Metabolic landscape of the male mouse gut identifies different niches determined by microbial activities
Open accessAbstract
Distinct niches of the mammalian gut are populated by diverse microbiota, but the contribution of spatial variation to intestinal metabolism remains unclear. Here we present a map of the longitudinal metabolome along the gut of healthy colonized and germ-free male mice. With this map, we reveal a general shift from amino acids in the small intestine to organic acids, vitamins and nucleotides in the large intestine. We compare the metabolic landscapes in colonized versus germ-free mice to disentangle the origin of many metabolites in different niches, which in some cases allows us to infer the underlying processes or identify the producing species. Beyond the known impact of diet on the small intestinal metabolic niche, distinct spatial patterns suggest specific microbial influence on the metabolome in the small intestine. Thus, we present a map of intestinal metabolism and identify metabolite–microbe associations, which provide a basis to connect the spatial occurrence of bioactive compounds to host or microorganism metabolism.
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Secondary bile acid concentrations are significantly higher in the intestines and fecal samples of SPF mice compared with GF mice, providing strong evidence for their microbial origin.
“This phenomenon is evidenced by the significantly higher concentration of secondary BAs in the intestines and fecal samples of SPF mice compared to GF mice, providing strong evidence for their microbial origin.351–353”
From Microbiota–gut–brain axis and its therapeutic applications in neurodegenerative diseases (2024) · cites this paper as [351]
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- [34]Donaldson GP Lee SM Mazmanian SK Gut biogeography of the bacterial microbiota. Nat. Rev. Microbiol. 2016 14 20 32 10.1038/nrmicro3552 26499895 PMC4837114 · DOI · Paper page
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Microbiota–gut–brain axis and its therapeutic applications in neurodegenerative diseases
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- Authors
- Meier, K. H. U., Trouillon, J., Li, H., Lang, M., Fuhrer, T., Zamboni, N., Sunagawa, S., Macpherson, A. J., & Sauer, U.
- Affiliations
- ETH Zurich (CH)
- University of Bern (CH)
- Corresponding author
- Sauer, Uwe
- ORCID
- Venue
- Nature Metabolism
- Published
- 2023-05-22
- Volume
- 5
- Issue
- 6
- Pages
- 968-980
- ISSN
- 2522-5812 (ISSN-L)
- PMC
- PMC10290957
- OpenAlex
- W4377290585
- Cited by
- 48
- References
- 68
- Citations by year
- 2026: 11 · 2025: 19 · 2024: 15 · 2023: 3
- FWCI
- 4.26
- Type
- journal article
- Language
- en
- Open access
- hybrid
- doi.org
- Locations
- Nature Metabolism (publishedVersion, cc-by)
- PubMed Central (publishedVersion, cc-by)
- PubMed (publishedVersion)
- Bern Open Repository and Information System (University of Bern) (submittedVersion, cc-by)
- Repository for Publications and Research Data (ETH Zurich) (submittedVersion, cc-by)
- ETH Zürich Research Collection
- Funders
- U.S. Department of Health & Human Services | National Institutes of Health (GM117324)
- Schweizerischer Nationalfonds zur Förderung der Wissenschaftlichen Forschung (CRSII5_177164)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Gut microbiota and health
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Metabolomics and Mass Spectrometry Studies
- Life Sciences › Agricultural and Biological Sciences › Animal Science and Zoology › Animal Nutrition and Physiology
- Keywords
- gut microbiota, intestinal metabolism, germ-free mice, small intestine, large intestine, amino acids, organic acids, vitamins, nucleotides, diet
- MeSH terms
- Amino Acids, Animals, Biochemical Phenomena, Diet, Male, Mammals, Mice, Metabolome, Microbiota
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