Genome-wide analysis emancipates genomic diversity and signature of selection in Altay white-headed cattle of Xinjiang, China
文献类型： 外文期刊
作者： Chen, Jialei 1 ; Wang, Yushu 2 ; Qi, Xingshan 3 ; Cheng, Haijian 4 ; Chen, Ningbo 2 ; Ahmed, Zulfiqar 5 ; Chen, Qiuming 8 ; Lei, Chuzhao 2 ; Yang, Xueyi 1 ;
作者机构： 1.Luoyang Normal Univ, Life Sci Coll, Luoyang, Peoples R China
2.Northwest A&F Univ, Coll Anim Sci & Technol, Yangling, Peoples R China
3.Biyang Xianan Cattle Technol & Dev Co Ltd, Biyang, Peoples R China
4.Shandong Acad Agr Sci, Inst Anim Sci & Vet Med, Shandong Key Lab Anim Dis Control & Breeding, Jinan, Peoples R China
5.Huazhong Agr Univ, Minist Agr & Rural Affairs, Key Lab Swine Genet & Breeding, Wuhan, Peoples R China
6.Huazhong Agr Univ, Minist Educ, Key Lab Agr Anim Genet Breeding & Reprod, Wuhan, Peoples R China
7.Univ Poonch Rawalakot, Fac Vet & Anim Sci, Shabestar, Pakistan
8.Xinjiang Agr Univ, Coll Anim Sci, Urumqi, Xinjiang, Peoples R China
关键词： Altay white-headed cattle; indigenous cattle breeds; whole-genome sequencing; genetic structure; selection signatures
期刊名称：FRONTIERS IN GENETICS （ 影响因子：3.7； 五年影响因子：4.3 ）
ISSN：
年卷期： 2023 年 14 卷
页码：
收录情况： SCI
摘要： Altay white-headed cattle have not received enough attention for several reasons. Due to irrational breeding and selection practices, the number of pure Altay white-headed cattle has decreased significantly and the breed is now on the eve of extinction. The genomic characterization will be a crucial step towards understanding the genetic basis of productivity and adaptability to survival under native Chinese agropastoral systems; nevertheless, no attempt has been made in Altay white-headed cattle. In the current study, we compared the genomes of 20 Altay white-headed cattle to the genomes of 144 individuals in representative breeds. Population genetic diversity revealed that the nucleotide diversity of Altay white-headed cattle was less than that of indicine breeds and comparable to that of Chinese taurus cattle. Using population structure analysis, we also found that Altay white-headed cattle carried the ancestry of the European and East Asian cattle lineage. In addition, we used three different methods (F (ST), ?p ratio and XP-EHH) to investigate the adaptability and white-headed phenotype of Altay white-headed cattle and compared it with Bohai black cattle. We found EPB41L5, SCG5 and KIT genes on the list of the top one percent genes, these genes might have an association with environmental adaptability and the white-headed phenotype for this breed. Our research reveals the distinctive genomic features of Altay white-headed cattle at the genome-wide level.
- 相关文献
作者其他论文 更多>>
-
Investigation of oxygen packaging to maintain beef color stability and microbiology safety after periods of long-term superchilled storage
作者：Yang, Jun;Chen, Xue;Duan, Xinxin;Sun, Ge;Luo, Xin;Hopkins, David L.;Zhang, Yimin;Yang, Jun;Sun, Ge;Luo, Xin;Zhang, Yimin;Chen, Xue;Li, Ke;Cheng, Haijian;Song, Enliang;Holman, Benjamin W. B.
关键词：Long -term storage; Retail display period; Superchilled storage; Modified atmosphere packaging; Beef color; Microbiota abundance
-
Genomic characterization of dryland adaptation in endangered Anxi cattle in China
作者：Lyu, Yang;Yao, Tingting;Chen, Zhefu;Huangfu, Ruiyao;Cheng, Haijian;Chen, Ningbo;Lei, Chuzhao;Cheng, Haijian;Ma, Weidong;Qi, Xingshan;Li, Fuqiang
关键词：Anxi cattle; dryland environment; genomic characteristics; selection signature
-
Formic acid enhances whole-plant mulberry silage fermentation by boosting lactic acid production and inhibiting harmful bacteria
作者：Hao, Lihong;Jiang, Fugui;Wang, Yanping;Wang, Huaizhong;Hu, Hongmei;You, Wei;Hu, Xin;Cheng, Haijian;Wang, Cheng;Song, Enliang;Hao, Lihong;Jiang, Fugui;Wang, Yanping;Wang, Huaizhong;Hu, Hongmei;You, Wei;Hu, Xin;Cheng, Haijian;Wang, Cheng;Song, Enliang;Song, Enliang
关键词：mulberry; silage; glucose; formic acid; lactic acid bacteria; salts; bacterial community
-
Effect of Dietary Supplementation of Astragaloside IV on Growth performance, Inflammatory, and Antioxidant Status of Holstein Male Calves
作者：Wang, Yafang;Song, Enliang;Wang, Yafang;Jiang, Fugui;Cheng, Haijian;Liu, Yifan;Wei, Chen;Liu, Ce;Song, Enliang;Wang, Yafang;Jiang, Fugui;Cheng, Haijian;Liu, Yifan;Wei, Chen;Liu, Ce;Song, Enliang
关键词：Astragaloside IV; Growth performance; Antioxidant; Inflammatory; Holstein calves
-
Structural variation and introgression from wild populations in East Asian cattle genomes confer adaptation to local environment
作者：Xia, Xiaoting;Zhang, Fengwei;Li, Shuang;Luo, Xiaoyu;Dong, Zheng;Wang, Shikang;Jin, Liangliang;Dang, Ruihua;Huang, Yongzhen;Lan, Xianyong;Ren, Gang;Wang, Yu;Cheng, Haijian;Chen, Hong;Pang, Weijun;Lei, Chuzhao;Chen, Ningbo;Peng, Lixin;Pausch, Hubert;Leonard, Alexander S.;Crysnanto, Danang;Tong, Bin;Lenstra, Johannes A.;Han, Jianlin;Han, Jianlin;Li, Fuyong;Xu, Tieshan;Gu, Lihong;Gao, Yuanpeng;Ma, Zhijie;Cheng, Haijian;Ma, Yun
关键词：Structural variation; Genome assembly; Long-read sequencing; East Asian cattle
-
A missense mutation of the WNK1 gene affects cold tolerance in Chinese domestic cattle
作者：Liu, Xin;Chen, Jialei;Xu, Xinlong;Lei, Chuzhao;Liu, Jianyong;Zhang, Jicai;Huang, Bizhi;Cheng, Haijian;Ahmed, Zulfiqar;Lei, Chuzhao
关键词：Chinese domestic cattle; cold tolerance; with-no-lysine kinases 1 (WNK1); single nucleotide polymorphisms (SNP)
-
Assessing Genomic Diversity and Selective Pressures in Bohai Black Cattle Using Whole-Genome Sequencing Data
作者：Ma, Xiaohui;Cheng, Haijian;Jiang, Fugui;You, Wei;Song, Enliang;Ma, Xiaohui;Liu, Yangkai;Sun, Luyang;Chen, Ningbo;Lei, Chuzhao;Yang, Zhangang;Zhang, Baoheng
关键词：Bohai Black cattle; Chinese cattle; whole-genome resequencing; SNPs; genomic diversity; population structure; selection signatures; meat quality; coat color
