Population structure, genetic diversity and selection signatures within seven indigenous Pakistani goat populations
文献类型： 外文期刊
作者： Kumar, C. 1 ; Song, S. 1 ; Dewani, P. 2 ; Kumar, M. 4 ; Parkash, O. 2 ; Ma, Y. 1 ; Malhi, K. K. 4 ; Yang, N. 6 ; Mwacharo, J 1 ;
作者机构： 1.CAAS, IAS, Beijing 100193, Peoples R China
2.Directorate Vet Res, Tandojam 70050, Sindh, Pakistan
3.Diagnost Cent Vet Diagnost Lab, Tandojam 70050, Sindh, Pakistan
4.Sindh Agr Univ, Fac Anim Husb & Vet Sci, Dept Anim Breeding & Genet, Tandojam 70060, Sindh, Pakistan
5.China Agr Univ, Dept Anim Genet & Breeding, Beijing 100094, Peoples R China
6.China Agr Univ, Dept Anim Genet & Breeding, Beijing 100094, Peop
关键词： admixture; coat color; ear size; genome scan; milk; SNP
期刊名称：ANIMAL GENETICS （ 影响因子：3.169； 五年影响因子：3.058 ）
ISSN： 0268-9146
年卷期： 2018 年 49 卷 6 期
页码：
收录情况： SCI
摘要： Goat farming in Pakistan depends on indigenous breeds that have adapted to specific agro-ecological conditions. Pakistan has a rich resource of goat breeds, and the genetic diversity of these goat breeds is largely unknown. In this study, genetic diversity and population structure were characterized from seven indigenous goat breeds using the goat 50K SNP chip. The genetic diversity analysis showed that Bugi toori goats have the highest inbreeding level, consistent with the highest linkage disequilibrium, lowest diversity and long run of heterozygosity segments. This indicates that this breed should be prioritized in future conservation activities. The population structure analysis revealed four fairly distinct clusters (including Bugi toori, Bari, Black Tapri and some Kamori) and three other breeds that are seemingly the results of admixture between these or related groups (some Kamori, Pateri, Tapri and White Tapri). The selection signatures were evaluated in each breed. A total of 2508 putative selection signals were reported. The 26 significant windows were identified in more than four breeds, and selection signatures spanned several genes that directly or indirectly influence traits included coat colour variation (KIT), reproduction (BMPR1B, GNRHR, INSL6, JAK2 and EGR4), body size (SOCS2), ear size (MSRB3) and milk composition (ABCG2, SPP1, CSN1S2, CSN2, CSN3 and PROLACTIN).
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