Associations of genome-wide structural variations with phenotypic differences in cross-bred Eurasian pigs

文献类型： 外文期刊

第一作者： Zong, Wencheng

作者： Zong, Wencheng;Wang, Jinbu;Zhao, Runze;Niu, Naiqi;Su, Yanfang;Hu, Ziping;Liu, Xin;Hou, Xinhua;Wang, Ligang;Wang, Lixian;Zhang, Longchao;Zhao, Runze;Hu, Ziping

作者机构：

关键词： Body size; GWAS; Pig; Skeleton; Structural variations

期刊名称：JOURNAL OF ANIMAL SCIENCE AND BIOTECHNOLOGY （ 影响因子：7.0； 五年影响因子：7.3 ）

ISSN： 1674-9782

年卷期： 2023 年 14 卷 1 期

页码：

收录情况： SCI

摘要： Background During approximately 10,000 years of domestication and selection, a large number of structural variations (SVs) have emerged in the genome of pig breeds, profoundly influencing their phenotypes and the ability to adapt to the local environment. SVs (>= 50 bp) are widely distributed in the genome, mainly in the form of insertion (INS), mobile element insertion (MEI), deletion (DEL), duplication (DUP), inversion (INV), and translocation (TRA). While studies have investigated the SVs in pig genomes, genome-wide association studies (GWAS)-based on SVs have been rarely conducted. Results Here, we obtained a high-quality SV map containing 123,151 SVs from 15 Large White and 15 Min pigs through integrating the power of several SV tools, with 53.95% of the SVs being reported for the first time. These high-quality SVs were used to recover the population genetic structure, confirming the accuracy of genotyping. Potential functional SV loci were then identified based on positional effects and breed stratification. Finally, GWAS were performed for 36 traits by genotyping the screened potential causal loci in the F2 population according to their corresponding genomic positions. We identified a large number of loci involved in 8 carcass traits and 6 skeletal traits on chromosome 7, with FKBP5 containing the most significant SV locus for almost all traits. In addition, we found several significant loci in intramuscular fat, abdominal circumference, heart weight, and liver weight, etc. Conclusions We constructed a high-quality SV map using high-coverage sequencing data and then analyzed them by performing GWAS for 25 carcass traits, 7 skeletal traits, and 4 meat quality traits to determine that SVs may affect body size between European and Chinese pig breeds.

分类号：

  • 相关文献
作者其他论文 更多>>

微信小程序