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Zhou J, Yu JZ, Zhu MY, Yang FX, Hao JP, He Y, Zhu XL, Hou ZC, Zhu F. Genome-Wide Association Analysis and Genetic Parameters for Egg Production Traits in Peking Ducks. Animals (Basel) 2024; 14:1891. [PMID: 38998005 PMCID: PMC11240742 DOI: 10.3390/ani14131891] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/07/2024] [Revised: 06/08/2024] [Accepted: 06/12/2024] [Indexed: 07/14/2024] Open
Abstract
Egg production traits are crucial in the poultry industry, including age at first egg (AFE), egg number (EN) at different stages, and laying rate (LR). Ducks exhibit higher egg production capacity than other poultry species, but the genetic mechanisms are still poorly understood. In this study, we collected egg-laying data of 618 Peking ducks from 22 to 66 weeks of age and genotyped them by whole-genome resequencing. Genetic parameters were calculated based on SNPs, and a genome-wide association study (GWAS) was performed for these traits. The SNP-based heritability of egg production traits ranged from 0.09 to 0.54. The GWAS identified nine significant SNP loci associated with AFE and egg number from 22 to 66 weeks. These loci showed that the corresponding alleles were positively correlated with a decrease in the traits. Moreover, three potential candidate genes (ENSAPLG00020011445, ENSAPLG00020012564, TMEM260) were identified. Functional enrichment analyses suggest that specific immune responses may have a critical impact on egg production capacity by influencing ovarian function and oocyte maturation processes. In conclusion, this study deepens the understanding of egg-laying genetics in Peking duck and provides a sound theoretical basis for future genetic improvement and genomic selection strategies in poultry.
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Affiliation(s)
- Jun Zhou
- National Engineering Laboratory for Animal Breeding, Key Laboratory of Animal Genetics, Breeding and Reproduction of the Ministry of Agriculture, College of Animal Science and Technology, China Agricultural University, Beijing 100193, China
| | - Jiang-Zhou Yu
- National Engineering Laboratory for Animal Breeding, Key Laboratory of Animal Genetics, Breeding and Reproduction of the Ministry of Agriculture, College of Animal Science and Technology, China Agricultural University, Beijing 100193, China
| | - Mei-Yi Zhu
- National Engineering Laboratory for Animal Breeding, Key Laboratory of Animal Genetics, Breeding and Reproduction of the Ministry of Agriculture, College of Animal Science and Technology, China Agricultural University, Beijing 100193, China
| | - Fang-Xi Yang
- Beijing Nankou Duck Breeding Technology Co., Ltd., Beijing 102202, China
| | - Jin-Ping Hao
- Beijing Nankou Duck Breeding Technology Co., Ltd., Beijing 102202, China
| | - Yong He
- Cherry Valley Breeding Technology Co., Ltd., Beijing 100088, China
| | - Xiao-Liang Zhu
- Cherry Valley Breeding Technology Co., Ltd., Beijing 100088, China
| | - Zhuo-Cheng Hou
- National Engineering Laboratory for Animal Breeding, Key Laboratory of Animal Genetics, Breeding and Reproduction of the Ministry of Agriculture, College of Animal Science and Technology, China Agricultural University, Beijing 100193, China
| | - Feng Zhu
- National Engineering Laboratory for Animal Breeding, Key Laboratory of Animal Genetics, Breeding and Reproduction of the Ministry of Agriculture, College of Animal Science and Technology, China Agricultural University, Beijing 100193, China
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Ma H, Lin B, Yan Z, Tong Y, Liu H, He X, Zhang H. Phenotypic Identification, Genetic Characterization, and Selective Signal Detection of Huitang Duck. Animals (Basel) 2024; 14:1747. [PMID: 38929366 PMCID: PMC11201145 DOI: 10.3390/ani14121747] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/15/2024] [Revised: 05/17/2024] [Accepted: 05/31/2024] [Indexed: 06/28/2024] Open
Abstract
The Huitang duck (HT), a long-domesticated elite local breed from Hunan Province, China, with excellent meat quality, has not had its population genetic structure and genomic selective sweeps extensively studied to date. This study measured the phenotypic characteristics of HT and conducted comparative analysis between HT and 16 different duck breeds, including wild, indigenous, and meat breeds, to characterize its population structure and genetic potential. The results revealed that HT is a dual-purpose indigenous breed with a genetic background closely related to the Youxian sheldrake and Linwu ducks. In the selective sweep analysis between HT and Linwu ducks, genes such as PLCG2, FN1, and IGF2BP2, which are associated with muscle growth and development, were identified near the 27 selection signals. The comparison between HT and Jinding ducks revealed 68 selective signals that contained important genes associated with ovarian development (GRIK4, MAP3K8, and TGIF1) and egg-laying behaviors (ERBB4). Selective sweep analysis between HT and Youxian sheldrake ducks found 93 selective regions covering genes related to both meat (IGF1R and IGFBP5) and egg-production (FOXO3 and ITPR1) traits. Our study may provide novel knowledge for exploring the population structure and genetic potential of HT, offering a theoretical basis for its breeding strategies in the future.
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Affiliation(s)
- Haojie Ma
- College of Animal Science and Technology, Hunan Agricultural University, Changsha 410128, China; (H.M.); (B.L.); (Z.Y.); (Y.T.); (H.L.); (X.H.)
| | - Bingjin Lin
- College of Animal Science and Technology, Hunan Agricultural University, Changsha 410128, China; (H.M.); (B.L.); (Z.Y.); (Y.T.); (H.L.); (X.H.)
| | - Zhiyao Yan
- College of Animal Science and Technology, Hunan Agricultural University, Changsha 410128, China; (H.M.); (B.L.); (Z.Y.); (Y.T.); (H.L.); (X.H.)
| | - Yueyue Tong
- College of Animal Science and Technology, Hunan Agricultural University, Changsha 410128, China; (H.M.); (B.L.); (Z.Y.); (Y.T.); (H.L.); (X.H.)
| | - Huichao Liu
- College of Animal Science and Technology, Hunan Agricultural University, Changsha 410128, China; (H.M.); (B.L.); (Z.Y.); (Y.T.); (H.L.); (X.H.)
| | - Xi He
- College of Animal Science and Technology, Hunan Agricultural University, Changsha 410128, China; (H.M.); (B.L.); (Z.Y.); (Y.T.); (H.L.); (X.H.)
- Hunan Engineering Research Center of Poultry Production Safety, Changsha 410128, China
- Ministry of Education Engineering Research Center of Feed Safety and Efficient Use, Changsha 410128, China
| | - Haihan Zhang
- College of Animal Science and Technology, Hunan Agricultural University, Changsha 410128, China; (H.M.); (B.L.); (Z.Y.); (Y.T.); (H.L.); (X.H.)
- Hunan Engineering Research Center of Poultry Production Safety, Changsha 410128, China
- Ministry of Education Engineering Research Center of Feed Safety and Efficient Use, Changsha 410128, China
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