Published in Nucleic Acids Res on November 28, 2012
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Complete nitrification by a single microorganism. Nature (2015) 1.72
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An expanded genomic representation of the phylum cyanobacteria. Genome Biol Evol (2014) 1.56
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Optimal eukaryotic 18S and universal 16S/18S ribosomal RNA primers and their application in a study of symbiosis. PLoS One (2014) 1.49
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Structural Diversity of Bacterial Communities Associated with Bloom-Forming Freshwater Cyanobacteria Differs According to the Cyanobacterial Genus. PLoS One (2015) 1.45
Novel biogenic aggregation of moss gemmae on a disappearing African glacier. PLoS One (2014) 1.45
Hydrocarbon-degrading bacteria enriched by the Deepwater Horizon oil spill identified by cultivation and DNA-SIP. ISME J (2013) 1.44
On the reversibility of parasitism: adaptation to a free-living lifestyle via gene acquisitions in the diplomonad Trepomonas sp. PC1. BMC Biol (2016) 1.43
The 5300-year-old Helicobacter pylori genome of the Iceman. Science (2016) 1.41
Novel PCR primers for the archaeal phylum Thaumarchaeota designed based on the comparative analysis of 16S rRNA gene sequences. PLoS One (2014) 1.39
A Novel Colonial Ciliate Zoothamnium ignavum sp. nov. (Ciliophora, Oligohymenophorea) and Its Ectosymbiont Candidatus Navis piranensis gen. nov., sp. nov. from Shallow-Water Wood Falls. PLoS One (2016) 1.39
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The nasopharyngeal microbiota of beef cattle before and after transport to a feedlot. BMC Microbiol (2017) 1.37
Divergent Viruses Discovered in Arthropods and Vertebrates Revise the Evolutionary History of the Flaviviridae and Related Viruses. J Virol (2015) 1.35
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The microbiology of deep-sea hydrothermal vent plumes: ecological and biogeographic linkages to seafloor and water column habitats. Front Microbiol (2013) 1.30
Gut microbiome and dietary patterns in different Saudi populations and monkeys. Sci Rep (2016) 1.29
Antibacterial gene transfer across the tree of life. Elife (2014) 1.28
Biogeographic patterns in below-ground diversity in New York City's Central Park are similar to those observed globally. Proc Biol Sci (2014) 1.27
Host-specificity among abundant and rare taxa in the sponge microbiome. ISME J (2014) 1.26
Primer and platform effects on 16S rRNA tag sequencing. Front Microbiol (2015) 1.22
MEGAN Community Edition - Interactive Exploration and Analysis of Large-Scale Microbiome Sequencing Data. PLoS Comput Biol (2016) 1.22
Peripheral benzodiazepine receptor/translocator protein global knock-out mice are viable with no effects on steroid hormone biosynthesis. J Biol Chem (2014) 1.21
Microbial diversity and community respiration in freshwater sediments influenced by artificial light at night. Philos Trans R Soc Lond B Biol Sci (2015) 1.19
Characterization of the 18S rRNA gene for designing universal eukaryote specific primers. PLoS One (2014) 1.19
Bacteriocin production augments niche competition by enterococci in the mammalian gastrointestinal tract. Nature (2015) 1.19
Back to Basics--The Influence of DNA Extraction and Primer Choice on Phylogenetic Analysis of Activated Sludge Communities. PLoS One (2015) 1.17
The human mycobiome in health and disease. Genome Med (2013) 1.16
Alteration of the murine gastrointestinal microbiota by tigecycline leads to increased susceptibility to Clostridium difficile infection. Antimicrob Agents Chemother (2014) 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
Distinct signatures of host-microbial meta-metabolome and gut microbiome in two C57BL/6 strains under high-fat diet. ISME J (2014) 1.13
Metagenomics: tools and insights for analyzing next-generation sequencing data derived from biodiversity studies. Bioinform Biol Insights (2015) 1.13
Antibiotics in ingested human blood affect the mosquito microbiota and capacity to transmit malaria. Nat Commun (2015) 1.09
Global dispersion and local diversification of the methane seep microbiome. Proc Natl Acad Sci U S A (2015) 1.08
Thermophilic archaea activate butane via alkyl-coenzyme M formation. Nature (2016) 1.08
Intragenomic heterogeneity of 16S rRNA genes causes overestimation of prokaryotic diversity. Appl Environ Microbiol (2013) 1.08
The female urinary microbiome in urgency urinary incontinence. Am J Obstet Gynecol (2015) 1.08
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Soil microbial community responses to a decade of warming as revealed by comparative metagenomics. Appl Environ Microbiol (2013) 1.07
Alterations in human milk leptin and insulin are associated with early changes in the infant intestinal microbiome. Am J Clin Nutr (2016) 1.07
Longitudinal study of murine microbiota activity and interactions with the host during acute inflammation and recovery. ISME J (2014) 1.06
The effect of primer choice and short read sequences on the outcome of 16S rRNA gene based diversity studies. PLoS One (2013) 1.06
Farming behaviour of reef fishes increases the prevalence of coral disease associated microbes and black band disease. Proc Biol Sci (2014) 1.05
Sample storage conditions significantly influence faecal microbiome profiles. Sci Rep (2015) 1.05
Characterization and quantification of the fungal microbiome in serial samples from individuals with cystic fibrosis. Microbiome (2014) 1.05
Evidence of natural Wolbachia infections in field populations of Anopheles gambiae. Nat Commun (2014) 1.05
Intergenomic comparisons highlight modularity of the denitrification pathway and underpin the importance of community structure for N2O emissions. PLoS One (2014) 1.05
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Deriving accurate microbiota profiles from human samples with low bacterial content through post-sequencing processing of Illumina MiSeq data. Microbiome (2015) 1.04
Microbial communities of deep-sea methane seeps at Hikurangi continental margin (New Zealand). PLoS One (2013) 1.04
Tax4Fun: predicting functional profiles from metagenomic 16S rRNA data. Bioinformatics (2015) 1.04
DegePrime, a program for degenerate primer design for broad-taxonomic-range PCR in microbial ecology studies. Appl Environ Microbiol (2014) 1.04
Microbial community composition and diversity via 16S rRNA gene amplicons: evaluating the illumina platform. PLoS One (2015) 1.04
Diverse alkane hydroxylase genes in microorganisms and environments. Sci Rep (2014) 1.04
MiDAS: the field guide to the microbes of activated sludge. Database (Oxford) (2015) 1.04
LotuS: an efficient and user-friendly OTU processing pipeline. Microbiome (2014) 1.03
Comparative genomics reveals candidate carotenoid pathway regulators of ripening watermelon fruit. BMC Genomics (2013) 1.03
Diverse sulfate-reducing bacteria of the Desulfosarcina/Desulfococcus clade are the key alkane degraders at marine seeps. ISME J (2014) 1.03
Microbial diversity in The Cedars, an ultrabasic, ultrareducing, and low salinity serpentinizing ecosystem. Proc Natl Acad Sci U S A (2013) 1.03
Brood ball-mediated transmission of microbiome members in the dung beetle, Onthophagus taurus (Coleoptera: Scarabaeidae). PLoS One (2013) 1.03
Illuminating microbial dark matter in meromictic Sakinaw Lake. Appl Environ Microbiol (2014) 1.03
Investigation of the effect of type 2 diabetes mellitus on subgingival plaque microbiota by high-throughput 16S rDNA pyrosequencing. PLoS One (2013) 1.03
A new era in palaeomicrobiology: prospects for ancient dental calculus as a long-term record of the human oral microbiome. Philos Trans R Soc Lond B Biol Sci (2015) 1.02
Microbiota disbiosis is associated with colorectal cancer. Front Microbiol (2015) 1.02
Pyrosequencing-based assessment of the bacteria diversity in surface and subsurface peat layers of a northern wetland, with focus on poorly studied phyla and candidate divisions. PLoS One (2013) 1.02
Parasites in algae mass culture. Front Microbiol (2014) 1.02
Ecological consistency of SSU rRNA-based operational taxonomic units at a global scale. PLoS Comput Biol (2014) 1.02
Stimulation of growth by proteorhodopsin phototrophy involves regulation of central metabolic pathways in marine planktonic bacteria. Proc Natl Acad Sci U S A (2014) 1.02
Diversity, structure and convergent evolution of the global sponge microbiome. Nat Commun (2016) 1.01
Dead or alive: Deoxyribonuclease I sensitive bacteria and implications for the sinus microbiome. Am J Rhinol Allergy (2015) 1.01
Stable and sporadic symbiotic communities of coral and algal holobionts. ISME J (2015) 1.01
Transcriptomics-based screen for genes induced by flagellin and repressed by pathogen effectors identifies a cell wall-associated kinase involved in plant immunity. Genome Biol (2013) 1.01
Endospores of thermophilic bacteria as tracers of microbial dispersal by ocean currents. ISME J (2013) 1.01
Determining the culturability of the rumen bacterial microbiome. Microb Biotechnol (2014) 1.00
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QIIME allows analysis of high-throughput community sequencing data. Nat Methods (2010) 85.34
Introducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol (2009) 77.55
ARB: a software environment for sequence data. Nucleic Acids Res (2004) 58.27
Greengenes, a chimera-checked 16S rRNA gene database and workbench compatible with ARB. Appl Environ Microbiol (2006) 57.72
The Ribosomal Database Project: improved alignments and new tools for rRNA analysis. Nucleic Acids Res (2008) 52.43
Search and clustering orders of magnitude faster than BLAST. Bioinformatics (2010) 51.97
The metagenomics RAST server - a public resource for the automatic phylogenetic and functional analysis of metagenomes. BMC Bioinformatics (2008) 29.20
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Archaeal diversity in waters from deep South African gold mines. Appl Environ Microbiol (2001) 3.36
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Novel lineages of Planctomycetes densely colonize the alkaline gut of soil-feeding termites (Cubitermes spp.). Environ Microbiol (2008) 1.76
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Evaluation of general 16S ribosomal RNA gene PCR primers for classical and next-generation sequencing-based diversity studies. Nucleic Acids Res (2012) 6.21
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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
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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
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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
Release LTPs104 of the All-Species Living Tree. Syst Appl Microbiol (2011) 2.46
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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
Comparative sequence analysis and oligonucleotide probe design based on 23S rRNA genes of Alphaproteobacteria from North Sea bacterioplankton. Syst Appl Microbiol (2004) 1.91
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Optimization strategies for DNA microarray-based detection of bacteria with 16S rRNA-targeting oligonucleotide probes. Appl Environ Microbiol (2003) 1.70
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Combined approach for characterization of uncultivated magnetotactic bacteria from various aquatic environments. Appl Environ Microbiol (2005) 1.36
Genome and physiology of a model Epsilonproteobacterium responsible for sulfide detoxification in marine oxygen depletion zones. Proc Natl Acad Sci U S A (2011) 1.35
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Genomic content of uncultured Bacteroidetes from contrasting oceanic provinces in the North Atlantic Ocean. Environ Microbiol (2011) 1.28
The genome of the alga-associated marine flavobacterium Formosa agariphila KMM 3901T reveals a broad potential for degradation of algal polysaccharides. Appl Environ Microbiol (2013) 1.22
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Fine-scale evolution: genomic, phenotypic and ecological differentiation in two coexisting Salinibacter ruber strains. ISME J (2010) 1.17
The founding charter of the Genomic Observatories Network. Gigascience (2014) 1.16
Complete genome sequence of Marinobacter adhaerens type strain (HP15), a diatom-interacting marine microorganism. Stand Genomic Sci (2010) 1.14
Genome sequence of Desulfobacterium autotrophicum HRM2, a marine sulfate reducer oxidizing organic carbon completely to carbon dioxide. Environ Microbiol (2009) 1.14
Microbial and chemical characterization of underwater fresh water springs in the Dead Sea. PLoS One (2012) 1.11
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Meeting Report from the Genomic Standards Consortium (GSC) Workshop 9. Stand Genomic Sci (2010) 1.10
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Insights into the genomes of archaea mediating the anaerobic oxidation of methane. Environ Microbiol (2005) 1.10
Meeting Report: "Metagenomics, Metadata and Meta-analysis" (M3) Special Interest Group at ISMB 2009. Stand Genomic Sci (2009) 1.10
Genomics in marine monitoring: new opportunities for assessing marine health status. Mar Pollut Bull (2013) 1.09
Ecogenomics and genome landscapes of marine Pseudoalteromonas phage H105/1. ISME J (2010) 1.09
Proceedings of the international workshop on Ribosomal RNA technology, April 7-9, 2008, Bremen, Germany. Syst Appl Microbiol (2008) 1.08
Unveiling microbial life in the new deep-sea hypersaline Lake Thetis. Part II: a metagenomic study. Environ Microbiol (2011) 1.08
Phylogenetic diversity and metagenomics of candidate division OP3. Environ Microbiol (2010) 1.06
Clustered genes related to sulfate respiration in uncultured prokaryotes support the theory of their concomitant horizontal transfer. J Bacteriol (2005) 1.05
Single-cell analysis reveals a novel uncultivated magnetotactic bacterium within the candidate division OP3. Environ Microbiol (2011) 1.03
The metavirome of a hypersaline environment. Environ Microbiol (2010) 1.02
Application and validation of DNA microarrays for the 16S rRNA-based analysis of marine bacterioplankton. Environ Microbiol (2004) 1.01
Characterization of Planctomyces limnophilus and development of genetic tools for its manipulation establish it as a model species for the phylum Planctomycetes. Appl Environ Microbiol (2011) 1.01
Analysis of N-acetylglucosamine metabolism in the marine bacterium Pirellula sp. strain 1 by a proteomic approach. Proteomics (2002) 1.01
Evaluation of the phylogenetic position of the planctomycete 'Rhodopirellula baltica' SH 1 by means of concatenated ribosomal protein sequences, DNA-directed RNA polymerase subunit sequences and whole genome trees. Int J Syst Evol Microbiol (2004) 1.00
Practical application of self-organizing maps to interrelate biodiversity and functional data in NGS-based metagenomics. ISME J (2010) 1.00
Phylogenetic characterisation of picoplanktonic populations with high and low nucleic acid content in the North Atlantic Ocean. Syst Appl Microbiol (2011) 1.00
A DNA microarray platform based on direct detection of rRNA for characterization of freshwater sediment-related prokaryotic communities. Appl Environ Microbiol (2006) 0.99
Expression of sulfatases in Rhodopirellula baltica and the diversity of sulfatases in the genus Rhodopirellula. Mar Genomics (2012) 0.97
Identification of proteins likely to be involved in morphogenesis, cell division, and signal transduction in Planctomycetes by comparative genomics. J Bacteriol (2012) 0.97
Graphical representation of ribosomal RNA probe accessibility data using ARB software package. BMC Bioinformatics (2005) 0.97
Transcriptional response of the model planctomycete Rhodopirellula baltica SH1(T) to changing environmental conditions. BMC Genomics (2009) 0.96
Psychrobacter nivimaris sp. nov., a heterotrophic bacterium attached to organic particles isolated from the South Atlantic (Antarctica). Syst Appl Microbiol (2004) 0.96
Sequencing orphan species initiative (SOS): Filling the gaps in the 16S rRNA gene sequence database for all species with validly published names. Syst Appl Microbiol (2013) 0.96
A metagenomics portal for a democratized sequencing world. Methods Enzymol (2013) 0.93
Genome and proteome characterization of the psychrophilic Flavobacterium bacteriophage 11b. Extremophiles (2006) 0.92
Data shopping in an open marketplace: Introducing the Ontogrator web application for marking up data using ontologies and browsing using facets. Stand Genomic Sci (2011) 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
Meeting report: GSC M5 roundtable at the 13th International Society for Microbial Ecology meeting in Seattle, WA, USA August 22-27, 2010. Stand Genomic Sci (2010) 0.90
Extremely halophilic microbial communities in anaerobic sediments from a solar saltern. Environ Microbiol Rep (2009) 0.90
Detailed proteome analysis of growing cells of the planctomycete Rhodopirellula baltica SH1T. Proteomics (2008) 0.89