A genetic variation map for chicken with 2.8 million single-nucleotide polymorphisms.

Wong, Gane Ka-Shu and Liu, Bin and Wang, Jun and Zhang, Yong and Yang, Xu and Zhang, Zengjin and Meng, Qingshun and Zhou, Jun and Li, Dawei and Zhang, Jingjing and Ni, Peixiang and Li, Songgang and Ran, Longhua and Li, Heng and Zhang, Jianguo and Li, Ruiqiang and Li, Shengting and Zheng, Hongkun and Lin, Wei and Li, Guangyuan and Wang, Xiaoling and Zhao, Wenming and Li, Jun and Ye, Chen and Dai, Mingtao and Ruan, Jue and Zhou, Yan and Li, Yuanzhe and He, Ximiao and Zhang, Yunze and Wang, Jing and Huang, Xiangang and Tong, Wei and Chen, Jie and Ye, Jia and Chen, Chen and Wei, Ning and Li, Guoqing and Dong, Le and Lan, Fengdi and Sun, Yongqiao and Zhang, Zhenpeng and Yang, Zheng and Yu, Yingpu and Huang, Yanqing and He, Dandan and Xi, Yan and Wei, Dong and Qi, Qiuhui and Li, Wenjie and Shi, Jianping and Wang, Miaoheng and Xie, Fei and Wang, Jianjun and Zhang, Xiaowei and Wang, Pei and Zhao, Yiqiang and Li, Ning and Yang, Ning and Dong, Wei and Hu, Songnian and Zeng, Changqing and Zheng, Weimou and Hao, Bailin and Hillier, Ladeana W and Yang, Shiaw-Pyng and Warren, Wesley C and Wilson, Richard K and Brandström, Mikael and Ellegren, Hans and Crooijmans, Richard P M A and van der Poel, Jan J and Bovenhuis, Henk and Groenen, Martien A M and Ovcharenko, Ivan and Gordon, Laurie and Stubbs, Lisa and Lucas, Susan and Glavina, Tijana and Aerts, Andrea and Kaiser, Pete and Rothwell, Lisa and Young, John R and Rogers, Sally L and Walker, Brian A and van Hateren, Andy and Kaufman, Jim and Bumstead, Nat and Lamont, Susan J and Zhou, Huaijun and Hocking, Paul M and Morrice, David and de Koning, Dirk-Jan and Law, Andy and Bartley, Neil and Burt, David W and Hunt, Henry and Cheng, Hans H and Gunnarsson, Ulrika and Wahlberg, Per and Andersson, Leif and Kindlund, Ellen and Tammi, Martti T and Andersson, Björn and Webber, Caleb and Ponting, Chris P and Overton, Ian M and Boardman, Paul E and Tang, Haizhou and Hubbard, Simon J and Wilson, Stuart A and Yu, Jun and Wang, Jian and Yang, Huanming (2004) A genetic variation map for chicken with 2.8 million single-nucleotide polymorphisms. Nature, 432 (7018). pp. 717-22. ISSN 1476-4687

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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.

Item Type: Article
Subjects: Q Science > QH Natural history > QH301 Biology
Q Science > QH Natural history > QH426 Genetics
Q Science > QR Microbiology > QR180 Immunology
Divisions: Faculty of Business, Computing and Applied Sciences > School of Natural & Social Sciences > Environmental Sciences
Research Priority Areas: Environmental Dynamics & Governance
Depositing User: Sally Rogers
Date Deposited: 06 Mar 2015 15:24
Last Modified: 16 Mar 2016 15:24
URI: http://eprints.glos.ac.uk/id/eprint/1993

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