Published in J Bacteriol on November 01, 2012
First genome sequences of Achromobacter phages reveal new members of the N4 family. Virol J (2014) 0.95
In silico analysis of bacterial arsenic islands reveals remarkable synteny and functional relatedness between arsenate and phosphate. Front Microbiol (2013) 0.85
Genomic evidence reveals the extreme diversity and wide distribution of the arsenic-related genes in Burkholderiales. PLoS One (2014) 0.82
Organization and regulation of the arsenite oxidase operon of the moderately acidophilic and facultative chemoautotrophic Thiomonas arsenitoxydans. Extremophiles (2013) 0.81
Draft genome sequence of Agrobacterium albertimagni strain AOL15. J Bacteriol (2012) 0.76
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The RAST Server: rapid annotations using subsystems technology. BMC Genomics (2008) 175.18
Using the miraEST assembler for reliable and automated mRNA transcript assembly and SNP detection in sequenced ESTs. Genome Res (2004) 10.40
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Draft genome sequence of Alcaligenes faecalis subsp. faecalis NCIB 8687 (CCUG 2071). J Bacteriol (2012) 1.16
Genome sequence of the highly efficient arsenite-oxidizing bacterium Achromobacter arsenitoxydans SY8. J Bacteriol (2012) 1.14
The RAST Server: rapid annotations using subsystems technology. BMC Genomics (2008) 175.18
The subsystems approach to genome annotation and its use in the project to annotate 1000 genomes. Nucleic Acids Res (2005) 29.61
Ultra-high-throughput microbial community analysis on the Illumina HiSeq and MiSeq platforms. ISME J (2012) 16.84
The National Microbial Pathogen Database Resource (NMPDR): a genomics platform based on subsystem annotation. Nucleic Acids Res (2006) 11.15
Annotation of bacterial and archaeal genomes: improving accuracy and consistency. Chem Rev (2007) 8.23
Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications. Nat Biotechnol (2011) 7.53
The Earth Microbiome Project: Meeting report of the "1 EMP meeting on sample selection and acquisition" at Argonne National Laboratory October 6 2010. Stand Genomic Sci (2010) 6.30
Meeting report: the terabase metagenomics workshop and the vision of an Earth microbiome project. Stand Genomic Sci (2010) 4.70
The complete Corynebacterium glutamicum ATCC 13032 genome sequence and its impact on the production of L-aspartate-derived amino acids and vitamins. J Biotechnol (2003) 4.40
The Genomic Standards Consortium. PLoS Biol (2011) 3.99
A predator unmasked: life cycle of Bdellovibrio bacteriovorus from a genomic perspective. Science (2004) 3.87
Whole genome analysis of the marine Bacteroidetes'Gramella forsetii' reveals adaptations to degradation of polymeric organic matter. Environ Microbiol (2006) 3.79
Cross-biome metagenomic analyses of soil microbial communities and their functional attributes. Proc Natl Acad Sci U S A (2012) 3.71
The Biological Observation Matrix (BIOM) format or: how I learned to stop worrying and love the ome-ome. Gigascience (2012) 3.24
Insights into genome plasticity and pathogenicity of the plant pathogenic bacterium Xanthomonas campestris pv. vesicatoria revealed by the complete genome sequence. J Bacteriol (2005) 3.12
Microbial arsenic: from geocycles to genes and enzymes. FEMS Microbiol Rev (2002) 2.96
Using the metagenomics RAST server (MG-RAST) for analyzing shotgun metagenomes. Cold Spring Harb Protoc (2010) 2.74
Genome sequence of the ubiquitous hydrocarbon-degrading marine bacterium Alcanivorax borkumensis. Nat Biotechnol (2006) 2.69
Reconstructing the microbial diversity and function of pre-agricultural tallgrass prairie soils in the United States. Science (2013) 2.62
The GAAS metagenomic tool and its estimations of viral and microbial average genome size in four major biomes. PLoS Comput Biol (2009) 2.61
The Earth Microbiome project: successes and aspirations. BMC Biol (2014) 2.58
Finding novel genes in bacterial communities isolated from the environment. Bioinformatics (2006) 2.55
The genome of deep-sea vent chemolithoautotroph Thiomicrospira crunogena XCL-2. PLoS Biol (2006) 2.43
Complete genome sequence of the myxobacterium Sorangium cellulosum. Nat Biotechnol (2007) 2.43
PathFinder: reconstruction and dynamic visualization of metabolic pathways. Bioinformatics (2002) 2.43
Metagenomics - a guide from sampling to data analysis. Microb Inform Exp (2012) 2.42
The Western English Channel contains a persistent microbial seed bank. ISME J (2011) 2.37
Complete genome sequence and analysis of Wolinella succinogenes. Proc Natl Acad Sci U S A (2003) 2.10
Unlocking the potential of metagenomics through replicated experimental design. Nat Biotechnol (2012) 2.08
Development of joint application strategies for two microbial gene finders. Bioinformatics (2004) 2.00
The United States of America and scientific research. PLoS One (2010) 1.98
A bacterial view of the periodic table: genes and proteins for toxic inorganic ions. J Ind Microbiol Biotechnol (2005) 1.85
Silver as biocides in burn and wound dressings and bacterial resistance to silver compounds. J Ind Microbiol Biotechnol (2006) 1.82
Genome of the epsilonproteobacterial chemolithoautotroph Sulfurimonas denitrificans. Appl Environ Microbiol (2007) 1.82
Evidence for a persistent microbial seed bank throughout the global ocean. Proc Natl Acad Sci U S A (2013) 1.78
Complete genome sequence and analysis of the multiresistant nosocomial pathogen Corynebacterium jeikeium K411, a lipid-requiring bacterium of the human skin flora. J Bacteriol (2005) 1.77
RCN4GSC Workshop Report: Managing Data at the Interface of Biodiversity and (Meta)Genomics, March 2011. Stand Genomic Sci (2012) 1.73
BACCardI--a tool for the validation of genomic assemblies, assisting genome finishing and intergenome comparison. Bioinformatics (2004) 1.73
Structure, fluctuation and magnitude of a natural grassland soil metagenome. ISME J (2012) 1.66
EMMA: a platform for consistent storage and efficient analysis of microarray data. J Biotechnol (2003) 1.62
The M5nr: a novel non-redundant database containing protein sequences and annotations from multiple sources and associated tools. BMC Bioinformatics (2012) 1.61
The genomic standards consortium: bringing standards to life for microbial ecology. ISME J (2011) 1.52
Predicting bacterial community assemblages using an artificial neural network approach. Nat Methods (2012) 1.51
Functional analysis of metagenomes and metatranscriptomes using SEED and KEGG. BMC Bioinformatics (2011) 1.48
Whole-genome sequence of Listeria welshimeri reveals common steps in genome reduction with Listeria innocua as compared to Listeria monocytogenes. J Bacteriol (2006) 1.48
Meeting Report: BioSharing at ISMB 2010. Stand Genomic Sci (2010) 1.47
Bacterial community structure and functional contributions to emergence of health or necrotizing enterocolitis in preterm infants. Microbiome (2013) 1.43
Membership and behavior of ultra-low-diversity pathogen communities present in the gut of humans during prolonged critical illness. MBio (2014) 1.42
Pyrosequencing of Mytilus galloprovincialis cDNAs: tissue-specific expression patterns. PLoS One (2010) 1.41
Transcriptional changes in response to arbuscular mycorrhiza development in the model plant Medicago truncatula. Mol Plant Microbe Interact (2003) 1.36
The missing link: Bordetella petrii is endowed with both the metabolic versatility of environmental bacteria and virulence traits of pathogenic Bordetellae. BMC Genomics (2008) 1.34
Comparative metagenomic analysis of soil microbial communities across three hexachlorocyclohexane contamination levels. PLoS One (2012) 1.33
Hybrid pathogenicity island PAGI-5 contributes to the highly virulent phenotype of a Pseudomonas aeruginosa isolate in mammals. J Bacteriol (2008) 1.33
Construction of a large signature-tagged mini-Tn5 transposon library and its application to mutagenesis of Sinorhizobium meliloti. Appl Environ Microbiol (2006) 1.31
Construction and validation of a Sinorhizobium meliloti whole genome DNA microarray: genome-wide profiling of osmoadaptive gene expression. J Biotechnol (2003) 1.30
REGANOR: a gene prediction server for prokaryotic genomes and a database of high quality gene predictions for prokaryotes. Appl Bioinformatics (2006) 1.27
The Sequence Analysis and Management System -- SAMS-2.0: data management and sequence analysis adapted to changing requirements from traditional sanger sequencing to ultrafast sequencing technologies. J Biotechnol (2009) 1.26
Arsenate reduction: thiol cascade chemistry with convergent evolution. J Mol Biol (2006) 1.25
The basis for hyperactivity of antifreeze proteins. Cryobiology (2006) 1.24
Comparison of multiple metagenomes using phylogenetic networks based on ecological indices. ISME J (2010) 1.23
The genome sequence of the tomato-pathogenic actinomycete Clavibacter michiganensis subsp. michiganensis NCPPB382 reveals a large island involved in pathogenicity. J Bacteriol (2008) 1.22
Studying the microbiology of the indoor environment. Genome Biol (2013) 1.20
The future of microbial metagenomics (or is ignorance bliss?). ISME J (2010) 1.20
Investigating the impact of storage conditions on microbial community composition in soil samples. PLoS One (2013) 1.18
A platform-independent method for detecting errors in metagenomic sequencing data: DRISEE. PLoS Comput Biol (2012) 1.18
Adenomatous polyps are driven by microbe-instigated focal inflammation and are controlled by IL-10-producing T cells. Cancer Res (2013) 1.16
The founding charter of the Genomic Observatories Network. Gigascience (2014) 1.16
Draft genome sequence of Alcaligenes faecalis subsp. faecalis NCIB 8687 (CCUG 2071). J Bacteriol (2012) 1.16
A call for an international network of genomic observatories (GOs). Gigascience (2012) 1.14
Predicted Relative Metabolomic Turnover (PRMT): determining metabolic turnover from a coastal marine metagenomic dataset. Microb Inform Exp (2011) 1.14
GISMO--gene identification using a support vector machine for ORF classification. Nucleic Acids Res (2006) 1.14
From genomics to metagenomics. Curr Opin Biotechnol (2012) 1.13
Meeting Report from the Genomic Standards Consortium (GSC) Workshop 10. Stand Genomic Sci (2010) 1.13
Unified nomenclature for genes involved in prokaryotic aerobic arsenite oxidation. J Bacteriol (2011) 1.12
Meeting Report from the Genomic Standards Consortium (GSC) Workshop 9. Stand Genomic Sci (2010) 1.10
Bioturbating shrimp alter the structure and diversity of bacterial communities in coastal marine sediments. ISME J (2010) 1.07
Bias in assessments of marine microbial biodiversity in fosmid libraries as evaluated by pyrosequencing. ISME J (2009) 1.07
Construction and validation of cDNA-based Mt6k-RIT macro- and microarrays to explore root endosymbioses in the model legume Medicago truncatula. J Biotechnol (2004) 1.06
Antimicrobial silver: uses, toxicity and potential for resistance. Biometals (2013) 1.06
Connecting genotype to phenotype in the era of high-throughput sequencing. Biochim Biophys Acta (2011) 1.05
Laser capture microdissection and metagenomic analysis of intact mucosa-associated microbial communities of human colon. Appl Microbiol Biotechnol (2010) 1.05
Omics for understanding microbial functional dynamics. Environ Microbiol (2011) 1.04
Intestinal tissues induce an SNP mutation in Pseudomonas aeruginosa that enhances its virulence: possible role in anastomotic leak. PLoS One (2012) 1.04
A Ca2+-dependent bacterial antifreeze protein domain has a novel beta-helical ice-binding fold. Biochem J (2008) 1.04
Development of bioinformatic tools to support EST-sequencing, in silico- and microarray-based transcriptome profiling in mycorrhizal symbioses. Phytochemistry (2006) 1.04
A facile method for determining ice recrystallization inhibition by antifreeze proteins. Biochem Biophys Res Commun (2003) 1.04
Metagenomes and metatranscriptomes from the L4 long-term coastal monitoring station in the Western English Channel. Stand Genomic Sci (2010) 1.01
Marine genomics: at the interface of marine microbial ecology and biodiscovery. Microb Biotechnol (2010) 1.01
Novel analysis of oceanic surface water metagenomes suggests importance of polyphosphate metabolism in oligotrophic environments. PLoS One (2011) 1.01