title: Demographic histories and patterns of linkage disequilibrium in Chinese and Indian rhesus macaques.
abstract: To understand the demographic history of rhesus macaques (Macaca mulatta) and document the extent of linkage disequilibrium (LD) in the genome, we partially resequenced five Encyclopedia of DNA Elements regions in 9 Chinese and 38 captive-born Indian rhesus macaques. Population genetic analyses of the 1467 single-nucleotide polymorphisms discovered suggest that the two populations separated about 162,000 years ago, with the Chinese population tripling in size since then and the Indian population eventually shrinking by a factor of four. Using coalescent simulations, we confirmed that these inferred demographic events explain a much faster decay of LD in Chinese (r(2) approximately 0.15 at 10 kilobases) versus Indian (r(2) approximately 0.52 at 10 kilobases) macaque populations.
authors: Biological Statistics and Computational Biology, Cornell University, Ithaca, NY 14850, USA.
authors: Ryan D
authors: RD
authors: Hernandez
authors: Melissa J
authors: MJ
authors: Hubisz
authors: David A
authors: DA
authors: Wheeler
authors: David G
authors: DG
authors: Smith
authors: Betsy
authors: B
authors: Ferguson
authors: Jeffrey
authors: J
authors: Rogers
authors: Lynne
authors: L
authors: Nazareth
authors: Amit
authors: A
authors: Indap
authors: Traci
authors: T
authors: Bourquin
authors: John
authors: J
authors: McPherson
authors: Donna
authors: D
authors: Muzny
authors: Richard
authors: R
authors: Gibbs
authors: Rasmus
authors: R
authors: Nielsen
authors: Carlos D
authors: CD
authors: Bustamante
mesh_terms: D000818:Animals; D002681:China; D004272:DNA, Mitochondrial; D003710:Demography; D005826:Genetics, Medical; D006801:Humans; D007194:India; D015810:Linkage Disequilibrium; D008253:Macaca mulatta / Q000235:genetics*; D020641:Polymorphism, Single Nucleotide
chemical_list: D004272:DNA, Mitochondrial