The genomic characteristics affect phenotypic diversity from the perspective of genetic improvement of economic traits
Summary: The genetic improvement of economic traits suggests that chicken is an excellent model for exploring the genetic changes and molecular mechanisms underlying phenotypic diversity and artificial selection. Here, the sequencing data including 477 samples from 25 breeds worldwide were used to r...
| Main Authors: | , , , , , , , , , |
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| Format: | Article |
| Language: | English |
| Published: |
Elsevier
2023-04-01
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| Series: | iScience |
| Subjects: | |
| Online Access: | http://www.sciencedirect.com/science/article/pii/S2589004223005035 |
| _version_ | 1797854479903621120 |
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| author | Jinyu Chu Yunlong Ma Hui Song Qianqian Zhao Xiaoran Wei Yiyuan Yan Shijie Fan Baogui Zhou Shijun Li Chunyan Mou |
| author_facet | Jinyu Chu Yunlong Ma Hui Song Qianqian Zhao Xiaoran Wei Yiyuan Yan Shijie Fan Baogui Zhou Shijun Li Chunyan Mou |
| author_sort | Jinyu Chu |
| collection | DOAJ |
| description | Summary: The genetic improvement of economic traits suggests that chicken is an excellent model for exploring the genetic changes and molecular mechanisms underlying phenotypic diversity and artificial selection. Here, the sequencing data including 477 samples from 25 breeds worldwide were used to reveal the genomic patterns of chicken domestication. We analyzed 7.4 Tb clean data with 14.8× per individual to identify 23,504,766 SNPs, 3,289,782 InDels, and 27,027 SVs. The diversity analysis indicates that high-intensity artificial selection would accelerate population differentiation. We also found that the human-driven traits are controlled by polygenes and major genes, such as the primary candidates SOX5 and IGF1 for body size, and NEDD4 for sperm storage capacity. Our findings provide an important reference for understanding how genomic patterns shape phenotypes in livestock. |
| first_indexed | 2024-04-09T20:07:48Z |
| format | Article |
| id | doaj.art-9e1f0adbe0d64ee2a1f4e9e56ee51d89 |
| institution | Directory Open Access Journal |
| issn | 2589-0042 |
| language | English |
| last_indexed | 2024-04-09T20:07:48Z |
| publishDate | 2023-04-01 |
| publisher | Elsevier |
| record_format | Article |
| series | iScience |
| spelling | doaj.art-9e1f0adbe0d64ee2a1f4e9e56ee51d892023-04-01T08:51:08ZengElsevieriScience2589-00422023-04-01264106426The genomic characteristics affect phenotypic diversity from the perspective of genetic improvement of economic traitsJinyu Chu0Yunlong Ma1Hui Song2Qianqian Zhao3Xiaoran Wei4Yiyuan Yan5Shijie Fan6Baogui Zhou7Shijun Li8Chunyan Mou9Key Laboratory of Agricultural Animal Genetics, Breeding, and Reproduction of the Ministry of Education & Key Laboratory of Swine Genetics and Breeding of the Ministry of Agriculture, Wuhan 430070, ChinaKey Laboratory of Agricultural Animal Genetics, Breeding, and Reproduction of the Ministry of Education & Key Laboratory of Swine Genetics and Breeding of the Ministry of Agriculture, Wuhan 430070, China; Hubei Hongshan Laboratory, Wuhan 430070, ChinaKey Laboratory of Agricultural Animal Genetics, Breeding, and Reproduction of the Ministry of Education & Key Laboratory of Swine Genetics and Breeding of the Ministry of Agriculture, Wuhan 430070, ChinaKey Laboratory of Agricultural Animal Genetics, Breeding, and Reproduction of the Ministry of Education & Key Laboratory of Swine Genetics and Breeding of the Ministry of Agriculture, Wuhan 430070, ChinaBeijing Huadu Yukou Poultry Industry Co. Ltd., Beijing 101206, ChinaBeijing Huadu Yukou Poultry Industry Co. Ltd., Beijing 101206, ChinaBeijing Huadu Yukou Poultry Industry Co. Ltd., Beijing 101206, ChinaBeijing Huadu Yukou Poultry Industry Co. Ltd., Beijing 101206, ChinaKey Laboratory of Agricultural Animal Genetics, Breeding, and Reproduction of the Ministry of Education & Key Laboratory of Swine Genetics and Breeding of the Ministry of Agriculture, Wuhan 430070, China; Key Laboratory of Smart Farming for Agricultural Animals, Ministry of Education, Huazhong Agricultural University, Wuhan 430070, China; Hubei Hongshan Laboratory, Wuhan 430070, China; Corresponding authorCollege of Animal Science and Technology, Southwest University, Chongqing 402460, China; Corresponding authorSummary: The genetic improvement of economic traits suggests that chicken is an excellent model for exploring the genetic changes and molecular mechanisms underlying phenotypic diversity and artificial selection. Here, the sequencing data including 477 samples from 25 breeds worldwide were used to reveal the genomic patterns of chicken domestication. We analyzed 7.4 Tb clean data with 14.8× per individual to identify 23,504,766 SNPs, 3,289,782 InDels, and 27,027 SVs. The diversity analysis indicates that high-intensity artificial selection would accelerate population differentiation. We also found that the human-driven traits are controlled by polygenes and major genes, such as the primary candidates SOX5 and IGF1 for body size, and NEDD4 for sperm storage capacity. Our findings provide an important reference for understanding how genomic patterns shape phenotypes in livestock.http://www.sciencedirect.com/science/article/pii/S2589004223005035Biological sciencesGeneticsPoultry genetics |
| spellingShingle | Jinyu Chu Yunlong Ma Hui Song Qianqian Zhao Xiaoran Wei Yiyuan Yan Shijie Fan Baogui Zhou Shijun Li Chunyan Mou The genomic characteristics affect phenotypic diversity from the perspective of genetic improvement of economic traits iScience Biological sciences Genetics Poultry genetics |
| title | The genomic characteristics affect phenotypic diversity from the perspective of genetic improvement of economic traits |
| title_full | The genomic characteristics affect phenotypic diversity from the perspective of genetic improvement of economic traits |
| title_fullStr | The genomic characteristics affect phenotypic diversity from the perspective of genetic improvement of economic traits |
| title_full_unstemmed | The genomic characteristics affect phenotypic diversity from the perspective of genetic improvement of economic traits |
| title_short | The genomic characteristics affect phenotypic diversity from the perspective of genetic improvement of economic traits |
| title_sort | genomic characteristics affect phenotypic diversity from the perspective of genetic improvement of economic traits |
| topic | Biological sciences Genetics Poultry genetics |
| url | http://www.sciencedirect.com/science/article/pii/S2589004223005035 |
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