Journal
MOLECULAR BIOLOGY AND EVOLUTION
Volume 33, Issue 5, Pages 1370-1375Publisher
OXFORD UNIV PRESS
DOI: 10.1093/molbev/msw025
Keywords
whole-genome sequencing; population genetics; primate evolution; rhesus macaque; RhesusBase
Funding
- National Key Basic Research Program of China [2013CB531202, 2012CB518004]
- National Natural Science Foundation of China [31522032, 31471240, 31171269, 31221002]
- National Young Top-Notch Talent Support Program of China
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Although population genetics studies have significantly accelerated the evolutionary and functional interrogations of genes and regulations, limited polymorphism data are available for rhesus macaque, the model animal closely related to human. Here, we report the first genome-wide effort to identify and visualize the population genetics profile in rhesus macaque. On the basis of the whole-genome sequencing of 31 independent macaque animals, we profiled a comprehensive polymorphism map with 46,146,548 sites. The allele frequency for each polymorphism site, the haplotype structure, as well as multiple population genetics parameters were then calculated on a genome-wide scale. We further developed a specific interface, the RhesusBase PopGateway, to facilitate the visualization of these annotations, and highlighted the applications of this highly integrative platform in clarifying the selection signatures of genes and regulations in the context of the primate evolution. Overall, the updated RhesusBase provides a comprehensive monkey population genetics framework for in-depth evolutionary studies of human biology.
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