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Ancient hybridization and strong adaptation to viruses across African vervet monkey populations

Hannes Svardal 1 Anna Jasinska 2, 3 Cristian Apetrei 4 Giovanni Coppola 2 Yu Huang 5 Christopher Schmitt 6 Béatrice Jacquelin 7 Vasily Ramensky 2, 8 Michaela Müller-Trutwin 7 Martin Antonio 9 George Weinstock 10 J. Paul Grobler 11 Ken Dewar 12 Richard Wilson 10 Trudy Turner 13, 11 Wesley Warren 14 Nelson Freimer 2 Magnus Nordborg 1, *
* Corresponding author
1 GMI - Gregor Mendel Institute of Molecular Plant Biology
2 UCLA - University of California [Los Angeles]
3 PAN - Polish Academy of Sciences
4 PITT - University of Pittsburgh
5 Shanghai Institute of Materia Medica
6 BU - Boston University [Boston]
7 HIV, Inflammation et persistance
8 MIPT - Moscow Institute of Physics and Technology [Moscow]
9 MRC - Medical Research Council Unit The Gambia
10 The Jackson Laboratory's research institute
11 University of the Free State [South Africa]
12 McGill University = Université McGill [Montréal, Canada]
13 University of Wisconsin - Milwaukee
14 MGI - The McDonnell Genome Institute
Abstract : Vervet monkeys are among the most widely distributed nonhuman primates, show considerable phenotypic diversity, and have long been an important biomedical model for a variety of human diseases and in vaccine research. Using whole-genome sequencing data from 163 vervets sampled from across Africa and the Caribbean, we find high diversity within and between taxa and clear evidence that taxonomic divergence was reticulate rather than following a simple branching pattern. A scan for diversifying selection across taxa identifies strong and highly polygenic selection signals affecting viral processes. Furthermore, selection scores are elevated in genes whose human orthologs interact with HIV and in genes that show a response to experimental simian immunodeficiency virus (SIV) infection in vervet monkeys but not in rhesus macaques, suggesting that part of the signal reflects taxon-specific adaptation to SIV.
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Submitted on : Friday, January 4, 2019 - 3:37:01 PM
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Hannes Svardal, Anna Jasinska, Cristian Apetrei, Giovanni Coppola, Yu Huang, et al.. Ancient hybridization and strong adaptation to viruses across African vervet monkey populations. 2019. ⟨pasteur-01969841⟩

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