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

Gut Microbial Metabolite TMAO Enhances Platelet Hyperreactivity and Thrombosis Risk

(2016) Weifei Zhu et al.   CELL

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

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

Population-level analysis of gut microbiome variation

(2016) Gwen Falony et al.   SCIENCE

Archaea and the human gut: New beginning of an old story

(2016) Nadia Gaci et al.   WORLD JOURNAL OF GASTROENTEROLOGY

Microbiology Meets Big Data: The Case of Gut Microbiota–Derived Trimethylamine

(2015) Gwen Falony et al.   Annual Review of Microbiology

Composition and temporal stability of the gut microbiota in older persons

(2015) Ian B Jeffery et al.   ISME Journal

Genome of Methanoregula boonei 6A8 reveals adaptations to oligotrophic peatland environments

(2015) Suzanna Bräuer et al.   MICROBIOLOGY-SGM

Disentangling type 2 diabetes and metformin treatment signatures in the human gut microbiota

(2015) Kristoffer Forslund et al.   NATURE

Gut microbiota and aging

(2015) P. W. OToole et al.   SCIENCE

Reduction of butyrate- and methane-producing microorganisms in patients with Irritable Bowel Syndrome

(2015) Marta Pozuelo et al.   Scientific Reports

Archaea in and on the Human Body: Health Implications and Future Directions

(2015) Mor N. Lurie-Weinberger et al.   PLoS Pathogens

Rumen microbial communities influence metabolic phenotypes in lambs

(2015) Diego P. Morgavi et al.   Frontiers in Microbiology

The microbiome of uncontacted Amerindians

(2015) J. C. Clemente et al.   Science Advances

Global prevalence and distribution of genes and microorganisms involved in mercury methylation

(2015) M. Podar et al.   Science Advances

New Mode of Energy Metabolism in the Seventh Order of Methanogens as Revealed by Comparative Genome Analysis of “Candidatus Methanoplasma termitum”

(2014) Kristina Lang et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Comparative genomics highlights the unique biology of Methanomassiliicoccales, a Thermoplasmatales-related seventh order of methanogenic archaea that encodes pyrrolysine

(2014) Guillaume Borrel et al.   BMC GENOMICS

Human Genetics Shape the Gut Microbiome

(2014) Julia K. Goodrich et al.   CELL

γ-Butyrobetaine Is a Proatherogenic Intermediate in Gut Microbial Metabolism of L -Carnitine to TMAO

(2014) Robert A. Koeth et al.   Cell Metabolism

Identification and assembly of genomes and genetic elements in complex metagenomic samples without using reference genomes

(2014) H Bjørn Nielsen et al.   NATURE BIOTECHNOLOGY

Increased Prevalence of Methanosphaera stadtmanae in Inflammatory Bowel Diseases

(2014) Pascale Blais Lecours et al.   PLoS One

The Intestinal Archaea Methanosphaera stadtmanae and Methanobrevibacter smithii Activate Human Dendritic Cells

(2014) Corinna Bang et al.   PLoS One

Carnitine metabolism to trimethylamine by an unusual Rieske-type oxygenase from human microbiota

(2014) Y. Zhu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Age dependent breath methane in the German population

(2014) Daniela Polag et al.   SCIENCE OF THE TOTAL ENVIRONMENT

Age, Dietary Fiber, Breath Methane, and Fecal Short Chain Fatty Acids Are Interrelated in Archaea-Positive Humans

(2013) Judlyn Fernandes et al.   JOURNAL OF NUTRITION

Candidatus Methanogranum caenicola: a Novel Methanogen from the Anaerobic Digested Sludge, and Proposal of Methanomassiliicoccaceae fam. nov. and Methanomassiliicoccales ord. nov., for a Methanogenic Lineage of the Class Thermoplasmata

(2013) Takao Iino et al.   MICROBES AND ENVIRONMENTS

Richness of human gut microbiome correlates with metabolic markers

(2013) Emmanuelle Le Chatelier et al.   NATURE

Intestinal microbiota metabolism of l-carnitine, a nutrient in red meat, promotes atherosclerosis

(2013) Robert A Koeth et al.   NATURE MEDICINE

Archaea and Fungi of the Human Gut Microbiome: Correlations with Diet and Bacterial Residents

(2013) Christian Hoffmann et al.   PLoS One

The Human Microbiome: Our Second Genome

(2012) Elizabeth A. Grice et al.   Annual Review of Genomics and Human Genetics

Age-related prevalence of Methanomassiliicoccus luminyensis in the human gut microbiome

(2012) Bédis Dridi et al.   APMIS

“Methanoplasmatales,” Thermoplasmatales-Related Archaea in Termite Guts and Other Environments, Are the Seventh Order of Methanogens

(2012) Kristina Paul et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

IDBA-UD: a de novo assembler for single-cell and metagenomic sequencing data with highly uneven depth

(2012) Y. Peng et al.   BIOINFORMATICS

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

Complete Genome Sequence of Methanomassiliicoccus luminyensis, the Largest Genome of a Human-Associated Archaea Species

(2012) A. Gorlas et al.   JOURNAL OF BACTERIOLOGY

Genome Sequence of "Candidatus Methanomethylophilus alvus" Mx1201, a Methanogenic Archaeon from the Human Gut Belonging to a Seventh Order of Methanogens

(2012) G. Borrel et al.   JOURNAL OF BACTERIOLOGY

Gut microbiota composition correlates with diet and health in the elderly

(2012) Marcus J. Claesson et al.   NATURE

Structure, function and diversity of the healthy human microbiome

(2012)   NATURE

Genomic insights into the marine sponge microbiome

(2012) Ute Hentschel et al.   NATURE REVIEWS MICROBIOLOGY

Microbial conversion of choline to trimethylamine requires a glycyl radical enzyme

(2012) S. Craciun et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Ultra-fast sequence clustering from similarity networks with SiLiX

(2011) Vincent Miele et al.   BMC BIOINFORMATICS

Fold and Function of the InlB B-repeat

(2011) Maria Ebbes et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Gut flora metabolism of phosphatidylcholine promotes cardiovascular disease

(2011) Zeneng Wang et al.   NATURE

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

Search and clustering orders of magnitude faster than BLAST

(2010) Robert C. Edgar   BIOINFORMATICS

A human gut microbial gene catalogue established by metagenomic sequencing

(2010) Junjie Qin et al.   NATURE

Composition, variability, and temporal stability of the intestinal microbiota of the elderly

(2010) M. J. Claesson et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Low counts of Faecalibacterium prausnitzii in colitis microbiota

(2009) H. Sokol et al.   INFLAMMATORY BOWEL DISEASES

Molecular evaluation of the human gut methanogenic archaeal microbiota reveals an age-associated increase of the diversity

(2009) Agnès Mihajlovski et al.   Environmental Microbiology Reports

Community-wide analysis of microbial genome sequence signatures

(2009) Gregory J Dick et al.   GENOME BIOLOGY

Human methanogen diversity and incidence in healthy and diseased colonic groups using mcrA gene analysis

(2008) Pauline D Scanlan et al.   BMC MICROBIOLOGY

A putative new order of methanogenic Archaea inhabiting the human gut, as revealed by molecular analyses of the mcrA gene

(2008) Agnès Mihajlovski et al.   RESEARCH IN MICROBIOLOGY