Analysis of Copy Number Variation in the Whole Genome of Normal-Haired and Long-Haired Tianzhu White Yaks

Guangyao Meng; Qi Bao; Xiaoming Ma; Min Chu; Chun Huang; Xian Guo; Chunnian Liang; Ping Yan

doi:10.3390/genes13122405

Analysis of Copy Number Variation in the Whole Genome of Normal-Haired and Long-Haired Tianzhu White Yaks

Genes (Basel). 2022 Dec 18;13(12):2405. doi: 10.3390/genes13122405.

Authors

Guangyao Meng^{1

2}, Qi Bao^{1

2}, Xiaoming Ma^{1

2}, Min Chu^{1

2}, Chun Huang^{1

2}, Xian Guo^{1

2}, Chunnian Liang², Ping Yan¹

Affiliations

¹ Key Laboratory of Yak Breeding Engineering Gansu Province, Lanzhou Institute of Husbandry and Pharmaceutical Science, Chinese Academy of Agricultural Sciences, Lanzhou 730050, China.
² Key Laboratory of Animal Genetics and Breeding on Tibetan Plateau, Ministry of Agriculture and Rural Affairs, Lanzhou 730050, China.

Abstract

Long-haired individuals in the Tianzhu white yak population are a unique genetic resource, and have important landscape value. Copy number variation (CNV) is an important source of phenotypic variation in mammals. In this study, we used resequencing technology to detect the whole genome of 10 long-haired Tianzhu white yaks (LTWY) and 10 normal-haired Tianzhu white yaks (NTWY), and analyzed the differences of CNV in the genome of LTWYs and NTWYs. A total of 110268 CNVs were identified, 2006 CNVRs were defined, and the distribution map of these CNVRs on chromosomes was constructed. The comparison of LTWYs and NTWYs identified 80 differential CNVR-harbored genes, which were enriched in lipid metabolism, cell migration and other functions. Notably, some differential genes were identified as associated with hair growth and hair-follicle development (e.g., ASTN2, ATM, COL22A1, GK5, SLIT3, PM20D1, and SGCZ). In general, we present the first genome-wide analysis of CNV in LTWYs and NTWYs. Our results can provide new insights into the phenotypic variation of different hair lengths in Tianzhu white yaks.

Keywords: Tianzhu white yaks; copy number variation; long-haired trait; resequencing.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Animals
Biological Variation, Population
Cattle / genetics
DNA Copy Number Variations* / genetics
Genome* / genetics
Humans
Mammals / genetics
Sequence Analysis, DNA

Grants and funding

This research was funded by State Key R & D program (2021YFD1600200); Modern beef yak industry technology system (MATS-Beef Cattle System, CARS-37); Gansu basic research innovation group project (20JR5RA580); Yak resources and breeding innovation project of the Chinese Academy of Agricultural Sciences (25-LIHPS-01).