Related references
Note: Only part of the references are listed.Metagenome-assembled genomes reveal unique metabolic adaptations of a basal marine Thaumarchaeota lineage
Linta Reji et al.
ISME JOURNAL (2020)
Genomic and transcriptomic evidence of light-sensing, porphyrin biosynthesis, Calvin-Benson-Bassham cycle, and urea production in Bathyarchaeota
Jie Pan et al.
MICROBIOME (2020)
Redox and Thiols in Archaea
Mamta Rawat et al.
ANTIOXIDANTS (2020)
Heterotrophic Thaumarchaea with Small Genomes Are Widespread in the Dark Ocean
Frank O. Aylward et al.
MSYSTEMS (2020)
GeneSpy, a user-friendly and flexible genomic context visualizer
Pierre Simon Garcia et al.
BIOINFORMATICS (2019)
Wide diversity of methane and short-chain alkane metabolisms in uncultured archaea
Guillaume Borrel et al.
NATURE MICROBIOLOGY (2019)
Phylogenomics suggests oxygen availability as a driving force in Thaumarchaeota evolution
Minglei Ren et al.
ISME JOURNAL (2019)
Proteomic Response of Three Marine Ammonia-Oxidizing Archaea to Hydrogen Peroxide and Their Metabolic Interactions with a Heterotrophic Alphaproteobacterium
Barbara Bayer et al.
MSYSTEMS (2019)
Metagenomes from Coastal Marine Sediments Give Insights into the Ecological Role and Cellular Features of Loki- and Thorarchaeota
Lokeshwaran Manoharan et al.
MBIO (2019)
A phylogenomic and ecological analysis of the globally abundant Marine Group II archaea (Ca. Poseidoniales ord. nov.)
Christian Rinke et al.
ISME JOURNAL (2019)
Genomic diversity, lifestyles and evolutionary origins of DPANN archaea
Nina Dombrowski et al.
FEMS MICROBIOLOGY LETTERS (2019)
Cu in biology: Unleashed by O2 and now irreplaceable
Linda H. Doerrer
INORGANICA CHIMICA ACTA (2018)
Metabolic shift at the class level sheds light on adaptation of methanogens to oxidative environments
Zhe Lyu et al.
ISME JOURNAL (2018)
Patterns of thaumarchaeal gene expression in culture and diverse marine environments
Paul Carini et al.
ENVIRONMENTAL MICROBIOLOGY (2018)
The Archaellum: An Update on the Unique Archaeal Motility Structure
Sonja-Verena Albers et al.
TRENDS IN MICROBIOLOGY (2018)
Unifying the global phylogeny and environmental distribution of ammonia-oxidising archaea based on amoA genes
Ricardo J. Eloy Alves et al.
NATURE COMMUNICATIONS (2018)
Genomic inference of the metabolism and evolution of the archaeal phylum Aigarchaeota
Zheng-Shuang Hua et al.
NATURE COMMUNICATIONS (2018)
Candidatus Nitrosocaldus cavascurensis, an Ammonia Oxidizing, Extremely Thermophilic Archaeon with a Highly Mobile Genome
Sophie S. Abby et al.
FRONTIERS IN MICROBIOLOGY (2018)
Cultivation and Genomic Analysis of Candidatus Nitrosocaldus islandicus, an Obligately Thermophilic, Ammonia-Oxidizing Thaumarchaeon from a Hot Spring Biofilm in Graendalur Valley, Iceland
Anne Daebeler et al.
FRONTIERS IN MICROBIOLOGY (2018)
LEA Proteins and the Evolution of the WHy Domain
Jasmin Mertens et al.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2018)
Archaeal biofilm formation
Marleen van Wolferen et al.
NATURE REVIEWS MICROBIOLOGY (2018)
Hundreds of novel composite genes and chimeric genes with bacterial origins contributed to haloarchaeal evolution
Raphael Meheust et al.
GENOME BIOLOGY (2018)
Ammonia-oxidising archaea living at low pH: Insights from comparative genomics
Craig W. Herbold et al.
ENVIRONMENTAL MICROBIOLOGY (2017)
The growing tree of Archaea: new perspectives on their diversity, evolution and ecology
Panagiotis S. Adam et al.
ISME JOURNAL (2017)
Kinetic analysis of a complete nitrifier reveals an oligotrophic lifestyle
K. Dimitri Kits et al.
NATURE (2017)
Nitric oxide is an obligate bacterial nitrification intermediate produced by hydroxylamine oxidoreductase
Jonathan D. Caranto et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2017)
Ecophysiology of an uncultivated lineage of Aigarchaeota from an oxic, hot spring filamentous 'streamer' community
Jacob P. Beam et al.
ISME JOURNAL (2016)
Microbial Surface Colonization and Biofilm Development in Marine Environments
Hongyue Dang et al.
MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS (2016)
Gene Acquisitions from Bacteria at the Origins of Major Archaeal Clades Are Vastly Overestimated
Mathieu Groussin et al.
MOLECULAR BIOLOGY AND EVOLUTION (2016)
The CopC Family: Structural and Bioinformatic Insights into a Diverse Group of Periplasmic Copper Binding Proteins
Thomas J. Lawton et al.
BIOCHEMISTRY (2016)
Mini-review: Biofilm responses to oxidative stress
Michela Gambino et al.
BIOFOULING (2016)
The nitrogen cycle
Lisa Y. Stein et al.
CURRENT BIOLOGY (2016)
Strangers in the archaeal world: osmostress-responsive biosynthesis of ectoine and hydroxyectoine by the marine thaumarchaeon Nitrosopumilus maritimus
Nils Widderich et al.
ENVIRONMENTAL MICROBIOLOGY (2016)
Pathways and key intermediates required for obligate aerobic ammonia-dependent chemolithotrophy in bacteria and Thaumarchaeota
Jessica A. Kozlowski et al.
ISME JOURNAL (2016)
Proteomics and comparative genomics of Nitrososphaera viennensis reveal the core genome and adaptations of archaeal ammonia oxidizers
Melina Kerou et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2016)
Hydrogen peroxide detoxification is a key mechanism for growth of ammonia-oxidizing archaea
Jong-Geol Kim et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2016)
Diversity and Evolution of Type IV pili Systems in Archaea
Kira S. Makarova et al.
FRONTIERS IN MICROBIOLOGY (2016)
The evolution of bacterial mechanosensitive channels
Ian R. Booth et al.
CELL CALCIUM (2015)
CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes
Donovan H. Parks et al.
GENOME RESEARCH (2015)
A four-helix bundle stores copper for methane oxidation
Nicolas Vita et al.
NATURE (2015)
Bacterial gene import and mesophilic adaptation in archaea
Purificacion Lopez-Garcia et al.
NATURE REVIEWS MICROBIOLOGY (2015)
Aquatic metagenomes implicate Thaumarchaeota in global cobalamin production
Andrew C. Doxey et al.
ISME JOURNAL (2015)
IQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies
Lam-Tung Nguyen et al.
MOLECULAR BIOLOGY AND EVOLUTION (2015)
Origins of major archaeal clades correspond to gene acquisitions from bacteria
Shijulal Nelson-Sathi et al.
NATURE (2015)
Expanded microbial genome coverage and improved protein family annotation in the COG database
Michael Y. Galperin et al.
NUCLEIC ACIDS RESEARCH (2015)
Functional Classification of Uncultured Candidatus Caldiarchaeum subterraneum Using the Maple System
Hideto Takami et al.
PLOS ONE (2015)
Prokka: rapid prokaryotic genome annotation
Torsten Seemann
BIOINFORMATICS (2014)
Mannosylglycerate: structural analysis of biosynthesis and evolutionary history
Nuno Borges et al.
EXTREMOPHILES (2014)
Metabolic control analysis of mitochondrial aconitase: influence over respiration and mitochondrial superoxide and hydrogen peroxide production
F. Scandroglio et al.
FREE RADICAL RESEARCH (2014)
The evolutionary history of the genes involved in the biosynthesis of the antioxidant ergothioneine
Gary W. Jones et al.
GENE (2014)
Pangenome Evidence for Extensive Interdomain Horizontal Transfer Affecting Lineage CoreandShell Genes in Uncultured Planktonic Thaumarchaeota and Euryarchaeota
Philippe Deschamps et al.
GENOME BIOLOGY AND EVOLUTION (2014)
Niche specialization of novel Thaumarchaeota to oxic and hypoxic acidic geothermal springs of Yellowstone National Park
Jacob P. Beam et al.
ISME JOURNAL (2014)
The Transporter Classification Database
Milton H. Saier et al.
NUCLEIC ACIDS RESEARCH (2014)
Pfam: the protein families database
Robert D. Finn et al.
NUCLEIC ACIDS RESEARCH (2014)
MacSyFinder: A Program to Mine Genomes for Molecular Systems with an Application to CRISPR-Cas Systems
Sophie S. Abby et al.
PLOS ONE (2014)
Ammonia-oxidizing archaea use the most energy-efficient aerobic pathway for CO2 fixation
Martin Koenneke et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2014)
Marine ammonia-oxidizing archaeal isolates display obligate mixotrophy and wide ecotypic variation
Wei Qin et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2014)
Phylogenetically Driven Sequencing of Extremely Halophilic Archaea Reveals Strategies for Static and Dynamic Osmo-response
Erin A. Becker et al.
PLOS GENETICS (2014)
Archaea in Biogeochemical Cycles
Pierre Offre et al.
ANNUAL REVIEW OF MICROBIOLOGY, VOL 67 (2013)
Glutathione analogs in prokaryotes
Robert C. Fahey
BIOCHIMICA ET BIOPHYSICA ACTA-GENERAL SUBJECTS (2013)
Bio plus plus : Efficient Extensible Libraries and Tools for Computational Molecular Evolution
Laurent Gueguen et al.
MOLECULAR BIOLOGY AND EVOLUTION (2013)
Insights into the phylogeny and coding potential of microbial dark matter
Christian Rinke et al.
NATURE (2013)
The molecular mechanisms and physiological consequences of oxidative stress: lessons from a model bacterium
James A. Imlay
NATURE REVIEWS MICROBIOLOGY (2013)
Nitrogen Assimilation in Escherichia coli: Putting Molecular Data into a Systems Perspective
Wally C. van Heeswijk et al.
MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS (2013)
Ribonucleolytic resection is required for repair of strand displaced nonhomologous end-joining intermediates
Edward J. Bartlett et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2013)
Metagenomics of Kamchatkan hot spring filaments reveal two new major (hyper)thermophilic lineages related to Thaumarchaeota
Laura Eme et al.
RESEARCH IN MICROBIOLOGY (2013)
Physiology and Diversity of Ammonia-Oxidizing Archaea
David A. Stahl et al.
ANNUAL REVIEW OF MICROBIOLOGY, VOL 66 (2012)
Diversity, Physiology, and Niche Differentiation of Ammonia-Oxidizing Archaea
Roland Hatzenpichler
APPLIED AND ENVIRONMENTAL MICROBIOLOGY (2012)
High-quality sequence clustering guided by network topology and multiple alignment likelihood
Vincent Miele et al.
BIOINFORMATICS (2012)
Horizontal gene transfer of a chloroplast DnaJ-Fer protein to Thaumarchaeota and the evolutionary history of the DnaK chaperone system in Archaea
Celine Petitjean et al.
BMC EVOLUTIONARY BIOLOGY (2012)
The genome of the ammonia-oxidizing Candidatus Nitrososphaera gargensis: insights into metabolic versatility and environmental adaptations
Anja Spang et al.
ENVIRONMENTAL MICROBIOLOGY (2012)
Archaea of the Miscellaneous Crenarchaeotal Group are abundant, diverse and widespread in marine sediments
Kyoko Kubo et al.
ISME JOURNAL (2012)
Acquisition of 1,000 eubacterial genes physiologically transformed a methanogen at the origin of Haloarchaea
Shijulal Nelson-Sathi et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2012)
Metagenomic analysis of ammonia-oxidizing archaea affiliated with the soil group
Rita Bartossek et al.
FRONTIERS IN MICROBIOLOGY (2012)
Ultra-fast sequence clustering from similarity networks with SiLiX
Vincent Miele et al.
BMC BIOINFORMATICS (2011)
Diversity, biological roles and biosynthetic pathways for sugar-glycerate containing compatible solutes in bacteria and archaea
Nuno Empadinhas et al.
ENVIRONMENTAL MICROBIOLOGY (2011)
The bindosome is a structural component of the Sulfolobus solfataricus cell envelope
Benham Zolghadr et al.
EXTREMOPHILES (2011)
Complete-fosmid and fosmid-end sequences reveal frequent horizontal gene transfers in marine uncultured planktonic archaea
Celine Brochier-Armanet et al.
ISME JOURNAL (2011)
Structure, function and regulation of the DNA-binding protein Dps and its role in acid and oxidative stress resistance in Escherichia coli: a review
L. N. Calhoun et al.
JOURNAL OF APPLIED MICROBIOLOGY (2011)
Adaptation to Environmental Temperature Is a Major Determinant of Molecular Evolutionary Rates in Archaea
Mathieu Groussin et al.
MOLECULAR BIOLOGY AND EVOLUTION (2011)
UV-inducible DNA exchange in hyperthermophilic archaea mediated by type IV pili
Malgorzata Ajon et al.
MOLECULAR MICROBIOLOGY (2011)
Niche adaptation by expansion and reprogramming of general transcription factors
Serdar Turkarslan et al.
MOLECULAR SYSTEMS BIOLOGY (2011)
Dependence of the Cyanobacterium Prochlorococcus on Hydrogen Peroxide Scavenging Microbes for Growth at the Ocean's Surface
J. Jeffrey Morris et al.
PLOS ONE (2011)
Nitrososphaera viennensis, an ammonia oxidizing archaeon from soil
Maria Tourna et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2011)
Accelerated Profile HMM Searches
Sean R. Eddy
PLOS COMPUTATIONAL BIOLOGY (2011)
Count: evolutionary analysis of phylogenetic profiles with parsimony and likelihood
Miklos Csuroes
BIOINFORMATICS (2010)
Search and clustering orders of magnitude faster than BLAST
Robert C. Edgar
BIOINFORMATICS (2010)
BMGE (Block Mapping and Gathering with Entropy): a new software for selection of phylogenetic informative regions from multiple sequence alignments
Alexis Criscuolo et al.
BMC EVOLUTIONARY BIOLOGY (2010)
Autotrophic carbon fixation in archaea
Ivan A. Berg et al.
NATURE REVIEWS MICROBIOLOGY (2010)
Nitrosopumilus maritimus genome reveals unique mechanisms for nitrification and autotrophy in globally distributed marine crenarchaea
C. B. Walker et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2010)
Molecular Mechanisms of the Whole DNA Repair System: A Comparison of Bacterial and Eukaryotic Systems
Rihito Morita et al.
JOURNAL OF NUCLEIC ACIDS (2010)
Identification and Characterization of gshA, a Gene Encoding the Glutamate-Cysteine Ligase in the Halophilic Archaeon Haloferax volcanii
Liron Malki et al.
JOURNAL OF BACTERIOLOGY (2009)
Mycobacterium tuberculosis expresses methionine sulphoxide reductases A and B that protect from killing by nitrite and hypochlorite
Warren L. Lee et al.
MOLECULAR MICROBIOLOGY (2009)
The iron-sulfur clusters of dehydratases are primary intracellular targets of copper toxicity
Lee Macomber et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2009)
Cultivation of a thermophilic ammonia oxidizing archaeon synthesizing crenarchaeol
Jose R. de la Torre et al.
ENVIRONMENTAL MICROBIOLOGY (2008)
Mesophilic crenarchaeota: proposal for a third archaeal phylum, the Thaumarchaeota
Celine Brochier-Armanet et al.
NATURE REVIEWS MICROBIOLOGY (2008)
Interactive Tree Of Life (iTOL): an online tool for phylogenetic tree display and annotation
Ivica Letunic et al.
BIOINFORMATICS (2007)
An archaeal antioxidant:: Characterization of a Dps-like protein from Sulfolobus solfataricus
B Wiedenheft et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2005)
Characterization of the S-denitrosation activity of protein disulfide isomerase
I Sliskovic et al.
JOURNAL OF BIOLOGICAL CHEMISTRY (2005)
Comparative analysis of a genome fragment of an uncultivated mesopelagic crenarchaeote reveals multiple horizontal gene transfers
P Lopez-Garcia et al.
ENVIRONMENTAL MICROBIOLOGY (2004)
Contrasting sensitivities of Escherichia coli aconitases A and B to oxidation and iron depletion
S Varghese et al.
JOURNAL OF BACTERIOLOGY (2003)
The TIGRFAMs database of protein families
DH Haft et al.
NUCLEIC ACIDS RESEARCH (2003)
Nitrogen assimilation and global regulation in Escherichia coli
L Reitzer
ANNUAL REVIEW OF MICROBIOLOGY (2003)
MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform
K Katoh et al.
NUCLEIC ACIDS RESEARCH (2002)
A hot story from comparative genomics: reverse gyrase is the only hyperthermophile-specific protein
P Forterre
TRENDS IN GENETICS (2002)
A mitochondrial-like aconitase in the bacterium Bacteroides fragilis:: Implications for the evolution of the mitochondrial Krebs cycle
AD Baughn et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2002)
Escherichia coli aconitases and oxidative stress:: post-transcriptional regulation of sodA expression
Y Tang et al.
MICROBIOLOGY-SGM (2002)
Aconitase: Sensitive target and measure of superoxide
PR Gardner
SUPEROXIDE DISMUTASE (2002)
Alkyl hydroperoxide reductase is the primary scavenger of endogenous hydrogen peroxide in Escherichia coli
LC Seaver et al.
JOURNAL OF BACTERIOLOGY (2001)
Prokaryotic homologs of the eukaryotic DNA-end-binding protein Ku, novel domains in the Ku protein and prediction of a prokaryotic double-strand break repair system
L Aravind et al.
GENOME RESEARCH (2001)