Demographic Histories and Patterns of Linkage Disequilibrium in Chinese and Indian Rhesus Macaques

by: Ryan D Hernandez, Melissa J Hubisz, David A Wheeler, David G Smith, Betsy Ferguson, Jeffrey Rogers, Lynne Nazareth, Amit Indap, Traci Bourquin, John Mcpherson, Donna Muzny, Richard Gibbs, Rasmus Nielsen, Carlos D Bustamante

Science, Vol. 316, No. 5822. (13 April 2007), pp. 240-243.

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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 (r2 approx 0.15 at 10 kilobases) versus Indian (r2 approx 0.52 at 10 kilobases) macaque populations. 10.1126/science.1140462

@article{citeulike:1223985, 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 (r2 {approx} 0.15 at 10 kilobases) versus Indian (r2 {approx} 0.52 at 10 kilobases) macaque populations. 10.1126/science.1140462}, author = {Hernandez, Ryan D. and Hubisz, Melissa J. and Wheeler, David A. and Smith, David G. and Ferguson, Betsy and Rogers, Jeffrey and Nazareth, Lynne and Indap, Amit and Bourquin, Traci and Mcpherson, John and Muzny, Donna and Gibbs, Richard and Nielsen, Rasmus and Bustamante, Carlos D. }, citeulike-article-id = {1223985}, doi = {http://dx.doi.org/10.1126/science.1140462}, journal = {Science}, keywords = {genome, genome-sequencing, primates}, month = {April}, number = {5822}, pages = {240--243}, posted-at = {2007-04-13 12:10:26}, priority = {2}, title = {Demographic Histories and Patterns of Linkage Disequilibrium in Chinese and Indian Rhesus Macaques}, url = {http://dx.doi.org/10.1126/science.1140462}, volume = {316}, year = {2007} }

RIS record

TY - JOUR ID - citeulike:1223985 L3 - citeulike-article-id:1223985 TI - Demographic Histories and Patterns of Linkage Disequilibrium in Chinese and Indian Rhesus Macaques JF - Science VL - 316 IS - 5822 SP - 240 EP - 243 N2 - 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 (r2 {approx} 0.15 at 10 kilobases) versus Indian (r2 {approx} 0.52 at 10 kilobases) macaque populations. 10.1126/science.1140462 KW - genome KW - genome-sequencing KW - primates AU - Hernandez, Ryan AU - Hubisz, Melissa AU - Wheeler, David AU - Smith, David AU - Ferguson, Betsy AU - Rogers, Jeffrey AU - Nazareth, Lynne AU - Indap, Amit AU - Bourquin, Traci AU - Mcpherson, John AU - Muzny, Donna AU - Gibbs, Richard AU - Nielsen, Rasmus AU - Bustamante, Carlos PY - 2007/04/13/ UR - http://dx.doi.org/10.1126/science.1140462 ER -

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