Discovery of a new genus of anaerobic ammonium oxidizing bacteria with a mechanism for oxygen tolerance

Purification of the key enzyme complexes of the anammox pathway from DEMON sludge

(2021) Mohd Akram et al.   BIOPOLYMERS

Structural and functional characterization of the intracellular filament-forming nitrite oxidoreductase multiprotein complex

(2021) Tadeo Moreno Chicano et al.   Nature Microbiology

Activity and Metabolic Versatility of Complete Ammonia Oxidizers in Full-Scale Wastewater Treatment Systems

(2020) Yuchun Yang et al.   mBio

Autotrophic and mixotrophic metabolism of an anammox bacterium revealed by in vivo 13C and 2H metabolic network mapping

(2020) Christopher E. Lawson et al.   ISME Journal

Nitric oxide-dependent anaerobic ammonium oxidation

(2019) Ziye Hu et al.   Nature Communications

Interactive Tree Of Life (iTOL) v4: recent updates and new developments

(2019) Ivica Letunic et al.   NUCLEIC ACIDS RESEARCH

A 192-heme electron transfer network in the hydrazine dehydrogenase complex

(2019) M. Akram et al.   Science Advances

NanoSIMS reveals unusual enrichment of acetate and propionate by an anammox consortium dominated by Jettenia asiatica

(2019) Yu Tao et al.   WATER RESEARCH

Discovery of a functional, contracted heme-binding motif within a multiheme cytochrome

(2019) Christina Ferousi et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Complex microbial nitrogen-cycling networks in three distinct anammox-inoculated wastewater treatment systems

(2019) Yuchun Yang et al.   WATER RESEARCH

Application of an enrichment culture of the marine anammox bacterium “Ca. Scalindua sp. AMX11” for nitrogen removal under moderate salinity and in the presence of organic carbon

(2019) Muhammad Ali et al.   WATER RESEARCH

Performance of Anammox Processes for Wastewater Treatment: A Critical Review on Effects of Operational Conditions and Environmental Stresses

(2019) Sunja Cho et al.   Water

Two identical copies of the hydrazine synthase gene clusters found in the genomes of anammox bacteria

(2018) Yuchun Yang et al.   INTERNATIONAL BIODETERIORATION & BIODEGRADATION

The microbial nitrogen-cycling network

(2018) Marcel M. M. Kuypers et al.   NATURE REVIEWS MICROBIOLOGY

Model-based analysis of microbial consortia and microbial products in an anammox biofilm reactor

(2018) M. Azari et al.   WATER SCIENCE AND TECHNOLOGY

Resolving the complete genome of Kuenenia stuttgartiensis from a membrane bioreactor enrichment using Single-Molecule Real-Time sequencing

(2018) Jeroen Frank et al.   Scientific Reports

Uncultivated microbes in need of their own taxonomy

(2017) Konstantinos T Konstantinidis et al.   ISME Journal

Draft Genome of Scalindua rubra, Obtained from the Interface Above the Discovery Deep Brine in the Red Sea, Sheds Light on Potential Salt Adaptation Strategies in Anammox Bacteria

(2017) Daan R. Speth et al.   MICROBIAL ECOLOGY

Fast Genome-Wide Functional Annotation through Orthology Assignment by eggNOG-Mapper

(2017) Jaime Huerta-Cepas et al.   MOLECULAR BIOLOGY AND EVOLUTION

Metabolic network analysis reveals microbial community interactions in anammox granules

(2017) Christopher E. Lawson et al.   Nature Communications

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

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

Application of the MAFFT sequence alignment program to large data—reexamination of the usefulness of chained guide trees

(2016) Kazunori D. Yamada et al.   BIOINFORMATICS

Ecology and physiology of anaerobic ammonium oxidizing bacteria

(2016) Mamoru Oshiki et al.   ENVIRONMENTAL MICROBIOLOGY

Hydroxylamine-dependent anaerobic ammonium oxidation (anammox) by “Candidatus Brocadia sinica”

(2016) Mamoru Oshiki et al.   ENVIRONMENTAL MICROBIOLOGY

Characterization of Anammox Hydrazine Dehydrogenase, a Key N2-producing Enzyme in the Global Nitrogen Cycle

(2016) Wouter J. Maalcke et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

BlastKOALA and GhostKOALA: KEGG Tools for Functional Characterization of Genome and Metagenome Sequences

(2016) Minoru Kanehisa et al.   JOURNAL OF MOLECULAR BIOLOGY

Anammox Biochemistry: a Tale of Heme c Proteins

(2016) Boran Kartal et al.   TRENDS IN BIOCHEMICAL SCIENCES

Metatranscriptomics reveals the molecular mechanism of large granule formation in granular anammox reactor

(2016) Samik Bagchi et al.   Scientific Reports

IMNGS: A comprehensive open resource of processed 16S rRNA microbial profiles for ecology and diversity studies

(2016) Ilias Lagkouvardos et al.   Scientific Reports

Identification of Amino Acids at the Catalytic Site of a Ferredoxin-Dependent Cyanobacterial Nitrate Reductase

(2015) Anurag P. Srivastava et al.   BIOCHEMISTRY

CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes

(2015) Donovan H. Parks et al.   GENOME RESEARCH

Immunogold Localization of Key Metabolic Enzymes in the Anammoxosome and on the Tubule-Like Structures of Kuenenia stuttgartiensis

(2015) Naomi M. de Almeida et al.   JOURNAL OF BACTERIOLOGY

The inner workings of the hydrazine synthase multiprotein complex

(2015) Andreas Dietl et al.   NATURE

MetaBAT, an efficient tool for accurately reconstructing single genomes from complex microbial communities

(2015) Dongwan D. Kang et al.   PeerJ

cbb3-Type Cytochrome c Oxidases, Aerobic Respiratory Enzymes, Impact the Anaerobic Life of Pseudomonas aeruginosa PAO1

(2014) M. Hamada et al.   JOURNAL OF BACTERIOLOGY

Identification and characterization of the nitrate assimilation genes in the isolate of Streptomyces griseorubens JSD-1

(2014) Haiwei Feng et al.   Microbial Cell Factories

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

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

Uniting the classification of cultured and uncultured bacteria and archaea using 16S rRNA gene sequences

(2014) Pablo Yarza et al.   NATURE REVIEWS MICROBIOLOGY

MyTaxa: an advanced taxonomic classifier for genomic and metagenomic sequences

(2014) Chengwei Luo et al.   NUCLEIC ACIDS RESEARCH

Roles of Four Conserved Basic Amino Acids in a Ferredoxin-Dependent Cyanobacterial Nitrate Reductase

(2013) Anurag P. Srivastava et al.   BIOCHEMISTRY

Structural Basis of Biological NO Generation by Octaheme Oxidoreductases

(2013) Wouter J. Maalcke et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

UPARSE: highly accurate OTU sequences from microbial amplicon reads

(2013) Robert C Edgar   NATURE METHODS

The SEED and the Rapid Annotation of microbial genomes using Subsystems Technology (RAST)

(2013) Ross Overbeek et al.   NUCLEIC ACIDS RESEARCH

Genome analysis and heterologous expression of acetate-activating enzymes in the anammox bacterium Kuenenia stuttgartiensis

(2012) Lina Russ et al.   ARCHIVES OF MICROBIOLOGY

SortMeRNA: fast and accurate filtering of ribosomal RNAs in metatranscriptomic data

(2012) Evguenia Kopylova et al.   BIOINFORMATICS

Nitrate reduction by organotrophic Anammox bacteria in a nitritation/anammox granular sludge and a moving bed biofilm reactor

(2012) Mari K.H. Winkler et al.   BIORESOURCE TECHNOLOGY

The metagenome of the marine anammox bacterium ‘CandidatusScalindua profunda’ illustrates the versatility of this globally important nitrogen cycle bacterium

(2012) Jack van de Vossenberg et al.   ENVIRONMENTAL MICROBIOLOGY

Anammox organism KSU-1 expresses a NirK-type copper-containing nitrite reductase instead of a NirS-type with cytochromecd1

(2012) Daisuke Hira et al.   FEBS LETTERS

SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing

(2012) Anton Bankevich et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Microbial oceanography of anoxic oxygen minimum zones

(2012) O. Ulloa et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Metagenome Analysis of a Complex Community Reveals the Metabolic Blueprint of Anammox Bacterium “Candidatus Jettenia asiatica”

(2012) Ziye Hu et al.   Frontiers in Microbiology

Purification and characterization of the acetyl-CoA synthetase from Mycobacterium tuberculosis

(2011) Ru Li et al.   ACTA BIOCHIMICA ET BIOPHYSICA SINICA

Molecular mechanism of anaerobic ammonium oxidation

(2011) Boran Kartal et al.   NATURE

SignalP 4.0: discriminating signal peptides from transmembrane regions

(2011) Thomas Nordahl Petersen et al.   NATURE METHODS

Enzyme kinetics, inhibitors, mutagenesis and electron paramagnetic resonance analysis of dual-affinity nitrate reductase in unicellular N2-fixing cyanobacterium Cyanothece sp. PCC 8801

(2011) Tung-Hei Wang et al.   PLANT PHYSIOLOGY AND BIOCHEMISTRY

PSORTb 3.0: improved protein subcellular localization prediction with refined localization subcategories and predictive capabilities for all prokaryotes

(2010) Nancy Y. Yu et al.   BIOINFORMATICS

Prodigal: prokaryotic gene recognition and translation initiation site identification

(2010) Doug Hyatt et al.   BMC BIOINFORMATICS

QIIME allows analysis of high-throughput community sequencing data

(2010) J Gregory Caporaso et al.   NATURE METHODS

A scaling normalization method for differential expression analysis of RNA-seq data

(2010) Mark D Robinson et al.   GENOME BIOLOGY

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

Candidatus ‘Brocadia fulgida’: an autofluorescent anaerobic ammonium oxidizing bacterium

(2009) Boran Kartal et al.   FEMS MICROBIOLOGY ECOLOGY

High-performance signal peptide prediction based on sequence alignment techniques

(2008) K. Frank et al.   BIOINFORMATICS

I-TASSER server for protein 3D structure prediction

(2008) Yang Zhang   BMC BIOINFORMATICS

Diversity of ammonium-oxidizing bacteria in a granular sludge anaerobic ammonium-oxidizing (anammox) reactor

(2008) Zhe-Xue Quan et al.   ENVIRONMENTAL MICROBIOLOGY