Evaluation of genomic mating approach based on genetic algorithms for long-term selection in Huaxi cattle
Abstract Background Genomic mating (GM) can effectively control the growth rate of inbreeding in population and achieve long-term sustainable genetic progress. However, the design of GM method and assessment of its effects during long-term selection have not been fully explored in beef cattle breedi...
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BMC
2024-11-01
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| Series: | BMC Genomics |
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| Online Access: | https://doi.org/10.1186/s12864-024-11057-9 |
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| author | Yuanqing Wang Bo Zhu Jing Wang Lupei Zhang Lingyang Xu Yan Chen Zezhao Wang Huijiang Gao Junya Li Xue Gao |
| author_facet | Yuanqing Wang Bo Zhu Jing Wang Lupei Zhang Lingyang Xu Yan Chen Zezhao Wang Huijiang Gao Junya Li Xue Gao |
| author_sort | Yuanqing Wang |
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| description | Abstract Background Genomic mating (GM) can effectively control the growth rate of inbreeding in population and achieve long-term sustainable genetic progress. However, the design of GM method and assessment of its effects during long-term selection have not been fully explored in beef cattle breeding. Results In this study, we constructed a simulated population based on the real genotypes of Huaxi cattle, where five generations of simulated breeding were carried out using the genomic optimal contribution selection (GOCS), genetic algorithms strategy and three traditional mating strategies. During the breeding process, genetic parameters including average genomic estimated breeding value (GEBV), genetic gain values ( $$\Delta G$$ Δ G ), the rate of inbreeding values ( $$\Delta F$$ Δ F ) were calculated and compared across generations. Our results showed that the GM method could significantly improve the genetic gain while effectively controlling the inbreeding accumulation within the population. When using the GM method, there was an increase in genetic gain for Huaxi cattle ranging from 1.1% to 25.6% compared to traditional mating strategy, with inbreeding decreasing in the range of 5.8% to 36.2%. Validation using the real dataset from Huaxi cattle further confirmed our findings from the simulated study, offspring populations using the GM strategy exhibited a 7.3% increase in genetic gain compared to positive assortative mating. Conclusions These findings suggest that the GM method shows potential for achieving sustainable genetic gain and could be utilized during long-term selection in beef cattle breeding. |
| format | Article |
| id | doaj-art-df6e5c5b7fbb4d3f96cf81788f569a49 |
| institution | OA Journals |
| issn | 1471-2164 |
| language | English |
| publishDate | 2024-11-01 |
| publisher | BMC |
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| series | BMC Genomics |
| spelling | doaj-art-df6e5c5b7fbb4d3f96cf81788f569a492025-08-20T02:08:24ZengBMCBMC Genomics1471-21642024-11-0125111210.1186/s12864-024-11057-9Evaluation of genomic mating approach based on genetic algorithms for long-term selection in Huaxi cattleYuanqing Wang0Bo Zhu1Jing Wang2Lupei Zhang3Lingyang Xu4Yan Chen5Zezhao Wang6Huijiang Gao7Junya Li8Xue Gao9Laboratory of Molecular Biology and Bovine Breeding, Institute of Animal Sciences, Chinese Academy of Agricultural SciencesLaboratory of Molecular Biology and Bovine Breeding, Institute of Animal Sciences, Chinese Academy of Agricultural SciencesLaboratory of Molecular Biology and Bovine Breeding, Institute of Animal Sciences, Chinese Academy of Agricultural SciencesLaboratory of Molecular Biology and Bovine Breeding, Institute of Animal Sciences, Chinese Academy of Agricultural SciencesLaboratory of Molecular Biology and Bovine Breeding, Institute of Animal Sciences, Chinese Academy of Agricultural SciencesLaboratory of Molecular Biology and Bovine Breeding, Institute of Animal Sciences, Chinese Academy of Agricultural SciencesLaboratory of Molecular Biology and Bovine Breeding, Institute of Animal Sciences, Chinese Academy of Agricultural SciencesLaboratory of Molecular Biology and Bovine Breeding, Institute of Animal Sciences, Chinese Academy of Agricultural SciencesLaboratory of Molecular Biology and Bovine Breeding, Institute of Animal Sciences, Chinese Academy of Agricultural SciencesLaboratory of Molecular Biology and Bovine Breeding, Institute of Animal Sciences, Chinese Academy of Agricultural SciencesAbstract Background Genomic mating (GM) can effectively control the growth rate of inbreeding in population and achieve long-term sustainable genetic progress. However, the design of GM method and assessment of its effects during long-term selection have not been fully explored in beef cattle breeding. Results In this study, we constructed a simulated population based on the real genotypes of Huaxi cattle, where five generations of simulated breeding were carried out using the genomic optimal contribution selection (GOCS), genetic algorithms strategy and three traditional mating strategies. During the breeding process, genetic parameters including average genomic estimated breeding value (GEBV), genetic gain values ( $$\Delta G$$ Δ G ), the rate of inbreeding values ( $$\Delta F$$ Δ F ) were calculated and compared across generations. Our results showed that the GM method could significantly improve the genetic gain while effectively controlling the inbreeding accumulation within the population. When using the GM method, there was an increase in genetic gain for Huaxi cattle ranging from 1.1% to 25.6% compared to traditional mating strategy, with inbreeding decreasing in the range of 5.8% to 36.2%. Validation using the real dataset from Huaxi cattle further confirmed our findings from the simulated study, offspring populations using the GM strategy exhibited a 7.3% increase in genetic gain compared to positive assortative mating. Conclusions These findings suggest that the GM method shows potential for achieving sustainable genetic gain and could be utilized during long-term selection in beef cattle breeding.https://doi.org/10.1186/s12864-024-11057-9SimulationGenomic matingGenetic algorithmsGenetic gainHuaxi cattle |
| spellingShingle | Yuanqing Wang Bo Zhu Jing Wang Lupei Zhang Lingyang Xu Yan Chen Zezhao Wang Huijiang Gao Junya Li Xue Gao Evaluation of genomic mating approach based on genetic algorithms for long-term selection in Huaxi cattle BMC Genomics Simulation Genomic mating Genetic algorithms Genetic gain Huaxi cattle |
| title | Evaluation of genomic mating approach based on genetic algorithms for long-term selection in Huaxi cattle |
| title_full | Evaluation of genomic mating approach based on genetic algorithms for long-term selection in Huaxi cattle |
| title_fullStr | Evaluation of genomic mating approach based on genetic algorithms for long-term selection in Huaxi cattle |
| title_full_unstemmed | Evaluation of genomic mating approach based on genetic algorithms for long-term selection in Huaxi cattle |
| title_short | Evaluation of genomic mating approach based on genetic algorithms for long-term selection in Huaxi cattle |
| title_sort | evaluation of genomic mating approach based on genetic algorithms for long term selection in huaxi cattle |
| topic | Simulation Genomic mating Genetic algorithms Genetic gain Huaxi cattle |
| url | https://doi.org/10.1186/s12864-024-11057-9 |
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