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He Y, Zhou X, Zheng R, Jiang Y, Yao Z, Wang X, Zhang Z, Zhang H, Li J, Yuan X. The Association of an SNP in the EXOC4 Gene and Reproductive Traits Suggests Its Use as a Breeding Marker in Pigs. Animals (Basel) 2021; 11:ani11020521. [PMID: 33671441 PMCID: PMC7921996 DOI: 10.3390/ani11020521] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/29/2021] [Revised: 02/07/2021] [Accepted: 02/10/2021] [Indexed: 02/07/2023] Open
Abstract
In mammals, the exocyst complex component 4 (EXOC4) gene has often been reported to be involved in vesicle transport. The SNP rs81471943 (C/T) is located in the intron of porcine EXOC4, while six quantitative trait loci (QTL) within 5-10 Mb around EXOC4 are associated with ovary weight, teat number, total offspring born alive, and corpus luteum number. However, the molecular mechanisms between EXOC4 and the reproductive performance of pigs remains to be elucidated. In this study, rs81471943 was genotyped from a total of 994 Duroc sows, and the genotype and allele frequency of SNP rs81471943 (C/T) were statistically analyzed. Then, the associations between SNP rs81471943 and four reproductive traits, including number of piglets born alive (NBA), litter weight at birth (LWB), number of piglets weaned (NW), and litter weight at weaning (LWW), were determined. Sanger sequencing and PCR restriction fragment length polymorphism (PCR-RFLP) were utilized to identify the rs81471943 genotype. We found that the genotype frequency of CC was significantly higher than that of CT and TT, and CC was the most frequent genotype for NBA, LWB, NW, and LWW. Moreover, 5'-deletion and luciferase assays identified a positive transcription regulatory element in the EXOC4 promoter. After exploring the EXOC4 promoter, SNP -1781G/A linked with SNP rs81471943 (C/T) were identified by analysis of the transcription activity of the haplotypes, and SNP -1781 G/A may influence the potential binding of P53, E26 transformation specific sequence -like 1 transcription factor (ELK1), and myeloid zinc finger 1 (MZF1). These findings provide useful information for identifying a molecular marker of EXOC4-assisted selection in pig breeding.
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Affiliation(s)
- Yingting He
- 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, China; (Y.H.); (X.Z.); (R.Z.); (Y.J.); (Z.Z.); (H.Z.)
| | - Xiaofeng Zhou
- 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, China; (Y.H.); (X.Z.); (R.Z.); (Y.J.); (Z.Z.); (H.Z.)
| | - Rongrong Zheng
- 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, China; (Y.H.); (X.Z.); (R.Z.); (Y.J.); (Z.Z.); (H.Z.)
| | - Yao Jiang
- 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, China; (Y.H.); (X.Z.); (R.Z.); (Y.J.); (Z.Z.); (H.Z.)
| | - Zhixiang Yao
- Guangdong Dexing Food Co., Ltd., Shantou 515100, China;
| | - Xilong Wang
- Guangdong Provincial Key Laboratory of Laboratory Animals, Guangdong Laboratory Animals Monitoring Institute, Guangzhou 510260, China;
| | - Zhe Zhang
- 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, China; (Y.H.); (X.Z.); (R.Z.); (Y.J.); (Z.Z.); (H.Z.)
| | - Hao Zhang
- 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, China; (Y.H.); (X.Z.); (R.Z.); (Y.J.); (Z.Z.); (H.Z.)
| | - Jiaqi Li
- 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, China; (Y.H.); (X.Z.); (R.Z.); (Y.J.); (Z.Z.); (H.Z.)
- Correspondence: (J.L.); (X.Y.)
| | - Xiaolong Yuan
- 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, China; (Y.H.); (X.Z.); (R.Z.); (Y.J.); (Z.Z.); (H.Z.)
- Guangdong Provincial Key Laboratory of Laboratory Animals, Guangdong Laboratory Animals Monitoring Institute, Guangzhou 510260, China;
- Correspondence: (J.L.); (X.Y.)
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Zhou T, Wei H, Li D, Yang W, Cui Y, Gao J, Yu T, Lv X, Pan C. A novel missense mutation within the domain of lysine demethylase 4D (KDM4D) gene is strongly associated with testis morphology traits in pigs. Anim Biotechnol 2019; 31:52-58. [DOI: 10.1080/10495398.2018.1531880] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
Affiliation(s)
- Tong Zhou
- College of Animal Science and Technology, Northwest A&F University, Yangling, P.R. China
| | - Hancheng Wei
- College of Animal Science and Technology, Northwest A&F University, Yangling, P.R. China
- National Key Laboratory of Biotherapy, Sichuan University, Chengdu, P.R. China
| | - Dairui Li
- College of Animal Science and Technology, Northwest A&F University, Yangling, P.R. China
- Center for Stem Cell Biology and Tissue Engineering, Key Laboratory for Stem Cells and Tissue Engineering, Ministry of Education, Sun Yat-Sen University, Guangzhou, P.R. China
| | - Wenjing Yang
- College of Animal Science and Technology, Northwest A&F University, Yangling, P.R. China
| | - Yang Cui
- College of Animal Science and Technology, Northwest A&F University, Yangling, P.R. China
| | - Jiayang Gao
- College of Animal Science and Technology, Northwest A&F University, Yangling, P.R. China
| | - Ting Yu
- College of Animal Science and Technology, Northwest A&F University, Yangling, P.R. China
| | - Xiaoyan Lv
- National Swine Foundation Seed Farm of Ankang Yangchen Modern Agriculture Group Co. Ltd, Ankang, P.R. China
| | - Chuanying Pan
- College of Animal Science and Technology, Northwest A&F University, Yangling, P.R. China
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