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Asian-Australas J Anim Sci > Accepted Articles
DOI: https://doi.org/10.5713/ajas.18.0661    [Accepted] Published online July 1, 2019.
Detection of copy number variation and selection signatures on the X chromosome of Chinese indigenous sheep with different tail types
Caiye Zhu1  , Mingna Li1  , Shizhen Qin1  , Fuping Zhao2,*  , Suli Fang1,* 
1College of Animal Science and Technology, Gansu Agricultural University, Lanzhou 730070, China
2National Center for Molecular Genetics and Breeding of Animal, Institute of Animal Sciences, Chinese Academy of Agricultural Sciences, Beijing 100193, China
Correspondence:  Fuping Zhao,
Suli Fang,Email: 584806546@qq.com
Received: 5 September 2018   • Revised: 5 November 2018   • Accepted: 5 September 2018
Abstract
Objective
Chinese indigenous sheep breeds can be classified into the following three categories by their tail morphology: fat-tailed, fat-rumped and thin-tailed sheep. The typical sheep breeds corresponding to fat-tailed, fat-rumped and thin-tailed sheep are large-tailed Han, Altay and Tibetan sheep, respectively. Detection of copy number variation (CNV) and selection signatures provides information on the genetic mechanisms underlying the phenotypic differences of the different sheep types.
Methods
In this study, PennCNV software and F-statistics (FST) were implemented to detect CNV and selection signatures, respectively, on the X chromosome in three Chinese indigenous sheep breeds using ovine high-density 600K single nucleotide polymorphism (SNP) arrays.
Results
In large-tailed Han, Altay and Tibetan sheep, respectively, a total of six, four and 22 CNV regions (CNVRs) with lengths of 1.23, 0.93 and 7.02 Mb were identified on the X chromosome. In addition, 49, 34 and 55 candidate selection regions with respective lengths of 27.49, 16.47 and 25.42 Mb were identified in large-tailed Han, Altay and Tibetan sheep, respectively. The bioinformatics analysis results indicated several genes in these regions were associated with fat, including DHRSX, CACNA1F and PNPLA4. In addition, three other genes were identified from this analysis: the FAM58A gene was associated with energy metabolism, the SRPK3 gene was associated with skeletal muscle development, and the IL2RG gene was associated with the immune system.
Conclusion
The results of this study indicated CNVRs and selection regions on the X chromosome of Chinese indigenous sheep contained several genes associated with various heritable traits.
Keywords: Copy Number Variation (CNV); Selection Signature; X Chromosome; Sheep


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