The epigenomic landscape of African rainforest hunter-gatherers and farmers

Autor: Alain Froment, Maxime Rotival, Julia L. MacIsaac, Lluis Quintana-Murci, Edouard Betsem, Timothée Flutre, Christine Harmant, George H. Perry, Luis B. Barreiro, Lisa M. McEwen, Jean-Marie Hombert, Michael S. Kobor, Patrick Mouguiama-Daouda, Etienne Patin, Antoine Gessain, Evelyne Heyer, Meaghan J. Jones, Maud Fagny, Hélène Quach, Katherine J. Siddle
Přispěvatelé: Génétique Evolutive Humaine - Human Evolutionary Genetics, Institut Pasteur [Paris]-Centre National de la Recherche Scientifique (CNRS), Centre for Molecular Medicine and Therapeutics, Child and Family Research Institute and Department of Medical Genetics, University of British Columbia (UBC), Amélioration génétique et adaptation des plantes méditerranéennes et tropicales (UMR AGAP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut National de la Recherche Agronomique (INRA)-Centre international d'études supérieures en sciences agronomiques (Montpellier SupAgro)-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro), Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro), Département des Jardins botaniques et zoologiques, Muséum national d'Histoire naturelle (MNHN), Epidémiologie et Physiopathologie des Virus Oncogènes (EPVO (UMR_3569 / U-Pasteur_3)), Centre National de la Recherche Scientifique (CNRS)-Université Paris Diderot - Paris 7 (UPD7)-Institut Pasteur [Paris], Faculty of Medicine and Biomedical Sciences, University of Yaoundé [Cameroun], Laboratoire Langue, Culture et Cognition [Libreville, Gabon] (LCC), Université Omar Bongo [Libreville, Gabon], Laboratoire d'Etude des Mécanismes Cognitifs (EMC), Université Lumière - Lyon 2 (UL2), Centre de Recherche du CHU Sainte-Justine, University de Montréal, Departments of Anthropology and Biology, Pennsylvania State University (Penn State), Penn State System-Penn State System, This study was funded by the InstitutPasteur, the CNRS, a CNRS ‘MIE’ (Maladies Infectieuses et Environnement) Grant, and aFoundation Simone & Cino del Duca Research Grant (L.Q.-M.), and the CanadianInstitute for Advanced Research (CIFAR) (M.S.K.). M.J.J. was supported by a Mininig forMiracles post-doctoral fellowship from the Child and Family Research Institute. L.B.B issupported by the Canada Research Chairs Program. M.S.K. is the Canada Research Chairin Social Epigenetics and a Senior Fellow of CIFAR., Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro)-Institut National de la Recherche Agronomique (INRA)-Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre international d'études supérieures en sciences agronomiques (Montpellier SupAgro), Jardins Botaniques et Zoologiques, UMR 208, MNHN/IRD, Institut Pasteur [Paris]-Université Paris Diderot - Paris 7 (UPD7)-Centre National de la Recherche Scientifique (CNRS), University of Yaounde I, Université Lumière - Lyon 2 (UL2)-Centre National de la Recherche Scientifique (CNRS), Quintana-Murci, Lluis, Centre National de la Recherche Scientifique (CNRS)-Institut Pasteur [Paris], Institut Pasteur [Paris] (IP)-Centre National de la Recherche Scientifique (CNRS), Institut Pasteur [Paris] (IP)-Université Paris Diderot - Paris 7 (UPD7)-Centre National de la Recherche Scientifique (CNRS), Centre de recherche du CHU Sainte-Justine / Research Center of the Sainte-Justine University Hospital [Montreal, Canada], Université de Montréal (UdeM)-CHU Sainte Justine [Montréal]
Jazyk: angličtina
Rok vydání: 2015
Předmět:
Zdroj: Nature Communications
Nature Communications, Nature Publishing Group, 2015, 6, 11 p. ⟨10.1038/ncomms10047⟩
Nature Communications, Nature Publishing Group, 2015, ⟨10.1038/ncomms10047⟩
Nature Communications (6), 11 p.. (2015)
Nature Communications, 2015, 6, 11 p. ⟨10.1038/ncomms10047⟩
ISSN: 2041-1723
DOI: 10.1038/ncomms10047⟩
Popis: The genetic history of African populations is increasingly well documented, yet their patterns of epigenomic variation remain uncharacterized. Moreover, the relative impacts of DNA sequence variation and temporal changes in lifestyle and habitat on the human epigenome remain unknown. Here we generate genome-wide genotype and DNA methylation profiles for 362 rainforest hunter-gatherers and sedentary farmers. We find that the current habitat and historical lifestyle of a population have similarly critical impacts on the methylome, but the biological functions affected strongly differ. Specifically, methylation variation associated with recent changes in habitat mostly concerns immune and cellular functions, whereas that associated with historical lifestyle affects developmental processes. Furthermore, methylation variation—particularly that correlated with historical lifestyle—shows strong associations with nearby genetic variants that, moreover, are enriched in signals of natural selection. Our work provides new insight into the genetic and environmental factors affecting the epigenomic landscape of human populations over time.
Genetic and environmental factors affect genome-wide patterns of epigenetic variation. Here, the authors show that while current habitat and historical lifestyle impact the methylome of rainforest hunter-gatherers and sedentary farmers, the biological functions affected and the degree of genetic control differ.
Databáze: OpenAIRE
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