Proposal to reclassify the proteobacterial classes Deltaproteobacteria and Oligoflexia, and the phylum Thermodesulfobacteria into four phyla reflecting major functional capabilities
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November 2020 |
Diversity and vertical distribution of cultured and uncultured Deltaproteobacteria in an intertidal mud flat of the Wadden Sea
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March 2005 |
Diversity of Sulfate-Reducing Bacteria in Oxic and Anoxic Regions of a Microbial Mat Characterized by Comparative Analysis of Dissimilatory Sulfite Reductase Genes
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October 1999 |
Sulfidogenesis under extremely haloalkaline conditions by Desulfonatronospira thiodismutans gen. nov., sp. nov., and Desulfonatronospira delicata sp. nov. - a novel lineage of Deltaproteobacteria from hypersaline soda lakes
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May 2008 |
Mercury methylation coupled to iron reduction by dissimilatory iron-reducing bacteria
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March 2015 |
Mercury Methylation by Novel Microorganisms from New Environments
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September 2013 |
Genomic insights into the metabolic potential of the polycyclic aromatic hydrocarbon degrading sulfate-reducing Deltaproteobacterium N47: The genome of an anaerobic naphthalene degrader
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December 2010 |
Insights into ecological role of a new deltaproteobacterial order Candidatus Acidulodesulfobacterales by metagenomics and metatranscriptomics
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April 2019 |
Predominant but Previously-overlooked Prokaryotic Drivers of Reductive Nitrogen Transformation in Paddy Soils, Revealed by Metatranscriptomics
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January 2017 |
Genome-Guided Identification of Organohalide-Respiring Deltaproteobacteria from the Marine Environment
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December 2018 |
Phylogenetic analysis of dissimilatory Fe(III)-reducing bacteria.
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April 1996 |
Biology and global distribution of myxobacteria in soils
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October 2000 |
Potential for Chemolithoautotrophy Among Ubiquitous Bacteria Lineages in the Dark Ocean
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September 2011 |
Metabolic flexibility of enigmatic SAR324 revealed through metagenomics and metatranscriptomics: Disentangling the ecophysiological role of SAR324
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June 2013 |
A global atlas of the dominant bacteria found in soil
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January 2018 |
Critical biogeochemical functions in the subsurface are associated with bacteria from new phyla and little studied lineages: N- and C-cycling organisms in the subsurface
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July 2015 |
Spatial distribution of bacterial communities in high-altitude freshwater wetland sediment
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April 2014 |
Comparison of the Levels of Bacterial Diversity in Freshwater, Intertidal Wetland, and Marine Sediments by Using Millions of Illumina Tags
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September 2012 |
Expanding the World of Marine Bacterial and Archaeal Clades
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January 2016 |
Single-Cell Genomics Reveals a Diverse Metabolic Potential of Uncultivated Desulfatiglans-Related Deltaproteobacteria Widely Distributed in Marine Sediment
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September 2018 |
Thousands of microbial genomes shed light on interconnected biogeochemical processes in an aquifer system
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October 2016 |
Recovery of nearly 8,000 metagenome-assembled genomes substantially expands the tree of life
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September 2017 |
Expansive microbial metabolic versatility and biodiversity in dynamic Guaymas Basin hydrothermal sediments
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November 2018 |
IDBA-UD: a de novo assembler for single-cell and metagenomic sequencing data with highly uneven depth
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April 2012 |
Cutadapt removes adapter sequences from high-throughput sequencing reads
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May 2011 |
MEGAHIT v1.0: A fast and scalable metagenome assembler driven by advanced methodologies and community practices
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June 2016 |
Fast and accurate short read alignment with Burrows-Wheeler transform
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May 2009 |
The Sequence Alignment/Map format and SAMtools
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June 2009 |
Binning metagenomic contigs by coverage and composition
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September 2014 |
MetaBAT 2: an adaptive binning algorithm for robust and efficient genome reconstruction from metagenome assemblies
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January 2019 |
Recovery of genomes from metagenomes via a dereplication, aggregation and scoring strategy
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May 2018 |
CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes
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May 2015 |
MaxBin 2.0: an automated binning algorithm to recover genomes from multiple metagenomic datasets
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October 2015 |
Anvi’o: an advanced analysis and visualization platform for ‘omics data
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January 2015 |
PhyloSift: phylogenetic analysis of genomes and metagenomes
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January 2014 |
GenBank
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November 2012 |
NCBI Reference Sequences (RefSeq): current status, new features and genome annotation policy
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November 2011 |
trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses
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June 2009 |
RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies
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January 2014 |
ARB: a software environment for sequence data
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February 2004 |
BMGE (Block Mapping and Gathering with Entropy): a new software for selection of phylogenetic informative regions from multiple sequence alignments
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January 2010 |
Interactive tree of life (iTOL) v3: an online tool for the display and annotation of phylogenetic and other trees
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April 2016 |
Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea
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August 2017 |
GET_HOMOLOGUES, a Versatile Software Package for Scalable and Robust Microbial Pangenome Analysis
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October 2013 |
KAAS: an automatic genome annotation and pathway reconstruction server
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May 2007 |
HMMER web server: interactive sequence similarity searching
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May 2011 |
Gapped BLAST and PSI-BLAST: a new generation of protein database search programs
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September 1997 |
MAFFT online service: multiple sequence alignment, interactive sequence choice and visualization
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September 2017 |
IQ-TREE 2: New Models and Efficient Methods for Phylogenetic Inference in the Genomic Era
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February 2020 |
Genomic and metagenomic surveys of hydrogenase distribution indicate H2 is a widely utilised energy source for microbial growth and survival
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September 2015 |
HydDB: A web tool for hydrogenase classification and analysis
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September 2016 |
Fast and sensitive protein alignment using DIAMOND
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November 2014 |
Prodigal: prokaryotic gene recognition and translation initiation site identification
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March 2010 |
dbCAN: a web resource for automated carbohydrate-active enzyme annotation
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May 2012 |
PSORTdb: expanding the bacteria and archaea protein subcellular localization database to better reflect diversity in cell envelope structures
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November 2015 |
Expanded Phylogenetic Diversity and Metabolic Flexibility of Mercury-Methylating Microorganisms
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August 2020 |
MEBS, a software platform to evaluate large (meta)genomic collections according to their metabolic machinery: unraveling the sulfur cycle
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October 2017 |
A nonpyrrolysine member of the widely distributed trimethylamine methyltransferase family is a glycine betaine methyltransferase
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October 2014 |
Mediterranean grassland soil C–N compound turnover is dependent on rainfall and depth, and is mediated by genomically divergent microorganisms
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May 2019 |
Genome-centric view of carbon processing in thawing permafrost
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July 2018 |
Deferrisoma camini gen. nov., sp. nov., a moderately thermophilic, dissimilatory iron(III)-reducing bacterium from a deep-sea hydrothermal vent that forms a distinct phylogenetic branch in the Deltaproteobacteria
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November 2011 |
Extraordinary expansion of a Sorangium cellulosum genome from an alkaline milieu
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July 2013 |
Characterization and Description of Anaeromyxobacter dehalogenans gen. nov., sp. nov., an Aryl-Halorespiring Facultative Anaerobic Myxobacterium
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February 2002 |
An insight into the role of phosphotransacetylase (pta) and the acetate/acetyl-CoA node in Escherichia coli
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January 2009 |
Cellobiohydrolase A (CbhA) from the cellulolytic bacterium Cellulomonas fimi is a ?-1,4-exoceilobiohydrolase analogous to Trichoderma reesei CBH II
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May 1994 |
The thermostable alpha-l-rhamnosidase RamA of Clostridium stercorarium: biochemical characterization and primary structure of a bacterial alpha-l-rhamnoside hydrolase, a new type of inverting glycoside hydrolase
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January 2000 |
Phosphorylation of either Crh or HPr mediates binding of CcpA to the Bacillus subtilis xyn cre and catabolite repression of the xyn operon 1 1Edited by I. B. Holland
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February 1999 |
The coxBAC Operon Encodes a Cytochrome c Oxidase Required for Heterotrophic Growth in the Cyanobacterium Anabaena variabilis Strain ATCC 29413
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November 2001 |
The cbb3 Oxidases Are an Ancient Innovation of the Domain Bacteria
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January 2008 |
The nucleotide sequence of the cyd locus encoding the two subunits of the cytochrome d terminal oxidase complex of Escherichia coli.
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September 1988 |
NO Reductase Activity of the Tetraheme Cytochromec554ofNitrosomonas europaea
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March 2006 |
The microbial nitrogen-cycling network
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February 2018 |
Anaerobic Activation of p -Cymene in Denitrifying Betaproteobacteria: Methyl Group Hydroxylation versus Addition to Fumarate
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December 2014 |
Presence, Diversity, and Enrichment of Respiratory Reductive Dehalogenase and Non-respiratory Hydrolytic and Oxidative Dehalogenase Genes in Terrestrial Environments
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June 2019 |
The cytochrome bd respiratory oxygen reductases
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November 2011 |
The ‘strict’ anaerobe Desulfovibrio gigas contains a membrane-bound oxygen-reducing respiratory chain
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May 2001 |
Growth, natural relationships, cellular fatty acids and metabolic adaptation of sulfate-reducing bacteria that utilize long-chain alkanes under anoxic conditions
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September 1998 |
Anaerobic oxidation of short-chain hydrocarbons by marine sulphate-reducing bacteria
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September 2007 |
The Genetic Basis for Bacterial Mercury Methylation
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February 2013 |
Function of genetically encoded pyrrolysine in corrinoid-dependent methylamine methyltransferases
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October 2004 |
Tetrachloroethene and 3-chlorobenzoate dechlorination activities are co-induced inDesulfomonile tiedjei DCB-1
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June 1995 |
Dissimilatory Fe(III) Reduction by the Marine Microorganism Desulfuromonas acetoxidans
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January 1993 |
Geobacter
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January 2011 |
Phylogenetic Analysis of Five Strains of Gram-Negative, Obligately Anaerobic, Sulfur-Reducing Bacteria and Description of Desulfuromusa gen. nov., Including Desulfuromusa kysingii sp. nov., Desulfuromusa bakii sp. nov., and Desulfuromusa succinoxidans sp. nov.
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October 1994 |
Desulfuromonas acetoxidans gen. nov. and sp. nov., a new anaerobic, sulfur-reducing, acetate-oxidizing bacterium
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January 1976 |
Role of the NiFe Hydrogenase Hya in Oxidative Stress Defense in Geobacter sulfurreducens
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February 2012 |
The genome of Syntrophus aciditrophicus: Life at the thermodynamic limit of microbial growth
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April 2007 |
Non-Sulfate-Reducing, Syntrophic Bacteria Affiliated with Desulfotomaculum Cluster I Are Widely Distributed in Methanogenic Environments
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March 2006 |
Non‐denitrifier nitrous oxide reductases dominate marine biomes
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September 2020 |
The life sulfuric: microbial ecology of sulfur cycling in marine sediments: Microbial sulfur cycling in marine sediments
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May 2017 |
Disguised as a Sulfate Reducer: Growth of the Deltaproteobacterium Desulfurivibrio alkaliphilus by Sulfide Oxidation with Nitrate
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July 2017 |
A new structure-based classification of sulfide:quinone oxidoreductases
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December 2009 |
Characterization of the Type III sulfide:quinone oxidoreductase from Caldivirga maquilingensis and its membrane binding
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March 2013 |
Denitrification by Anaeromyxobacter dehalogenans, a Common Soil Bacterium Lacking the Nitrite Reductase Genes nirS and nirK
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February 2018 |
Diazotrophic Anaeromyxobacter Isolates from Soils
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August 2020 |
Modularity of methylotrophy, revisited: Modularity of methylotrophy, revisited
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March 2011 |
Methylamine as a nitrogen source for microorganisms from a coastal marine environment: Methylamine as a nitrogen source for marine microbes
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March 2017 |
Phylogenetic Diversity and Distribution of Dissimilatory Sulfite Reductase Genes from Deep-Sea Sediment Cores
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May 2007 |
Deltaproteobacteria and Spirochaetes-Like Bacteria Are Abundant Putative Mercury Methylators in Oxygen-Deficient Water and Marine Particles in the Baltic Sea
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September 2020 |
Widespread microbial mercury methylation genes in the global ocean
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February 2020 |
Sulfide production and oxidation by heterotrophic bacteria under aerobic conditions
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August 2017 |