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Genetic structure and characteristics of Tibetan chickens

文献类型： 外文期刊

作者： Li, Shijun 1 ; Zhang, Xiaojian 1 ; Dong, Xinyu 1 ; Guo, Ruiyang 1 ; Nan, Jiuhong 1 ; Yuan, Jingwei 4 ; Schlebusch, Carina M. 5 ; Sheng, Zheya 1 ;

作者机构： 1.Huazhong Agr Univ, Key Lab Agr Anim Genet Breeding & Reprod, Minist Educ, Wuhan 430070, Peoples R China

2.Huazhong Agr Univ, Coll Anim Sci & Technol, Wuhan 430070, Peoples R China

3.Huazhong Agr Univ, Coll Vet Med, Wuhan 430070, Peoples R China

4.Chinese Acad Agr Sci, Inst Anim Sci, Beijing, Peoples R China

5.Uppsala Univ, Evolutionary Biol Ctr, Dept Organismal Biol, Uppsala, Sweden

关键词： Tibetan chicken; population structure; complex demography; genetic analyses

期刊名称：POULTRY SCIENCE （ 影响因子：4.4； 五年影响因子：4.4 ）

ISSN： 0032-5791

年卷期： 2023 年 102 卷 8 期

页码：

收录情况： SCI

摘要： Tibetan chicken is one of the most common and widely distributed highland breeds, and is often used as a model organism for understanding genetic adaptation to extreme environments in Tibet. Despite its apparent geographical diversity and large variations in plumage patterns, the genetic differences within breed were not accounted for in most studies and have not been systematically investigated. In order to reveal and genetically differentiate the current existing TBC sub populations that might have major implications for genomic research in TBCs, we systematically evaluated the population structure and demography of current TBC populations. Based on 344 whole-genome sequenced birds including 115 Tibetan chickens that were mostly sampled from family-farms across Tibet, we revealed a clear separation of Tibetan chickens into 4 sub-populations that broadly aligns with their geographical distribution. Moreover, population structure, population size dynamics, and the extent of admixture jointly suggest complex demographic histories of these sub-populations, including possible multiple origins, inbreeding, and introgressions. While most of the candidate selected regions found between the TBC sub populations and Red Jungle fowls were nonoverlapping, 2 genes RYR2 and CAMK2D were revealed as strong selection candidates in all 4 sub-populations. These 2 previously identified high altitude associated genes indicated that the sub-populations responded to similar selection pressures in an independent but functionally similar fashion. Our results demonstrate robust population structure in Tibetan chickens that will help inform future genetic analyses on chickens and other domestic animals alike in Tibet, recommending thoughtful experimental design.

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