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Gut Microbiome of Coexisting BaAka Pygmies and Bantu Reflects Gradients of Traditional Subsistence Patterns

Gomez, Andres
Author Gomez, Andres Department of Genetics, Cell Biology, and Development, University of Minnesota, Twin Cities, MN 55108, USA; Department of Ecology, Evolution, and Behavior, University of Minnesota, Twin Cities, MN 55108, USA. Electronic address: agomez@jcvi.org
Petrzelkova, Klara J
Author Petrzelkova, Klara J Institute of Vertebrate Biology, Academy of Sciences of the Czech Republic, Brno 603 65, Czech Republic; Institute of Parasitology, Biology Centre of the Academy of Sciences of the Czech Republic, České Budějovice 370 05, Czech Republic; Liberec Zoo, Liberec 460 01, Czech Republic
Burns, Michael B
Author Burns, Michael B Department of Genetics, Cell Biology, and Development, University of Minnesota, Twin Cities, MN 55108, USA; Department of Ecology, Evolution, and Behavior, University of Minnesota, Twin Cities, MN 55108, USA
Yeoman, Carl J
Author Yeoman, Carl J Department of Animal and Range Sciences, Montana State University, Bozeman, MT 59717, USA
Amato, Katherine R
Author Amato, Katherine R Department of Anthropology, Northwestern University, Evanston, IL 60208, USA
Vlckova, Klara
Author Vlckova, Klara Faculty of Veterinary Medicine, Department of Pathology and Parasitology, University of Veterinary and Pharmaceutical Sciences, Brno 612 42, Czech Republic
Modry, David
Author Modry, David Institute of Parasitology, Biology Centre of the Academy of Sciences of the Czech Republic, České Budějovice 370 05, Czech Republic; Faculty of Veterinary Medicine, Department of Pathology and Parasitology, University of Veterinary and Pharmaceutical Sciences, Brno 612 42, Czech Republic; CEITEC, Central European Institute for Technology, University of Veterinary and Pharmaceutical Sciences, Brno 612 42, Czech Republic
Todd, Angelique
Author Todd, Angelique Dzanga-Sangha Protected Areas, World Wildlife Fund, Bayanga, Central African Republic
Jost Robinson, Carolyn A
Author Jost Robinson, Carolyn A Department of Anthropology, University of North Carolina, Wilmington, NC 28403, USA
Remis, Melissa J
Author Remis, Melissa J Department of Anthropology, Purdue University, West Lafayette, IN 47907, USA
Torralba, Manolito G
Author Torralba, Manolito G The J. Craig Venter Institute, La Jolla, CA 92037, USA
Morton, Elise
Author Morton, Elise Department of Genetics, Cell Biology, and Development, University of Minnesota, Twin Cities, MN 55108, USA; Department of Ecology, Evolution, and Behavior, University of Minnesota, Twin Cities, MN 55108, USA
Umaña, Juan D
Author Umaña, Juan D Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
Carbonero, Franck
Author Carbonero, Franck Department of Food Science, University of Arkansas, Fayetteville, AK 72704, USA
Gaskins, H Rex
Author Gaskins, H Rex Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA; Department of Animal Sciences, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
Nelson, Karen E
Author Nelson, Karen E The J. Craig Venter Institute, La Jolla, CA 92037, USA
Wilson, Brenda A
Author Wilson, Brenda A Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA; Department of Microbiology, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
Stumpf, Rebecca M
Author Stumpf, Rebecca M Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA; Department of Anthropology, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
White, Bryan A
Author White, Bryan A Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA; Department of Animal Sciences, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
Leigh, Steven R
Author Leigh, Steven R Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA; Department of Anthropology, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA; Department of Anthropology, University of Colorado, Boulder, CO 80309, USA. Electronic address: steven.leigh@colorado.edu
Blekhman, Ran
Author Blekhman, Ran Department of Genetics, Cell Biology, and Development, University of Minnesota, Twin Cities, MN 55108, USA; Department of Ecology, Evolution, and Behavior, University of Minnesota, Twin Cities, MN 55108, USA. Electronic address: blekhman@umn.edu

Cell reports. 2016 Mar 08 ; 14 (9) : 2142-2153. [epub] 20160225

Cell Rep
ISSN 2211-1247
Source

Language English Country United States Media print-electronic

Document type Comparative Study, Journal Article, Research Support, Non-U.S. Gov't

Persistent link https://www.medvik.cz/link/pmid26923597

PubMed 26923597
DOI 10.1016/j.celrep.2016.02.013
PII: S2211-1247(16)30099-7
Knihovny.cz E-resources

MeSH
Bacteroidetes genetics MeSH
Genes, Bacterial MeSH
RNA, Bacterial genetics MeSH
Black or African American MeSH
Black People MeSH
Firmicutes genetics MeSH
Gene Regulatory Networks MeSH
Humans MeSH
Molecular Typing MeSH
Diet, Paleolithic MeSH
RNA, Ribosomal, 16S genetics MeSH
Sequence Analysis, RNA MeSH
Gastrointestinal Microbiome genetics MeSH
Diet, Western MeSH
Check Tag
Humans MeSH
Male MeSH
Female MeSH
Publication type
Journal Article MeSH
Research Support, Non-U.S. Gov't MeSH
Comparative Study MeSH
Geographicals
United States MeSH
Central African Republic MeSH
Names of Substances
RNA, Bacterial MeSH
RNA, Ribosomal, 16S MeSH

To understand how the gut microbiome is impacted by human adaptation to varying environments, we explored gut bacterial communities in the BaAka rainforest hunter-gatherers and their agriculturalist Bantu neighbors in the Central African Republic. Although the microbiome of both groups is compositionally similar, hunter-gatherers harbor increased abundance of Prevotellaceae, Treponema, and Clostridiaceae, while the Bantu gut microbiome is dominated by Firmicutes. Comparisons with US Americans reveal microbiome differences between Africans and westerners but show western-like features in the Bantu, including an increased abundance of predictive carbohydrate and xenobiotic metabolic pathways. In contrast, the hunter-gatherer gut shows increased abundance of predicted virulence, amino acid, and vitamin metabolism functions, as well as dominance of lipid and amino-acid-derived metabolites, as determined through metabolomics. Our results demonstrate gradients of traditional subsistence patterns in two neighboring African groups and highlight the adaptability of the microbiome in response to host ecology.

Department of Animal and Range Sciences Montana State University Bozeman MT 59717 USA

Department of Anthropology Northwestern University Evanston IL 60208 USA

Department of Anthropology Purdue University West Lafayette IN 47907 USA

Department of Anthropology University of North Carolina Wilmington NC 28403 USA

Department of Food Science University of Arkansas Fayetteville AK 72704 USA

Department of Genetics Cell Biology and Development University of Minnesota Twin Cities MN 55108 USA; Department of Ecology Evolution and Behavior University of Minnesota Twin Cities MN 55108 USA

Dzanga Sangha Protected Areas World Wildlife Fund Bayanga Central African Republic

Faculty of Veterinary Medicine Department of Pathology and Parasitology University of Veterinary and Pharmaceutical Sciences Brno 612 42 Czech Republic

Institute for Genomic Biology University of Illinois at Urbana Champaign Urbana IL 61801 USA

Institute for Genomic Biology University of Illinois at Urbana Champaign Urbana IL 61801 USA; Department of Animal Sciences University of Illinois at Urbana Champaign Urbana IL 61801 USA

Institute for Genomic Biology University of Illinois at Urbana Champaign Urbana IL 61801 USA; Department of Anthropology University of Illinois at Urbana Champaign Urbana IL 61801 USA

Institute for Genomic Biology University of Illinois at Urbana Champaign Urbana IL 61801 USA; Department of Anthropology University of Illinois at Urbana Champaign Urbana IL 61801 USA; Department of Anthropology University of Colorado Boulder CO 80309 USA