Unexpected complexity of the ammonia monooxygenase in archaea

Soils and sediments host Thermoplasmata archaea encoding novel copper membrane monooxygenases (CuMMOs)

(2022) Spencer Diamond et al.   ISME Journal

Recovery of particulate methane monooxygenase structure and activity in a lipid bilayer

(2022) Christopher W. Koo et al.   SCIENCE

Selective cross‐linking of coinciding protein assemblies by in‐gel cross‐linking mass spectrometry

(2021) Johannes F Hevler et al.   EMBO JOURNAL

Genomic Insights of “Candidatus Nitrosocaldaceae” Based on Nine New Metagenome-Assembled Genomes, Including “Candidatus Nitrosothermus” Gen Nov. and Two New Species of “Candidatus Nitrosocaldus”

(2021) Zhen-Hao Luo et al.   Frontiers in Microbiology

Copper Centers in the Cryo-EM Structure of Particulate Methane Monooxygenase Reveal the Catalytic Machinery of Methane Oxidation

(2021) W.-H. Chang et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Highly accurate protein structure prediction with AlphaFold

(2021) John Jumper et al.   NATURE

A standardized archaeal taxonomy for the Genome Taxonomy Database

(2021) Christian Rinke et al.   Nature Microbiology

Universal activity-based labeling method for ammonia- and alkane-oxidizing bacteria

(2021) Dimitra Sakoula et al.   ISME Journal

AlphaFold Protein Structure Database: massively expanding the structural coverage of protein-sequence space with high-accuracy models

(2021) Mihaly Varadi et al.   NUCLEIC ACIDS RESEARCH

Genome wide transcriptomic analysis of the soil ammonia oxidizing archaeon Nitrososphaera viennensis upon exposure to copper limitation

(2020) Carolina Reyes et al.   ISME Journal

The model structure of the copper-dependent ammonia monooxygenase

(2020) Francesco Musiani et al.   JOURNAL OF BIOLOGICAL INORGANIC CHEMISTRY

Investigation of central energy metabolism-related protein complexes of ANME-2d methanotrophic archaea by complexome profiling

(2020) Stefanie Berger et al.   BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS

Particulate methane monooxygenase contains only mononuclear copper centers

(2019) Matthew O. Ross et al.   SCIENCE

Complexome analysis of the nitrite-dependent methanotroph Methylomirabilis lanthanidiphila

(2019) Wouter Versantvoort et al.   BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS

Proteomic Response of Three Marine Ammonia-Oxidizing Archaea to Hydrogen Peroxide and Their Metabolic Interactions with a Heterotrophic Alphaproteobacterium

(2019) Barbara Bayer et al.   mSystems

Patterns of thaumarchaeal gene expression in culture and diverse marine environments

(2018) Paul Carini et al.   ENVIRONMENTAL MICROBIOLOGY

Nutrient transport suggests an evolutionary basis for charged archaeal surface layer proteins

(2018) Po-Nan Li et al.   ISME Journal

From micelles to bicelles: Effect of the membrane on particulate methane monooxygenase activity

(2018) Soo Y. Ro et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Unifying the global phylogeny and environmental distribution of ammonia-oxidising archaea based on amoA genes

(2018) Ricardo J. Eloy Alves et al.   Nature Communications

Candidatus Nitrosocaldus cavascurensis, an Ammonia Oxidizing, Extremely Thermophilic Archaeon with a Highly Mobile Genome

(2018) Sophie S. Abby et al.   Frontiers in Microbiology

Discovery of several novel, widespread, and ecologically distinct marine Thaumarchaeota viruses that encode amoC nitrification genes

(2018) Nathan A. Ahlgren et al.   ISME Journal

The PRIDE database and related tools and resources in 2019: improving support for quantification data

(2018) Yasset Perez-Riverol et al.   NUCLEIC ACIDS RESEARCH

Characterization of a long overlooked copper protein from methane- and ammonia-oxidizing bacteria

(2018) Oriana S. Fisher et al.   Nature Communications

Evolutionary History of Copper Membrane Monooxygenases

(2018) Roshan Khadka et al.   Frontiers in Microbiology

Nitrosopumilus maritimus gen. nov., sp. nov., Nitrosopumilus cobalaminigenes sp. nov., Nitrosopumilus oxyclinae sp. nov., and Nitrosopumilus ureiphilus sp. nov., four marine ammonia-oxidizing archaea of the phylum Thaumarchaeota

(2017) Wei Qin et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Stress response of a marine ammonia-oxidizing archaeon informs physiological status of environmental populations

(2017) Wei Qin et al.   ISME Journal

Integrated structural biology and molecular ecology of N-cycling enzymes from ammonia-oxidizing archaea

(2017) Bradley B. Tolar et al.   Environmental Microbiology Reports

Membrane-bound electron transport systems of an anammox bacterium: A complexome analysis

(2016) Naomi M. de Almeida et al.   BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS

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

(2016) Jessica A Kozlowski et al.   ISME Journal

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

(2016) Melina Kerou et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Respiratory quinones in A rchaea : phylogenetic distribution and application as biomarkers in the marine environment

(2015) Felix J. Elling et al.   ENVIRONMENTAL MICROBIOLOGY

Influence of temperature, pH, and salinity on membrane lipid composition and TEX 86 of marine planktonic thaumarchaeal isolates

(2015) Felix J. Elling et al.   GEOCHIMICA ET COSMOCHIMICA ACTA

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

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

Effects of Zinc on Particulate Methane Monooxygenase Activity and Structure

(2014) Sarah Sirajuddin et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Mutagenesis of the hydrocarbon monooxygenase indicates a metal centre in subunit-C, and not subunit-B, is essential for copper-containing membrane monooxygenase activity

(2014) E. F. Liew et al.   MICROBIOLOGY-SGM

A re-evaluation of the archaeal membrane lipid biosynthetic pathway

(2014) Laura Villanueva et al.   NATURE REVIEWS MICROBIOLOGY

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

Structural conservation of the B subunit in the ammonia monooxygenase/particulate methane monooxygenase superfamily

(2014) Thomas J. Lawton et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

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

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

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

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

Genome-enabled transcriptomics reveals archaeal populations that drive nitrification in a deep-sea hydrothermal plume

(2012) Brett J Baker et al.   ISME Journal

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

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

(2012) Rita Bartossek et al.   Frontiers in Microbiology

Crystal Structure and Characterization of Particulate Methane Monooxygenase fromMethylocystisspecies Strain M

(2011) Stephen M. Smith et al.   BIOCHEMISTRY

Microbial metatranscriptomics in a permanent marine oxygen minimum zone

(2011) Frank J. Stewart et al.   ENVIRONMENTAL MICROBIOLOGY

The archaeal cell envelope

(2011) Sonja-Verena Albers et al.   NATURE REVIEWS MICROBIOLOGY

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

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

Oxidation of methane by a biological dicopper centre

(2010) Ramakrishnan Balasubramanian et al.   NATURE

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

Crenarchaeol dominates the membrane lipids of Candidatus Nitrososphaera gargensis, a thermophilic Group I.1b Archaeon

(2009) Angela Pitcher et al.   ISME Journal

Environmental, genomic and taxonomic perspectives on methanotrophicVerrucomicrobia

(2009) Huub J. M. Op den Camp et al.   Environmental Microbiology Reports

The Metal Centers of Particulate Methane Monooxygenase fromMethylosinus trichosporiumOB3b†‡

(2008) Amanda S. Hakemian et al.   BIOCHEMISTRY

The influence of soil pH on the diversity, abundance and transcriptional activity of ammonia oxidizing archaea and bacteria

(2008) Graeme W. Nicol et al.   ENVIRONMENTAL MICROBIOLOGY

Cultivation of a thermophilic ammonia oxidizing archaeon synthesizing crenarchaeol

(2008) José R. de la Torre et al.   ENVIRONMENTAL MICROBIOLOGY

Solubilization of membrane protein complexes for blue native PAGE

(2008) Veronika Reisinger et al.   Journal of Proteomics

Evidence that Ammonia-Oxidizing Archaea are More Abundant than Ammonia-Oxidizing Bacteria in Semiarid Soils of Northern Arizona, USA

(2008) Karen L. Adair et al.   MICROBIAL ECOLOGY

Nitrifier genomics and evolution of the nitrogen cycle

(2007) Martin G. Klotz et al.   FEMS MICROBIOLOGY LETTERS