List of works by Jonathan A. Eisen

1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life

scientific article published on 12 June 2017

11+ things everyone needs to know about microbes

2019 Novel Coronavirus (COVID-19) Pandemic: Built Environment Considerations To Reduce Transmission

scientific article published on 07 April 2020

A case for evolutionary genomics and the comprehensive examination of sequence biodiversity.

scientific article

A cut above: discovery of an alternative excision repair pathway in bacteria

scientific article

A genomic analysis of the archaeal system Ignicoccus hospitalis-Nanoarchaeum equitans

scientific article

A microbial survey of the International Space Station (ISS).

scientific article published on 5 December 2017

A personal perspective on open access publishing

scholarly article published 13 August 2010

A phylogenomic study of DNA repair genes, proteins, and processes

scientific article

A phylogenomic study of the MutS family of proteins

scientific article

A phylogeny-driven genomic encyclopaedia of Bacteria and Archaea

scientific article

A science renga

scientific article published in Nature

A simple, fast, and accurate method of phylogenomic inference

scientific article

Accounting for alignment uncertainty in phylogenomics

scientific article

Acidithiobacillus ferrooxidans metabolism: from genome sequence to industrial applications

scientific article

Adaptations to nitrogen availability drive ecological divergence of chemosynthetic symbionts

scientific article published on 31 May 2024

Adaptations to submarine hydrothermal environments exemplified by the genome of Nautilia profundicola

scientific article

Additional Draft Genome Sequences of Escherichia coli Strains Isolated from Septic Patients

scientific article

Aggregating, tagging and integrating biodiversity research

scientific article

An automated phylogenetic tree-based small subunit rRNA taxonomy and alignment pipeline (STAP).

scientific article

An integrated pipeline for de novo assembly of microbial genomes

scientific article

Analysis of Deinococcus radiodurans's transcriptional response to ionizing radiation and desiccation reveals novel proteins that contribute to extreme radioresistance

scientific journal article

Ancestral Absence of Electron Transport Chains in Patescibacteria and DPANN

scientific article published on 17 August 2020

Assembling the marine metagenome, one cell at a time

scientific article

Assessing evolutionary relationships among microbes from whole-genome analysis

scientific article

Author Correction: Metagenome-assembled genomes provide new insight into the microbial diversity of two thermal pools in Kamchatka, Russia

scientific article published on 21 February 2020

Author Correction: Roadmap for naming uncultivated Archaea and Bacteria

scientific article published on 12 November 2020

Automated and Accurate Estimation of Gene Family Abundance from Shotgun Metagenomes

scientific article published on 13 November 2015

Automated and accurate estimation of gene family abundance from shotgun metagenomes

article

Bacteria isolated from Bengal cat (Felis catus × Prionailurus bengalensis) anal sac secretions produce volatile compounds potentially associated with animal signaling

scientific article published in 2019

Bacterial communities of diverse Drosophila species: ecological context of a host-microbe model system

scientific article

Badomics words and the power and peril of the ome-meme

scientific article

BioTorrents: a file sharing service for scientific data

scientific article (publication date: 14 April 2010)

Brouhaha over the other yeast

scientific article published in Nature

Characterization of bacterial communities associated with deep-sea corals on Gulf of Alaska seamounts

scientific article

Characterization of shifts of koala (Phascolarctos cinereus) intestinal microbial communities associated with antibiotic treatment.

scientific article published on 12 March 2018

Characterization of the microbiome and volatile compounds in anal gland secretions from domestic cats (Felis catus) using metagenomics and metabolomics

scientific article published on 8 November 2023

Cloning and characterization of HARP/SMARCAL1: a prokaryotic HepA-related SNF2 helicase protein from human and mouse

scientific journal article

Community-Level Differences in the Microbiome of Healthy Wild Mallards and Those Infected by Influenza A Viruses

scientific article

Comparative Genomics of the Genus Porphyromonas Identifies Adaptations for Heme Synthesis within the Prevalent Canine Oral Species Porphyromonas cangingivalis

scientific article

Comparative genomics and understanding of microbial biology

scientific article

Comparative genomics of emerging human ehrlichiosis agents

scientific article

Comparative studies of resistin expression and phylogenomics in human and mouse

scientific article published on October 2003

Comparison of the genome of the oral pathogen Treponema denticola with other spirochete genomes

scientific article

Complete Genome Sequence of Coprothermobacter proteolyticus DSM 5265

scientific article

Complete Genome Sequence of Dolosigranulum pigrum from a Patient with Interstitial Lung Disease Using Single-Molecule Real-Time Sequencing Technology

scientific article published on 04 May 2017

Complete Genome Sequence of Neisseria meningitidis Serogroup B Strain MC58

scientific article

Complete Genome Sequence of a Paenalcaligenes hominis Strain Isolated from a Paraplegic Patient with Neurogenic Bladder Using Single-Molecule Real-Time Sequencing Technology

scientific article published on 27 April 2017

Complete Genome Sequence of the Extreme Thermophile Dictyoglomus thermophilum H-6-12

scientific article published on 20 February 2014

Complete Genome Sequence of the Oral Pathogenic Bacterium Porphyromonas gingivalis Strain W83.

scientific article published in January 2004

Complete genome sequence and comparative analysis of the metabolically versatile Pseudomonas putida KT2440

scientific article

Complete genome sequence and comparative analysis of the metabolically versatile Pseudomonas putida KT2440

article by K. E. Nelson et al published July 2003 in Environmental Microbiology

Complete genome sequence and comparative genomic analysis of an emerging human pathogen, serotype V Streptococcus agalactiae

scientific article

Complete genome sequence of 'Thermobaculum terrenum' type strain (YNP1).

scientific article

Complete genome sequence of Acetohalobium arabaticum type strain (Z-7288)

scientific article

Complete genome sequence of Acidaminococcus fermentans type strain (VR4).

scientific article

Complete genome sequence of Acidimicrobium ferrooxidans type strain (ICP).

scientific article

Complete genome sequence of Actinosynnema mirum type strain (101).

scientific article

Complete genome sequence of Alicyclobacillus acidocaldarius type strain (104-IA)

scientific article

Complete genome sequence of Aminobacterium colombiense type strain (ALA-1).

scientific article

Complete genome sequence of Anaerococcus prevotii type strain (PC1).

scientific article

Complete genome sequence of Arcanobacterium haemolyticum type strain (11018)

scientific article

Complete genome sequence of Archaeoglobus profundus type strain (AV18)

scientific article

Complete genome sequence of Arcobacter nitrofigilis type strain (CI)

scientific article

Complete genome sequence of Atopobium parvulum type strain (IPP 1246)

scientific article

Complete genome sequence of Bacteroides helcogenes type strain (P 36-108).

scientific article

Complete genome sequence of Bacteroides salanitronis type strain (BL78).

scientific article

Complete genome sequence of Beutenbergia cavernae type strain (HKI 0122).

scientific article

Complete genome sequence of Brachybacterium faecium type strain (Schefferle 6-10).

scientific article

Complete genome sequence of Brachyspira murdochii type strain (56-150)

scientific article

Complete genome sequence of Calditerrivibrio nitroreducens type strain (Yu37-1)

scientific article

Complete genome sequence of Candidatus Ruthia magnifica

scientific article (publication date: 27 October 2010)

Complete genome sequence of Capnocytophaga ochracea type strain (VPI 2845).

scientific article

Complete genome sequence of Catenulispora acidiphila type strain (ID 139908).

scientific article

Complete genome sequence of Caulobacter crescentus

scientific article

Complete genome sequence of Cellulomonas flavigena type strain (134).

scientific article

Complete genome sequence of Cellulophaga algicola type strain (IC166)

scientific article

Complete genome sequence of Cellulophaga lytica type strain (LIM-21).

scientific article

Complete genome sequence of Chitinophaga pinensis type strain (UQM 2034).

scientific article

Complete genome sequence of Conexibacter woesei type strain (ID131577).

scientific article

Complete genome sequence of Coraliomargarita akajimensis type strain (04OKA010-24).

scientific article

Complete genome sequence of Coriobacterium glomerans type strain (PW2(T)) from the midgut of Pyrrhocoris apterus L. (red soldier bug).

scientific article

Complete genome sequence of Cryptobacterium curtum type strain (12-3)

scientific article

Complete genome sequence of Deinococcus maricopensis type strain (LB-34). ⬇️

scientific article

Complete genome sequence of Denitrovibrio acetiphilus type strain (N2460)

scientific article

Complete genome sequence of Desulfarculus baarsii type strain (2st14).

scientific article

Complete genome sequence of Desulfobulbus propionicus type strain (1pr3)

scientific article

Complete genome sequence of Desulfohalobium retbaense type strain (HR(100)).

scientific article

Complete genome sequence of Desulfomicrobium baculatum type strain (X)

scientific article

Complete genome sequence of Desulfotomaculum acetoxidans type strain (5575)

scientific article

Complete genome sequence of Desulfurococcus mucosus type strain (O7/1). ⬇️

scientific article

Complete genome sequence of Dyadobacter fermentans type strain (NS114)

scientific article

Complete genome sequence of Eggerthella lenta type strain (IPP VPI 0255).

scientific article

Complete genome sequence of Ferrimonas balearica type strain (PAT).

scientific article

Complete genome sequence of Geodermatophilus obscurus type strain (G-20)

scientific article

Complete genome sequence of Gordonia bronchialis type strain (3410).

scientific article

Complete genome sequence of Haliangium ochraceum type strain (SMP-2)

scientific article

Complete genome sequence of Haliscomenobacter hydrossis type strain (O)

scientific article

Complete genome sequence of Halogeometricum borinquense type strain (PR3)

scientific article

Complete genome sequence of Halomicrobium mukohataei type strain (arg-2)

scientific article

Complete genome sequence of Halorhabdus utahensis type strain (AX-2)

scientific article

Complete genome sequence of Haloterrigena turkmenica type strain (4k)

scientific article

Complete genome sequence of Hydrogenobacter thermophilus type strain (TK-6)

scientific article

Complete genome sequence of Ignisphaera aggregans type strain (AQ1.S1)

scientific article

Complete genome sequence of Ilyobacter polytropus type strain (CuHbu1). ⬇️

scientific article

Complete genome sequence of Intrasporangium calvum type strain (7 KIP).

scientific article

Complete genome sequence of Isosphaera pallida type strain (IS1B).

scientific article

Complete genome sequence of Jiangella gansuensis strain YIM 002T (DSM 44835T), the type species of the genus Jiangella and source of new antibiotic compounds

scientific article published on 03 February 2017

Complete genome sequence of Jonesia denitrificans type strain (Prevot 55134)

scientific article

Complete genome sequence of Kangiella koreensis type strain (SW-125).

scientific article

Complete genome sequence of Kribbella flavida type strain (IFO 14399).

scientific article

Complete genome sequence of Kytococcus sedentarius type strain (541).

scientific article

Complete genome sequence of Leadbetterella byssophila type strain (4M15).

scientific article

Complete genome sequence of Leptotrichia buccalis type strain (C-1013-b).

scientific article

Complete genome sequence of Mahella australiensis type strain (50-1 BON).

scientific article

Complete genome sequence of Marivirga tractuosa type strain (H-43) ⬇️

scientific article

Complete genome sequence of Meiothermus ruber type strain (21)

scientific article

Complete genome sequence of Meiothermus silvanus type strain (VI-R2)

scientific article

Complete genome sequence of Methanoplanus petrolearius type strain (SEBR 4847)

scientific article

Complete genome sequence of Methanothermus fervidus type strain (V24S)

scientific article

Complete genome sequence of Nakamurella multipartita type strain (Y-104).

scientific article

Complete genome sequence of Nitratifractor salsuginis type strain (E9I37-1).

scientific article

Complete genome sequence of Nocardiopsis dassonvillei type strain (IMRU 509).

scientific article

Complete genome sequence of Oceanithermus profundus type strain (506) ⬇️

scientific article

Complete genome sequence of Odoribacter splanchnicus type strain (1651/6). ⬇️

scientific article

Complete genome sequence of Olsenella uli type strain (VPI D76D-27C)

scientific article

Complete genome sequence of Paludibacter propionicigenes type strain (WB4).

scientific article

Complete genome sequence of Pedobacter heparinus type strain (HIM 762-3).

scientific article

Complete genome sequence of Pirellula staleyi type strain (ATCC 27377)

scientific article

Complete genome sequence of Planctomyces brasiliensis type strain (DSM 5305(T)), phylogenomic analysis and reclassification of Planctomycetes including the descriptions of Gimesia gen. nov., Planctopirus gen. nov. and Rubinisphaera gen. nov. and eme

scientific article

Complete genome sequence of Planctomyces limnophilus type strain (Mü 290).

scientific article

Complete genome sequence of Rhodothermus marinus type strain (R-10).

scientific article

Complete genome sequence of Riemerella anatipestifer type strain (ATCC 11845).

scientific article

Complete genome sequence of Riemerella anatipestifer type strain (ATCC 11845T)

article

Complete genome sequence of Saccharomonospora viridis type strain (P101).

scientific article

Complete genome sequence of Sanguibacter keddieii type strain (ST-74)

scientific article

Complete genome sequence of Sebaldella termitidis type strain (NCTC 11300).

scientific article

Complete genome sequence of Segniliparus rotundus type strain (CDC 1076)

scientific article

Complete genome sequence of Slackia heliotrinireducens type strain (RHS 1)

scientific article

Complete genome sequence of Sphaerobacter thermophilus type strain (S 6022)

scientific article

Complete genome sequence of Spirochaeta smaragdinae type strain (SEBR 4228).

scientific article

Complete genome sequence of Spirosoma linguale type strain (1)

scientific article

Complete genome sequence of Stackebrandtia nassauensis type strain (LLR-40K-21).

scientific article

Complete genome sequence of Streptobacillus moniliformis type strain (9901)

scientific article

Complete genome sequence of Streptosporangium roseum type strain (NI 9100).

scientific article

Complete genome sequence of Sulfurimonas autotrophica type strain (OK10).

scientific article

Complete genome sequence of Sulfurospirillum deleyianum type strain (5175).

scientific article

Complete genome sequence of Syntrophobotulus glycolicus type strain (FlGlyR).

scientific article

Complete genome sequence of Syntrophobotulus glycolicus type strain (FlGlyRT)

article

Complete genome sequence of Syntrophothermus lipocalidus type strain (TGB-C1)

scientific article

Complete genome sequence of Thermaerobacter marianensis type strain (7p75a)

scientific article

Complete genome sequence of Thermanaerovibrio acidaminovorans type strain (Su883).

scientific article

Complete genome sequence of Thermobispora bispora type strain (R51).

scientific article

Complete genome sequence of Thermocrinis albus type strain (HI 11/12)

scientific article

Complete genome sequence of Thermomonospora curvata type strain (B9).

scientific article

Complete genome sequence of Thermosediminibacter oceani type strain (JW/IW-1228P)

scientific article

Complete genome sequence of Thermosphaera aggregans type strain (M11TL)

scientific article

Complete genome sequence of Treponema succinifaciens type strain (6091).

scientific article

Complete genome sequence of Truepera radiovictrix type strain (RQ-24)

scientific article

Complete genome sequence of Tsukamurella paurometabola type strain (no. 33).

scientific article

Complete genome sequence of Veillonella parvula type strain (Te3)

scientific article

Complete genome sequence of Vulcanisaeta distributa type strain (IC-017)

scientific article

Complete genome sequence of Weeksella virosa type strain (9751).

scientific article

Complete genome sequence of Xylanimonas cellulosilytica type strain (XIL07)

scientific article

Complete genome sequence of the Q-fever pathogen Coxiella burnetii

scientific article

Complete genome sequence of the acetate-degrading sulfate reducer Desulfobacca acetoxidans type strain (ASRB2).

scientific article

Complete genome sequence of the aerobic CO-oxidizing thermophile Thermomicrobium roseum

scientific article

Complete genome sequence of the aerobic, heterotroph Marinithermus hydrothermalis type strain (T1(T)) from a deep-sea hydrothermal vent chimney

scientific article

Complete genome sequence of the aquatic bacterium Runella slithyformis type strain (LSU 4(T)).

scientific article

Complete genome sequence of the bile-resistant pigment-producing anaerobe Alistipes finegoldii type strain (AHN2437(T)).

scientific article published on 15 April 2013

Complete genome sequence of the broad-host-range vibriophage KVP40: comparative genomics of a T4-related bacteriophage

scientific article

Complete genome sequence of the extremely halophilic Halanaerobium praevalens type strain (GSL)

scientific article

Complete genome sequence of the facultatively anaerobic, appendaged bacterium Muricauda ruestringensis type strain (B1(T)).

scientific article

Complete genome sequence of the gliding freshwater bacterium Fluviicola taffensis type strain (RW262).

scientific article

Complete genome sequence of the gliding, heparinolytic Pedobacter saltans type strain (113)

scientific article published on 23 September 2011

Complete genome sequence of the halophilic bacterium Spirochaeta africana type strain (Z-7692(T)) from the alkaline Lake Magadi in the East African Rift

scientific article published on 20 May 2013

Complete genome sequence of the hyperthermophilic chemolithoautotroph Pyrolobus fumarii type strain (1A)

scientific article

Complete genome sequence of the moderate thermophile Anaerobaculum mobile type strain (NGA(T)).

scientific article published on 15 April 2013

Complete genome sequence of the moderately thermophilic mineral-sulfide-oxidizing firmicute Sulfobacillus acidophilus type strain (NAL(T)).

scientific article published on 20 July 2012

Complete genome sequence of the oral pathogenic Bacterium porphyromonas gingivalis strain W83

scientific article

Complete genome sequence of the orange-red pigmented, radioresistant Deinococcus proteolyticus type strain (MRP(T)).

scientific article

Complete genome sequence of the sulfur compounds oxidizing chemolithoautotroph Sulfuricurvum kujiense type strain (YK-1(T))

scientific article

Complete genome sequence of the termite hindgut bacterium Spirochaeta coccoides type strain (SPN1(T)), reclassification in the genus Sphaerochaeta as Sphaerochaeta coccoides comb. nov. and emendations of the family Spirochaetaceae and the genus Spha

scientific article

Complete genome sequence of the thermophilic sulfate-reducing ocean bacterium Thermodesulfatator indicus type strain (CIR29812(T))

scientific article

Complete genome sequence of the thermophilic sulfur-reducer Desulfurobacterium thermolithotrophum type strain (BSA(T)) from a deep-sea hydrothermal vent

scientific article

Complete genome sequence of the thermophilic sulfur-reducer Hippea maritima type strain (MH(2))

scientific article

Complete genome sequence of the thermophilic, hydrogen-oxidizing Bacillus tusciae type strain (T2) and reclassification in the new genus, Kyrpidia gen. nov. as Kyrpidia tusciae comb. nov. and emendation of the family Alicyclobacillaceae da Costa and

scientific article

CompostBin: A DNA Composition-Based Algorithm for Binning Environmental Shotgun Reads

article

Correction for Dietz et al., "2019 Novel Coronavirus (COVID-19) Pandemic: Built Environment Considerations To Reduce Transmission"

scientific article published on 05 May 2020

Correction: A microbial survey of the International Space Station (ISS).

scientific article published on 27 February 2018

Correction: An Automated Phylogenetic Tree-Based Small Subunit rRNA Taxonomy and Alignment Pipeline (STAP).

scientific article

Correction: Comparative Genomics of Emerging Human Ehrlichiosis Agents.

scientific article

Correction: Life in Hot Carbon Monoxide: The Complete Genome Sequence of Carboxydothermus hydrogenoformans Z-2901.

scientific article published on 28 April 2006

Corrigendum: Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea

scientific article published in February 2018

Corrigendum: Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea

article

DNA sequence of both chromosomes of the cholera pathogen Vibrio cholerae

scientific article

Deep-sea hydrothermal vent bacteria related to human pathogenic Vibrio species

scientific article published on 11 May 2015

Draft Genome Sequence of Arthrobacter sp. Strain UCD-GKA (Phylum Actinobacteria).

scientific article published on 9 February 2017

Draft Genome Sequence of Bacillus safensis JPL-MERTA-8-2, Isolated from a Mars-Bound Spacecraft

scientific article

Draft Genome Sequence of Bacillus vietnamensis Strain UCD-SED5 (Phylum Firmicutes).

scientific article published on 19 November 2015

Draft Genome Sequence of Burkholderia gladioli Strain UCD-UG_CHAPALOTE (Phylum Proteobacteria).

scientific article published on 22 January 2015

Draft Genome Sequence of Cobetia sp. UCD-24C, Isolated from Roots and Leaves of the Seagrass Zostera marina

scientific article

Draft Genome Sequence of Curtobacterium flaccumfaciens Strain UCD-AKU (Phylum Actinobacteria).

scientific article

Draft Genome Sequence of Curtobacterium sp. Strain UCD-KPL2560 (Phylum Actinobacteria).

scientific article

Draft Genome Sequence of Dietzia sp. Strain UCD-THP (Phylum Actinobacteria).

scientific article published on 9 May 2013

Draft Genome Sequence of Enterobacter sp. Strain UCD-UG_FMILLET (Phylum Proteobacteria).

scientific article

Draft Genome Sequence of Enterococcus faecalis Strain UCD-PD3

scientific article published on 15 December 2016

Draft Genome Sequence of Extended-Spectrum β-Lactamase-Producing Klebsiella pneumoniae Isolated from a Patient in Lebanon

scientific article published on 20 February 2014

Draft Genome Sequence of Gordonia sp. Strain UCD-TK1 (Phylum Actinobacteria).

scientific article published on 13 October 2016

Draft Genome Sequence of Klebsiella pneumoniae KGM-IMP216 Harboring blaCTX-M-15, blaDHA-1, blaTEM-1B, blaNDM-1, blaSHV-28, and blaOXA-1, Isolated from a Patient in Lebanon

scientific article published on 28 January 2016

Draft Genome Sequence of Klebsiella pneumoniae UCD-JA29 Isolated from a Patient with Sepsis

scientific article published on 5 May 2016

Draft Genome Sequence of Kocuria sp. Strain UCD-OTCP (Phylum Actinobacteria).

scientific article published on 9 May 2013

Draft Genome Sequence of Leucobacter sp. Strain UCD-THU (Phylum Actinobacteria).

scientific article published on 27 June 2013

Draft Genome Sequence of Microbacterium sp. Strain UCD-TDU (Phylum Actinobacteria).

scientific article

Draft Genome Sequence of Planomicrobium glaciei UCD-HAM (Phylum Firmicutes).

scientific article published on 15 October 2015

Draft Genome Sequence of Porphyrobacter mercurialis (sp. nov.) Strain Coronado

scientific article published on 19 November 2015

Draft Genome Sequence of Propionibacterium avidum Strain UCD-PD2 Isolated from a Feline Anal Sac.

scientific article published on 23 March 2017

Draft Genome Sequence of Pseudoalteromonas tetraodonis Strain UCD-SED8 (Phylum Gammaproteobacteria).

scientific article published on 5 November 2015

Draft Genome Sequence of Tatumella sp. Strain UCD-D_suzukii (Phylum Proteobacteria) Isolated from Drosophila suzukii Larvae

scientific article published on 24 April 2014

Draft Genome Sequence of Tenacibaculum soleae UCD-KL19.

scientific article published on 13 October 2016

Draft Genome Sequence of the Arsenate-Respiring Bacterium Chrysiogenes arsenatis Strain DSM 11915.

scientific article

Draft Genome Sequence of the Endosymbiont "Candidatus Ruthia magnifica" UCD-CM (Phylum Proteobacteria).

scientific article published on 17 July 2014

Draft Genome Sequence of the Pyridinediol-Fermenting Bacterium Synergistes jonesii 78-1

scientific article

Draft Genome Sequences of Acinetobacter baumannii Strains Harboring the blaNDM-1 Gene Isolated in Lebanon from Civilians Wounded during the Syrian Civil War.

scientific article published on 28 January 2016

Draft Genome Sequences of Dermacoccus nishinomiyaensis Strains UCD-KPL2534 and UCD-KPL2528 Isolated from an Indoor Track Facility

scientific article published on 23 February 2017

Draft Genome Sequences of Escherichia coli Strains Isolated from Septic Patients

scientific article

Draft Genome Sequences of Extended-Spectrum β-Lactamase-Producing Escherichia coli Strains Isolated from Patients in Lebanon

scientific article published on 20 February 2014

Draft Genome Sequences of Pseudomonas moraviensis UCD-KL30, Vibrio ostreicida UCD-KL16, Colwellia sp. Strain UCD-KL20, Shewanella sp. Strain UCD-KL12, and Shewanella sp. Strain UCD-KL21, Isolated from Seagrass

scientific article published on 30 March 2017

Draft Genome Sequences of Streptococcus pyogenes Strains Associated with Throat and Skin Infections in Lebanon

scientific article published on 15 May 2014

Draft Genome Sequences of Two Pseudoalteromonas Strains Isolated from Roots and Leaf Blades of the Seagrass Zostera marina

scientific article published on 18 February 2016

Draft Genome Sequences of Two Pseudoalteromonas porphyrae Strains Isolated from Seagrass Sediment

scientific article published on 17 March 2016

Draft Genome Sequences of Two Vibrio splendidus Strains, Isolated from Seagrass Sediment

scientific article published on 18 February 2016

Draft genome sequence of an Actinobacterium, Brachybacterium muris strain UCD-AY4.

scientific article

Draft genome sequences of 26 porphyromonas strains isolated from the canine oral microbiome

scientific article published on 9 April 2015

Draft genome sequences of eight bacteria isolated from the indoor environment: Staphylococcus capitis strain H36, S. capitis strain H65, S. cohnii strain H62, S. hominis strain H69, Microbacterium sp. strain H83, ...

scientific article (publication date: 2017)

Drivers of bacterial beta-diversity depend on spatial scale

scientific article

Effects of preservation method on canine (Canis lupus familiaris) fecal microbiota

scholarly article published 3 May 2018

Effects of preservation method on canine (Canis lupus familiaris) fecal microbiota

scholarly article published 3 May 2018

Effects of preservation method on canine (Canis lupus familiaris) fecal microbiota.

scientific article published on 23 May 2018

Elements of the Health Care Proxy Act

article

Environmental Shotgun Sequencing: Its Potential and Challenges for Studying the Hidden World of Microbes

Environmental control on the distribution of metabolic strategies of benthic microbial mats in Lake Fryxell, Antarctica

scientific article published on 13 April 2020

Environmental genome shotgun sequencing of the Sargasso Sea

scientific article (publication date: 2 April 2004)

Environmental shotgun sequencing: its potential and challenges for studying the hidden world of microbes

scientific article published in March 2007

Erratum to “Comparative studies of resistin expression and phylogenomics in human and mouse” [Biochem. Biophys. Res. Commun. 310 (2003) 927–935]

scholarly article published in Biochemical and Biophysical Research Communications

Erratum to: Complete genome sequence of Atopobium parvulum type strain (IPP 1246).

scientific article published on 15 June 2010

Erratum to: Complete genome sequence of Pirellula staleyi type strain (ATCC 27377)

scientific article

Erratum: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life

scholarly article published in Nature Biotechnology

Evidence for lateral gene transfer between Archaea and Bacteria from genome sequence of Thermotoga maritima

scientific article

Evidence for symmetric chromosomal inversions around the replication origin in bacteria

scientific article

Evolution of sensory complexity recorded in a myxobacterial genome

scholarly article

Evolution of the SNF2 family of proteins: subfamilies with distinct sequences and functions

scientific article (publication date: 25 July 1995)

Expert failure: re-evaluating research assessment

scientific article

Extraordinary phylogenetic diversity and metabolic versatility in aquifer sediment.

scientific article published on January 2013

Faculty of 1000 evaluation for A Sanger/pyrosequencing hybrid approach for the generation of high-quality draft assemblies of marine microbial genomes

Faculty of 1000 evaluation for A phylogenomic approach to microbial evolution

Faculty of 1000 evaluation for A simple algorithm to infer gene duplication and speciation events on a gene tree

article

Faculty of 1000 evaluation for An RNA ligase from Deinococcus radiodurans

Faculty of 1000 evaluation for Automated protein subfamily identification and classification

Faculty of 1000 evaluation for Biochemical and molecular characterisation of Tetrahymena thermophila extracellular cysteine proteases

Faculty of 1000 evaluation for Convergent evolution of MutS and topoisomerase II for clamping DNA crossovers and stacked Holliday junctions

Faculty of 1000 evaluation for Convergent evolution of chromosomal sex-determining regions in the animal and fungal kingdoms

Faculty of 1000 evaluation for Discovery-based science education: functional genomic dissection in Drosophila by undergraduate researchers

Faculty of 1000 evaluation for Distribution, expression, and motif variability of ankyrin domain genes in Wolbachia pipientis

article

Faculty of 1000 evaluation for Effects of size and temperature on metabolic rate

Faculty of 1000 evaluation for Evidence that plant-like genes in Chlamydia species reflect an ancestral relationship between Chlamydiaceae, cyanobacteria, and the chloroplast

article

Faculty of 1000 evaluation for Evolutionary analysis of Arabidopsis, cyanobacterial, and chloroplast genomes reveals plastid phylogeny and thousands of cyanobacterial genes in the nucleus

article

Faculty of 1000 evaluation for Evolutionary origins of genomic repertoires in bacteria

Faculty of 1000 evaluation for Genetic manipulation of carotenoid biosynthesis in the green sulfur bacterium Chlorobium tepidum

Faculty of 1000 evaluation for Genome sequence of the endocellular obligate symbiont of tsetse flies, Wigglesworthia glossinidia

Faculty of 1000 evaluation for High allelic diversity in the methyltransferase gene of a phase variable type III restriction-modification system has implications for the fitness of Haemophilus influenzae

article

Faculty of 1000 evaluation for Identification of a DNA nonhomologous end-joining complex in bacteria

Faculty of 1000 evaluation for Identification of multiple distinct Snf2 subfamilies with conserved structural motifs

Faculty of 1000 evaluation for Marine T4-type bacteriophages, a ubiquitous component of the dark matter of the biosphere

scholarly article published 15 September 2005

Faculty of 1000 evaluation for Mechanisms of evolution in Rickettsia conorii and R. prowazekii

Faculty of 1000 evaluation for Meiotic arrest and aneuploidy in MLH3-deficient mice

Faculty of 1000 evaluation for Metagenomic DNA fragments that affect Escherichia coli mutational pathways

scholarly article published 8 August 2006

Faculty of 1000 evaluation for Microbial diversity in the deep sea and the underexplored "rare biosphere"

Faculty of 1000 evaluation for Microbial ecology of four coral atolls in the Northern Line Islands

Faculty of 1000 evaluation for Nine mutants of Chlorobium tepidum each unable to synthesize a different chlorosome protein still assemble functional chlorosomes

Faculty of 1000 evaluation for Origins and evolution of the recA/RAD51 gene family: evidence for ancient gene duplication and endosymbiotic gene transfer

article

Faculty of 1000 evaluation for Population genomics: whole-genome analysis of polymorphism and divergence in Drosophila simulans

Faculty of 1000 evaluation for Preserving genome integrity: the DdrA protein of Deinococcus radiodurans R1

Faculty of 1000 evaluation for Prevalence and evolution of core photosystem II genes in marine cyanobacterial viruses and their hosts

article

Faculty of 1000 evaluation for Report of the ad hoc committee for the re-evaluation of the species definition in bacteriology

article published in 2002

Faculty of 1000 evaluation for Symbiosis insights through metagenomic analysis of a microbial consortium

Faculty of 1000 evaluation for Ten species in one: DNA barcoding reveals cryptic species in the neotropical skipper butterfly Astraptes fulgerator

article

Faculty of 1000 evaluation for Textpresso: an ontology-based information retrieval and extraction system for biological literature

Faculty of 1000 evaluation for The 1.2-megabase genome sequence of Mimivirus

Faculty of 1000 evaluation for The Wolbachia genome of Brugia malayi: endosymbiont evolution within a human pathogenic nematode

Faculty of 1000 evaluation for The bacterial catalase from filarial DNA preparations derives from common pseudomonad contaminants and not from Wolbachia endosymbionts

Faculty of 1000 evaluation for The metagenomics RAST server - a public resource for the automatic phylogenetic and functional analysis of metagenomes

scholarly article published 20 September 2008

Faculty of 1000 evaluation for The methionine salvage pathway in Bacillus subtilis

Faculty of 1000 evaluation for The role of endosymbiotic Wolbachia bacteria in the pathogenesis of river blindness

Faculty of 1000 evaluation for The uvrA, uvrB and uvrC genes are required for repair of ultraviolet light induced DNA photoproducts in Halobacterium sp. NRC-1

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Faculty of 1000 evaluation for Trends between gene content and genome size in prokaryotic species with larger genomes

article

Faculty of 1000 evaluation for UniFrac--an online tool for comparing microbial community diversity in a phylogenetic context

scholarly article published 24 September 2006

Forensic analysis of the microbiome of phones and shoes

scientific article published on 12 May 2015

Functional biogeography of ocean microbes revealed through non-negative matrix factorization

scientific article (publication date: 2012)

Fungi, bacteria and oomycota opportunistically isolated from the seagrass, Zostera marina

scientific article published on 22 July 2020

Gastrogenomic delights: a movable feast

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Gastrogenomics

scientific article published in January 2001

Gene conservation among endospore-forming bacteria reveals additional sporulation genes in Bacillus subtilis

scientific article published on 2 November 2012

Gene synteny and evolution of genome architecture in trypanosomatids

article

Genes Required for the Anti-fungal Activity of a Bacterial Endophyte Isolated from a Corn Landrace Grown Continuously by Subsistence Farmers Since 1000 BC.

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Genetic and physical mapping of DNA replication origins in Haloferax volcanii

scientific article

Genetic and physical mapping of DNA replication origins in Haloferax volcanii

Genome Analysis of Streptococcus pyogenes Associated with Pharyngitis and Skin Infections

scientific article

Genome Sequence of a Multidrug-Resistant Strain of Bacillus pumilus, CB01, Isolated from the Feces of an American Crow, Corvus brachyrhynchos

scientific article published on 18 August 2016

Genome Sequence of a Sulfate-Reducing Thermophilic Bacterium, Thermodesulfobacterium commune DSM 2178T (Phylum Thermodesulfobacteria)

scientific article

Genome Sequence of the PCE-Dechlorinating Bacterium Dehalococcoides ethenogenes

scientific article

Genome Sequence of the Radioresistant Bacterium Deinococcus radiodurans R1

scientific article

Genome Sequence of the Sulfate-Reducing Thermophilic Bacterium Thermodesulfovibrio yellowstonii Strain DSM 11347T (Phylum Nitrospirae)

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Genome data: what do we learn?

scientific article

Genome of Geobacter sulfurreducens: Metal Reduction in Subsurface Environments

scientific article

Genome of Thermotoga maritima MSB8.

scientific article published on January 2001

Genome sequence of Frateuria aurantia type strain (Kondô 67(T)), a xanthomonade isolated from Lilium auratium Lindl

scientific article published on 02 October 2013

Genome sequence of Silicibacter pomeroyi reveals adaptations to the marine environment

scientific article

Genome sequence of the Antarctic rhodopsins-containing flavobacterium Gillisia limnaea type strain (R-8282(T)).

scientific article published on October 2012

Genome sequence of the Thermotoga thermarum type strain (LA3(T)) from an African solfataric spring

scientific article

Genome sequence of the dissimilatory metal ion–reducing bacterium Shewanella oneidensis

scientific article

Genome sequence of the filamentous, gliding Thiothrix nivea neotype strain (JP2(T))

scientific article

Genome sequence of the flexirubin-pigmented soil bacterium Niabella soli type strain (JS13-8(T))

scientific article published on 4 December 2012

Genome sequence of the free-living aerobic spirochete Turneriella parva type strain (H(T)), and emendation of the species Turneriella parva

scientific article published on 25 May 2013

Genome sequence of the homoacetogenic bacterium Holophaga foetida type strain (TMBS4(T)).

scientific article

Genome sequence of the human malaria parasite Plasmodium falciparum

scientific article

Genome sequence of the moderately thermophilic halophile Flexistipes sinusarabici strain (MAS10)

scientific article

Genome sequence of the moderately thermophilic sulfur-reducing bacterium Thermanaerovibrio velox type strain (Z-9701(T)) and emended description of the genus Thermanaerovibrio

scientific article published on 02 October 2013

Genome sequence of the moderately thermophilic, amino-acid-degrading and sulfur-reducing bacterium Thermovirga lienii type strain (Cas60314(T)).

scientific article

Genome sequence of the mud-dwelling archaeon Methanoplanus limicola type strain (DSM 2279(T)), reclassification of Methanoplanus petrolearius as Methanolacinia petrolearia and emended descriptions of the genera Methanoplanus and Methanolacinia

scientific article

Genome sequence of the orange-pigmented seawater bacterium Owenweeksia hongkongensis type strain (UST20020801(T)).

scientific article published on October 2012

Genome sequence of the phylogenetically isolated spirochete Leptonema illini type strain (3055(T)).

scientific article published on 25 May 2013

Genome sequence of the thermophilic fresh-water bacterium Spirochaeta caldaria type strain (H1(T)), reclassification of Spirochaeta caldaria, Spirochaeta stenostrepta, and Spirochaeta zuelzerae in the genus Treponema as Treponema caldaria comb. nov.

scientific article published on 15 April 2013

Genome sequences of Chlamydia trachomatis MoPn and Chlamydia pneumoniae AR39.

scientific article

Genome sequencing and multifaceted taxonomic analysis of novel strains of violacein-producing bacteria and non-violacein-producing close relatives

scientific article published on 13 April 2023

Genome-Scale Analysis of Programmed DNA Elimination Sites in Tetrahymena thermophila

scientific article

Genomic Encyclopedia of Bacterial and Archaeal Type Strains, Phase III: the genomes of soil and plant-associated and newly described type strains

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Genomic Encyclopedia of Type Strains, Phase I: The one thousand microbial genomes (KMG-I) project

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Genomic analysis of Hyphomonas neptunium contradicts 16S rRNA gene-based phylogenetic analysis: implications for the taxonomy of the orders 'Rhodobacterales' and Caulobacterales

scientific article

Genomic attributes of extended-spectrum β-lactamase-producing Escherichia coli isolated from patients in Lebanon

scientific article

Genomic encyclopedia of bacteria and archaea: sequencing a myriad of type strains

scientific article published in August 2014

Genomic insights into methanotrophy: the complete genome sequence of Methylococcus capsulatus (Bath)

scientific article

Genomic perspective on the photobiology of Halobacterium species NRC-1, a phototrophic, phototactic, and UV-tolerant haloarchaeon.

scientific article

Genomics of emerging infectious disease: A PLoS collection

scientific article (publication date: October 2009)

Global-Scale Structure of the Eelgrass Microbiome

scientific article published on 14 April 2017

Global-scale structure of the eelgrass microbiome

Going to extremes

scientific article published on 01 June 1999

Growth of 48 built environment bacterial isolates on board the International Space Station (ISS)

Growth of 48 built environment bacterial isolates on board the International Space Station (ISS)

Growth of 48 built environment bacterial isolates on board the International Space Station (ISS).

scientific article published on 22 March 2016

Gut Check: The evolution of an educational board game

scientific article

High-quality-draft genome sequence of the yellow-pigmented flavobacterium Joostella marina type strain (En5(T)).

scientific article published on 15 April 2013

Horizontal gene transfer among microbial genomes: new insights from complete genome analysis

scientific article

Host-associated microbiomes drive structure and function of marine ecosystems

scientific article published on 11 November 2019

Human gut microbiome adopts an alternative state following small bowel transplantation

scientific article

Identification of a fourth family of lycopene cyclases in photosynthetic bacteria

scholarly article

Improving the coverage of the cyanobacterial phylum using diversity-driven genome sequencing

scientific article

In silico-initiated cloning and molecular characterization of a novel human member of the L1 gene family of neural cell adhesion molecules

scientific article

Incorporating 16S gene copy number information improves estimates of microbial diversity and abundance

scientific article

Insights into the evolution of Darwin's finches from comparative analysis of the Geospiza magnirostris genome sequence

scientific article (publication date: 12 February 2013)

Insights into the evolution of oxygenic photosynthesis from a phylogenetically novel, low-light cyanobacterium

scholarly article published 1 June 2018

Insights into the phylogeny and coding potential of microbial dark matter

scientific article

Introducing W.A.T.E.R.S.: a workflow for the alignment, taxonomy, and ecology of ribosomal sequences

scientific article

Isolation and sequence-based characterization of a koala symbiont: Lonepinella koalarum

scientific article published on 20 October 2020

Lateral gene transfer or viral colonization?

scientific article published in Science

Life in hot carbon monoxide: the complete genome sequence of Carboxydothermus hydrogenoformans Z-2901

scientific article

Longitudinal course of body-focused repetitive behaviors in obsessive-compulsive disorder.

scientific article published on August 2015

MIxS-BE: a MIxS extension defining a minimum information standard for sequence data from the built environment.

scientific article

Macronuclear genome sequence of the ciliate Tetrahymena thermophila, a model eukaryote

scientific article

Male-specific lethal 2, a dosage compensation gene of Drosophila, undergoes sex-specific regulation and encodes a protein with a RING finger and a metallothionein-like cysteine cluster.

scientific article published on June 1995

Marine probiotics: increasing coral resistance to bleaching through microbiome manipulation

scientific article published on 05 December 2018

Mauve assembly metrics

scientific article

Meeting report: the terabase metagenomics workshop and the vision of an Earth microbiome project

scientific article

Metabolic complementarity and genomics of the dual bacterial symbiosis of sharpshooters

scientific article

Metagenome-assembled genomes provide new insight into the microbial diversity of two thermal pools in Kamchatka, Russia

scientific article published on 28 February 2019

Metagenomic methylation patterns resolve bacterial genomes of unusual size and structural complexity

scientific article published in 2022

Metagenomic sequencing of an in vitro-simulated microbial community

scientific article

MicrobeDB: a locally maintainable database of microbial genomic sequences.

scientific article

Microbial Mat Communities along an Oxygen Gradient in a Perennially Ice-Covered Antarctic Lake

scientific article

Microbial communities in sediment from Zostera marina patches, but not the Z. marina leaf or root microbiomes, vary in relation to distance from patch edge

scientific article

Microbial genes in the human genome: lateral transfer or gene loss?

scientific article

Microbial genome sequencing

scientific article

Microbial genome sequencing 2000: new insights into physiology, evolution and expression analysis

scientific article

Microbial resistance to disinfectants in animal shelters [project]

Microbial resistance to disinfectants in animal shelters [proposal]

Microbiome Responses to Fecal Microbiota Transplantation in Cats with Chronic Digestive Issues

scientific article published on 6 September 2023

Microbiome succession during ammonification in eelgrass bed sediments

scientific article

Microbiome succession during ammonification in eelgrass bed sediments

Microbiome succession during ammonification in eelgrass bed sediments

Microscale sulfur cycling in the phototrophic pink berry consortia of the Sippewissett Salt Marsh

scientific article

Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea.

scientific article

Modeling bacterial evolution with comparative-genome-based marker systems: application to Mycobacterium tuberculosis evolution and pathogenesis

scientific article

Natural experiments and long-term monitoring are critical to understand and predict marine host-microbe ecology and evolution

publication published on 19 August 2021

New evolutionary frontiers from unusual virus genomes

scientific article

Nitrogen fixation in a landrace of maize is supported by a mucilage-associated diazotrophic microbiota

scientific article published on 7 August 2018

Non-contiguous finished genome sequence and contextual data of the filamentous soil bacterium Ktedonobacter racemifer type strain (SOSP1-21).

scientific article

Non-contiguous finished genome sequence of Aminomonas paucivorans type strain (GLU-3).

scientific article

Non-contiguous finished genome sequence of Bacteroides coprosuis type strain (PC139). ⬇️

scientific article

Non-contiguous finished genome sequence of the opportunistic oral pathogen Prevotella multisaccharivorax type strain (PPPA20).

scientific article published on 23 September 2011

On the taxonomic status of the intracellular bacterium Wolbachia pipientis: should this species name include the intracellular bacteria of filarial nematodes?

scientific article published on August 2007

Open science and reporting animal studies: who's accountable?

scientific article

PHYLOGENETIC DIVERSITY OF THE MICROBIAL MATS IN LAKE FRYXELL, ANTARCTICA

article

PLoS Biology 2.0

scientific article

Patellamide A and C biosynthesis by a microcin-like pathway in Prochloron didemni, the cyanobacterial symbiont of Lissoclinum patella ⬇️

scientific article

Permanent draft genome sequence of Dethiosulfovibrio peptidovorans type strain (SEBR 4207)

scientific article

Permanent draft genome sequence of the gliding predator Saprospira grandis strain Sa g1 (= HR1).

scientific article

Phosphate transporters in marine phytoplankton and their viruses: cross-domain commonalities in viral-host gene exchanges

scientific article

PhylOTU: a high-throughput procedure quantifies microbial community diversity and resolves novel taxa from metagenomic data.

scientific article

PhyloSift: phylogenetic analysis of genomes and metagenomes

scientific article published on 9 January 2014

Phylogenetic analysis and gene functional predictions: phylogenomics in action

scientific article

Phylogenetic relationships of chemoautotrophic bacterial symbionts of Solemya velum say (Mollusca: Bivalvia) determined by 16S rRNA gene sequence analysis

scientific article (publication date: May 1992)

Phylogenetically driven sequencing of extremely halophilic archaea reveals strategies for static and dynamic osmo-response

scientific article

Phylogenomics of the reproductive parasite Wolbachia pipientis wMel: a streamlined genome overrun by mobile genetic elements

scientific article

Phylogenomics: improving functional predictions for uncharacterized genes by evolutionary analysis

scientific article

Phylogenomics: intersection of evolution and genomics

scientific article

Phylogeny of bacterial and archaeal genomes using conserved genes: supertrees and supermatrices

scientific article

Play up your lab’s leadership in open science!

Porphyrobacter mercurialis sp. nov., isolated from a stadium seat and emended description of the genus Porphyrobacter

scientific article

Prokaryotic Super Program Advisory Committee DOE Joint Genome Institute, Walnut Creek, CA, March 27, 2013.

scientific article published on 30 July 2013

Questioning the fetal microbiome illustrates pitfalls of low-biomass microbial studies

scientific article published in 2023

Recent Outbreaks of Shigellosis in California Caused by Two Distinct Populations of Shigella sonnei With Increased Virulence or Fluoroquinolone Resistance

Recent Outbreaks of Shigellosis in California Caused by Two Distinct Populations of Shigella sonnei with either Increased Virulence or Fluoroquinolone Resistance.

scientific article

Reconstruction of Metagenome-Assembled Genomes from Aquaria

publication published on 05 August 2021

Recovery of 52 bacterial genomes from the fecal microbiome of the domestic cat ( <i>Felis catus</i> ) using Hi-C proximity ligation and shotgun metagenomics

scientific article published on 19 October 2023

Refined annotation and assembly of the Tetrahymena thermophila genome sequence through EST analysis, comparative genomic hybridization, and targeted gap closure

scientific article

Reply to McDonald, "Protections against the Risk of Airborne SARS-CoV-2 Infection"

scientific article published on 16 June 2020

Research priorities for harnessing plant microbiomes in sustainable agriculture.

scientific article

Roadmap for naming uncultivated Archaea and Bacteria

scientific article published on 08 June 2020

Rokubacteria: Genomic Giants among the Uncultured Bacterial Phyla

scientific article published on 28 November 2017

Root hair-endophyte stacking (RHESt) in an ancient Afro-Indian crop creates an unusual physico-chemical barrier to trap pathogen(s)

Root-hair endophyte stacking in finger millet creates a physicochemical barrier to trap the fungal pathogen Fusarium graminearum

scientific article

Second gene for gonadotropin-releasing hormone in humans

scientific article

Sequence and analysis of chromosome 2 of the plant Arabidopsis thaliana

scientific article published in December 1999

Sequence and analysis of the Arabidopsis genome.

scientific article

Sequence and drug susceptibility of subtype C reverse transcriptase from human immunodeficiency virus type 1 seroconverters in Zimbabwe

scientific article

Sequence characterization and comparative analysis of three plasmids isolated from environmental Vibrio spp.

scientific article

Sequence similarity of putative transposases links the maize Mutator autonomous element and a group of bacterial insertion sequences

scientific article published on July 1994

Sequenced strains must be saved from extinction

scientific article published in Nature

Sequencing and analysis of a 63 kb bacterial artificial chromosome insert from the Wolbachia endosymbiont of the human filarial parasite Brugia malayi

scientific article published on February 2002

Sequencing of seven haloarchaeal genomes reveals patterns of genomic flux

scientific article

Sifting through genomes with iterative-sequence clustering produces a large, phylogenetically diverse protein-family resource.

scientific article

Stalking the fourth domain in metagenomic data: searching for, discovering, and interpreting novel, deep branches in marker gene phylogenetic trees

scientific article (publication date: 18 March 2011)

Strain- and plasmid-level deconvolution of a synthetic metagenome by sequencing proximity ligation products

scientific article published on 27 May 2014

Strain- and plasmid-level deconvolution of a synthetic metagenome by sequencing proximity ligation products

Strain- and plasmid-level deconvolution of a synthetic metagenome by sequencing proximity ligation products

Structure, variation, and assembly of the root-associated microbiomes of rice

scientific article

Swabs to Genomes: A Comprehensive Workflow

article published in 2014

Swabs to genomes: a comprehensive workflow

scientific article

Swabs to genomes: a comprehensive workflow

Swabs to genomes: a comprehensive workflow

Systematic identification of gene families for use as "markers" for phylogenetic and phylogeny-driven ecological studies of bacteria and archaea and their major subgroups

scientific article

TIGRFAMs: a protein family resource for the functional identification of proteins

scientific article

Taking the first steps towards a standard for reporting on phylogenies: Minimum Information About a Phylogenetic Analysis (MIAPA)

scientific article

Taxonomic, Genomic, and Functional Variation in the Gut Microbiomes of Wild Spotted Hyenas Across 2 Decades of Study

scientific article published on 23 February 2023

Ten questions concerning the microbiomes of buildings

Teredinibacter waterburyi sp. nov., a marine, cellulolytic endosymbiotic bacterium isolated from the gills of the wood-boring mollusc Bankia setacea (Bivalvia: Teredinidae) and emended description of the genus Teredinibacter

scientific article published on 20 February 2020

The Brucella suis genome reveals fundamental similarities between animal and plant pathogens and symbionts

scientific article

The Calyptogena magnifica chemoautotrophic symbiont genome.

scientific article

The Cloacal Microbiome of Five Wild Duck Species Varies by Species and Influenza A Virus Infection Status

article

The Genetic Data Environment

The Genetic Data Environment. A user modifiable and expandable multiple sequence analysis package

scientific article published on January 1997

The Green Berry Consortia of the Sippewissett Salt Marsh: Millimeter-Sized Aggregates of Diazotrophic Unicellular Cyanobacteria

scientific article published on 4 September 2017

The RecA protein as a model molecule for molecular systematic studies of bacteria: comparison of trees of RecAs and 16S rRNAs from the same species

scientific article

The Sorcerer II Global Ocean Sampling expedition: expanding the universe of protein families

scientific article published in March 2007

The Sorcerer II Global Ocean Sampling expedition: northwest Atlantic through eastern tropical Pacific

scientific article published in March 2007

The United States Culture Collection Network (USCCN): Enhancing Microbial Genomics Research through Living Microbe Culture Collections.

scientific article

The age of the Arabidopsis thaliana genome duplication

scientific article published in April 2003

The complete genome of Teredinibacter turnerae T7901: an intracellular endosymbiont of marine wood-boring bivalves (shipworms)

scientific article

The complete genome sequence of Chlorobium tepidum TLS, a photosynthetic, anaerobic, green-sulfur bacterium

scientific article

The complete genome sequence of Haloferax volcanii DS2, a model archaeon

scientific article

The emergence of microbiome centres

scientific article published on 01 January 2020

The genome of the intracellular bacterium of the coastal bivalve, Solemya velum: a blueprint for thriving in and out of symbiosis

scientific article

The genome of the natural genetic engineer Agrobacterium tumefaciens C58

scientific article

The genome sequence of Bacillus anthracis Ames and comparison to closely related bacteria

scientific article

The genome sequence of Methanohalophilus mahii SLP(T) reveals differences in the energy metabolism among members of the Methanosarcinaceae inhabiting freshwater and saline environments

scientific article

The genome sequence of the anaerobic, sulfate-reducing bacterium Desulfovibrio vulgaris Hildenborough

scientific article

The impact of Helicobacter pylori infection on the gastric microbiota of the rhesus macaque

scientific article

The microbes we eat: abundance and taxonomy of microbes consumed in a day's worth of meals for three diet types

scientific article

The phylogenetic diversity of metagenomes

scientific article

The phylogenetic relationships of Chlorobium tepidum and Chloroflexus aurantiacus based upon their RecA sequences

scientific article

The value of complete microbial genome sequencing (you get what you pay for).

scientific article

There and back again: metagenome-assembled genomes provide new insights into two thermal pools in Kamchatka, Russia

ThinkLab as a vetting system for traditional grants

Towards Automated Phylogenomic Inference

Transcriptomes of post-mitotic neurons identify the usage of alternative pathways during adult and embryonic neuronal differentiation

scientific article published on 23 December 2015

Unsuspected diversity among marine aerobic anoxygenic phototrophs

scientific article

Use of HAPPY mapping for the higher order assembly of the Tetrahymena genome

scientific article

What does the term microbiome mean? And where did it come from? A bit of a surprise .

scholarly article published 2015

Whole genome sequence analysis reveals the broad distribution of the RtxA type 1 secretion system and four novel putative type 1 secretion systems throughout the Legionella genus

scientific article published on 14 January 2020

Whole genome sequencing of extended-spectrum β-lactamase producing Klebsiella pneumoniae isolated from a patient in Lebanon

scientific article

Whole-genome comparison of Mycobacterium tuberculosis clinical and laboratory strains

scientific article

Yeast communities of diverse Drosophila species: comparison of two symbiont groups in the same hosts

scientific article

microBEnet: lessons learned from building an interdisciplinary scientific community in the online sphere

scientific article (publication date: June 2014)

recA mutations that reduce the constitutive coprotease activity of the RecA1202(Prtc) protein: possible involvement of interfilament association in proteolytic and recombination activities

scientific article

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