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Cultured microbes represent a substantial fraction of the human and mouse gut microbiota
Open accessAbstract
During the last 15 years, molecular techniques have been preferred over culture-based approaches for the study of mammalian gut microbiota, i.e. the communities of microorganisms dwelling in the intestine of mammals. The main reason is the belief that the majority of gut bacteria, especially strict anaerobes, escape cultivation. Despite numerous such statements in publications, the literature does not provide a clear overview on the subject. In the present manuscript, we highlight recent work on the cultivation of bacteria from the intestine of mammals, review the literature and provide novel data pertaining to cultured fractions of mammalian gut microbiota. These data show that, despite marked inter-sample variations, 35 to 65% of molecular species detected by sequencing have representative strains in culture.
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“In fact, a reasonably large proportion of the bacterial and archaeal component of our microbiota has already been cultured 41 (viruses and fungi remain underrepresented)”
From Human microbiome myths and misconceptions (2023) · cites this paper as [41]
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Metadata
- Authors
- Lagkouvardos, I., Overmann, J., & Clavel, T.
- Affiliations
- Technical University of Munich (DE)
- German Center for Infection Research (DE)
- Universitätsklinikum Aachen (DE)
- Corresponding author
- Clavel, Thomas
- Venue
- Gut Microbes
- Publisher
- Informa UK Limited
- Published
- 2017-04-18
- Volume
- 8
- Issue
- 5
- Pages
- 493-503
- ISSN
- 1949-0976 (ISSN-L)
- 1949-0984
- PMC
- PMC5628658
- OpenAlex
- W2606877093
- Cited by
- 104
- References
- 80
- Citations by year
- 2026: 7 · 2025: 9 · 2024: 7 · 2023: 11 · 2022: 10 · 2021: 9 · 2020: 19 · 2019: 12 · 2018: 14 · 2017: 6
- FWCI
- 1.31
- Type
- journal article
- Language
- en
- Open access
- gold
- doi.org
- Locations
- Gut Microbes (publishedVersion)
- Europe PMC (PubMed Central) (publishedVersion)
- PubMed Central (publishedVersion)
- PubMed (publishedVersion)
- RWTH Publications (RWTH Aachen) (submittedVersion)
- Funders
- Deutsche Forschungsgemeinschaft (SPP-1656)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Gut microbiota and health
- Physical Sciences › Environmental Science › Ecology › Microbial Community Ecology and Physiology
- Health Sciences › Dentistry › Periodontics › Oral microbiology and periodontitis research
- Keywords
- gut microbiota, bacterial culture, human gut microbiome, mouse gut microbiome, obligate anaerobes, representative strain
- MeSH terms
- Gastrointestinal Microbiome, Animals, Bacteria, Humans, Mice
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