Whole-genome variants dataset of 209 local chickens from China
Abstract Compared to commercial chickens, local breeds exhibit better in meat quality and flavour, but the productivity (e.g., growth rate, body weight) of local chicken breeds is rather low. Genetic analysis based on whole-genome sequencing contributes to elucidating the genetic markers or putative...
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| Format: | Article |
| Language: | English |
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Nature Portfolio
2024-02-01
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| Series: | Scientific Data |
| Online Access: | https://doi.org/10.1038/s41597-024-02995-w |
| _version_ | 1827328714843619328 |
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| author | Xiaodong Tan Jiawen Zhang Jie Dong Minjie Huang Qinghai Li Huanhuan Wang Lijuan Bai Ming Cui Zhenzhen Zhou Shuyuan Yang Deqian Wang |
| author_facet | Xiaodong Tan Jiawen Zhang Jie Dong Minjie Huang Qinghai Li Huanhuan Wang Lijuan Bai Ming Cui Zhenzhen Zhou Shuyuan Yang Deqian Wang |
| author_sort | Xiaodong Tan |
| collection | DOAJ |
| description | Abstract Compared to commercial chickens, local breeds exhibit better in meat quality and flavour, but the productivity (e.g., growth rate, body weight) of local chicken breeds is rather low. Genetic analysis based on whole-genome sequencing contributes to elucidating the genetic markers or putative candidate genes related to some economic traits, facilitating the improvement of production performance, the acceleration of breeding progress, and the conservation of genetic resources. Here, a total of 209 local chickens from 13 breeds were investigated, and the observation of approximately 91.4% high-quality sequences (Q30 > 90%) and a mapping rate over 99% for each individual indicated good results of this study, as confirmed by a genome coverage of 97.6%. Over 19 million single nucleotide polymorphisms (SNPs) and 1.98 million insertion-deletions (InDels) were identified using the reference genome (GRCg7b), further contributing to the public database. This dataset provides valuable resources for studying genetic diversity and adaptation and for the cultivation of new chicken breeds/lines. |
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| format | Article |
| id | doaj.art-d1dd7a1199184a5fb27f059998d346ce |
| institution | Directory Open Access Journal |
| issn | 2052-4463 |
| language | English |
| last_indexed | 2024-03-07T15:21:19Z |
| publishDate | 2024-02-01 |
| publisher | Nature Portfolio |
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| series | Scientific Data |
| spelling | doaj.art-d1dd7a1199184a5fb27f059998d346ce2024-03-05T17:38:57ZengNature PortfolioScientific Data2052-44632024-02-011111910.1038/s41597-024-02995-wWhole-genome variants dataset of 209 local chickens from ChinaXiaodong Tan0Jiawen Zhang1Jie Dong2Minjie Huang3Qinghai Li4Huanhuan Wang5Lijuan Bai6Ming Cui7Zhenzhen Zhou8Shuyuan Yang9Deqian Wang10Institute of Animal Husbandry and Veterinary Science, Zhejiang Academy of Agricultural SciencesInstitute of Animal Husbandry and Veterinary Science, Zhejiang Academy of Agricultural SciencesInstitute of Animal Husbandry and Veterinary Science, Zhejiang Academy of Agricultural SciencesInstitute of Animal Husbandry and Veterinary Science, Zhejiang Academy of Agricultural SciencesAnimal Husbandry Institute, Hangzhou Academy of Agricultural SciencesAnimal Husbandry Institute, Hangzhou Academy of Agricultural SciencesZhejiang Animal Husbandry Technology Extension and Breeding Livestock and Poultry Monitoring StationZhejiang Animal Husbandry Technology Extension and Breeding Livestock and Poultry Monitoring StationInstitute of Animal Husbandry and Veterinary Science, Zhejiang Academy of Agricultural SciencesInstitute of Animal Husbandry and Veterinary Science, Zhejiang Academy of Agricultural SciencesInstitute of Animal Husbandry and Veterinary Science, Zhejiang Academy of Agricultural SciencesAbstract Compared to commercial chickens, local breeds exhibit better in meat quality and flavour, but the productivity (e.g., growth rate, body weight) of local chicken breeds is rather low. Genetic analysis based on whole-genome sequencing contributes to elucidating the genetic markers or putative candidate genes related to some economic traits, facilitating the improvement of production performance, the acceleration of breeding progress, and the conservation of genetic resources. Here, a total of 209 local chickens from 13 breeds were investigated, and the observation of approximately 91.4% high-quality sequences (Q30 > 90%) and a mapping rate over 99% for each individual indicated good results of this study, as confirmed by a genome coverage of 97.6%. Over 19 million single nucleotide polymorphisms (SNPs) and 1.98 million insertion-deletions (InDels) were identified using the reference genome (GRCg7b), further contributing to the public database. This dataset provides valuable resources for studying genetic diversity and adaptation and for the cultivation of new chicken breeds/lines.https://doi.org/10.1038/s41597-024-02995-w |
| spellingShingle | Xiaodong Tan Jiawen Zhang Jie Dong Minjie Huang Qinghai Li Huanhuan Wang Lijuan Bai Ming Cui Zhenzhen Zhou Shuyuan Yang Deqian Wang Whole-genome variants dataset of 209 local chickens from China Scientific Data |
| title | Whole-genome variants dataset of 209 local chickens from China |
| title_full | Whole-genome variants dataset of 209 local chickens from China |
| title_fullStr | Whole-genome variants dataset of 209 local chickens from China |
| title_full_unstemmed | Whole-genome variants dataset of 209 local chickens from China |
| title_short | Whole-genome variants dataset of 209 local chickens from China |
| title_sort | whole genome variants dataset of 209 local chickens from china |
| url | https://doi.org/10.1038/s41597-024-02995-w |
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