Identification of Candidate Genes for Economically Important Carcass Cutting in Commercial Pigs through GWAS
During the process of pork production, the carcasses of pigs are divided and sold, which provides better economic benefits and market competitiveness for pork production than selling the carcass as a whole. Due to the significant cost of post-slaughter phenotypic measurement, the genetic architectur...
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MDPI AG
2023-10-01
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| Series: | Animals |
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| Online Access: | https://www.mdpi.com/2076-2615/13/20/3243 |
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| author | Fuchen Zhou Jianping Quan Donglin Ruan Yibin Qiu Rongrong Ding Cineng Xu Yong Ye Gengyuan Cai Langqing Liu Zebin Zhang Jie Yang Zhenfang Wu Enqin Zheng |
| author_facet | Fuchen Zhou Jianping Quan Donglin Ruan Yibin Qiu Rongrong Ding Cineng Xu Yong Ye Gengyuan Cai Langqing Liu Zebin Zhang Jie Yang Zhenfang Wu Enqin Zheng |
| author_sort | Fuchen Zhou |
| collection | DOAJ |
| description | During the process of pork production, the carcasses of pigs are divided and sold, which provides better economic benefits and market competitiveness for pork production than selling the carcass as a whole. Due to the significant cost of post-slaughter phenotypic measurement, the genetic architecture of tenderloin weight (TLNW) and rib weight (RIBW)—important components of pig carcass economic value—remain unknown. In this study, we conducted genome-wide association studies (GWAS) for TLNW and RIBW traits in a population of 431 Duroc × Landrace × Yorkshire (DLY) pigs. In our study, the most significant single nucleotide polymorphism (SNP) associated with TLNW was identified as ASGA0085853 (3.28 Mb) on Sus scrofa chromosome 12 (SSC12), while for RIBW, it was Affx-1115046258 (172.45 Mb) on SSC13. Through haplotype block analysis, we discovered a novel quantitative trait locus (QTL) associated with TLNW, spanning a 5 kb region on SSC12, and a novel RIBW-associated QTL spanning 1.42 Mb on SSC13. Furthermore, we hypothesized that three candidate genes, <i>TIMP2</i> and <i>EML1</i>, and <i>SMN1</i>, are associated with TLNW and RIBW, respectively. Our research not only addresses the knowledge gap regarding TLNW, but also serves as a valuable reference for studying RIBW. The identified SNP loci strongly associated with TLNW and RIBW may prove useful for marker-assisted selection in pig breeding programs. |
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| language | English |
| last_indexed | 2024-03-10T21:29:19Z |
| publishDate | 2023-10-01 |
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| series | Animals |
| spelling | doaj.art-5260b053425d4edaba3743288bea372b2023-11-19T15:25:08ZengMDPI AGAnimals2076-26152023-10-011320324310.3390/ani13203243Identification of Candidate Genes for Economically Important Carcass Cutting in Commercial Pigs through GWASFuchen Zhou0Jianping Quan1Donglin Ruan2Yibin Qiu3Rongrong Ding4Cineng Xu5Yong Ye6Gengyuan Cai7Langqing Liu8Zebin Zhang9Jie Yang10Zhenfang Wu11Enqin Zheng12College of Animal Science and National Engineering Research Center for Breeding Swine Industry, South China Agricultural University, Guangzhou 510642, ChinaCollege of Animal Science and National Engineering Research Center for Breeding Swine Industry, South China Agricultural University, Guangzhou 510642, ChinaCollege of Animal Science and National Engineering Research Center for Breeding Swine Industry, South China Agricultural University, Guangzhou 510642, ChinaCollege of Animal Science and National Engineering Research Center for Breeding Swine Industry, South China Agricultural University, Guangzhou 510642, ChinaCollege of Animal Science and National Engineering Research Center for Breeding Swine Industry, South China Agricultural University, Guangzhou 510642, ChinaCollege of Animal Science and National Engineering Research Center for Breeding Swine Industry, South China Agricultural University, Guangzhou 510642, ChinaCollege of Animal Science and National Engineering Research Center for Breeding Swine Industry, South China Agricultural University, Guangzhou 510642, ChinaCollege of Animal Science and National Engineering Research Center for Breeding Swine Industry, South China Agricultural University, Guangzhou 510642, ChinaCollege of Animal Science and National Engineering Research Center for Breeding Swine Industry, South China Agricultural University, Guangzhou 510642, ChinaCollege of Animal Science and National Engineering Research Center for Breeding Swine Industry, South China Agricultural University, Guangzhou 510642, ChinaCollege of Animal Science and National Engineering Research Center for Breeding Swine Industry, South China Agricultural University, Guangzhou 510642, ChinaCollege of Animal Science and National Engineering Research Center for Breeding Swine Industry, South China Agricultural University, Guangzhou 510642, ChinaCollege of Animal Science and National Engineering Research Center for Breeding Swine Industry, South China Agricultural University, Guangzhou 510642, ChinaDuring the process of pork production, the carcasses of pigs are divided and sold, which provides better economic benefits and market competitiveness for pork production than selling the carcass as a whole. Due to the significant cost of post-slaughter phenotypic measurement, the genetic architecture of tenderloin weight (TLNW) and rib weight (RIBW)—important components of pig carcass economic value—remain unknown. In this study, we conducted genome-wide association studies (GWAS) for TLNW and RIBW traits in a population of 431 Duroc × Landrace × Yorkshire (DLY) pigs. In our study, the most significant single nucleotide polymorphism (SNP) associated with TLNW was identified as ASGA0085853 (3.28 Mb) on Sus scrofa chromosome 12 (SSC12), while for RIBW, it was Affx-1115046258 (172.45 Mb) on SSC13. Through haplotype block analysis, we discovered a novel quantitative trait locus (QTL) associated with TLNW, spanning a 5 kb region on SSC12, and a novel RIBW-associated QTL spanning 1.42 Mb on SSC13. Furthermore, we hypothesized that three candidate genes, <i>TIMP2</i> and <i>EML1</i>, and <i>SMN1</i>, are associated with TLNW and RIBW, respectively. Our research not only addresses the knowledge gap regarding TLNW, but also serves as a valuable reference for studying RIBW. The identified SNP loci strongly associated with TLNW and RIBW may prove useful for marker-assisted selection in pig breeding programs.https://www.mdpi.com/2076-2615/13/20/3243pigsfine segmentationtenderloin weightrib weightgenome-wide association studies |
| spellingShingle | Fuchen Zhou Jianping Quan Donglin Ruan Yibin Qiu Rongrong Ding Cineng Xu Yong Ye Gengyuan Cai Langqing Liu Zebin Zhang Jie Yang Zhenfang Wu Enqin Zheng Identification of Candidate Genes for Economically Important Carcass Cutting in Commercial Pigs through GWAS Animals pigs fine segmentation tenderloin weight rib weight genome-wide association studies |
| title | Identification of Candidate Genes for Economically Important Carcass Cutting in Commercial Pigs through GWAS |
| title_full | Identification of Candidate Genes for Economically Important Carcass Cutting in Commercial Pigs through GWAS |
| title_fullStr | Identification of Candidate Genes for Economically Important Carcass Cutting in Commercial Pigs through GWAS |
| title_full_unstemmed | Identification of Candidate Genes for Economically Important Carcass Cutting in Commercial Pigs through GWAS |
| title_short | Identification of Candidate Genes for Economically Important Carcass Cutting in Commercial Pigs through GWAS |
| title_sort | identification of candidate genes for economically important carcass cutting in commercial pigs through gwas |
| topic | pigs fine segmentation tenderloin weight rib weight genome-wide association studies |
| url | https://www.mdpi.com/2076-2615/13/20/3243 |
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