A genetic variation map for chicken with 2.8 million single-nucleotide polymorphisms. Academic Article uri icon

abstract

  • We describe a genetic variation map for the chicken genome containing 2.8 million single-nucleotide polymorphisms (SNPs). This map is based on a comparison of the sequences of three domestic chicken breeds (a broiler, a layer and a Chinese silkie) with that of their wild ancestor, red jungle fowl. Subsequent experiments indicate that at least 90% of the variant sites are true SNPs, and at least 70% are common SNPs that segregate in many domestic breeds. Mean nucleotide diversity is about five SNPs per kilobase for almost every possible comparison between red jungle fowl and domestic lines, between two different domestic lines, and within domestic lines--in contrast to the notion that domestic animals are highly inbred relative to their wild ancestors. In fact, most of the SNPs originated before domestication, and there is little evidence of selective sweeps for adaptive alleles on length scales greater than 100 kilobases.

published proceedings

  • Nature

altmetric score

  • 38.08

author list (cited authors)

  • Wong, G., Liu, B., Wang, J., Zhang, Y., Yang, X. u., Zhang, Z., ... International Chicken Polymorphism Map Consortium.

citation count

  • 364

complete list of authors

  • Wong, Gane Ka-Shu||Liu, Bin||Wang, Jun||Zhang, Yong||Yang, Xu||Zhang, Zengjin||Meng, Qingshun||Zhou, Jun||Li, Dawei||Zhang, Jingjing||Ni, Peixiang||Li, Songgang||Ran, Longhua||Li, Heng||Zhang, Jianguo||Li, Ruiqiang||Li, Shengting||Zheng, Hongkun||Lin, Wei||Li, Guangyuan||Wang, Xiaoling||Zhao, Wenming||Li, Jun||Ye, Chen||Dai, Mingtao||Ruan, Jue||Zhou, Yan||Li, Yuanzhe||He, Ximiao||Zhang, Yunze||Wang, Jing||Huang, Xiangang||Tong, Wei||Chen, Jie||Ye, Jia||Chen, Chen||Wei, Ning||Li, Guoqing||Dong, Le||Lan, Fengdi||Sun, Yongqiao||Zhang, Zhenpeng||Yang, Zheng||Yu, Yingpu||Huang, Yanqing||He, Dandan||Xi, Yan||Wei, Dong||Qi, Qiuhui||Li, Wenjie||Shi, Jianping||Wang, Miaoheng||Xie, Fei||Wang, Jianjun||Zhang, Xiaowei||Wang, Pei||Zhao, Yiqiang||Li, Ning||Yang, Ning||Dong, Wei||Hu, Songnian||Zeng, Changqing||Zheng, Weimou||Hao, Bailin||Hillier, Ladeana W||Yang, Shiaw-Pyng||Warren, Wesley C||Wilson, Richard K||Brandström, Mikael||Ellegren, Hans||Crooijmans, Richard PMA||van der Poel, Jan J||Bovenhuis, Henk||Groenen, Martien AM||Ovcharenko, Ivan||Gordon, Laurie||Stubbs, Lisa||Lucas, Susan||Glavina, Tijana||Aerts, Andrea||Kaiser, Pete||Rothwell, Lisa||Young, John R||Rogers, Sally||Walker, Brian A||van Hateren, Andy||Kaufman, Jim||Bumstead, Nat||Lamont, Susan J||Zhou, Huaijun||Hocking, Paul M||Morrice, David||de Koning, Dirk-Jan||Law, Andy||Bartley, Neil||Burt, David W||Hunt, Henry||Cheng, Hans H||Gunnarsson, Ulrika||Wahlberg, Per||Andersson, Leif||Kindlund, Ellen||Tammi, Martti T||Andersson, Björn||Webber, Caleb||Ponting, Chris P||Overton, Ian M||Boardman, Paul E||Tang, Haizhou||Hubbard, Simon J||Wilson, Stuart A||Yu, Jun||Wang, Jian||Yang, Huanming

publication date

  • December 2004

published in