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ORIGINAL RESEARCH article
Front. Genet.
Sec. Livestock Genomics
Volume 15 - 2024 |
doi: 10.3389/fgene.2024.1509177
This article is part of the Research Topic Genomic Insights into Sheep and Goat Breeding Efficiency View all 10 articles
Selection Signature Analysis Reveals Genes Associated with Tail Phenotype in Sheep
Provisionally accepted
Yunxia Qi
1
Xiaolong He
2*
Biao Wang
2*
Chaoyun Yang
1
Lai Da
2*
Bin Liu
3*
Wenguang Zhang
4*
Shaoyin Fu
2*
Yongbin Liu
2,5*- 1 College of Animal Sciences, Xichang University, Xichang, China
- 2 Animal Husbandry Institute, Inner Mongolia Academy of Agricultural & Animal Husbandry Sciences, Hohhot, China
- 3 Inner Mongolia BIONEW Technology Co., LTD, Hohhot, China
- 4 College of Life Sciences, Inner Mongolia Agricultural University, Huhhot, China
- 5 State Key Laboratory of Reproductive Regulation and Breeding of Grassland Livestock (R2BGL), College of Life Sciences, Inner Mongolia University, Hohhot, China
Tail type of sheep, which may be affected by many genes with a complex mechanism, is an important economic trait concerned by both raiser and consumers. Here, we employed two sheep breeds with extreme phenotypes -Mongolian sheep (short-fat-tailed) and Bamei Mutton sheep (longthin-tailed) to analyze the genetic differences at the genomic level and find candidate genes associated with tail phenotype. The results of population structure analysis showed that the LD decay rate of Mongolian sheep was greater than that of Bamai Mutton sheep. When K=2, the two populations were obviously separated with a certain degree of mixing. From 49 sheep individuals, 20,270,930 and 2,479,474 SNPs and Indels were identified, respectively. Selection signals were detected based on F ST , π-Ratio, and XP-EHH. These three methods identified 85 candidate genes, of which PDGFD, GLIS1, AR, and FGF9 were reported to be associated with tail fat deposition, while VRTN associated with tail length in sheep tail phenotype; the others were novel genes that may play important roles in sheep tail phenotype formation. Gene annotation revealed that these candidate genes mainly participate in pathways associated with fat deposition or lipid metabolism. This study provided insight into sheep tail type development and a guide for molecular breeding.
Keywords: Sheep, Tail type, selection signature analysis, F ST, π-ratio, XP-EHH
Received: 10 Oct 2024; Accepted: 19 Nov 2024.
Copyright: © 2024 Qi, He, Wang, Yang, Da, Liu, Zhang, Fu and Liu. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) or licensor are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
* Correspondence:
Xiaolong He, Animal Husbandry Institute, Inner Mongolia Academy of Agricultural & Animal Husbandry Sciences, Hohhot, China
Biao Wang, Animal Husbandry Institute, Inner Mongolia Academy of Agricultural & Animal Husbandry Sciences, Hohhot, China
Lai Da, Animal Husbandry Institute, Inner Mongolia Academy of Agricultural & Animal Husbandry Sciences, Hohhot, China
Bin Liu, Inner Mongolia BIONEW Technology Co., LTD, Hohhot, China
Wenguang Zhang, College of Life Sciences, Inner Mongolia Agricultural University, Huhhot, 010018, China
Shaoyin Fu, Animal Husbandry Institute, Inner Mongolia Academy of Agricultural & Animal Husbandry Sciences, Hohhot, China
Yongbin Liu, State Key Laboratory of Reproductive Regulation and Breeding of Grassland Livestock (R2BGL), College of Life Sciences, Inner Mongolia University, Hohhot, China
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