Optimizing Breeding Strategies for Pekin Ducks Using Genomic Selection: Genetic Parameter Evaluation and Selection Progress Analysis in Reproductive Traits
Reproductive performance is an important trait in poultry production. Traditional methods of improving reproductive traits can only use recorded information from females, making it difficult to effectively assess the reproductive potential of males. Although genomic selection is thought to remedy th...
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2024-12-01
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| author | Jun Zhou Jiang-Zhou Yu Mei-Yi Zhu Fang-Xi Yang Jin-Ping Hao Yong He Xiao-Liang Zhu Zhuo-Cheng Hou Feng Zhu |
| author_facet | Jun Zhou Jiang-Zhou Yu Mei-Yi Zhu Fang-Xi Yang Jin-Ping Hao Yong He Xiao-Liang Zhu Zhuo-Cheng Hou Feng Zhu |
| author_sort | Jun Zhou |
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| description | Reproductive performance is an important trait in poultry production. Traditional methods of improving reproductive traits can only use recorded information from females, making it difficult to effectively assess the reproductive potential of males. Although genomic selection is thought to remedy this shortcoming, most studies now use simulated data or one or two generations of data to assess its effects. Also, the effectiveness of genomic selection for use in the improvement of reproductive traits in ducks has hardly been reported. In this study, data from four consecutive generations of Pekin duck populations were used to assess the effect of genomic selection on reproductive trait improvement. Whole-genome resequencing was performed for genotyping, and pedigree and SNP genetic parameters were evaluated. Using the BLUP (Best Linear Unbiased Prediction), GBLUP (Genomic Best Linear Unbiased Prediction), and ssGBLUP (Single-step Genomic Best Linear Unbiased Prediction) models, we assessed selection progress for body weight at 6 weeks, age at first egg, and egg number from 25 to 44 weeks over multiple generations. Ten-fold cross-validation was used to evaluate the genomic prediction performance. The results indicated that the heritability of growth traits decreased after routine selection, while reproductive and egg quality traits maintained moderate heritability (0.2–0.4). Selection progress showed a one-day advancement in age at first egg and an increase of one egg per generation from the 13th to 15th generations. The GBLUP model performance significantly outperformed BLUP, but ssGBLUP showed minimal improvement due to comprehensive genotyping. In conclusion, this study provides crucial insights for optimizing breeding strategies and improving economic efficiency in Pekin duck breeding. |
| format | Article |
| id | doaj-art-4e05d7b81d444a858dca126bba308674 |
| institution | Kabale University |
| issn | 2076-3417 |
| language | English |
| publishDate | 2024-12-01 |
| publisher | MDPI AG |
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| series | Applied Sciences |
| spelling | doaj-art-4e05d7b81d444a858dca126bba3086742025-01-10T13:14:45ZengMDPI AGApplied Sciences2076-34172024-12-0115119410.3390/app15010194Optimizing Breeding Strategies for Pekin Ducks Using Genomic Selection: Genetic Parameter Evaluation and Selection Progress Analysis in Reproductive TraitsJun Zhou0Jiang-Zhou Yu1Mei-Yi Zhu2Fang-Xi Yang3Jin-Ping Hao4Yong He5Xiao-Liang Zhu6Zhuo-Cheng Hou7Feng Zhu8National 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, ChinaNational 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, ChinaNational 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, ChinaBeijing Nankou Duck Breeding Technology Co., Ltd., Beijing 102202, ChinaBeijing Nankou Duck Breeding Technology Co., Ltd., Beijing 102202, ChinaCherry Valley Breeding Technology Co., Ltd., Beijing 100088, ChinaCherry Valley Breeding Technology Co., Ltd., Beijing 100088, ChinaNational 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, ChinaNational 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, ChinaReproductive performance is an important trait in poultry production. Traditional methods of improving reproductive traits can only use recorded information from females, making it difficult to effectively assess the reproductive potential of males. Although genomic selection is thought to remedy this shortcoming, most studies now use simulated data or one or two generations of data to assess its effects. Also, the effectiveness of genomic selection for use in the improvement of reproductive traits in ducks has hardly been reported. In this study, data from four consecutive generations of Pekin duck populations were used to assess the effect of genomic selection on reproductive trait improvement. Whole-genome resequencing was performed for genotyping, and pedigree and SNP genetic parameters were evaluated. Using the BLUP (Best Linear Unbiased Prediction), GBLUP (Genomic Best Linear Unbiased Prediction), and ssGBLUP (Single-step Genomic Best Linear Unbiased Prediction) models, we assessed selection progress for body weight at 6 weeks, age at first egg, and egg number from 25 to 44 weeks over multiple generations. Ten-fold cross-validation was used to evaluate the genomic prediction performance. The results indicated that the heritability of growth traits decreased after routine selection, while reproductive and egg quality traits maintained moderate heritability (0.2–0.4). Selection progress showed a one-day advancement in age at first egg and an increase of one egg per generation from the 13th to 15th generations. The GBLUP model performance significantly outperformed BLUP, but ssGBLUP showed minimal improvement due to comprehensive genotyping. In conclusion, this study provides crucial insights for optimizing breeding strategies and improving economic efficiency in Pekin duck breeding.https://www.mdpi.com/2076-3417/15/1/194Pekin ducksgenomic selectiongenetic parameter evaluationselection progressgrowthreproductive |
| spellingShingle | Jun Zhou Jiang-Zhou Yu Mei-Yi Zhu Fang-Xi Yang Jin-Ping Hao Yong He Xiao-Liang Zhu Zhuo-Cheng Hou Feng Zhu Optimizing Breeding Strategies for Pekin Ducks Using Genomic Selection: Genetic Parameter Evaluation and Selection Progress Analysis in Reproductive Traits Applied Sciences Pekin ducks genomic selection genetic parameter evaluation selection progress growth reproductive |
| title | Optimizing Breeding Strategies for Pekin Ducks Using Genomic Selection: Genetic Parameter Evaluation and Selection Progress Analysis in Reproductive Traits |
| title_full | Optimizing Breeding Strategies for Pekin Ducks Using Genomic Selection: Genetic Parameter Evaluation and Selection Progress Analysis in Reproductive Traits |
| title_fullStr | Optimizing Breeding Strategies for Pekin Ducks Using Genomic Selection: Genetic Parameter Evaluation and Selection Progress Analysis in Reproductive Traits |
| title_full_unstemmed | Optimizing Breeding Strategies for Pekin Ducks Using Genomic Selection: Genetic Parameter Evaluation and Selection Progress Analysis in Reproductive Traits |
| title_short | Optimizing Breeding Strategies for Pekin Ducks Using Genomic Selection: Genetic Parameter Evaluation and Selection Progress Analysis in Reproductive Traits |
| title_sort | optimizing breeding strategies for pekin ducks using genomic selection genetic parameter evaluation and selection progress analysis in reproductive traits |
| topic | Pekin ducks genomic selection genetic parameter evaluation selection progress growth reproductive |
| url | https://www.mdpi.com/2076-3417/15/1/194 |
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