Cited by 885Gut microbiota and healthOral microbiology and periodontitis researchMicrobial Community Ecology and Physiology

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Dynamics and associations of microbial community types across the human body

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Ding, Tao, Schloss, Patrick D.·2014·Nature

DOI 10.1038/nature13178PMC PMC4139711

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Abstract

A primary goal of the Human Microbiome Project (HMP) was to provide a reference collection of 16S ribosomal RNA gene sequences collected from sites across the human body that would allow microbiologists to better associate changes in the microbiome with changes in health. The HMP Consortium has reported the structure and function of the human microbiome in 300 healthy adults at 18 body sites from a single time point. Using additional data collected over the course of 12-18 months, we used Dirichlet multinomial mixture models to partition the data into community types for each body site and made three important observations. First, there were strong associations between whether individuals had been breastfed as an infant, their gender, and their level of education with their community types at several body sites. Second, although the specific taxonomic compositions of the oral and gut microbiomes were different, the community types observed at these sites were predictive of each other. Finally, over the course of the sampling period, the community types from sites within the oral cavity were the least stable, whereas those in the vagina and gut were the most stable. Our results demonstrate that even with the considerable intra- and interpersonal variation in the human microbiome, this variation can be partitioned into community types that are predictive of each other and are probably the result of life-history characteristics. Understanding the diversity of community types and the mechanisms that result in an individual having a particular type or changing types, will allow us to use their community types to assess disease risk and to personalize therapies.

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Authors: Ding, T., & Schloss, P. D.
Affiliations: University of Michigan (US)
Corresponding author: Schloss, Patrick D.
ORCID: Ding, Tao
Schloss, Patrick D.
Venue: Nature
Publisher: Springer Science and Business Media LLC
Published: 2014-04-16
Volume: 509
Issue: 7500
Pages: 357-360
ISSN: 0028-0836 (ISSN-L)
1476-4687
DOI: 10.1038/nature13178
PMC: PMC4139711
OpenAlex: W2111358533
Cited by: 885
References: 32
Citations by year: 2026: 24 · 2025: 63 · 2024: 59 · 2023: 72 · 2022: 92 · 2021: 84 · 2020: 91 · 2019: 74 · 2018: 68 · 2017: 72 · 2016: 69 · 2015: 94 · 2014: 22
FWCI: 35.10
Type: journal article
Language: en
Open access: green
www.ncbi.nlm.nih.gov
Licence: www.springer.com/tdm (tdm)
Locations: Nature (publishedVersion)
PubMed (publishedVersion)
Europe PMC (PubMed Central) (acceptedVersion)
PubMed Central (acceptedVersion)
RePEc: Research Papers in Economics (submittedVersion)
Funders: National Institutes of Health
National Human Genome Research Institute (R01HG005975)
National Institute of General Medical Sciences (R01GM099514)
National Institute of Diabetes and Digestive and Kidney Diseases (P30DK034933)
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: human microbiome, 16S rRNA gene sequences, Human Microbiome Project, breastfeeding, gender differences, educational attainment, oral microbiota, gut microbiota, vaginal microbiota, microbial community stability, interindividual variability
MeSH terms: Breast Feeding, Disease Susceptibility, Educational Status, Feces, Female, Health, Humans, Life Style, Male, Mouth, Organ Specificity, RNA, Ribosomal, 16S, Sex Characteristics, Time Factors, Vagina, Human Body, Gastrointestinal Tract, Metagenome, Precision Medicine, Microbiota

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Dynamics and associations of microbial community types across the human body

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