Whole-Genome Sequencing of Endangered Dengchuan Cattle Reveals Its Genomic Diversity and Selection Signatures
文献类型： 外文期刊
作者： Jin, Liangliang 1 ; Qu, Kaixing 3 ; Hanif, Quratulain 4 ; Zhang, Jicai 1 ; Liu, Jianyong 1 ; Chen, Ningbo 2 ; Suolang, Quji 5 ; Lei, Chuzhao 2 ; Huang, Bizhi 1 ;
作者机构： 1.Yunnan Acad Grassland & Anim Sci, Kunming, Yunnan, Peoples R China
2.Northwest A&F Univ, Coll Anim Sci & Technol, Key Lab Anim Genet Breeding & Reprod Shaanxi Prov, Yangling, Shaanxi, Peoples R China
3.Chuxiong Normal Univ, Acad Sci & Technol, Chuxiong, Peoples R China
4.Natl Inst Biotechnol & Genet Engn, Faisalabad, Pakistan
5.Tibet Acad Agr & Anim Husb Sci, Inst Anim Sci, Lhasa, Peoples R China
关键词： whole-genome resequencing; Chinese cattle; genetic diversity; population structure; selection signatures; lactation function
期刊名称：FRONTIERS IN GENETICS （ 影响因子：4.772； 五年影响因子：4.933 ）
ISSN：
年卷期： 2022 年 13 卷
页码：
收录情况： SCI
摘要： Dengchuan cattle are the only dairy yellow cattle and endangered cattle among Yunnan native cattle breeds. However, its genetic background remains unclear. Here, we performed whole-genome sequencing of ten Dengchuan cattle. Integrating our data with the publicly available data, Dengchuan cattle were observed to be highly interbred than other cattle in the dataset. Furthermore, the positive selective signals were mainly manifested in candidate genes and pathways related to milk production, disease resistance, growth and development, and heat tolerance. Notably, five genes (KRT39, PGR, KRT40, ESR2, and PRKACB) were significantly enriched in the estrogen signaling pathway. Moreover, the missense mutation in the PGR gene (c.190T > C, p.Ser64Pro) showed a homozygous mutation pattern with higher frequency (83.3%) in Dengchuan cattle. In addition, a large number of strong candidate regions matched genes and QTLs related to milk yield and composition. Our research provides a theoretical basis for analyzing the genetic mechanism underlying Dengchuan cattle with excellent lactation and adaptability, crude feed tolerance, good immune performance, and small body size and also laid a foundation for genetic breeding research of Dengchuan cattle in the future.
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