Integrating large-scale meta-GWAS and PigGTEx resources to decipher the genetic basis of 232 complex traits in pigs

文献类型： 外文期刊

第一作者： Xu, Zhiting

作者： Xu, Zhiting;Lin, Qing;Cai, Xiaodian;Zhong, Zhanming;Teng, Jinyan;Zeng, Haonan;Gao, Yahui;Wei, Chen;Zhou, Jun;Zhang, Wenjing;Zhang, Xiaoke;Shi, Shaolei;Wu, Jun;Diao, Shuqi;Liu, Yuqiang;Pan, Xiangchun;Feng, Xueyan;Liu, Ruiqi;Su, Zhanqin;Chang, Chengjie;Zhu, Qianghui;Wu, Yuwei;Zhang, Hao;Yuan, Xiaolong;Li, Jiaqi;Zhang, Zhe;Li, Bingjie;Gao, Yahui;Liu, George E.;Gao, Yahui;Ma, Li;Cai, Zexi;Bai, Zhonghao;Su, Guosheng;Sahana, Goutam;Lund, Mogens Sando;Fang, Lingzhao;Wang, Xiaoqing;Shi, Liangyu;Zhao, Fuping;Wang, Xue;Wang, Yi;Zhang, Zipeng;Ding, Xiangdong;Lin, Yu;Tang, Guoqing;Li, Mingzhou;Li, Xuewei;Liu, Shuli;Yin, Hongwei;Bai, Lijing;Li, Kui;Zhou, Zhongyin;Wang, Qishan;Pan, Yuchun;Xu, Zhong;Peng, Xianwen;Mei, Shuqi;Mo, Delin;Liu, Xiaohong;Chen, Yaosheng;Liu, Yang;Xiang, Ruidong;Xiang, Ruidong;Shen, Xia;Shen, Xia;Shen, Xia;Li, Pinghua;Huang, Ruihua;Li, Pinghua;Huang, Ruihua;Ballester, Maria;Crespo-Piazuelo, Daniel;Amills, Marcel;Clop, Alex;Amills, Marcel;Karlskov-Mortensen, Peter;Fredholm, Merete;Zhang, Qin;Zhao, Yunxiang

作者机构：

关键词： pig; meta-GWAS; PigGTEx; molQTL; complex traits

期刊名称：NATIONAL SCIENCE REVIEW （ 影响因子：17.1； 五年影响因子：17.7 ）

ISSN： 2095-5138

年卷期： 2025 年 12 卷 5 期

页码：

收录情况： SCI

摘要： Understanding the molecular and cellular mechanisms underlying complex traits in pigs is crucial for enhancing genetic gain via artificial selection and utilizing pigs as models for human disease and biology. Here, we conducted comprehensive genome-wide association studies (GWAS) followed by a cross-breed meta-analysis for 232 complex traits and a within-breed meta-analysis for 12 traits, using 28.3 million imputed sequence variants in 70 328 animals across 14 pig breeds. We identified 6878 quantitative trait loci (QTL) for 139 complex traits. Leveraging the Pig Genotype-Tissue Expression resource, we systematically investigated the biological context and regulatory mechanisms behind these trait-QTLs, ultimately prioritizing 14 829 variant-gene-tissue-trait regulatory circuits. For instance, rs344053754 regulates UGT2B31 expression in the liver and intestines, potentially by modulating enhancer activity, ultimately influencing litter weight at weaning in pigs. Furthermore, we observed conservation of certain genetic and regulatory mechanisms underlying complex traits between humans and pigs. Overall, our cross-breed meta-GWAS in pigs provides invaluable resources and novel insights into the genetic regulatory and evolutionary mechanisms of complex traits in mammals.

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