the ascomycete fungal phytopathogen Venturia inaequalis by expressed sequence tag analysis. PMID:19400844
Repetitive DNA elements, nucleosome binding and human gene expression. PMID:19393174
A whole-genome assembly of the domestic cow, Bos taurus. PMID:19393038
Sequence-based prediction of type III secreted proteins. PMID:19390696
Finding non-coding RNAs through genome-scale clustering. PMID:19340921
A robust linkage map of the porcine autosomes based on gene-associated SNPs. PMID:19327136
Comparison of gene expression profile in embryonic mesencephalon and neuronal primary cultures. PMID:19305503
Evolution of DNA polymerases: an inactivated polymerase-exonuclease module in Pol epsilon and a chimeric origin of eukaryotic polymerases from two classes of archaeal ancestors. PMID:19296856
Cancer gene discovery in mouse and man. PMID:19285540
TFCat: the curated catalog of mouse and human transcription factors. PMID:19284633
Reconstruction of metabolic pathways for the cattle genome. PMID:19284618
Computing highly correlated positions using mutual information and graph theory for G protein-coupled receptors. PMID:19262747
Single-pass classification of all noncoding sequences in a bacterial genome using phylogenetic profiles. PMID:19237465
Identifying protein-coding genes in genomic sequences. PMID:19226436
ChIP-seq accurately predicts tissue-specific activity of enhancers. PMID:19212405
Understanding genome browsing. PMID:19204697
Multiple RNAs from the mouse carboxypeptidase M locus: functional RNAs or transcription noise? PMID:19200403
Coding region structural heterogeneity and turnover of transcription start sites contribute to divergence in expression between duplicate genes. PMID:19175934
Hotspots of biased nucleotide substitutions in human genes. PMID:19175294
Variable locus length in the human genome leads to ascertainment bias in functional inference for non-coding elements. PMID:19168912
Orientation, distance, regulation and function of neighbouring genes. PMID:19164091
Genic regions of a large salamander genome contain long introns and novel genes. PMID:19144141
Studying alternative splicing regulatory networks through partial correlation analysis. PMID:19133160
Asymmetrical distribution of non-conserved regulatory sequences at PHOX2B is reflected at the ENCODE loci and illuminates a possible genome-wide trend. PMID:19128492
ContDist: a tool for the analysis of quantitative gene and promoter properties. PMID:19128472
Fourmidable: a database for ant genomics. PMID:19126223
Adaptive evolution in zinc finger transcription factors. PMID:19119423
nGASP--the nematode genome annotation assessment project. PMID:19099578
SNPnexus: a web database for functional annotation of newly discovered and public domain single nucleotide polymorphisms. PMID:19098027
Identification of gene 3' ends by automated EST cluster analysis. PMID:19095794
KEGG spider: interpretation of genomics data in the context of the global gene metabolic network. PMID:19094223
Gene expression levels are a target of recent natural selection in the human genome. PMID:19091723
Identification of common genetic variants that account for transcript isoform variation between human populations. PMID:19052777
Novel multiprotein complexes identified in the hyperthermophilic archaeon Pyrococcus furiosus by non-denaturing fractionation of the native proteome. PMID:19043064
MOSAIC: an online database dedicated to the comparative genomics of bacterial strains at the intra-species level. PMID:19038022
The HuRef Browser: a web resource for individual human genomics. PMID:19036787
Ensembl 2009. PMID:19033362
Exploring the evolutionary history of the differentially expressed genes between human populations: action of recent positive selection. PMID:19030115
EnsemblCompara GeneTrees: Complete, duplication-aware phylogenetic trees in vertebrates. PMID:19029536
The SDR (short-chain dehydrogenase/reductase and related enzymes) nomenclature initiative. PMID:19027726
Cataloguing the HIV type 1 human protein interaction network. PMID:19025396
Genome and proteome annotation: organization, interpretation and integration. PMID:19019817
Selection of oligonucleotides for whole-genome microarrays with semi-automatic update. PMID:19015129
AS-ALPS: a database for analyzing the effects of alternative splicing on protein structure, interaction and network in human and mouse. PMID:19015123
CRONOS: the cross-reference navigation server. PMID:19010804
Neuroglobin and Alzheimer's dementia: genetic association and gene expression changes. PMID:19010568
The UCSC Genome Browser Database: update 2009. PMID:18996895
PIPs: human protein-protein interaction prediction database. PMID:18988626
ExDom: an integrated database for comparative analysis of the exon-intron structures of protein domains in eukaryotes. PMID:18984624
GtRNAdb: a database of transfer RNA genes detected in genomic sequence. PMID:18984615
QuantPrime--a flexible tool for reliable high-throughput primer design for quantitative PCR. PMID:18976492
metaTIGER: a metabolic evolution resource. PMID:18953037
Matching curated genome databases: a non trivial task. PMID:18950477
RTPrimerDB: the portal for real-time PCR primers and probes. PMID:18948285
IUPHAR-DB: the IUPHAR database of G protein-coupled receptors and ion channels. PMID:18948278
MetaGeneAnnotator: detecting species-specific patterns of ribosomal binding site for precise gene prediction in anonymous prokaryotic and phage genomes. PMID:18940874
The National Center for Biotechnology Information's Protein Clusters Database. PMID:18940865
Database resources of the National Center for Biotechnology Information. PMID:18940862
PEDANT covers all complete RefSeq genomes. PMID:18940859
Evading the annotation bottleneck: using sequence similarity to search non-sequence gene data. PMID:18928517
Human immunodeficiency virus type 1, human protein interaction database at NCBI. PMID:18927109
PTM-Switchboard--a database of posttranslational modifications of transcription factors, the mediating enzymes and target genes. PMID:18927104
BioVenn - a web application for the comparison and visualization of biological lists using area-proportional Venn diagrams. PMID:18925949
High-resolution mapping of expression-QTLs yields insight into human gene regulation. PMID:18846210
Analysis of gene regulatory networks in the mammalian circadian rhythm. PMID:18846204
RAPID: Resource of Asian Primary Immunodeficiency Diseases. PMID:18842635
UniPROBE: an online database of protein binding microarray data on protein-DNA interactions. PMID:18842628
CTdatabase: a knowledge-base of high-throughput and curated data on cancer-testis antigens. PMID:18838390
Keeping up with the next generation: massively parallel sequencing in clinical diagnostics. PMID:18832462
iRefIndex: a consolidated protein interaction database with provenance. PMID:18823568
PharmGKB: an integrated resource of pharmacogenomic data and knowledge. PMID:18819074
Advanced genomic data mining. PMID:18818719
CTLs are targeted to kill beta cells in patients with type 1 diabetes through recognition of a glucose-regulated preproinsulin epitope. PMID:18802479
SQUAT: A web tool to mine human, murine and avian SAGE data. PMID:18801154
The whole alignment and nothing but the alignment: the problem of spurious alignment flanks. PMID:18796526
The use of Gene Ontology terms for predicting highly-connected 'hub' nodes in protein-protein interaction networks. PMID:18796161
Adjustment of genomic waves in signal intensities from whole-genome SNP genotyping platforms. PMID:18784189
Conserved chromosomal clustering of genes governed by chromatin regulators in Drosophila. PMID:18783608
Translational integrity and continuity: personalized biomedical data integration. PMID:18760382
SNAP predicts effect of mutations on protein function. PMID:18757876
Identification of pseudouridine methyltransferase in Escherichia coli. PMID:18755836
Self containment, a property of modular RNA structures, distinguishes microRNAs. PMID:18725951
A resource for transcriptomic analysis in the mouse brain. PMID:18714383
Methods and tools for comparative genomics of foodborne pathogens. PMID:18713064
Cell cycle kinases predicted from conserved biophysical properties. PMID:18704950
A general definition and nomenclature for alternative splicing events. PMID:18688268
Gene Ontology term overlap as a measure of gene functional similarity. PMID:18680592
Identify alternative splicing events based on position-specific evolutionary conservation. PMID:18665247
Tissue-specific splicing factor gene expression signatures. PMID:18653532
Taxonomic distribution of large DNA viruses in the sea. PMID:18598358
CyclinPred: a SVM-based method for predicting cyclin protein sequences. PMID:18596929
GenoQuery: a new querying module for functional annotation in a genomic warehouse. PMID:18586731
Onto-CC: a web server for identifying Gene Ontology conceptual clusters. PMID:18544607
Assessing the evolutionary impact of amino acid mutations in the human genome. PMID:18516229
GeConT 2: gene context analysis for orthologous proteins, conserved domains and metabolic pathways. PMID:18511460
Splign: algorithms for computing spliced alignments with identification of paralogs. PMID:18495041
Fine expression profiling of full-length transcripts using a size-unbiased cDNA library prepared with the vector-capping method. PMID:18487259
A transcriptional enhancer from the coding region of ADAMTS5. PMID:18478108
Ancestry-related differences in gene expression: findings may enhance understanding of health disparities between populations. PMID:18466094
ProfCom: a web tool for profiling the complex functionality of gene groups identified from high-throughput data. PMID:18460543
Challenges in translating plasma proteomics from bench to bedside: update from the NHLBI Clinical Proteomics Programs. PMID:18456800
Identification of new genes in Sinorhizobium meliloti using the Genome Sequencer FLX system. PMID:18454850
Designating eukaryotic orthology via processed transcription units. PMID:18445630
What everybody should know about the rat genome and its online resources. PMID:18443589
EpiToolKit--a web server for computational immunomics. PMID:18440979
DAhunter: a web-based server that identifies homologous proteins by comparing domain architecture. PMID:18411203
A novel method of differential gene expression analysis using multiple cDNA libraries applied to the identification of tumour endothelial genes. PMID:18394197
Ornithine decarboxylase antizyme finder (OAF): fast and reliable detection of antizymes with frameshifts in mRNAs. PMID:18384676
Retrotransposition as a source of new promoters. PMID:18367464
Comparative genomics-based investigation of resequencing targets in Vibrio fischeri: focus on point miscalls and artefactual expansions. PMID:18366731
Computational evaluation of TIS annotation for prokaryotic genomes. PMID:18366730
Bioinformatics prediction of overlapping frameshifted translation products in mammalian transcripts. PMID:18325113
HaploSNPer: a web-based allele and SNP detection tool. PMID:18307806
Confirmation of a second natural preQ1 aptamer class in Streptococcaceae bacteria. PMID:18305186
High-precision high-coverage functional inference from integrated data sources. PMID:18298847
The use of multiple displacement amplification to amplify complex DNA libraries. PMID:18285362
Functional protein divergence in the evolution of Homo sapiens. PMID:18279504
The Groucho/TLE/Grg family of transcriptional co-repressors. PMID:18254933
DNA sequence and structural properties as predictors of human and mouse promoters. PMID:18234453
A biomedically enriched collection of 7000 human ORF clones. PMID:18231609
In silico characterization of proteins: UniProt, InterPro and Integr8. PMID:18219596
Universal seeds for cDNA-to-genome comparison. PMID:18215286
Gene characterization index: assessing the depth of gene annotation. PMID:18213364
Diversity in tissue expression, substrate binding, and SCF complex formation for a lectin family of ubiquitin ligases. PMID:18203720
Cross-species and cross-platform gene expression studies with the Bioconductor-compliant R package 'annotationTools'. PMID:18201381
PhyloSort: a user-friendly phylogenetic sorting tool and its application to estimating the cyanobacterial contribution to the nuclear genome of Chlamydomonas. PMID:18194581
SelenoDB 1.0 : a database of selenoprotein genes, proteins and SECIS elements. PMID:18174224
Background frequencies for residue variability estimates: BLOSUM revisited. PMID:18162129
The UCSC Genome Browser Database: 2008 update. PMID:18086701
HBVRegDB: annotation, comparison, detection and visualization of regulatory elements in hepatitis B virus sequences. PMID:18086305
Comparative genomics search for losses of long-established genes on the human lineage. PMID:18085818
STITCH: interaction networks of chemicals and proteins. PMID:18084021
Database resources of the National Center for Biotechnology Information. PMID:18045790
Distinguishing protein-coding and noncoding genes in the human genome. PMID:18040051
Gene3D: comprehensive structural and functional annotation of genomes. PMID:18032434
GenoList: an integrated environment for comparative analysis of microbial genomes. PMID:18032431
Genomic resources for Myzus persicae: EST sequencing, SNP identification, and microarray design. PMID:18021414
Ensembl 2008. PMID:18000006
TranspoGene and microTranspoGene: transposed elements influence on the transcriptome of seven vertebrates and invertebrates. PMID:17986453
The HGNC Database in 2008: a resource for the human genome. PMID:17984084
VFDB 2008 release: an enhanced web-based resource for comparative pathogenomics. PMID:17984080
The Genomes On Line Database (GOLD) in 2007: status of genomic and metagenomic projects and their associated metadata. PMID:17981842
The full-ORF clone resource of the German cDNA Consortium. PMID:17974005
Search of the human proteome for endomorphin-1 and endomorphin-2 precursor proteins. PMID:17964607
The Protein Identifier Cross-Referencing (PICR) service: reconciling protein identifiers across multiple source databases. PMID:17945017
MetaProm: a neural network based meta-predictor for alternative human promoter prediction. PMID:17941982
The integrated microbial genomes (IMG) system in 2007: data content and analysis tool extensions. PMID:17933782
coliSNP database server mapping nsSNPs on protein structures. PMID:17921498
CoVDB: a comprehensive database for comparative analysis of coronavirus genes and genomes. PMID:17913743
Guanine riboswitch variants from Mesoplasma florum selectively recognize 2'-deoxyguanosine. PMID:17911257
Linking microarray reporters with protein functions. PMID:17897448
Organismal complexity, cell differentiation and gene expression: human over mouse. PMID:17881362
The roles of binding site arrangement and combinatorial targeting in microRNA repression of gene expression. PMID:17697356
In Silico characterization of phosphorylase kinase: evidence for an alternate intronic polyadenylation site in PHKG1. PMID:17692548
Restauro-G: a rapid genome re-annotation system for comparative genomics. PMID:17572364
MyHits: improvements to an interactive resource for analyzing protein sequences. PMID:17545200
Comprehensive DNA signature discovery and validation. PMID:17511514
Entrez Gene: gene-centered information at NCBI. PMID:17148475
NCBI viral genomes resource PubMed citations: 236.

236 articles citing: NCBI viral genomes resource

Development of a Multiepitope Vaccine Against SARS-CoV-2: Immunoinformatics Study. PMID:35891920
FnCas9 Editor Linked Uniform Detection Assay for COVID-19. PMID:35838958
Y RNAs are conserved endogenous RIG-I ligands across RNA virus infection and are targeted by HIV-1. PMID:35789859
Detection of Ancient Viruses and Long-Term Viral Evolution. PMID:35746807
Long-Read Metagenomics Improves the Recovery of Viral Diversity from Complex Natural Marine Samples. PMID:35695508
Thompson loop: opportunities for antitubercular drug design by targeting the weak spot in demethylmenaquinone methyltransferase protein. PMID:35520325
Host-Associated Phages Disperse across the Extraterrestrial Analogue Antarctica. PMID:35499326
Comprehensive human amniotic fluid metagenomics supports the sterile womb hypothesis. PMID:35477737
AutoCoV: tracking the early spread of COVID-19 in terms of the spatial and temporal patterns from embedding space by K-mer based deep learning. PMID:35468739
An overview of dinucleotide and codon usage in all viruses. PMID:35467158
The Chronic Wound Phageome: Phage Diversity and Associations with Wounds and Healing Outcomes. PMID:35435739
Benchmarking metagenomics classifiers on ancient viral DNA: a simulation study. PMID:35356467
Designing sensitive viral diagnostics with machine learning. PMID:35241837
Cross-cohort gut microbiome associations with immune checkpoint inhibitor response in advanced melanoma. PMID:35228751
Bacteriophages Roam the Wheat Phyllosphere. PMID:35215838
Using networks to analyze and visualize the distribution of overlapping genes in virus genomes. PMID:35202429
Combination of antiviral drugs inhibits SARS-CoV-2 polymerase and exonuclease and demonstrates COVID-19 therapeutic potential in viral cell culture. PMID:35194144
Genetic and biological characteristics of species A rotaviruses detected in common shrews suggest a distinct evolutionary trajectory. PMID:35169491
The United States Swine Pathogen Database: integrating veterinary diagnostic laboratory sequence data to monitor emerging pathogens of swine. PMID:35165687
The Neglected Gut Microbiome: Fungi, Protozoa, and Bacteriophages in Inflammatory Bowel Disease. PMID:35092426
Conserved Motifs and Domains in Members of Pospiviroidae. PMID:35053346
Unique mobile elements and scalable gene flow at the prokaryote-eukaryote boundary revealed by circularized Asgard archaea genomes. PMID:35027677
Epistatic models predict mutable sites in SARS-CoV-2 proteins and epitopes. PMID:35022216
Development of a Genomics-Based Approach To Identify Putative Hypervirulent Nontyphoidal Salmonella Isolates: Salmonella enterica Serovar Saintpaul as a Model. PMID:34986312
Deconvoluting virome-wide antibody epitope reactivity profiles. PMID:34922324
A proposed workflow for proactive virus surveillance and prediction of variants for vaccine design. PMID:34914686
VDA-RWLRLS: An anti-SARS-CoV-2 drug prioritizing framework combining an unbalanced bi-random walk and Laplacian regularized least squares. PMID:34902608
GenBank. PMID:34850943
Transformation of Seed Non-Transmissible Hop Viroids in Nicotiana benthamiana Causes Distortions in Male Gametophyte Development. PMID:34834761
Correcting the Estimation of Viral Taxa Distributions in Next-Generation Sequencing Data after Applying Artificial Neural Networks. PMID:34828361
Feature-extraction and analysis based on spatial distribution of amino acids for SARS-CoV-2 Protein sequences. PMID:34815067
Computational methods for inferring location and genealogy of overlapping genes in virus genomes: approaches and applications. PMID:34798370
Metatranscriptomics to characterize respiratory virome, microbiome, and host response directly from clinical samples. PMID:34790908
Virtual screening and in vitro validation identifies the first reported inhibitors of Salmonella enterica HPPK. PMID:34778775
Down in the pond: Isolation and characterization of a new Serratia marcescens strain (LVF3) from the surface water near frog's lettuce (Groenlandia densa). PMID:34748577
DNA Viral Diversity, Abundance, and Functional Potential Vary across Grassland Soils with a Range of Historical Moisture Regimes. PMID:34724822
OncoDB: an interactive online database for analysis of gene expression and viral infection in cancer. PMID:34718715
Distribution and Pathogenicity of Two Cutthroat Trout Virus (CTV) Genotypes in Canada. PMID:34578311
VGEA: an RNA viral assembly toolkit. PMID:34567846
STAT: a fast, scalable, MinHash-based k-mer tool to assess Sequence Read Archive next-generation sequence submissions. PMID:34544477
High-throughput identification of viral termini and packaging mechanisms in virome datasets using PhageTermVirome. PMID:34526611
Whole-genome-based phylogenomic analysis of the Belgian 2016-2017 influenza A(H3N2) outbreak season allows improved surveillance. PMID:34477544
Predicting hosts based on early SARS-CoV-2 samples and analyzing the 2020 pandemic. PMID:34465838
Mutational spectrum of SARS-CoV-2 during the global pandemic. PMID:34453107
Moisture modulates soil reservoirs of active DNA and RNA viruses. PMID:34446837
Development of Novel PCR Assays for Improved Detection of Enterovirus D68. PMID:34432489
Simple Classification of RNA Sequences of Respiratory-Related Coronaviruses. PMID:34395967
Nanotechnology based solutions to combat zoonotic viruses with special attention to SARS, MERS, and COVID 19: Detection, protection and medication. PMID:34390768
A novel mechanism of enhanced transcription activity and fidelity for influenza A viral RNA-dependent RNA polymerase. PMID:34379778
ZWA: Viral genome assembly and characterization hindrances from virus-host chimeric reads; a refining approach. PMID:34370725
Bacteriophages of Thermophilic 'Bacillus Group' Bacteria-A Review. PMID:34361957
Lytic archaeal viruses infect abundant primary producers in Earth's crust. PMID:34330907
BUSCO Update: Novel and Streamlined Workflows along with Broader and Deeper Phylogenetic Coverage for Scoring of Eukaryotic, Prokaryotic, and Viral Genomes. PMID:34320186
Seq12, Seq12m, and Seq13m, peptide analogues of the spike glycoprotein shows antiviral properties against SARS-CoV-2: An in silico study through molecular docking, molecular dynamics simulation, and MM-PB/GBSA calculations. PMID:34305174
Haploflow: strain-resolved de novo assembly of viral genomes. PMID:34281604
Nucleotide Composition and Codon Usage Across Viruses and Their Respective Hosts. PMID:34262534
Genomic diversity and ecology of human-associated Akkermansia species in the gut microbiome revealed by extensive metagenomic assembly. PMID:34261503
AAV ablates neurogenesis in the adult murine hippocampus. PMID:34259630
Predicted structural mimicry of spike receptor-binding motifs from highly pathogenic human coronaviruses. PMID:34234921
Interplay between SARS-CoV-2-derived miRNAs, immune system, vitamin D pathway and respiratory system. PMID:34159729
Metatranscriptome Library Preparation Influences Analyses of Viral Community Activity During a Brown Tide Bloom. PMID:34135876
Scaling relation between genome length and particle size of viruses provides insights into viral life history. PMID:34113814
FnCas9-based CRISPR diagnostic for rapid and accurate detection of major SARS-CoV-2 variants on a paper strip. PMID:34106048
A novel piperazine derivative that targets hepatitis B surface antigen effectively inhibits tenofovir resistant hepatitis B virus. PMID:34083665
Temporal Changes of Virus-Like Particle Abundance and Metagenomic Comparison of Viral Communities in Cropland and Prairie Soils. PMID:34077260
Origin, Evolution and Stability of Overlapping Genes in Viruses: A Systematic Review. PMID:34073395
Diverse Viruses Carrying Genes for Microbial Extremotolerance in the Atacama Desert Hyperarid Soil. PMID:34006626
Identifying biases and their potential solutions in human microbiome studies. PMID:34006335
Transcription, mRNA Export, and Immune Evasion Shape the Codon Usage of Viruses. PMID:33988683
Spinal Cord Injury Changes the Structure and Functional Potential of Gut Bacterial and Viral Communities. PMID:33975974
VIRUSBreakend: Viral Integration Recognition Using Single Breakends. PMID:33973999
Retrieval and Investigation of Data on SARS-CoV-2 and COVID-19 Using Bioinformatics Approach. PMID:33973215
Diversity and distribution of viruses inhabiting the deepest ocean on Earth. PMID:33972725
Learning vector quantization as an interpretable classifier for the detection of SARS-CoV-2 types based on their RNA sequences. PMID:33935376
Intrahost speciations and host switches played an important role in the evolution of herpesviruses. PMID:33927887
Profiling SARS-CoV-2 mutation fingerprints that range from the viral pangenome to individual infection quasispecies. PMID:33875001
Rapid and accurate nucleobase detection using FnCas9 and its application in COVID-19 diagnosis. PMID:33866136
Characterization of Ocular Surface Microbial Profiles Revealed Discrepancies between Conjunctival and Corneal Microbiota. PMID:33808469
Clinical Experience of Cerebrospinal Fluid-Based Liquid Biopsy Demonstrates Superiority of Cell-Free DNA over Cell Pellet Genomic DNA for Molecular Profiling. PMID:33781965
Field-deployable, rapid diagnostic testing of saliva for SARS-CoV-2. PMID:33750853
Pattern of genomic variation in SARS-CoV-2 (COVID-19) suggests restricted nonrandom changes: Analysis using Shewhart control charts. PMID:33709963
High-Throughput Metagenomics for Identification of Pathogens in the Clinical Settings. PMID:33614906
Massive expansion of human gut bacteriophage diversity. PMID:33606979
The analysis on the human protein domain targets and host-like interacting motifs for the MERS-CoV and SARS-CoV/CoV-2 infers the molecular mimicry of coronavirus. PMID:33596252
Complete Genome Sequence of a Phapecoctavirus Isolated from a Pigeon Cloacal Swab Sample. PMID:33541888
Haploflow: Strain-resolved de novo assembly of viral genomes. PMID:33532769
Cenote-Taker 2 democratizes virus discovery and sequence annotation. PMID:33505708
Host population diversity as a driver of viral infection cycle in wild populations of green sulfur bacteria with long standing virus-host interactions. PMID:33452481
Viruses in Extreme Environments, Current Overview, and Biotechnological Potential. PMID:33430116
Identification and characterization of a silent mutation in RNA binding domain of N protein coding gene from SARS-CoV-2. PMID:33407800
Expansion and re-classification of the extracytoplasmic function (ECF) σ factor family. PMID:33398323
Revisiting Orthotospovirus phylogeny using full-genome data and testing the contribution of selection, recombination and segment reassortment in the origin of members of new species. PMID:33394171
Virxicon: A Lexicon Of Viral Sequences. PMID:33367605
Next generation sequencing of SARS-CoV-2 genomes: challenges, applications and opportunities. PMID:33279989
GenBank. PMID:33196830
Virome Sequencing of the Human Intestinal Mucosal-Luminal Interface. PMID:33194818
Systems Biology Approaches for Therapeutics Development Against COVID-19. PMID:33194800
Profiling SARS-CoV-2 mutation fingerprints that range from the viral pangenome to individual infection quasispecies. PMID:33173909
The Presence of Human Herpesvirus 6 in the Brain in Health and Disease. PMID:33172107
Galaxy and Apollo as a biologist-friendly interface for high-quality cooperative phage genome annotation. PMID:33137082
Single Cell Genomics Reveals Viruses Consumed by Marine Protists. PMID:33072003
Evolutionary Analysis of Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) Reveals Genomic Divergence with Implications for Universal Vaccine Efficacy. PMID:33050053
Automated download and clean-up of family-specific databases for kmer-based virus identification. PMID:33031509
Structural and Proteomic Studies of the Aureococcus anophagefferens Virus Demonstrate a Global Distribution of Virus-Encoded Carbohydrate Processing. PMID:33013751
From Orphan Phage to a Proposed New Family-the Diversity of N4-Like Viruses. PMID:33008130
A computational toolset for rapid identification of SARS-CoV-2, other viruses and microorganisms from sequencing data. PMID:33003197
Five Novel Non-Sialic Acid-Like Scaffolds Inhibit In Vitro H1N1 and H5N2 Neuraminidase Activity of Influenza a Virus. PMID:32947893
CoV-Seq, a New Tool for SARS-CoV-2 Genome Analysis and Visualization: Development and Usability Study. PMID:32931441
A distinct lineage of Caudovirales that encodes a deeply branching multi-subunit RNA polymerase. PMID:32908149
Enhanced Detection of DNA Viruses in the Cerebrospinal Fluid of Encephalitis Patients Using Metagenomic Next-Generation Sequencing. PMID:32903437
Insights into the Evolutionary Origin of Mediterranean Sandfly Fever Viruses. PMID:32878929
Development of a Fluorescence-Based, High-Throughput SARS-CoV-2 3CLpro Reporter Assay. PMID:32843534
Multi-Omics Characterization of the 4T1 Murine Mammary Gland Tumor Model. PMID:32793490
NCBI Taxonomy: a comprehensive update on curation, resources and tools. PMID:32761142
Assessment of Metagenomic Sequencing and qPCR for Detection of Influenza D Virus in Bovine Respiratory Tract Samples. PMID:32731471
Machine-learning approach expands the repertoire of anti-CRISPR protein families. PMID:32728052
Immunogenic SARS-CoV-2 Epitopes: In Silico Study Towards Better Understanding of COVID-19 Disease-Paving the Way for Vaccine Development. PMID:32717854
Computational search for potential COVID-19 drugs from FDAapproved drugs and small molecules of natural origin identifies several anti-virals and plant products. PMID:32713863
Computational approaches in viral ecology. PMID:32670501
Selection for Reducing Energy Cost of Protein Production Drives the GC Content and Amino Acid Composition Bias in Gene Transfer Agents. PMID:32665274
Sequence Compression Benchmark (SCB) database-A comprehensive evaluation of reference-free compressors for FASTA-formatted sequences. PMID:32627830
Whole genome sequencing identifies an allele responsible for clear vs. turbid plaque morphology in a Mycobacteriophage. PMID:32513117
A tissue level atlas of the healthy human virome. PMID:32493363
Predicting host taxonomic information from viral genomes: A comparison of feature representations. PMID:32453718
An effective CTL peptide vaccine for Ebola Zaire Based on Survivors' CD8+ targeting of a particular nucleocapsid protein epitope with potential implications for COVID-19 vaccine design. PMID:32418793
Phages Actively Challenge Niche Communities in Antarctic Soils. PMID:32371471
Massively multiplexed nucleic acid detection with Cas13. PMID:32349121
Combination of Biodata Mining and Computational Modelling in Identification and Characterization of ORF1ab Polyprotein of SARS-CoV-2 Isolated from Oronasopharynx of an Iranian Patient. PMID:32336957
Structural Genomics of SARS-CoV-2 Indicates Evolutionary Conserved Functional Regions of Viral Proteins. PMID:32218151
Experimental Evolution To Isolate Vaccinia Virus Adaptive G9 Mutants That Overcome Membrane Fusion Inhibition via the Vaccinia Virus A56/K2 Protein Complex. PMID:32132237
Assembly-free single-molecule sequencing recovers complete virus genomes from natural microbial communities. PMID:32075851
Metagenome Mining Reveals Hidden Genomic Diversity of Pelagimyophages in Aquatic Environments. PMID:32071164
Variant morphology and random chromosomal integration of BK polyomavirus in posttransplant urothelial carcinomas. PMID:32047230
The evolution of protein domain repertoires: Shedding light on the origins of the Herpesviridae family. PMID:32042448
Discovery of several thousand highly diverse circular DNA viruses. PMID:32014111
LAMPA, LArge Multidomain Protein Annotator, and its application to RNA virus polyproteins. PMID:32003788
Intratumoral heterogeneity and clonal evolution in liver cancer. PMID:31941899
The Microbiota in Hematologic Malignancies. PMID:31927673
Full genomic characterization of a porcine rotavirus strain detected in an asymptomatic piglet in Accra, Ghana. PMID:31924206
Metabolic Modeling Elucidates the Transactions in the Rumen Microbiome and the Shifts Upon Virome Interactions. PMID:31866953
Characteristics of Wetting-Induced Bacteriophage Blooms in Biological Soil Crust. PMID:31848272
Exploiting the Feedstock Flexibility of the Emergent Synthetic Biology Chassis Vibrio natriegens for Engineered Natural Product Production. PMID:31801279
Are viral-infections associated with Ménière's Disease? A systematic review and meta-analysis of molecular-markers of viral-infection in case-controlled observational studies of MD. PMID:31756230
The pulmonary virome, bacteriological and histopathological findings in bovine respiratory disease from western Canada. PMID:31715071
Studying the gut virome in the metagenomic era: challenges and perspectives. PMID:31660953
Molecular characterization and In Vitro synthesis of infectious RNA of a Turnip vein-clearing virus isolated from Alliaria petiolata in Hungary. PMID:31648277
Prediction of microbial communities for urban metagenomics using neural network approach. PMID:31639050
Programmable Inhibition and Detection of RNA Viruses Using Cas13. PMID:31607545
Database resources of the National Center for Biotechnology Information. PMID:31602479
Endogenous Avian Leukosis Virus in Combination with Serotype 2 Marek's Disease Virus Significantly Boosted the Incidence of Lymphoid Leukosis-Like Bursal Lymphomas in Susceptible Chickens. PMID:31554689
A Puzzling Anomaly in the 4-Mer Composition of the Giant Pandoravirus Genomes Reveals a Stringent New Evolutionary Selection Process. PMID:31534042
Sequence determinants of polyadenylation-mediated regulation. PMID:31530582
DisCVR: Rapid viral diagnosis from high-throughput sequencing data. PMID:31528358
NCBI's Virus Discovery Hackathon: Engaging Research Communities to Identify Cloud Infrastructure Requirements. PMID:31527408
Discovery of Genomic Characteristics and Selection Signatures in Korean Indigenous Goats Through Comparison of 10 Goat Breeds. PMID:31440273
Genomic detection and molecular characterization of two distinct isolates of cycas necrotic stunt virus from Paeonia suffruticosa and Daphne odora. PMID:31352619
Cryptic inoviruses revealed as pervasive in bacteria and archaea across Earth's biomes. PMID:31332386
Highly conserved influenza T cell epitopes induce broadly protective immunity. PMID:31331771
Harnessing host-virus evolution in antiviral therapy and immunotherapy. PMID:31312450
High-Throughput Sequencing Analysis of Small RNAs Derived from Coleus Blumei Viroids. PMID:31284471
Phages and Human Health: More Than Idle Hitchhikers. PMID:31252683
Vaccinia viral A26 protein is a fusion suppressor of mature virus and triggers membrane fusion through conformational change at low pH. PMID:31220181
Diversity patterns of bacteriophages infecting Aggregatibacter and Haemophilus species across clades and niches. PMID:31201356
Sub-genotype phylogeny of the non-G, non-P genes of genotype 2 Rotavirus A strains. PMID:31150425
Analysis of Spounaviruses as a Case Study for the Overdue Reclassification of Tailed Phages. PMID:31127947
DNAscan: personal computer compatible NGS analysis, annotation and visualisation. PMID:31029080
Respiratory viruses identified in western Canadian beef cattle by metagenomic sequencing and their association with bovine respiratory disease. PMID:30873724
Piscine orthoreovirus demonstrates high infectivity but low virulence in Atlantic salmon of Pacific Canada. PMID:30867461
Vgas: A Viral Genome Annotation System. PMID:30814982
Capturing sequence diversity in metagenomes with comprehensive and scalable probe design. PMID:30718881
Extensive Unexplored Human Microbiome Diversity Revealed by Over 150,000 Genomes from Metagenomes Spanning Age, Geography, and Lifestyle. PMID:30661755
Reduced bonobo MHC class I diversity predicts a reduced viral peptide binding ability compared to chimpanzees. PMID:30630404
Strengthening the Interaction of the Virology Community with the International Committee on Taxonomy of Viruses (ICTV) by Linking Virus Names and Their Abbreviations to Virus Species. PMID:30597118
A longitudinal systems immunologic investigation of acute Zika virus infection in an individual infected while traveling to Caracas, Venezuela. PMID:30596671
Minimum Information about an Uncultivated Virus Genome (MIUViG). PMID:30556814
Genomic Signatures Among Acanthamoeba polyphaga Entoorganisms Unveil Evidence of Coevolution. PMID:30456441
KrakenUniq: confident and fast metagenomics classification using unique k-mer counts. PMID:30445993
Named entity linking of geospatial and host metadata in GenBank for advancing biomedical research. PMID:30412219
Database resources of the National Center for Biotechnology Information. PMID:30395293
A planarian nidovirus expands the limits of RNA genome size. PMID:30383829
Metagenomic Sequencing of HIV-1 in the Blood and Female Genital Tract Reveals Little Quasispecies Diversity during Acute Infection. PMID:30381486
A diversity-generating retroelement encoded by a globally ubiquitous Bacteroides phage. PMID:30352623
Overlapping genes and the proteins they encode differ significantly in their sequence composition from non-overlapping genes. PMID:30339683
Soil Viruses Are Underexplored Players in Ecosystem Carbon Processing. PMID:30320215
Considerations for Optimization of High-Throughput Sequencing Bioinformatics Pipelines for Virus Detection. PMID:30262776
Genome-wide diversity in temporal and regional populations of the betabaculovirus Erinnyis ello granulovirus (ErelGV). PMID:30249206
Mimiviridae: An Expanding Family of Highly Diverse Large dsDNA Viruses Infecting a Wide Phylogenetic Range of Aquatic Eukaryotes. PMID:30231528
Usability of the international HAVNet hepatitis A virus database for geographical annotation, backtracing and outbreak detection. PMID:30229723
Tracing mother-infant transmission of bacteriophages by means of a novel analytical tool for shotgun metagenomic datasets: METAnnotatorX. PMID:30126456
Integrated analysis of the impact of age on genetic and clinical aspects of hepatocellular carcinoma. PMID:30125264
Predicting MicroRNA Mediated Gene Regulation between Human and Viruses. PMID:30096814
Multiscale Analysis of Independent Alzheimer's Cohorts Finds Disruption of Molecular, Genetic, and Clinical Networks by Human Herpesvirus. PMID:29937276
Viromic Analysis of Wastewater Input to a River Catchment Reveals a Diverse Assemblage of RNA Viruses. PMID:29795788
Reproducible protocols for metagenomic analysis of human faecal phageomes. PMID:29631623
A comprehensive and quantitative exploration of thousands of viral genomes. PMID:29624169
A Reference Viral Database (RVDB) To Enhance Bioinformatics Analysis of High-Throughput Sequencing for Novel Virus Detection. PMID:29564396
The End of a 60-year Riddle: Identification and Genomic Characterization of an Iridovirus, the Causative Agent of White Fat Cell Disease in Zooplankton. PMID:29487186
Know Your Enemy: Successful Bioinformatic Approaches to Predict Functional RNA Structures in Viral RNAs. PMID:29354101
ReprDB and panDB: minimalist databases with maximal microbial representation. PMID:29347966
MVP: a microbe-phage interaction database. PMID:29177508
Do Viruses Exchange Genes across Superkingdoms of Life? PMID:29163404
Coral-associated viral communities show high levels of diversity and host auxiliary functions. PMID:29158985
Proofreading-Deficient Coronaviruses Adapt for Increased Fitness over Long-Term Passage without Reversion of Exoribonuclease-Inactivating Mutations. PMID:29114026
A review of methods and databases for metagenomic classification and assembly. PMID:29028872
Identification of sapovirus GV.2, astrovirus VA3 and novel anelloviruses in serum from patients with acute hepatitis of unknown aetiology. PMID:28982120
WIsH: who is the host? Predicting prokaryotic hosts from metagenomic phage contigs. PMID:28957499
Protein-Protein Interactions in Virus-Host Systems. PMID:28861068
RNA-Seq investigations of human post-mortem trigeminal ganglia. PMID:28699403
A viral metagenomic approach on a non-metagenomic experiment: Mining next generation sequencing datasets from pig DNA identified several porcine parvoviruses for a retrospective evaluation of viral infections. PMID:28662150
Presence of Human Hepegivirus-1 in a Cohort of People Who Inject Drugs. PMID:28586923
Zika virus evolution and spread in the Americas. PMID:28538734
In silico approach to designing rational metagenomic libraries for functional studies. PMID:28532384
Implementation of Objective PASC-Derived Taxon Demarcation Criteria for Official Classification of Filoviruses. PMID:28492506
drVM: a new tool for efficient genome assembly of known eukaryotic viruses from metagenomes. PMID:28369462
How to Name and Classify Your Phage: An Informal Guide. PMID:28368359
Intracellular HIV-1 RNA and CD4+ T-cell activation in patients starting antiretrovirals. PMID:28358734
The blood DNA virome in 8,000 humans. PMID:28328962
Viral Phylogenomics Using an Alignment-Free Method: A Three-Step Approach to Determine Optimal Length of k-mer. PMID:28102365
viruSITE-integrated database for viral genomics. PMID:28025349
Virus Variation Resource - improved response to emergent viral outbreaks. PMID:27899678
MRPrimerV: a database of PCR primers for RNA virus detection. PMID:27899620
Pharmacometabolomics Informs Viromics toward Precision Medicine. PMID:27833560
Prokaryotic Virus Orthologous Groups (pVOGs): a resource for comparative genomics and protein family annotation. PMID:27789703
Identification of a Lineage D Betacoronavirus in Cave Nectar Bats (Eonycteris spelaea) in Singapore and an Overview of Lineage D Reservoir Ecology in SE Asian Bats. PMID:27637887
Detection of Natural Resistance-Associated Substitutions by Ion Semiconductor Technology in HCV1b Positive, Direct-Acting Antiviral Agents-Naïve Patients. PMID:27618896
HoloVir: A Workflow for Investigating the Diversity and Function of Viruses in Invertebrate Holobionts. PMID:27375564
Twenty-Five New Viruses Associated with the Drosophilidae (Diptera). PMID:27375356
Aberrant PD-L1 expression through 3'-UTR disruption in multiple cancers. PMID:27281199
Development of a candidate reference material for adventitious virus detection in vaccine and biologicals manufacturing by deep sequencing. PMID:26709640
Database resources of the National Center for Biotechnology Information. PMID:26615191
Reference sequence (RefSeq) database at NCBI: current status, taxonomic expansion, and functional annotation. PMID:26553804
Full-length single-cell RNA-seq applied to a viral human cancer: applications to HPV expression and splicing analysis in HeLa S3 cells. PMID:26550473
Different combinations of atomic interactions predict protein-small molecule and protein-DNA/RNA affinities with similar accuracy. PMID:26370248
Combining metagenomics, metatranscriptomics and viromics to explore novel microbial interactions: towards a systems-level understanding of human microbiome. PMID:26137199
Advanced molecular surveillance of hepatitis C virus. PMID:25781918
Are arthropods at the heart of virus evolution? PMID:25751043
https://doi.org/10.1093/nar/gkaa1105

http://dx.doi.org/10.1093/nar/gkr1079

http://dx.doi.org/10.1093/nar/gkl842

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More detailed information about this field from each metasource.

deoxyribonucleic acid
metasource: Fairsharing.org
version: FAIRsharing.org: RefSeq; Reference Sequence Database; DOI: https://doi.org/10.25504/FAIRsharing.4jg0qw; Last edited: April 26, 2021, 12:04 p.m.; Last accessed: Jan 03 2022 7:06 p.m.

genome
metasource: Fairsharing.org
version: FAIRsharing.org: RefSeq; Reference Sequence Database; DOI: https://doi.org/10.25504/FAIRsharing.4jg0qw; Last edited: April 26, 2021, 12:04 p.m.; Last accessed: Jan 03 2022 7:06 p.m.

protein
metasource: Fairsharing.org
version: FAIRsharing.org: RefSeq; Reference Sequence Database; DOI: https://doi.org/10.25504/FAIRsharing.4jg0qw; Last edited: April 26, 2021, 12:04 p.m.; Last accessed: Jan 03 2022 7:06 p.m.

ribonucleic acid
metasource: Fairsharing.org
version: FAIRsharing.org: RefSeq; Reference Sequence Database; DOI: https://doi.org/10.25504/FAIRsharing.4jg0qw; Last edited: April 26, 2021, 12:04 p.m.; Last accessed: Jan 03 2022 7:06 p.m.

sequencing
metasource: Fairsharing.org
version: FAIRsharing.org: RefSeq; Reference Sequence Database; DOI: https://doi.org/10.25504/FAIRsharing.4jg0qw; Last edited: April 26, 2021, 12:04 p.m.; Last accessed: Jan 03 2022 7:06 p.m.

transcript
metasource: Fairsharing.org
version: FAIRsharing.org: RefSeq; Reference Sequence Database; DOI: https://doi.org/10.25504/FAIRsharing.4jg0qw; Last edited: April 26, 2021, 12:04 p.m.; Last accessed: Jan 03 2022 7:06 p.m.

human and other vertebrate genomes
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657

model organisms, comparative genomics
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657

genomic dna sequences
metasource: re3data.org
version: re3data.org: NCBI Reference Sequence Database; editing status 2021-09-29; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3V59P last accessed: 2022-11-04

protein sequences
metasource: re3data.org
version: re3data.org: NCBI Reference Sequence Database; editing status 2021-09-29; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3V59P last accessed: 2022-11-04

sequence analysis
metasource: bio.tools
version: extracted_at: 2022-11-04T11:24:12.319930

comparative genomics
metasource: bio.tools
version: extracted_at: 2022-11-04T11:24:12.319930

dna genome protein rna sequencing transcript human and other vertebrate genomes model organisms genomic dna sequences protein sequences sequence analysis comparative genomics

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