Identifying the complex genetic architecture of growth and fatness traits in a Duroc pig population

doi:10.1016/S2095-3119(20)63264-6

Journal of Integrative Agriculture ›› 2021, Vol. 20 ›› Issue (6): 1607-1614.DOI: 10.1016/S2095-3119(20)63264-6

收稿日期:2020-01-19 出版日期:2021-06-01 发布日期:2021-05-19

Identifying the complex genetic architecture of growth and fatness traits in a Duroc pig population

ZHANG Zhe, CHEN Zi-tao, DIAO Shu-qi, YE Shao-pan, WANG Jia-ying, GAO Ning, YUAN Xiao-long, CHEN Zan-mou, ZHANG Hao, LI Jia-qi

Guangdong Provincial Key Lab of Agro-Animal Genomics and Molecular Breeding/National Engineering Research Center for Breeding Swine Industry/College of Animal Science, South China Agricultural University, Guangzhou 510642, P.R.China

Received:2020-01-19 Online:2021-06-01 Published:2021-05-19
Contact: Correspondence LI Jia-qi, Tel/Fax: +86-20-85283519, E-mail: jqli@scau.edu.cn
About author:ZHANG Zhe, Tel/Fax: +86-20-85282019, E-mail: zhezhang@scau.edu.cn
Supported by:
This research was supported by the earmarked fund for China Agriculture Research System (CARS-35), the National Natural Science Foundation of China (31772556), and the Key R&D Program of Guangdong Province, China (2018B020203002).

摘要/Abstract

摘要：

本研究首先使用多性状动物模型对4539头杜洛克猪的达100 kg体重日龄（D100）、达100 kg体重背膘厚（B100）和达100 kg体重眼肌面积（L100）性状进行遗传参数估计。进而，利用高密度SNP芯片对其中的1067头杜洛克猪进行基因分型，并使用基于单标记回归的线性模型对其D100、B100和L100性状进行全基因组关联分析。研究发现该群体的D100、B100和L100性状的遗传力分别为0.300、0.215和0.380。与D100性状相关的SNP位点12个，B100性状相关的SNP位点13个和L100性状相关的SNP位点3个，共注释到13个候选功能基因。这些基因是VPS4B、PHLPP1、ENSSSCG00000034988、CDH20、ENSSSCG00000004911、ENSSSCG00000033637、ADAMTS2、NUDT3、RPS10、TSHZ1、TXN2、GRM4和SNRPC。本研究所定位的D100、B100和L100性状相关的SNP与公共数据库（Animal QTLdb，https://www.animalgenome.org/cgi-bin/QTLdb/index）上相关基因组区域重叠。另外，通过对D100、B100和L100性状相关SNP定位的候选功能基因进行富集分析发现，候选功能基因显著富集在酶的调节或抑制活性和代谢相关的生物学进程（校正P值<0.05）。研究结果进一步揭示了杜洛克猪生长和脂肪性状的遗传结构，将为后续优良品种选育提供依据。

Abstract:

In modern pig breeding programs, growth and fatness are vital economic traits that significantly influence porcine production. To identify underlying variants and candidate genes associated with growth and fatness traits, a total of 1 067 genotyped Duroc pigs with de-regressed estimated breeding values (DEBV) records were analyzed in a genome wide association study (GWAS) by using a single marker regression model. In total, 28 potential single nucleotide polymorphisms (SNPs) were associated with these traits of interest. Moreover, VPS4B, PHLPP1, and some other genes were highlighted as functionally plausible candidate genes that compose the underlying genetic architecture of porcine growth and fatness traits. Our findings contribute to a better understanding of the genetic architectures underlying swine growth and fatness traits that can be potentially used in pig breeding programs.

Key words: pig , GWAS , growth trait fatness trait , candidate gene

. [J]. Journal of Integrative Agriculture, 2021, 20(6): 1607-1614.

ZHANG Zhe, CHEN Zi-tao, DIAO Shu-qi, YE Shao-pan, WANG Jia-ying, GAO Ning, YUAN Xiao-long, CHEN Zan-mou, ZHANG Hao, LI Jia-qi. Identifying the complex genetic architecture of growth and fatness traits in a Duroc pig population[J]. Journal of Integrative Agriculture, 2021, 20(6): 1607-1614.

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Identifying the complex genetic architecture of growth and fatness traits in a Duroc pig population

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