Proteomics and comparative genomics ofNitrososphaera viennensisreveal the core genome and adaptations of archaeal ammonia oxidizers

Identifying Potential Mechanisms Enabling Acidophily in the Ammonia-Oxidizing Archaeon “Candidatus Nitrosotalea devanaterra”

(2016) Laura E. Lehtovirta-Morley et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Pathways and key intermediates required for obligate aerobic ammonia-dependent chemolithotrophy in bacteria and Thaumarchaeota

(2016) Jessica A Kozlowski et al.   ISME Journal

A Purple Cupredoxin from Nitrosopumilus maritimus Containing a Mononuclear Type 1 Copper Center with an Open Binding Site

(2016) Parisa Hosseinzadeh et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Hydrogen peroxide detoxification is a key mechanism for growth of ammonia-oxidizing archaea

(2016) Jong-Geol Kim et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A novel ammonia-oxidizing archaeon from wastewater treatment plant: Its enrichment, physiological and genomic characteristics

(2016) Yuyang Li et al.   Scientific Reports

Inhibitory Effects of C2to C101-Alkynes on Ammonia Oxidation in Two Nitrososphaera Species

(2015) A. E. Taylor et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Physiological and genomic characterization of two novel marine thaumarchaeal strains indicates niche differentiation

(2015) Barbara Bayer et al.   ISME Journal

Cyanate as an energy source for nitrifiers

(2015) Marton Palatinszky et al.   NATURE

Genomic and proteomic characterization of “CandidatusNitrosopelagicus brevis”: An ammonia-oxidizing archaeon from the open ocean

(2015) Alyson E. Santoro et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A Mesophilic, Autotrophic, Ammonia-Oxidizing Archaeon of Thaumarchaeal Group I.1a Cultivated from a Deep Oligotrophic Soil Horizon

(2014) Man-Young Jung et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Biofilms formed by the archaeon Haloferax volcaniiexhibit cellular differentiation and social motility, and facilitate horizontal gene transfer

(2014) Scott Chimileski et al.   BMC BIOLOGY

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

Interactions between Thaumarchaea, Nitrospira and methanotrophs modulate autotrophic nitrification in volcanic grassland soil

(2014) Anne Daebeler et al.   ISME Journal

Aquatic metagenomes implicate Thaumarchaeota in global cobalamin production

(2014) Andrew C Doxey et al.   ISME Journal

Aerobic nitrous oxide production through N-nitrosating hybrid formation in ammonia-oxidizing archaea

(2014) Michaela Stieglmeier et al.   ISME Journal

N-Linked Glycosylation in Archaea: a Structural, Functional, and Genetic Analysis

(2014) Ken F. Jarrell et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

IQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies

(2014) Lam-Tung Nguyen et al.   MOLECULAR BIOLOGY AND EVOLUTION

Genomes of Two New Ammonia-Oxidizing Archaea Enriched from Deep Marine Sediments

(2014) Soo-Je Park et al.   PLoS One

Genome Sequence of Candidatus Nitrososphaera evergladensis from Group I.1b Enriched from Everglades Soil Reveals Novel Genomic Features of the Ammonia-Oxidizing Archaea

(2014) Kateryna V. Zhalnina et al.   PLoS One

Ammonia-oxidizing archaea use the most energy-efficient aerobic pathway for CO2 fixation

(2014) M. Konneke et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Marine ammonia-oxidizing archaeal isolates display obligate mixotrophy and wide ecotypic variation

(2014) W. Qin et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Variability of the transporter gene complement in ammonia-oxidizing archaea

(2014) Pierre Offre et al.   TRENDS IN MICROBIOLOGY

Archaea in Biogeochemical Cycles

(2013) Pierre Offre et al.   Annual Review of Microbiology

Archaeal Biofilms: The Great Unexplored

(2013) Alvaro Orell et al.   Annual Review of Microbiology

Add salt, add sugar: N-glycosylation inHaloferax volcanii: Figure 1

(2013) Lina Kaminski et al.   BIOCHEMICAL SOCIETY TRANSACTIONS

Responses of the terrestrial ammonia-oxidizing archaeonCa. Nitrososphaera viennensis and the ammonia-oxidizing bacteriumNitrosospira multiformisto nitrification inhibitors

(2013) Tianlin Shen et al.   FEMS MICROBIOLOGY LETTERS

Nitrification rates in Arctic soils are associated with functionally distinct populations of ammonia-oxidizing archaea

(2013) Ricardo J Eloy Alves 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

Haloferax volcaniiarchaeosortase is required for motility, mating, and C-terminal processing of the S-layer glycoprotein

(2013) Mohd Farid Abdul Halim et al.   MOLECULAR MICROBIOLOGY

Enrichment and Genome Sequence of the Group I.1a Ammonia-Oxidizing Archaeon “Ca. Nitrosotenuis uzonensis” Representing a Clade Globally Distributed in Thermal Habitats

(2013) Elena V. Lebedeva et al.   PLoS One

Hydroxylamine as an intermediate in ammonia oxidation by globally abundant marine archaea

(2013) N. Vajrala et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Physiology and Diversity of Ammonia-Oxidizing Archaea

(2012) David A. Stahl et al.   Annual Review of Microbiology

Intact Polar and Core Glycerol Dibiphytanyl Glycerol Tetraether Lipids of Group I.1a and I.1b Thaumarchaeota in Soil

(2012) Jaap S. Sinninghe Damsté et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Improving polyhydroxyalkanoate production by knocking out the genes involved in exopolysaccharide biosynthesis in Haloferax mediterranei

(2012) Dahe Zhao et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Diversity and evolution of bioenergetic systems involved in microbial nitrogen compound transformations

(2012) Jörg Simon et al.   BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS

The genome of the ammonia-oxidizingCandidatusNitrososphaera gargensis: insights into metabolic versatility and environmental adaptations

(2012) Anja Spang et al.   ENVIRONMENTAL MICROBIOLOGY

Diversity, abundance and expression of nitrite reductase (nirK)-like genes in marine thaumarchaea

(2012) Marie B Lund et al.   ISME Journal

Genome Sequence of "Candidatus Nitrosopumilus salaria" BD31, an Ammonia-Oxidizing Archaeon from the San Francisco Bay Estuary

(2012) A. C. Mosier et al.   JOURNAL OF BACTERIOLOGY

The Divergent AmoC3 Subunit of Ammonia Monooxygenase Functions as Part of a Stress Response System in Nitrosomonas europaea

(2012) P. M. Berube et al.   JOURNAL OF BACTERIOLOGY

Diversity, assembly and regulation of archaeal type IV pili-like and non-type-IV pili-like surface structures

(2012) Kerstin Lassak et al.   RESEARCH IN MICROBIOLOGY

Synthesis of Methylphosphonic Acid by Marine Microbes: A Source for Methane in the Aerobic Ocean

(2012) W. W. Metcalf et al.   SCIENCE

Archaeal and bacterial ammonia-oxidisers in soil: the quest for niche specialisation and differentiation

(2012) James I. Prosser et al.   TRENDS IN MICROBIOLOGY

Metagenomic Analysis of Ammonia-Oxidizing Archaea Affiliated with the Soil Group

(2012) Rita Bartossek et al.   Frontiers in Microbiology

Protein glycosylation as an adaptive response in Archaea: growth at different salt concentrations leads to alterations in Haloferax volcanii S-layer glycoprotein N-glycosylation

(2011) Ziqiang Guan et al.   ENVIRONMENTAL MICROBIOLOGY

Enrichment and characterization of ammonia-oxidizing archaea from the open ocean: phylogeny, physiology and stable isotope fractionation

(2011) Alyson E Santoro et al.   ISME Journal

Archaeosortases and Exosortases Are Widely Distributed Systems Linking Membrane Transit with Posttranslational Modification

(2011) D. H. Haft et al.   JOURNAL OF BACTERIOLOGY

Genome Sequence of an Ammonia-Oxidizing Soil Archaeon, "Candidatus Nitrosoarchaeum koreensis" MY1

(2011) B. K. Kim et al.   JOURNAL OF BACTERIOLOGY

Genome of a Low-Salinity Ammonia-Oxidizing Archaeon Determined by Single-Cell and Metagenomic Analysis

(2011) Paul C. Blainey et al.   PLoS One

Cultivation of an obligate acidophilic ammonia oxidizer from a nitrifying acid soil

(2011) L. E. Lehtovirta-Morley et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Thaumarchaeotes abundant in refinery nitrifying sludges express amoA but are not obligate autotrophic ammonia oxidizers

(2011) M. Mussmann et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Nitrososphaera viennensis, an ammonia oxidizing archaeon from soil

(2011) M. Tourna et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Accelerated Profile HMM Searches

(2011) Sean R. Eddy   PLoS Computational Biology

An Extracellular Tetrathionate Hydrolase from the Thermoacidophilic Archaeon Acidianus Ambivalens with an Activity Optimum at pH 1

(2011) Jonas Protze et al.   Frontiers in Microbiology

Alternative Pathways of Carbon Dioxide Fixation: Insights into the Early Evolution of Life?

(2010) Georg Fuchs   Annual Review of Microbiology

A low-polynomial algorithm for assembling clusters of orthologous groups from intergenomic symmetric best matches

(2010) David M. Kristensen et al.   BIOINFORMATICS

Homologues of nitrite reductases in ammonia-oxidizing archaea: diversity and genomic context

(2010) Rita Bartossek et al.   ENVIRONMENTAL MICROBIOLOGY

Metatranscriptomic analysis of ammonia-oxidizing organisms in an estuarine bacterioplankton assemblage

(2010) James T Hollibaugh et al.   ISME Journal

Integrated metatranscriptomic and metagenomic analyses of stratified microbial assemblages in the open ocean

(2010) Yanmei Shi et al.   ISME Journal

Comparative metaproteomics reveals ocean-scale shifts in microbial nutrient utilization and energy transduction

(2010) Robert M Morris et al.   ISME Journal

Labeling and Enzyme Studies of the Central Carbon Metabolism in Metallosphaera sedula

(2010) S. Estelmann et al.   JOURNAL OF BACTERIOLOGY

The biofilm matrix

(2010) Hans-Curt Flemming et al.   NATURE REVIEWS MICROBIOLOGY

Nitrosopumilus maritimus genome reveals unique mechanisms for nitrification and autotrophy in globally distributed marine crenarchaea

(2010) C. B. Walker et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The evolution and mechanisms of nucleotide excision repair proteins

(2010) Christophe Rouillon et al.   RESEARCH IN MICROBIOLOGY

Distinct gene set in two different lineages of ammonia-oxidizing archaea supports the phylum Thaumarchaeota

(2010) Anja Spang et al.   TRENDS IN MICROBIOLOGY

S-Layer Glycoproteins and Flagellins: Reporters of Archaeal Posttranslational Modifications

(2010) Ken F. Jarrell et al.   ARCHAEA-AN INTERNATIONAL MICROBIOLOGICAL JOURNAL

The γ class of carbonic anhydrases

(2009) James G. Ferry   BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS

Glycosyltransferases and oligosaccharyltransferases in Archaea: putative components of theN-glycosylation pathway in the third domain of life

(2009) Hilla Magidovich et al.   FEMS MICROBIOLOGY LETTERS

Conversion of NO2 to NO by reduced coenzyme F420 protects mycobacteria from nitrosative damage

(2009) E. Purwantini et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

MicroScope: a platform for microbial genome annotation and comparative genomics

(2009) D. Vallenet et al.   Database-The Journal of Biological Databases and Curation

Metabolomics- and Proteomics-Assisted Genome Annotation and Analysis of the Draft Metabolic Network of Chlamydomonas reinhardtii

(2008) P. May et al.   GENETICS

Mesophilic crenarchaeota: proposal for a third archaeal phylum, the Thaumarchaeota

(2008) Céline Brochier-Armanet et al.   NATURE REVIEWS MICROBIOLOGY

A moderately thermophilic ammonia-oxidizing crenarchaeote from a hot spring

(2008) R. Hatzenpichler et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Prediction of signal peptides in archaea

(2008) P.G. Bagos et al.   PROTEIN ENGINEERING DESIGN & SELECTION