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Wang J, Yang H, Chen S, Li W, Yu J, Hu Z, Zhuo Y, Huang Q, Liu Z, Zhou L, Wu J, Wang Z, Guo F, Yun P, Wang X, Liu JF. Genome-wide association study reveals candidate genes for pollution excreta traits in pigs. Anim Genet 2023. [PMID: 37040927 DOI: 10.1111/age.13323] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/16/2022] [Revised: 11/13/2022] [Accepted: 03/18/2023] [Indexed: 04/13/2023]
Abstract
Excreta traits comprise a very important characteristic in breeding that have been neglected for a long time. With the growth of intensive pig farming, plenty of environment problems have been raised, and people have begun to pay attention to pig excreta behaviors from genetics and breeding perspectives. However, the genetic architecture of excreta traits remains unclear. To investigate the genetic architecture of excreta traits in pigs, eight excreta traits and feed conversion ratio (FCR) were analyzed in this study. We performed genome-wide association studies (GWASs) on 213 Yorkshire pigs and estimated genetic parameters for a total number of 290 pigs, comprising 213 Yorkshire, 52 Landrace and 25 Duroc. After analysis, eight and 22 genome-wide significant SNPs were detected for FCR and the eight excreta traits in single-trait GWASs separately, and 18 were detected in a multi-trait meta-analysis for excreta traits, six of which were detected in both the single-trait and the multi-trait GWAS. Eighty, 182 and 133 genes were detected within 1 Mb of the genome-wide significant SNPs for FCR, excreta traits and multi-trait meta-analysis, respectively. Five candidate genes (BCKDC, DBT, ANKRD7, SHPRH and HCRT) with biochemical and physiological effects relevant to feed efficiency and excreta traits might be interesting markers for future breeding. Meanwhile, functional enrichment analysis indicates that most of the significant pathways are associated with the glutathione catabolic process, DNA topological change and replication fork protection complex. This study reveals the architecture of excreta traits in commercial pigs and offers an opportunity for decreasing the pollution from excreta using genomic selection in pigs.
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Affiliation(s)
- Junjian Wang
- State Key Laboratory of animal Biotech Breeding, Key Laboratory of Animal Genetics, Breeding and Reproduction, Ministry of Agriculture, College of Animal Science and Technology, China Agricultural University, Beijing, China
| | - Huawei Yang
- Shenzhen Kingsino Technology Co., Ltd., 518107, Shenzhen, No.18 Guangdian North Rd, High-Tech Industrial Park, Guangming District, China
| | - Shaokang Chen
- Beijing General Station of Animal Husbandry, 100107, Beijing, China
| | - Weining Li
- State Key Laboratory of animal Biotech Breeding, Key Laboratory of Animal Genetics, Breeding and Reproduction, Ministry of Agriculture, College of Animal Science and Technology, China Agricultural University, Beijing, China
| | - Jian Yu
- State Key Laboratory of animal Biotech Breeding, Key Laboratory of Animal Genetics, Breeding and Reproduction, Ministry of Agriculture, College of Animal Science and Technology, China Agricultural University, Beijing, China
| | - Zhengzheng Hu
- State Key Laboratory of animal Biotech Breeding, Key Laboratory of Animal Genetics, Breeding and Reproduction, Ministry of Agriculture, College of Animal Science and Technology, China Agricultural University, Beijing, China
| | - Yue Zhuo
- State Key Laboratory of animal Biotech Breeding, Key Laboratory of Animal Genetics, Breeding and Reproduction, Ministry of Agriculture, College of Animal Science and Technology, China Agricultural University, Beijing, China
| | - Qianqian Huang
- State Key Laboratory of animal Biotech Breeding, Key Laboratory of Animal Genetics, Breeding and Reproduction, Ministry of Agriculture, College of Animal Science and Technology, China Agricultural University, Beijing, China
| | - Zhen Liu
- State Key Laboratory of animal Biotech Breeding, Key Laboratory of Animal Genetics, Breeding and Reproduction, Ministry of Agriculture, College of Animal Science and Technology, China Agricultural University, Beijing, China
| | - Lei Zhou
- State Key Laboratory of animal Biotech Breeding, Key Laboratory of Animal Genetics, Breeding and Reproduction, Ministry of Agriculture, College of Animal Science and Technology, China Agricultural University, Beijing, China
| | - Jianliang Wu
- Beijing Zhongyu Pig Breeding Co. Ltd., 100194, Beijing, China
| | - Zhaojun Wang
- Beijing Zhongyu Pig Breeding Co. Ltd., 100194, Beijing, China
| | - Feng Guo
- Beijing General Station of Animal Husbandry, 100107, Beijing, China
| | - Peng Yun
- Beijing General Station of Animal Husbandry, 100107, Beijing, China
| | - Xiaofeng Wang
- Beijing General Station of Animal Husbandry, 100107, Beijing, China
| | - Jian-Feng Liu
- State Key Laboratory of animal Biotech Breeding, Key Laboratory of Animal Genetics, Breeding and Reproduction, Ministry of Agriculture, College of Animal Science and Technology, China Agricultural University, Beijing, China
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