Tang Hongbo, Ouyang Jing, Liu Siyu, Xiong Yanpeng, Wu Yongfei, Wang Luping, Wang Cong, Yan Xueming, Shen Yangyang, Chen Hao
College of Life Science, Jiangxi Science and Technology Normal University, Nanchang, China.
Anim Genet. 2022 Oct;53(5):599-612. doi: 10.1111/age.13234. Epub 2022 Jun 23.
With the improvement in sequencing technology and the decrease in sequencing cost, increasing amounts of genomic data for pigs have been uploaded to public databases. However, no researchers have to date integrated all currently available data to uncover the global genetic status of pigs. Meanwhile, little is known about the introgression from European to Chinese pigs and its underlying influences. Therefore, we integrated the effective genotype data of 3907 pigs from 193 populations worldwide using population genetic analysis, gene flow analysis and a sharing-IBD study. These findings illustrate not only the population structure of 59 Chinese native breeds and others but also the amounts of gene flow and introgression that have occurred between Western and Chinese pigs. In addition, we demonstrate the presence of introgressed European haplotypes in Chinese indigenous breeds and identify relevant introgressed regions that contain genes associated with growth and feed efficiency. Moreover, we compare the introgression patterns of Western and Chinese pigs and further discuss possible explanations for why the level of introgression differs between Chinese pig breeds and Western modern breeds. Collectively, this study provides a fine global population structure analysis of pigs and presents evidence of European pigs being interbred with local breeds in China.
随着测序技术的改进和测序成本的降低，越来越多的猪基因组数据被上传到公共数据库。然而，迄今为止，尚无研究人员整合所有现有数据以揭示猪的全球遗传状况。与此同时，关于欧洲猪向中国猪的基因渗入及其潜在影响知之甚少。因此，我们运用群体遗传分析、基因流分析和共享IBD研究，整合了来自全球193个群体的3907头猪的有效基因型数据。这些发现不仅阐明了59个中国本土猪种及其他猪种的群体结构，还揭示了西方猪和中国猪之间发生的基因流和基因渗入的数量。此外，我们证明了中国本土猪种中存在渗入的欧洲单倍型，并确定了包含与生长和饲料效率相关基因的相关渗入区域。此外，我们比较了西方猪和中国猪的基因渗入模式，并进一步讨论了中国猪种和西方现代猪种基因渗入水平不同的可能原因。总体而言，本研究提供了精细的全球猪群体结构分析，并呈现了欧洲猪与中国本土猪种杂交的证据。
