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Stability of the human faecal microbiome in a cohort of adult men
Open accessAbstract
Characterizing the stability of the gut microbiome is important to exploit it as a therapeutic target and diagnostic biomarker. We metagenomically and metatranscriptomically sequenced the faecal microbiomes of 308 participants in the Health Professionals Follow-Up Study. Participants provided four stool samples-one pair collected 24-72 h apart and a second pair ~6 months later. Within-person taxonomic and functional variation was consistently lower than between-person variation over time. In contrast, metatranscriptomic profiles were comparably variable within and between subjects due to higher within-subject longitudinal variation. Metagenomic instability accounted for ~74% of corresponding metatranscriptomic instability. The rest was probably attributable to sources such as regulation. Among the pathways that were differentially regulated, most were consistently over- or under-transcribed at each time point. Together, these results suggest that a single measurement of the faecal microbiome can provide long-term information regarding organismal composition and functional potential, but repeated or short-term measures may be necessary for dynamic features identified by metatranscriptomics.
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“Study of short-term longitudinal samplings from half the donors found that individuals are more similar to themselves over time compared with others (Costello et al., 2009; Flores et al., 2014; Mehta et al., 2018).”
From Gut microbiome stability and dynamics in healthy donors and patients with non-gastrointestinal cancers (2021) · cites this paper as Mehta et al., 2018
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“Although stability was the norm, the degree of species stability (quantified as 1 − BC distance; Mehta et al., 2018) was variable across the 413 donors (Fig. 6, B and C)”
From Gut microbiome stability and dynamics in healthy donors and patients with non-gastrointestinal cancers (2021) · cites this paper as Mehta et al., 2018
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“It is possible that higher intake of fiber could reduce the carcinogenic effects of F nucleatum by restoring effective immunosurveillance.173”
From Influence of the Gut Microbiome, Diet, and Environment on Risk of Colorectal Cancer (2020) · cites this paper as [173]
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Metadata
- Authors
- Mehta, R. S., Abu-Ali, G. S., Drew, D. A., Lloyd-Price, J., Subramanian, A., Lochhead, P., Joshi, A. D., Ivey, K. L., Khalili, H., Brown, G. T., DuLong, C., Song, M., Nguyen, L. H., Mallick, H., Rimm, E. B., Izard, J., Huttenhower, C., & Chan, A. T.
- Affiliations
- Harvard University (US)
- Broad Institute (US)
- Brigham and Women's Hospital (US)
- University of Nebraska–Lincoln (US)
- Corresponding author
- Huttenhower, Curtis
- Chan, Andrew T.
- ORCID
- Venue
- Nature Microbiology
- Published
- 2018-01-15
- Volume
- 3
- Issue
- 3
- Pages
- 347-355
- ISSN
- 2058-5276 (ISSN-L)
- PMC
- PMC6016839
- OpenAlex
- W2783226215
- Cited by
- 273
- References
- 48
- Citations by year
- 2026: 16 · 2025: 29 · 2024: 43 · 2023: 36 · 2022: 31 · 2021: 43 · 2020: 43 · 2019: 17 · 2018: 15
- FWCI
- 10.30
- Type
- journal article
- Language
- en
- Open access
- green
- europepmc.org
- Licence
- Locations
- Nature Microbiology (publishedVersion)
- PubMed (publishedVersion)
- Europe PMC (PubMed Central) (acceptedVersion)
- PubMed Central (acceptedVersion)
- Lincoln (University of Nebraska) (submittedVersion)
- Funders
- Massachusetts General Hospital
- Crohn's and Colitis Foundation (454674, 563526)
- National Heart, Lung, and Blood Institute (R01HL035464)
- National Cancer Institute (R01CA202704, L30 CA209764, U01CA152904, UM1CA167552)
- National Institute of Diabetes and Digestive and Kidney Diseases (K01DK110267, K24DK098311, P30DK043351)
- National Institute of Dental and Craniofacial Research (U54DE023798)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Gut microbiota and health
- Health Sciences › Dentistry › Periodontics › Oral microbiology and periodontitis research
- Physical Sciences › Environmental Science › Ecology › Microbial Community Ecology and Physiology
- Keywords
- fecal microbiota, within-person variability, between-person variation, metatranscriptomics, metagenomics, Health Professionals Follow-up Study, adult male, biomarkers
- MeSH terms
- Gastrointestinal Microbiome, Adult, Aged, Bacteria, Feces, Follow-Up Studies, Health Personnel, Humans, Male, Middle Aged, Prospective Studies, Cohort Studies, Gene Expression, Gene Expression Profiling, Metagenomics, High-Throughput Nucleotide Sequencing, Microbiota
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