Population genetic analyses of seven Chinese indigenous chicken breeds in a context of global breeds
Population genetic analyses of seven Chinese indigenous chicken breeds in a context of global breeds
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全球品种背景下七个中国本土鸡品种的群体遗传分析
DOI：
10.1111/age.12732
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发表时间：
2019-02-01
期刊：
影响因子：
2.4
通讯作者：
Ren, J.
中科院分区：
文献类型：
--
作者：
Chen, L.;Wang, X.;Ren, J.
江西中国地方鸡品种资源丰富，表型多样，是进一步进行现代鸡种遗传改良的宝贵遗传资源。在此，我们利用600K的SNP数据，以9个外地鸡种为背景，对江西省7个鸡种的遗传多样性、亲缘关系和群体结构进行了一系列分析。结果表明，江西地方品种的核苷酸多样性高于欧洲地方品种和商品品种。在江西品种中，东乡蓝蛋壳(DX)和崇仁鹦鹉(CR)的遗传多样性显著降低，这两个品种的近交系数、纯合度、连锁不平衡程度和期望杂合度降低。DX、CR和泰和乌骨鸡代表了江西鸡的三个祖先谱系，表现出与其他四个江西品种的遗传分化，表现出与欧洲商品鸡品种的混合特征。这些发现为建立江西鸡种的有效保护方案提供了启示。考虑到遗传多样性和祖先代表性的现状，应特别关注DX、CR和TH鸡。
Jiangxi province in China is rich in indigenous chicken breeds, which have diverse phenotypes and represent a valuable genetic resource for further genetic improvement of modern breeds. Here, we conducted a series of analyses to reveal genetic diversity, phylogenetic relationships and population structure of seven chicken breeds in Jiangxi province in the context of nine non-local chicken breeds, using 600K SNP data. We show that Jiangxi indigenous breeds have more abundant nucleotide diversity than do European local and commercial breeds. Among Jiangxi breeds, Dongxiang Blue-eggshell (DX) and Chongren Partride (CR) display remarkably reduced genetic diversity, as the two breeds exhibit increased inbreeding coefficients, runs of homozygosity, extent of linkage disequilibrium and reduced expected heterozygosity. DX, CR and Taihe Silkie (TH) represent three ancestral lineages of the Jiangxi chicken and display genetic differentiation from the other four Jiangxi breeds, which show a signature of admixture with European commercial breeds. These findings provide insight for the establishment of an efficient conservation program for Jiangxi chicken breeds. Considering the current status of genetic diversity and ancestral representativeness, particular attention should be paid to DX, CR and TH chickens.