ArticleProceedings of the National Academy of Sciences of the United States of America2011
Pan-genome of the dominant human gut-associated archaeon, Methanobrevibacter smithii, studied in twins.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 150 papers, 2 of them syntheses that pooled it.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
150 citing papers in PubMed, 2 syntheses or guidelines pooled it, 228 citations in OpenAlex.
- MNEMONIC: MetageNomic Experiment Mining to create an OTU Network of Inhabitant Correlations.BMC bioinformatics · 2019Pooled it
- Meta-analyses of studies of the human microbiota.Genome research · 2013Pooled it
- Clinical evidence of the role of Methanobrevibacter smithii in severe acute malnutrition.Scientific reports · 2021Trial
- Methanogens: vital but threatened members of the human microbiome?Trends in microbiology · 2026Review
- Pangenomics insights of enterococcus faecium human isolates and identification of novel therapeutic targets by in silico subtractive genomics.Brazilian journal of microbiology : [publication of the Brazilian Society for Microbiology] · 2026Article
- Identification of key gut microbiota and microbial QTL in contributing to the significant differences in body weight between two Chinese local chicken breeds.Animal genetics · 2026Article
- The study on the identification of cross-boundary microbiome enterotypes between high-altitude and coastal populations and their predictive value.BMC microbiology · 2026Article
- The pangenome: a statistical model, not a fixed biological property.Bioinformatics advances · 2026Review
- From cooperation to collapse: the diet-microbiota-host gene triad in disease and aging.Frontiers in microbiomes · 2026Review
- Age-related dynamics of predominant methanogenic archaea in the human gut microbiome.BMC microbiology · 2025Article
- Deciphering the coordinated roles of the host genome, duodenal mucosal genes, and microbiota in regulating complex traits in chickens.Microbiome · 2025Article
- Stable coexistence between an archaeal virus and the dominant methanogen of the human gut.Nature communications · 2024Article
- Editing microbes to mitigate enteric methane emissions in livestock.World journal of microbiology & biotechnology · 2024Review
- Model-driven characterization of functional diversity ofMicrobial genomics · 2024Article
- Article
- Networks of gut bacteria relate to cardiovascular disease in a multi-ethnic population: the HELIUS study.Cardiovascular research · 2024Article
- Functional prediction of proteins from the human gut archaeome.ISME communications · 2024Article
- Comprehensive gut microbiota composition and microbial interactions among the three age groups.PloS one · 2024Article
- Investigating the causal relationship between gut microbiota and gastroenteropancreatic neuroendocrine neoplasms: a bidirectional Mendelian randomization study.Frontiers in microbiology · 2024Article
- Structural and functional insights from the sequences and complex domain architecture of adhesin-like proteins fromFrontiers in microbiology · 2024Article
90 more citing papers are in PubMed but not listed here.
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Authors and funding
13 authors at 5 institutions in 2 countries.
Funding
Abstract
The human gut microbiota harbors three main groups of H(2)-consuming microbes: methanogens including the dominant archaeon, Methanobrevibacter smithii, a polyphyletic group of acetogens, and sulfate-reducing bacteria. Defining their roles in the gut is important for understanding how hydrogen metabolism affects the efficiency of fermentation of dietary components. We quantified methanogens in fecal samples from 40 healthy adult female monozygotic (MZ) and 28 dizygotic (DZ) twin pairs, analyzed bacterial 16S rRNA datasets generated from their fecal samples to identify taxa that co-occur with methanogens, sequenced the genomes of 20 M. smithii strains isolated from families of MZ and DZ twins, and performed RNA-Seq of a subset of strains to identify their responses to varied formate concentrations. The concordance rate for methanogen carriage was significantly higher for MZ versus DZ twin pairs. Co-occurrence analysis revealed 22 bacterial species-level taxa positively correlated with methanogens: all but two were members of the Clostridiales, with several being, or related to, known hydrogen-producing and -consuming bacteria. The M. smithii pan-genome contains 987 genes conserved in all strains, and 1,860 variably represented genes. Strains from MZ and DZ twin pairs had a similar degree of shared genes and SNPs, and were significantly more similar than strains isolated from mothers or members of other families. The 101 adhesin-like proteins (ALPs) in the pan-genome (45 ± 6 per strain) exhibit strain-specific differences in expression and responsiveness to formate. We hypothesize that M. smithii strains use their different repertoires of ALPs to create diversity in their metabolic niches, by allowing them to establish syntrophic relationships with bacterial partners with differing metabolic capabilities and patterns of co-occurrence.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.