Cited by 564Gut microbiota and healthAnaerobic Digestion and Biogas ProductionOral microbiology and periodontitis research

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Genomic and metabolic adaptations of Methanobrevibacter smithii to the human gut

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Samuel, Buck S., Hansen, Elizabeth E., Manchester, Jill K., Coutinho, Pedro M., Henrissat, Bernard, Fulton, Robert, Latreille, Philippe, Kim, Kung, Wilson, Richard K., Gordon, Jeffrey I.·2007·Proceedings of the National Academy of Sciences

DOI 10.1073/pnas.0704189104PMC PMC1890564

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Abstract

The human gut is home to trillions of microbes, thousands of bacterial phylotypes, as well as hydrogen-consuming methanogenic archaea. Studies in gnotobiotic mice indicate that Methanobrevibacter smithii , the dominant archaeon in the human gut ecosystem, affects the specificity and efficiency of bacterial digestion of dietary polysaccharides, thereby influencing host calorie harvest and adiposity. Metagenomic studies of the gut microbial communities of genetically obese mice and their lean littermates have shown that the former contain an enhanced representation of genes involved in polysaccharide degradation, possess more archaea, and exhibit a greater capacity to promote adiposity when transplanted into germ-free recipients. These findings have led to the hypothesis that M. smithii may be a therapeutic target for reducing energy harvest in obese humans. To explore this possibility, we have sequenced its 1,853,160-bp genome and compared it to other human gut-associated M. smithii strains and other Archaea. We have also examined M. smithii 's transcriptome and metabolome in gnotobiotic mice that do or do not harbor Bacteroides thetaiotaomicron , a prominent saccharolytic bacterial member of our gut microbiota. Our results indicate that M. smithii is well equipped to persist in the distal intestine through ( i ) production of surface glycans resembling those found in the gut mucosa, ( ii ) regulated expression of adhesin-like proteins, ( iii ) consumption of a variety of fermentation products produced by saccharolytic bacteria, and ( iv ) effective competition for nitrogenous nutrient pools. These findings provide a framework for designing strategies to change the representation and/or properties of M. smithii in the human gut microbiota.

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Shima, S., Thauer, R. K., & Ermler, U. (2009) · Royal Society of Chemistry eBooks · doi:10.1039/9781847559333-00219 · Cited by 9
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Mandal, S. K., Ray, S., & Choudhury, J. (2024) · ChemCatChem · doi:10.1002/cctc.202401149 · Cited by 8
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Kotzampassi, K. E. (2013) · Surgery Current Research · doi:10.4172/2161-1076.1000152 · Cited by 8
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Yadav, A. N., Kour, D., Kaur, T., Devi, R., Guleria, G., Rana, K. L., Yadav, N., & Rastegari, A. A. (2020) · Elsevier eBooks · doi:10.1016/b978-0-12-820528-0.00020-x · Cited by 8
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Kwok, L. (2014) · Springer eBooks · doi:10.1007/978-94-017-8841-0_6 · Cited by 7
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Su, Y., Smidt, H., & Zhu, W. (2014) · Journal of Integrative Agriculture · doi:10.1016/s2095-3119(13)60529-8 · Cited by 6
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Authors: Samuel, B. S., Hansen, E. E., Manchester, J. K., Coutinho, P. M., Henrissat, B., Fulton, R., Latreille, P., Kim, K., Wilson, R. K., & Gordon, J. I.
Affiliations: Washington University in St. Louis (US)
*Center for Genome Sciences and
Centre National de la Recherche Scientifique (FR)
Genome Sequencing Center, Washington University School of Medicine, St. Louis, MO 63108; and
Corresponding author: Gordon, Jeffrey I.
ORCID: Samuel, Buck S.
Hansen, Elizabeth E.
Coutinho, Pedro M.
Henrissat, Bernard
Wilson, Richard K.
Gordon, Jeffrey I.
Venue: Proceedings of the National Academy of Sciences
Publisher: National Academy of Sciences
Published: 2007-06-19
Volume: 104
Issue: 25
Pages: 10643-10648
ISSN: 0027-8424 (ISSN-L)
1091-6490
DOI: 10.1073/pnas.0704189104
PMC: PMC1890564
OpenAlex: W1982652385
Semantic Scholar: 463dd629f64fdb3ab488cc731164b4cb0794bf78
Cited by: 549
References: 27
Citations by year: 2026: 28 · 2025: 27 · 2024: 36 · 2023: 38 · 2022: 37 · 2021: 30 · 2020: 37 · 2019: 25 · 2018: 29 · 2017: 28 · 2016: 28 · 2015: 32 · 2014: 27 · 2013: 31 · 2012: 27
FWCI: 8.51
Type: journal article
Language: en
Open access: green
www.ncbi.nlm.nih.gov
Locations: Proceedings of the National Academy of Sciences (publishedVersion)
PubMed Central (publishedVersion)
PubMed (publishedVersion)
Funders: National Science Foundation (0202737)
W. M. Keck Foundation
San Diego State University
National Institutes of Health
University of California, San Diego
National Institute of Diabetes and Digestive and Kidney Diseases (R37DK030292, DK-30292, DK 70977, R01DK070977, R01DK030292)
Topics: Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Gut microbiota and health
Physical Sciences › Energy › Renewable Energy, Sustainability and the Environment › Anaerobic Digestion and Biogas Production
Health Sciences › Dentistry › Periodontics › Oral microbiology and periodontitis research
Keywords: Methanobrevibacter smithii, human gut microbiome, methanogenic archaea, polysaccharide degradation, obesity, adiposity, energy harvesting, gnotobiotic mice, Bacteroides thetaiotaomicron, archaeal genomes, transcriptome, metabolome, nitrogen competition, hydrogen consumption, intestinal colonization
MeSH terms: Adaptation, Physiological, Animals, Bacteroides, Fermentation, Germ-Free Life, Humans, Intestines, Male, Models, Biological, Molecular Sequence Data, Genome, Bacterial, Genomics, Methanobrevibacter, Mice

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