Published in Syst Appl Microbiol on August 09, 2008
The SILVA ribosomal RNA gene database project: improved data processing and web-based tools. Nucleic Acids Res (2012) 19.48
Shifting the genomic gold standard for the prokaryotic species definition. Proc Natl Acad Sci U S A (2009) 17.13
LPSN--list of prokaryotic names with standing in nomenclature. Nucleic Acids Res (2013) 4.45
Transforming clinical microbiology with bacterial genome sequencing. Nat Rev Genet (2012) 4.29
DECIPHER, a search-based approach to chimera identification for 16S rRNA sequences. Appl Environ Microbiol (2011) 2.63
The human nasal microbiota and Staphylococcus aureus carriage. PLoS One (2010) 2.50
PhyloPhlAn is a new method for improved phylogenetic and taxonomic placement of microbes. Nat Commun (2013) 2.28
Complete genome sequence of Meiothermus ruber type strain (21). Stand Genomic Sci (2010) 1.96
The Exiguobacterium genus: biodiversity and biogeography. Extremophiles (2009) 1.91
The SILVA and "All-species Living Tree Project (LTP)" taxonomic frameworks. Nucleic Acids Res (2013) 1.85
Selective pressure of antibiotic pollution on bacteria of importance to public health. Environ Health Perspect (2012) 1.65
Genomic encyclopedia of bacteria and archaea: sequencing a myriad of type strains. PLoS Biol (2014) 1.64
Microbiome diversity in the bronchial tracts of patients with chronic obstructive pulmonary disease. J Clin Microbiol (2012) 1.61
Evolution of multicellularity coincided with increased diversification of cyanobacteria and the Great Oxidation Event. Proc Natl Acad Sci U S A (2013) 1.57
Evolution of diverse cell division and vesicle formation systems in Archaea. Nat Rev Microbiol (2010) 1.55
Benchmarking of methods for genomic taxonomy. J Clin Microbiol (2014) 1.51
Taxonomic classification of bacterial 16S rRNA genes using short sequencing reads: evaluation of effective study designs. PLoS One (2013) 1.46
Differences in the Faecal Microbiome in Schistosoma haematobium Infected Children vs. Uninfected Children. PLoS Negl Trop Dis (2015) 1.46
Toward an efficient method of identifying core genes for evolutionary and functional microbial phylogenies. PLoS One (2011) 1.45
Phylotype-level 16S rRNA analysis reveals new bacterial indicators of health state in acute murine colitis. ISME J (2012) 1.43
The first 1000 cultured species of the human gastrointestinal microbiota. FEMS Microbiol Rev (2014) 1.34
A systematic approach for discovering novel, clinically relevant bacteria. Emerg Infect Dis (2012) 1.33
Building megaphylogenies for macroecology: taking up the challenge. Ecography (Cop.) (2013) 1.28
Correlations between bacterial ecology and mobile DNA. Curr Microbiol (2010) 1.20
A proposed genus boundary for the prokaryotes based on genomic insights. J Bacteriol (2014) 1.18
Ecology of speciation in the genus Bacillus. Appl Environ Microbiol (2010) 1.16
Differential habitat use and niche partitioning by Pseudomonas species in human homes. Microb Ecol (2011) 1.15
Complete genome sequence of Marinobacter adhaerens type strain (HP15), a diatom-interacting marine microorganism. Stand Genomic Sci (2010) 1.14
Functional type 2 photosynthetic reaction centers found in the rare bacterial phylum Gemmatimonadetes. Proc Natl Acad Sci U S A (2014) 1.13
Novel insights into the diversity of catabolic metabolism from ten haloarchaeal genomes. PLoS One (2011) 1.11
Clostridiaceae and Enterobacteriaceae as active fermenters in earthworm gut content. ISME J (2010) 1.08
Ecophysiological characterization of ammonia-oxidizing archaea and bacteria from freshwater. Appl Environ Microbiol (2012) 1.06
After All, Only Millions? MBio (2016) 1.05
Zika virus evolution and spread in the Americas. Nature (2017) 1.03
1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life. Nat Biotechnol (2017) 1.01
Targeted recovery of novel phylogenetic diversity from next-generation sequence data. ISME J (2012) 1.00
Complete genome sequence of Sulfurimonas autotrophica type strain (OK10). Stand Genomic Sci (2010) 1.00
Small RNAs in the genus Clostridium. MBio (2011) 1.00
Generation and analysis of a mouse intestinal metatranscriptome through Illumina based RNA-sequencing. PLoS One (2012) 0.99
Competing formate- and carbon dioxide-utilizing prokaryotes in an anoxic methane-emitting fen soil. Appl Environ Microbiol (2011) 0.99
Diversity of anaerobic microbes in spacecraft assembly clean rooms. Appl Environ Microbiol (2010) 0.99
Refining the roots of the beewolf-Streptomyces symbiosis: antennal symbionts in the rare genus Philanthinus (Hymenoptera, Crabronidae). Appl Environ Microbiol (2011) 0.99
Complete genome sequence of Aminobacterium colombiense type strain (ALA-1). Stand Genomic Sci (2010) 0.99
Complete genome sequence of Arcobacter nitrofigilis type strain (CI). Stand Genomic Sci (2010) 0.99
Complete genome sequence of Planctomyces limnophilus type strain (Mü 290). Stand Genomic Sci (2010) 0.98
Detection of transient bacteraemia following dental extractions by 16S rDNA pyrosequencing: a pilot study. PLoS One (2013) 0.97
Bacterial community associated with the intestinal tract of P. monodon in commercial farms. Microb Ecol (2011) 0.97
Metaproteogenomic insights beyond bacterial response to naphthalene exposure and bio-stimulation. ISME J (2012) 0.96
Microbial diversity of a Brazilian coastal region influenced by an upwelling system and anthropogenic activity. PLoS One (2011) 0.95
The complete genome sequence of Thermoproteus tenax: a physiologically versatile member of the Crenarchaeota. PLoS One (2011) 0.95
Coastal bacterioplankton community dynamics in response to a natural disturbance. PLoS One (2013) 0.94
Complete genome sequence of Thermobispora bispora type strain (R51). Stand Genomic Sci (2010) 0.94
Oligonucleotide primers, probes and molecular methods for the environmental monitoring of methanogenic archaea. Microb Biotechnol (2011) 0.93
Single-molecule long-read 16S sequencing to characterize the lung microbiome from mechanically ventilated patients with suspected pneumonia. J Clin Microbiol (2014) 0.93
Composition and stability of the microbial community inside the digestive tract of the aquatic crustacean Daphnia magna. Microb Ecol (2011) 0.93
Evolution of the protein stoichiometry in the L12 stalk of bacterial and organellar ribosomes. Nat Commun (2013) 0.92
VITCOMIC: visualization tool for taxonomic compositions of microbial communities based on 16S rRNA gene sequences. BMC Bioinformatics (2010) 0.92
Desulfosporosinus acididurans sp. nov.: an acidophilic sulfate-reducing bacterium isolated from acidic sediments. Extremophiles (2014) 0.91
Stomatobaculum longum gen. nov., sp. nov., an obligately anaerobic bacterium from the human oral cavity. Int J Syst Evol Microbiol (2012) 0.91
Isolation and characterization of anaerobic bacteria for symbiotic recycling of uric acid nitrogen in the gut of various termites. Microbes Environ (2012) 0.91
Taxonomic and functional metagenomic profiling of the microbial community in the anoxic sediment of a sub-saline shallow lake (Laguna de Carrizo, Central Spain). Microb Ecol (2011) 0.91
Genome sequence of strain HIMB624, a cultured representative from the OM43 clade of marine Betaproteobacteria. Stand Genomic Sci (2012) 0.90
Complete genome sequence of Spirochaeta smaragdinae type strain (SEBR 4228). Stand Genomic Sci (2010) 0.90
Complete genome sequence of Nocardiopsis dassonvillei type strain (IMRU 509). Stand Genomic Sci (2010) 0.90
Complete genome sequence of Olsenella uli type strain (VPI D76D-27C). Stand Genomic Sci (2010) 0.90
CVTree3 Web Server for Whole-genome-based and Alignment-free Prokaryotic Phylogeny and Taxonomy. Genomics Proteomics Bioinformatics (2015) 0.89
Metatranscriptomics reveals overall active bacterial composition in caries lesions. J Oral Microbiol (2014) 0.89
Bacterial diversity in the rhizosphere of maize and the surrounding carbonate-rich bulk soil. Microb Biotechnol (2012) 0.89
Horizontal Gene Transfers in prokaryotes show differential preferences for metabolic and translational genes. BMC Evol Biol (2009) 0.88
Relationship between Milk Microbiota, Bacterial Load, Macronutrients, and Human Cells during Lactation. Front Microbiol (2016) 0.88
Microbial stratification in low pH oxic and suboxic macroscopic growths along an acid mine drainage. ISME J (2014) 0.88
Characterization of intestinal bacteria in wild and domesticated adult black tiger shrimp (Penaeus monodon). PLoS One (2014) 0.87
Permanent draft genome sequence of Dethiosulfovibrio peptidovorans type strain (SEBR 4207). Stand Genomic Sci (2010) 0.87
Movement of DNA sequence recognition domains between non-orthologous proteins. Nucleic Acids Res (2012) 0.87
Complete genome sequence of Archaeoglobus profundus type strain (AV18). Stand Genomic Sci (2010) 0.87
Newly cultured bacteria with broad diversity isolated from eight-week continuous culture enrichments of cow feces on complex polysaccharides. Appl Environ Microbiol (2013) 0.86
A Single-cell genome for Thiovulum sp. Appl Environ Microbiol (2012) 0.86
Comparative genomic analysis of phylogenetically closely related Hydrogenobaculum sp. isolates from Yellowstone National Park. Appl Environ Microbiol (2013) 0.86
Complete genome sequence of Ignisphaera aggregans type strain (AQ1.S1). Stand Genomic Sci (2010) 0.84
Complete genome sequence of Thermosediminibacter oceani type strain (JW/IW-1228P). Stand Genomic Sci (2010) 0.84
Recognition of potentially novel human disease-associated pathogens by implementation of systematic 16S rRNA gene sequencing in the diagnostic laboratory. J Clin Microbiol (2010) 0.84
Complete genome sequence of Methanoplanus petrolearius type strain (SEBR 4847). Stand Genomic Sci (2010) 0.84
Complete genome sequence of Thermomonospora curvata type strain (B9). Stand Genomic Sci (2011) 0.84
Intein Clustering Suggests Functional Importance in Different Domains of Life. Mol Biol Evol (2015) 0.83
Phylogeny of Rieske/cytb complexes with a special focus on the Haloarchaeal enzymes. Genome Biol Evol (2012) 0.83
Genomic evolution of 11 type strains within family Planctomycetaceae. PLoS One (2014) 0.83
Phylogenetic construction of 17 bacterial phyla by new method and carefully selected orthologs. Gene (2008) 0.83
Draft genome sequence of strain HIMB100, a cultured representative of the SAR116 clade of marine Alphaproteobacteria. Stand Genomic Sci (2011) 0.83
Complete genome sequence of Syntrophothermus lipocalidus type strain (TGB-C1). Stand Genomic Sci (2010) 0.83
Peat: home to novel syntrophic species that feed acetate- and hydrogen-scavenging methanogens. ISME J (2016) 0.83
Complete genome sequence of Bacteroides helcogenes type strain (P 36-108). Stand Genomic Sci (2011) 0.82
Sorting out the mix in microbial genomics. Environ Microbiol (2008) 0.82
Non-cyanobacterial diazotrophs mediate dinitrogen fixation in biological soil crusts during early crust formation. ISME J (2015) 0.82
The Vein Patterning 1 (VEP1) gene family laterally spread through an ecological network. PLoS One (2011) 0.81
Dynamics of microbial community composition and soil organic carbon mineralization in soil following addition of pyrogenic and fresh organic matter. ISME J (2016) 0.81
Complete genome sequence of Meiothermus silvanus type strain (VI-R2). Stand Genomic Sci (2010) 0.81
Genome-scale co-evolutionary inference identifies functions and clients of bacterial Hsp90. PLoS Genet (2013) 0.81
ARB: a software environment for sequence data. Nucleic Acids Res (2004) 58.27
SILVA: a comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB. Nucleic Acids Res (2007) 35.65
The minimum information about a genome sequence (MIGS) specification. Nat Biotechnol (2008) 31.04
The SILVA ribosomal RNA gene database project: improved data processing and web-based tools. Nucleic Acids Res (2012) 19.48
Shifting the genomic gold standard for the prokaryotic species definition. Proc Natl Acad Sci U S A (2009) 17.13
Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications. Nat Biotechnol (2011) 7.53
SINA: accurate high-throughput multiple sequence alignment of ribosomal RNA genes. Bioinformatics (2012) 6.40
Evaluation of general 16S ribosomal RNA gene PCR primers for classical and next-generation sequencing-based diversity studies. Nucleic Acids Res (2012) 6.21
Fluorescence in situ hybridization and catalyzed reporter deposition for the identification of marine bacteria. Appl Environ Microbiol (2002) 5.90
Symbiosis insights through metagenomic analysis of a microbial consortium. Nature (2006) 5.04
TETRA: a web-service and a stand-alone program for the analysis and comparison of tetranucleotide usage patterns in DNA sequences. BMC Bioinformatics (2004) 4.67
Revealing structure and assembly cues for Arabidopsis root-inhabiting bacterial microbiota. Nature (2012) 4.42
Massive nitrogen loss from the Benguela upwelling system through anaerobic ammonium oxidation. Proc Natl Acad Sci U S A (2005) 4.15
Application of tetranucleotide frequencies for the assignment of genomic fragments. Environ Microbiol (2004) 4.12
Substrate-controlled succession of marine bacterioplankton populations induced by a phytoplankton bloom. Science (2012) 4.11
The Genomic Standards Consortium. PLoS Biol (2011) 3.99
Whole genome analysis of the marine Bacteroidetes'Gramella forsetii' reveals adaptations to degradation of polymeric organic matter. Environ Microbiol (2006) 3.79
Laying the foundation for a Genomic Rosetta Stone: creating information hubs through the use of consensus identifiers. OMICS (2008) 3.71
Diversity and structure of bacterial communities in Arctic versus Antarctic pack ice. Appl Environ Microbiol (2003) 3.50
Diversity and distribution of methanotrophic archaea at cold seeps. Appl Environ Microbiol (2005) 3.45
Oligonucleotide microarray for 16S rRNA gene-based detection of all recognized lineages of sulfate-reducing prokaryotes in the environment. Appl Environ Microbiol (2002) 3.26
Revising the nitrogen cycle in the Peruvian oxygen minimum zone. Proc Natl Acad Sci U S A (2009) 3.11
Megx.net--database resources for marine ecological genomics. Nucleic Acids Res (2006) 3.09
Linking crenarchaeal and bacterial nitrification to anammox in the Black Sea. Proc Natl Acad Sci U S A (2007) 2.82
A standard MIGS/MIMS compliant XML Schema: toward the development of the Genomic Contextual Data Markup Language (GCDML). OMICS (2008) 2.82
Insights into the genome of large sulfur bacteria revealed by analysis of single filaments. PLoS Biol (2007) 2.69
Oligonucleotide microarray for identification of Enterococcus species. FEMS Microbiol Lett (2005) 2.67
Release LTPs104 of the All-Species Living Tree. Syst Appl Microbiol (2011) 2.46
Microbial reefs in the Black Sea fueled by anaerobic oxidation of methane. Science (2002) 2.45
Predominant archaea in marine sediments degrade detrital proteins. Nature (2013) 2.41
Detoxification of sulphidic African shelf waters by blooming chemolithotrophs. Nature (2008) 2.37
Salinibacter ruber gen. nov., sp. nov., a novel, extremely halophilic member of the Bacteria from saltern crystallizer ponds. Int J Syst Evol Microbiol (2002) 2.29
A single-cell view on the ecophysiology of anaerobic phototrophic bacteria. Proc Natl Acad Sci U S A (2008) 2.23
In situ accessibility of small-subunit rRNA of members of the domains Bacteria, Archaea, and Eucarya to Cy3-labeled oligonucleotide probes. Appl Environ Microbiol (2003) 2.15
Megx.net: integrated database resource for marine ecological genomics. Nucleic Acids Res (2009) 2.12
Toward a standards-compliant genomic and metagenomic publication record. OMICS (2008) 2.11
A conspicuous nickel protein in microbial mats that oxidize methane anaerobically. Nature (2003) 2.10
An improved protocol for quantification of freshwater Actinobacteria by fluorescence in situ hybridization. Appl Environ Microbiol (2003) 2.09
Novel microbial communities of the Haakon Mosby mud volcano and their role as a methane sink. Nature (2006) 2.06
High rate of uptake of organic nitrogen compounds by Prochlorococcus cyanobacteria as a key to their dominance in oligotrophic oceanic waters. Appl Environ Microbiol (2003) 2.03
Comparison of fluorescently labeled oligonucleotide and polynucleotide probes for the detection of pelagic marine bacteria and archaea. Appl Environ Microbiol (2002) 1.96
Actinobacterial 16S rRNA genes from freshwater habitats cluster in four distinct lineages. Environ Microbiol (2004) 1.94
Comparative sequence analysis and oligonucleotide probe design based on 23S rRNA genes of Alphaproteobacteria from North Sea bacterioplankton. Syst Appl Microbiol (2004) 1.91
Meeting Report from the Genomic Standards Consortium (GSC) Workshops 6 and 7. Stand Genomic Sci (2009) 1.89
Hydrogen is an energy source for hydrothermal vent symbioses. Nature (2011) 1.86
The SILVA and "All-species Living Tree Project (LTP)" taxonomic frameworks. Nucleic Acids Res (2013) 1.85
Comparative genome analysis of four magnetotactic bacteria reveals a complex set of group-specific genes implicated in magnetosome biomineralization and function. J Bacteriol (2007) 1.80
Latitudinal distribution of prokaryotic picoplankton populations in the Atlantic Ocean. Environ Microbiol (2009) 1.76
Ecology of marine Bacteroidetes: a comparative genomics approach. ISME J (2013) 1.76
Optimization strategies for DNA microarray-based detection of bacteria with 16S rRNA-targeting oligonucleotide probes. Appl Environ Microbiol (2003) 1.70
Meeting report: the fifth Genomic Standards Consortium (GSC) workshop. OMICS (2008) 1.66
Single-cell genomics reveals the lifestyle of Poribacteria, a candidate phylum symbiotically associated with marine sponges. ISME J (2010) 1.66
Update of the All-Species Living Tree Project based on 16S and 23S rRNA sequence analyses. Syst Appl Microbiol (2010) 1.58
Diversity and abundance of aerobic and anaerobic methane oxidizers at the Haakon Mosby Mud Volcano, Barents Sea. Appl Environ Microbiol (2007) 1.58
Metagenome and mRNA expression analyses of anaerobic methanotrophic archaea of the ANME-1 group. Environ Microbiol (2009) 1.53
The genomic standards consortium: bringing standards to life for microbial ecology. ISME J (2011) 1.52
Characterization of a marine gammaproteobacterium capable of aerobic anoxygenic photosynthesis. Proc Natl Acad Sci U S A (2007) 1.51
Archaea of the Miscellaneous Crenarchaeotal Group are abundant, diverse and widespread in marine sediments. ISME J (2012) 1.51
Current opportunities and challenges in microbial metagenome analysis--a bioinformatic perspective. Brief Bioinform (2012) 1.50
A standard operating procedure for phylogenetic inference (SOPPI) using (rRNA) marker genes. Syst Appl Microbiol (2008) 1.48
Identification of DNA-synthesizing bacterial cells in coastal North Sea plankton. Appl Environ Microbiol (2002) 1.48
Characterization of bacterial operons consisting of two tubulins and a kinesin-like gene by the novel Two-Step Gene Walking method. Nucleic Acids Res (2007) 1.45
Flow sorting of marine bacterioplankton after fluorescence in situ hybridization. Appl Environ Microbiol (2004) 1.45
Thermophilic anaerobic oxidation of methane by marine microbial consortia. ISME J (2011) 1.44
Toward cloning of the magnetotactic metagenome: identification of magnetosome island gene clusters in uncultivated magnetotactic bacteria from different aquatic sediments. Appl Environ Microbiol (2009) 1.42
A microdiversity study of anammox bacteria reveals a novel Candidatus Scalindua phylotype in marine oxygen minimum zones. Environ Microbiol (2008) 1.42