Genetic Determinants of the Gut Microbiome in UK Twins
Studies in mice and humans have revealed intriguing associations between host genetics and the microbiome. Here we report a 16S rRNA-based analysis of the gut microbiome in 1,126 twin pairs, a subset of which was previously reported. Tripling the sample narrowed the confidence intervals around herit...
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| Published in | Cell host & microbe Vol. 19; no. 5; pp. 731 - 743 |
|---|---|
| Main Authors | , , , , , , , , , |
| Format | Journal Article |
| Language | English |
| Published |
United States
Elsevier Inc
11.05.2016
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| Subjects | |
| Online Access | Get full text |
| ISSN | 1931-3128 1934-6069 |
| DOI | 10.1016/j.chom.2016.04.017 |
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| Abstract | Studies in mice and humans have revealed intriguing associations between host genetics and the microbiome. Here we report a 16S rRNA-based analysis of the gut microbiome in 1,126 twin pairs, a subset of which was previously reported. Tripling the sample narrowed the confidence intervals around heritability estimates and uncovered additional heritable taxa, some of which are validated in other studies. Repeat sampling of subjects showed heritable taxa to be temporally stable. A candidate gene approach uncovered associations between heritable taxa and genes related to diet, metabolism, and olfaction. We replicate an association between Bifidobacterium and the lactase (LCT) gene locus and identify an association between the host gene ALDH1L1 and the bacteria SHA-98, suggesting a link between formate production and blood pressure. Additional genes detected are involved in barrier defense and self/non-self recognition. Our results indicate that diet-sensing, metabolism, and immune defense are important drivers of human-microbiome co-evolution.
[Display omitted]
•16S rRNA-based analysis of the gut microbiome in 1,126 twin pairs•Heritable bacterial taxa are temporally stable•Bifidobacterium associates with lactase gene variants; formate production links to blood pressure•Gene-microbe links involve genes related to diet, metabolism, olfaction, and defense
Does host genotype shape the microbiome? Goodrich et al. present a gut microbiome analysis of 1,126 twin pairs, which extends the association between host genetics and select bacterial taxa. Lactase nonpersistence was linked to higher levels of Bifidobacteria. Other gene/microbe links relate to diet and barrier defense. |
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| AbstractList | Studies in mice and humans have revealed intriguing associations between host genetics and the microbiome. Here we report a 16S rRNA-based analysis of the gut microbiome in 1,126 twin pairs, a subset of which was previously reported. Tripling the sample narrowed the confidence intervals around heritability estimates and uncovered additional heritable taxa, some of which are validated in other studies. Repeat sampling of subjects showed heritable taxa to be temporally stable. A candidate gene approach uncovered associations between heritable taxa and genes related to diet, metabolism, and olfaction. We replicate an association between Bifidobacterium and the lactase (LCT) gene locus and identify an association between the host gene ALDH1L1 and the bacteria SHA-98, suggesting a link between formate production and blood pressure. Additional genes detected are involved in barrier defense and self/non-self recognition. Our results indicate that diet-sensing, metabolism, and immune defense are important drivers of human-microbiome co-evolution. Studies in mice and humans have revealed intriguing associations between host genetics and the microbiome. Here we report a 16S rRNA-based analysis of the gut microbiome in 1,126 twin pairs, a subset of which was previously reported. Tripling the sample narrowed the confidence intervals around heritability estimates and uncovered additional heritable taxa, some of which are validated in other studies. Repeat sampling of subjects showed heritable taxa to be temporally stable. A candidate gene approach uncovered associations between heritable taxa and genes related to diet, metabolism, and olfaction. We replicate an association between Bifidobacterium and the lactase (LCT) gene locus and identify an association between the host gene ALDH1L1 and the bacteria SHA-98, suggesting a link between formate production and blood pressure. Additional genes detected are involved in barrier defense and self/non-self recognition. Our results indicate that diet-sensing, metabolism, and immune defense are important drivers of human-microbiome co-evolution. Studies in mice and humans have revealed intriguing associations between host genetics and the microbiome. Here we report a 16S rRNA-based analysis of the gut microbiome in 1,126 twin pairs, a subset of which was previously reported. Tripling the sample narrowed the confidence intervals around heritability estimates and uncovered additional heritable taxa, some of which are validated in other studies. Repeat sampling of subjects showed heritable taxa to be temporally stable. A candidate gene approach uncovered associations between heritable taxa and genes related to diet, metabolism, and olfaction. We replicate an association between Bifidobacterium and the lactase (LCT) gene locus and identify an association between the host gene ALDH1L1 and the bacteria SHA-98, suggesting a link between formate production and blood pressure. Additional genes detected are involved in barrier defense and self/non-self recognition. Our results indicate that diet-sensing, metabolism, and immune defense are important drivers of human-microbiome co-evolution. [Display omitted] •16S rRNA-based analysis of the gut microbiome in 1,126 twin pairs•Heritable bacterial taxa are temporally stable•Bifidobacterium associates with lactase gene variants; formate production links to blood pressure•Gene-microbe links involve genes related to diet, metabolism, olfaction, and defense Does host genotype shape the microbiome? Goodrich et al. present a gut microbiome analysis of 1,126 twin pairs, which extends the association between host genetics and select bacterial taxa. Lactase nonpersistence was linked to higher levels of Bifidobacteria. Other gene/microbe links relate to diet and barrier defense. Studies in mice and humans have revealed intriguing associations between host genetics and the microbiome. Here we report a 16S rRNA-based analysis of the gut microbiome in 1,126 twin pairs, a subset of which was previously reported. Tripling the sample narrowed the confidence intervals around heritability estimates and uncovered additional heritable taxa, some of which are validated in other studies. Repeat sampling of subjects showed heritable taxa to be temporally stable. A candidate gene approach uncovered associations between heritable taxa and genes related to diet, metabolism and olfaction. We replicate an association between Bifidobacterium and the lactase ( LCT ) gene locus and identify an association between the host gene ALDH1L1 and SHA-98 bacteria, suggesting a link between formate production and blood pressure. Additional genes detected are involved in barrier defense and self/non-self recognition. Our results indicate that diet-sensing, metabolism, and immune defense are important drivers of human-microbiome co-evolution. Does host gentoype shape the microbiome? Goodrich et al. present a gut microbiome analysis of 1,126 twin pairs, which extends the association between host genetics and select bacterial taxa. Lactase nonpersistence was linked to higher levels of Bifidobacteria. Other gene/microbe links relate to diet and barrier defense. |
| Author | Spector, Tim D. Beaumont, Michelle Ober, Carole Bell, Jordana T. Jackson, Matthew A. Clark, Andrew G. Goodrich, Julia K. Knight, Rob Davenport, Emily R. Ley, Ruth E. |
| AuthorAffiliation | 3 Departments of Pediatrics and Computer Science and Engineering, University of California San Diego, San Diego CA, USA 1 Department of Molecular Biology and Genetics, Cornell University, Ithaca NY, USA 2 Department of Twin Research & Genetic Epidemiology, King’s College London, U.K 5 Department of Microbiome Science, Max Planck Institute for Developmental Biology, Tübingen, Germany 4 Department of Human Genetics, University of Chicago, Chicago IL, USA |
| AuthorAffiliation_xml | – name: 3 Departments of Pediatrics and Computer Science and Engineering, University of California San Diego, San Diego CA, USA – name: 4 Department of Human Genetics, University of Chicago, Chicago IL, USA – name: 2 Department of Twin Research & Genetic Epidemiology, King’s College London, U.K – name: 5 Department of Microbiome Science, Max Planck Institute for Developmental Biology, Tübingen, Germany – name: 1 Department of Molecular Biology and Genetics, Cornell University, Ithaca NY, USA |
| Author_xml | – sequence: 1 givenname: Julia K. surname: Goodrich fullname: Goodrich, Julia K. organization: Department of Molecular Biology and Genetics, Cornell University, Ithaca, NY 14850, USA – sequence: 2 givenname: Emily R. surname: Davenport fullname: Davenport, Emily R. organization: Department of Molecular Biology and Genetics, Cornell University, Ithaca, NY 14850, USA – sequence: 3 givenname: Michelle surname: Beaumont fullname: Beaumont, Michelle organization: Department of Twin Research & Genetic Epidemiology, King’s College London, London SE1 7EH, UK – sequence: 4 givenname: Matthew A. surname: Jackson fullname: Jackson, Matthew A. organization: Department of Twin Research & Genetic Epidemiology, King’s College London, London SE1 7EH, UK – sequence: 5 givenname: Rob surname: Knight fullname: Knight, Rob organization: Departments of Pediatrics and Computer Science and Engineering, University of California San Diego, La Jolla, CA 92093, USA – sequence: 6 givenname: Carole surname: Ober fullname: Ober, Carole organization: Department of Human Genetics, University of Chicago, Chicago, IL 60637, USA – sequence: 7 givenname: Tim D. surname: Spector fullname: Spector, Tim D. organization: Department of Twin Research & Genetic Epidemiology, King’s College London, London SE1 7EH, UK – sequence: 8 givenname: Jordana T. surname: Bell fullname: Bell, Jordana T. organization: Department of Twin Research & Genetic Epidemiology, King’s College London, London SE1 7EH, UK – sequence: 9 givenname: Andrew G. surname: Clark fullname: Clark, Andrew G. organization: Department of Molecular Biology and Genetics, Cornell University, Ithaca, NY 14850, USA – sequence: 10 givenname: Ruth E. surname: Ley fullname: Ley, Ruth E. email: rel222@cornell.edu organization: Department of Molecular Biology and Genetics, Cornell University, Ithaca, NY 14850, USA |
| BackLink | https://www.ncbi.nlm.nih.gov/pubmed/27173935$$D View this record in MEDLINE/PubMed |
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| SubjectTerms | Base Sequence Female Gastrointestinal Microbiome - genetics Genetic Variation Humans Male Microbial Consortia - genetics Twins United Kingdom |
| Title | Genetic Determinants of the Gut Microbiome in UK Twins |
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