利用GWAS和DNA甲基化共定位鉴定猪肉质性状的候选基因

doi:10.11843/j.issn.0366-6964.2024.05.013

畜牧兽医学报 ›› 2024, Vol. 55 ›› Issue (5): 1945-1957.doi: 10.11843/j.issn.0366-6964.2024.05.013

利用GWAS和DNA甲基化共定位鉴定猪肉质性状的候选基因

崔晟頔^1,2,3, 王凯⁴, 赵真坚^1,2,3, 陈栋^1,2,3, 申琦^1,2,3, 余杨^1,2,3, 王俊戈^1,2,3, 陈子旸^1,2,3, 禹世欣^1,2,3, 陈佳苗^1,2,3, 王翔枫^1,2,3, 唐国庆^1,2,3*

1. 四川农业大学动物科技学院, 猪禽种业全国重点实验室, 成都 611130;
2. 四川农业大学动物科技学院, 农业农村部畜禽生物组学重点实验室, 成都 611130;
3. 四川农业大学"畜禽遗传资源发掘与创新利用四川省重点实验室", 成都 611130;
4. 新希望六和股份有限公司, 成都 625014

收稿日期:2023-12-08 出版日期:2024-05-23 发布日期:2024-05-27
通讯作者: 唐国庆，主要从事猪分子数量遗传研究，E-mail：tyq003@163.com
作者简介:崔晟頔(2000-)，男，河南新乡人，硕士，主要从事猪遗传育种研究，E-mail：313164192@qq.com
基金资助:
四川省科技厅项目(2020YFN0024；2021ZDZX0008；2021YFYZ0030)；国家生猪技术创新中心先导科技项目(NCTIP-XD/B01)

Identification of Candidate Genes for Pork Texture Traits Using GWAS Combined with Co-localisation of DNA Methylation

CUI Shengdi^1,2,3, WANG Kai⁴, ZHAO Zhenjian^1,2,3, CHEN Dong^1,2,3, SHEN Qi^1,2,3, YU Yang^1,2,3, WANG Junge^1,2,3, CHEN Ziyang^1,2,3, YU Shixin^1,2,3, CHEN Jiamiao^1,2,3, WANG Xiangfeng^1,2,3, TANG Guoqing^1,2,3*

1. State Key Laboratory of Swine and Poultry Breeding Industry, College of Animal Science and Technology, Sichuan Agricultural University, Chengdu 611130, China;
2. Key Laboratory of Livestock and Poultry Multi-omics of Ministry of Agriculture and Rural Affairs, College of Animal Science and Technology, Sichuan Agricultural University, Chengdu 611130, China;
3. Farm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu 611130, China;
4. New Hope Liuhe CO. LTD., Chengdu 625014, China

Received:2023-12-08 Online:2024-05-23 Published:2024-05-27

摘要/Abstract

摘要： 为了更深入地了解肉质性状的遗传基础，本研究使用基于基因型填充的测序数据进行了GWAS分析并与之前的发表的EWAS结果进行共定位分析。该研究发现了515个全基因组水平显著的SNPs位点和4 134个达建议显著阈值的SNPs位点，这些位点共涉及406个基因，其中包括262个蛋白质编码基因，最终确定了6个可能与肉质性状相关的重要候选基因。同时，与EWAS的结果进行比较，发现有12个显著的CpG位点与显著SNP位点存在重叠。通过这些研究可以为改善猪肉品质的育种工作提供更坚实的理论基础和数据支持。

关键词: 全基因组关联分析, SNPs, 肉质性状

Abstract: To gain a deeper understanding of the genetic basis of meat quality traits, this study performed GWAS analysis using genotype-based populated sequencing data and co-localisation analysis with previously published EWAS results. The study identified 515 genome-wide significant SNP loci and 4 134 SNP loci at the proposed significance threshold, which involved 406 genes, including 262 protein-coding genes, and resulted in the identification of 6 important candidate genes that may be associated with meat quality traits. Meanwhile, comparison with the results of EWAS revealed that 12 significant CpG loci overlapped with significant SNP loci. The study results can provide a more solid theoretical foundation and data support for breeding efforts to improve pork quality.

Key words: genome-wide association study, SNPs, meat traits

中图分类号:

S828.2

崔晟頔, 王凯, 赵真坚, 陈栋, 申琦, 余杨, 王俊戈, 陈子旸, 禹世欣, 陈佳苗, 王翔枫, 唐国庆. 利用GWAS和DNA甲基化共定位鉴定猪肉质性状的候选基因[J]. 畜牧兽医学报, 2024, 55(5): 1945-1957.

CUI Shengdi, WANG Kai, ZHAO Zhenjian, CHEN Dong, SHEN Qi, YU Yang, WANG Junge, CHEN Ziyang, YU Shixin, CHEN Jiamiao, WANG Xiangfeng, TANG Guoqing. Identification of Candidate Genes for Pork Texture Traits Using GWAS Combined with Co-localisation of DNA Methylation[J]. Acta Veterinaria et Zootechnica Sinica, 2024, 55(5): 1945-1957.

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利用GWAS和DNA甲基化共定位鉴定猪肉质性状的候选基因

Identification of Candidate Genes for Pork Texture Traits Using GWAS Combined with Co-localisation of DNA Methylation

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