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Title
A standardized archaeal taxonomy for the Genome Taxonomy Database
Authors
Keywords
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Journal
Nature Microbiology
Volume 6, Issue 7, Pages 946-959
Publisher
Springer Science and Business Media LLC
Online
2021-06-22
DOI
10.1038/s41564-021-00918-8
References
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Related references
Note: Only part of the references are listed.- Isolation of an archaeon at the prokaryote–eukaryote interface
- (2020) Hiroyuki Imachi et al. NATURE
- A complete domain-to-species taxonomy for Bacteria and Archaea
- (2020) Donovan H. Parks et al. NATURE BIOTECHNOLOGY
- Diversity, ecology and evolution of Archaea
- (2020) Brett J. Baker et al. Nature Microbiology
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- (2020) Aharon Oren et al. INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY
- Undinarchaeota illuminate DPANN phylogeny and the impact of gene transfer on archaeal evolution
- (2020) Nina Dombrowski et al. Nature Communications
- Interactive Tree Of Life (iTOL) v4: recent updates and new developments
- (2019) Ivica Letunic et al. NUCLEIC ACIDS RESEARCH
- AnnoTree: visualization and exploration of a functionally annotated microbial tree of life
- (2019) Kerrin Mendler et al. NUCLEIC ACIDS RESEARCH
- Asgard archaea capable of anaerobic hydrocarbon cycling
- (2019) Kiley W. Seitz et al. Nature Communications
- Natronolimnobius sulfurireducens sp. nov. and Halalkaliarchaeum desulfuricum gen. nov., sp. nov., the first sulfur-respiring alkaliphilic haloarchaea from hypersaline alkaline lakes
- (2019) Dimitry Y. Sorokin et al. INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY
- Identifying Clusters of High Confidence Homologies in Multiple Sequence Alignments
- (2019) Raja Hashim Ali et al. MOLECULAR BIOLOGY AND EVOLUTION
- GTDB-Tk: a toolkit to classify genomes with the Genome Taxonomy Database
- (2019) Pierre-Alain Chaumeil et al. BIOINFORMATICS
- Proposal of the suffix –ota to denote phyla. Addendum to ‘Proposal to include the rank of phylum in the International Code of Nomenclature of Prokaryotes’
- (2018) William B. Whitman et al. INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY
- The importance of designating type material for uncultured taxa
- (2018) Maria Chuvochina et al. SYSTEMATIC AND APPLIED MICROBIOLOGY
- Recovery of genomes from metagenomes via a dereplication, aggregation and scoring strategy
- (2018) Christian M. K. Sieber et al. Nature Microbiology
- Differential depth distribution of microbial function and putative symbionts through sediment-hosted aquifers in the deep terrestrial subsurface
- (2018) Alexander J. Probst et al. Nature Microbiology
- A standardized bacterial taxonomy based on genome phylogeny substantially revises the tree of life
- (2018) Donovan H Parks et al. NATURE BIOTECHNOLOGY
- Sulfur Respiration in a Group of Facultatively Anaerobic Natronoarchaea Ubiquitous in Hypersaline Soda Lakes
- (2018) Dimitry Y. Sorokin et al. Frontiers in Microbiology
- A plea for linguistic accuracy – also for Candidatus taxa
- (2017) Aharon Oren INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY
- The growing tree of Archaea: new perspectives on their diversity, evolution and ecology
- (2017) Panagiotis S Adam et al. ISME Journal
- Evaluating Fast Maximum Likelihood-Based Phylogenetic Programs Using Empirical Phylogenomic Data Sets
- (2017) Xiaofan Zhou et al. MOLECULAR BIOLOGY AND EVOLUTION
- Asgard archaea illuminate the origin of eukaryotic cellular complexity
- (2017) Katarzyna Zaremba-Niedzwiedzka et al. NATURE
- RefSeq: an update on prokaryotic genome annotation and curation
- (2017) Daniel H Haft et al. NUCLEIC ACIDS RESEARCH
- Rfam 13.0: shifting to a genome-centric resource for non-coding RNA families
- (2017) Ioanna Kalvari et al. NUCLEIC ACIDS RESEARCH
- Integrative modeling of gene and genome evolution roots the archaeal tree of life
- (2017) Tom A. Williams et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Genomic exploration of the diversity, ecology, and evolution of the archaeal domain of life
- (2017) Anja Spang et al. SCIENCE
- Modeling Site Heterogeneity with Posterior Mean Site Frequency Profiles Accelerates Accurate Phylogenomic Estimation
- (2017) Huai-Chun Wang et al. SYSTEMATIC BIOLOGY
- Sulfolobus – A Potential Key Organism in Future Biotechnology
- (2017) Julian Quehenberger et al. Frontiers in Microbiology
- Metagenome sequencing and 98 microbial genomes from Juan de Fuca Ridge flank subsurface fluids
- (2017) Sean P. Jungbluth et al. Scientific Data
- Recovery of nearly 8,000 metagenome-assembled genomes substantially expands the tree of life
- (2017) Donovan H. Parks et al. Nature Microbiology
- Modest proposals to expand the type material for naming of prokaryotes
- (2016) William B. Whitman INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY
- Genomic reconstruction of a novel, deeply branched sediment archaeal phylum with pathways for acetogenesis and sulfur reduction
- (2016) Kiley W Seitz et al. ISME Journal
- Methylotrophic methanogenesis discovered in the archaeal phylum Verstraetearchaeota
- (2016) Inka Vanwonterghem et al. Nature Microbiology
- A new view of the tree of life
- (2016) Laura A. Hug et al. Nature Microbiology
- ExaML version 3: a tool for phylogenomic analyses on supercomputers
- (2015) Alexey M. Kozlov et al. BIOINFORMATICS
- Genomic Expansion of Domain Archaea Highlights Roles for Organisms from New Phyla in Anaerobic Carbon Cycling
- (2015) Cindy J. Castelle et al. CURRENT BIOLOGY
- CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes
- (2015) Donovan H. Parks et al. GENOME RESEARCH
- Proposal to include the rank of phylum in the International Code of Nomenclature of Prokaryotes
- (2015) Aharon Oren et al. INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY
- International Code of Nomenclature of Prokaryotes
- (2015) Charles T Parker et al. INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY
- Extending the Conserved Phylogenetic Core of Archaea Disentangles the Evolution of the Third Domain of Life
- (2015) Céline Petitjean et al. MOLECULAR BIOLOGY AND EVOLUTION
- Complex archaea that bridge the gap between prokaryotes and eukaryotes
- (2015) Anja Spang et al. NATURE
- The two-domain tree of life is linked to a new root for the Archaea
- (2015) Kasie Raymann et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Rooting the Domain Archaea by Phylogenomic Analysis Supports the Foundation of the New Kingdom Proteoarchaeota
- (2014) Céline Petitjean et al. Genome Biology and Evolution
- Nitrososphaera viennensis gen. nov., sp. nov., an aerobic and mesophilic, ammonia-oxidizing archaeon from soil and a member of the archaeal phylum Thaumarchaeota
- (2014) M. Stieglmeier et al. INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY
- ‘Geoarchaeote NAG1’ is a deeply rooting lineage of the archaeal order Thermoproteales rather than a new phylum
- (2014) Lionel Guy et al. ISME Journal
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- (2014) Lam-Tung Nguyen et al. MOLECULAR BIOLOGY AND EVOLUTION
- Biology of a widespread uncultivated archaeon that contributes to carbon fixation in the subsurface
- (2014) Alexander J. Probst et al. Nature Communications
- nhmmer: DNA homology search with profile HMMs
- (2013) T. J. Wheeler et al. BIOINFORMATICS
- Genetic and functional properties of uncultivated MCG archaea assessed by metagenome and gene expression analyses
- (2013) Jun Meng et al. ISME Journal
- MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability
- (2013) K. Katoh et al. MOLECULAR BIOLOGY AND EVOLUTION
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- (2013) Christian Rinke et al. NATURE
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- (2013) Nicola Segata et al. Nature Communications
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- (2012) Mark A Kozubal et al. ISME Journal
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- (2011) Daniel McDonald et al. ISME Journal
- The NCBI Taxonomy database
- (2011) S. Federhen NUCLEIC ACIDS RESEARCH
- The archaeal ‘TACK’ superphylum and the origin of eukaryotes
- (2011) Lionel Guy et al. TRENDS IN MICROBIOLOGY
- BMGE (Block Mapping and Gathering with Entropy): a new software for selection of phylogenetic informative regions from multiple sequence alignments
- (2010) Alexis Criscuolo et al. BMC EVOLUTIONARY BIOLOGY
- Insights into the evolution of Archaea and eukaryotic protein modifier systems revealed by the genome of a novel archaeal group
- (2010) Takuro Nunoura et al. NUCLEIC ACIDS RESEARCH
- FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments
- (2010) Morgan N. Price et al. PLoS One
- Enigmatic, ultrasmall, uncultivated Archaea
- (2010) B. J. Baker et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Further refinement of the phylogeny of the Halobacteriaceae based on the full-length RNA polymerase subunit B' (rpoB') gene
- (2009) H. Minegishi et al. INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY
- Empirical profile mixture models for phylogenetic reconstruction
- (2008) Le Si Quang et al. BIOINFORMATICS
- Mesophilic crenarchaeota: proposal for a third archaeal phylum, the Thaumarchaeota
- (2008) Céline Brochier-Armanet et al. NATURE REVIEWS MICROBIOLOGY
- A korarchaeal genome reveals insights into the evolution of the Archaea
- (2008) J. G. Elkins et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
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