Culture- and metagenomics-enabled analyses of the Methanosphaera genus reveals their monophyletic origin and differentiation according to genome size

Genomics and metagenomics of trimethylamine-utilizing Archaea in the human gut microbiome

(2017) Guillaume Borrel et al.   ISME Journal

A Ferredoxin- and F 420 H 2 -Dependent, Electron-Bifurcating, Heterodisulfide Reductase with Homologs in the Domains Bacteria and Archaea

(2017) Zhen Yan et al.   mBio

Differences down-under: alcohol-fueled methanogenesis by archaea present in Australian macropodids

(2016) Emily C Hoedt et al.   ISME Journal

MEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets

(2016) Sudhir Kumar et al.   MOLECULAR BIOLOGY AND EVOLUTION

Cospeciation of gut microbiota with hominids

(2016) A. H. Moeller et al.   SCIENCE

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

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

The impact of Docker containers on the performance of genomic pipelines

(2015) Paolo Di Tommaso et al.   PeerJ

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

(2015) Dongwan D. Kang et al.   PeerJ

Prokka: rapid prokaryotic genome annotation

(2014) T. Seemann   BIOINFORMATICS

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Methane yield phenotypes linked to differential gene expression in the sheep rumen microbiome

(2014) Weibing Shi et al.   GENOME RESEARCH

Towards a taxonomic coherence between average nucleotide identity and 16S rRNA gene sequence similarity for species demarcation of prokaryotes

(2014) M. Kim et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Increased Prevalence of Methanosphaera stadtmanae in Inflammatory Bowel Diseases

(2014) Pascale Blais Lecours et al.   PLoS One

Gut metagenome in European women with normal, impaired and diabetic glucose control

(2013) Fredrik H. Karlsson et al.   NATURE

The Complete Genome Sequence of Methanobrevibacter sp. AbM4

(2013) S. C. Leahy et al.   Standards in Genomic Sciences

Peptidoglycan: a post-genomic analysis

(2012) Caroline Cayrou et al.   BMC MICROBIOLOGY

Methanomassiliicoccus luminyensis gen. nov., sp. nov., a methanogenic archaeon isolated from human faeces

(2012) B. Dridi et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Phylogenetic Analysis of Methanogens in the Pig Feces

(2011) Sheng-Yong Mao et al.   CURRENT MICROBIOLOGY

IMG: the integrated microbial genomes database and comparative analysis system

(2011) V. M. Markowitz et al.   NUCLEIC ACIDS RESEARCH

Immunogenic Properties of Archaeal Species Found in Bioaerosols

(2011) Pascale Blais Lecours et al.   PLoS One

Pan-genome of the dominant human gut-associated archaeon, Methanobrevibacter smithii, studied in twins

(2011) E. E. Hansen et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Genome Sequence of the Rumen Methanogen Methanobrevibacter ruminantium Reveals New Possibilities for Controlling Ruminant Methane Emissions

(2010) Sinead C. Leahy et al.   PLoS One

FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments

(2010) Morgan N. Price et al.   PLoS One

progressiveMauve: Multiple Genome Alignment with Gene Gain, Loss and Rearrangement

(2010) Aaron E. Darling et al.   PLoS One

Community Composition and Density of Methanogens in the Foregut of the Tammar Wallaby (Macropus eugenii)

(2009) P. N. Evans et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

EDGAR: A software framework for the comparative analysis of prokaryotic genomes

(2009) Jochen Blom et al.   BMC BIOINFORMATICS

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

Methanogenic archaea: ecologically relevant differences in energy conservation

(2008) Rudolf K. Thauer et al.   NATURE REVIEWS MICROBIOLOGY