Whole genome sequences of 234 indigenous African chickens from Ethiopia
Indigenous chickens predominate poultry production in Africa. Although preferred for backyard farming because of their adaptability to harsh tropical environments, these populations suffer from relatively low productivity compared to commercial lines. Genome analyses can unravel the genetic potentia...
| Autores principales: | , , , , , |
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| Formato: | Journal Article |
| Lenguaje: | Inglés |
| Publicado: |
Springer
2022
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| Materias: | |
| Acceso en línea: | https://hdl.handle.net/10568/118129 |
| _version_ | 1855531665653235712 |
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| author | Gheyas, Almas A. Vallejo Trujillo, Adriana Kebede, Adebabay Dessie, Tadelle Hanotte, Olivier H. Smith, J. |
| author_browse | Dessie, Tadelle Gheyas, Almas A. Hanotte, Olivier H. Kebede, Adebabay Smith, J. Vallejo Trujillo, Adriana |
| author_facet | Gheyas, Almas A. Vallejo Trujillo, Adriana Kebede, Adebabay Dessie, Tadelle Hanotte, Olivier H. Smith, J. |
| author_sort | Gheyas, Almas A. |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | Indigenous chickens predominate poultry production in Africa. Although preferred for backyard farming because of their adaptability to harsh tropical environments, these populations suffer from relatively low productivity compared to commercial lines. Genome analyses can unravel the genetic potential of improvement of these birds for both production and resilience traits for the benefit of African poultry farming systems. Here we report whole-genome sequences of 234 indigenous chickens from 24 Ethiopian populations distributed under diverse agro-climatic conditions. The data represents over eight terabytes of paired-end sequences from the Ilumina HiSeqX platform with an average coverage of about 57X. Almost 99% of the sequence reads could be mapped against the chicken reference genome (GRCg6a), confirming the high quality of the data. Variant calling detected around 15 million SNPs, of which about 86% are known variants (i.e., present in public databases), providing further confidence on the data quality. The dataset provides an excellent resource for investigating genetic diversity and local environmental adaptations with important implications for breed improvement and conservation purposes. |
| format | Journal Article |
| id | CGSpace118129 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2022 |
| publishDateRange | 2022 |
| publishDateSort | 2022 |
| publisher | Springer |
| publisherStr | Springer |
| record_format | dspace |
| spelling | CGSpace1181292024-11-07T09:54:43Z Whole genome sequences of 234 indigenous African chickens from Ethiopia Gheyas, Almas A. Vallejo Trujillo, Adriana Kebede, Adebabay Dessie, Tadelle Hanotte, Olivier H. Smith, J. animal breeding chickens genetics indigenous breeds poultry Indigenous chickens predominate poultry production in Africa. Although preferred for backyard farming because of their adaptability to harsh tropical environments, these populations suffer from relatively low productivity compared to commercial lines. Genome analyses can unravel the genetic potential of improvement of these birds for both production and resilience traits for the benefit of African poultry farming systems. Here we report whole-genome sequences of 234 indigenous chickens from 24 Ethiopian populations distributed under diverse agro-climatic conditions. The data represents over eight terabytes of paired-end sequences from the Ilumina HiSeqX platform with an average coverage of about 57X. Almost 99% of the sequence reads could be mapped against the chicken reference genome (GRCg6a), confirming the high quality of the data. Variant calling detected around 15 million SNPs, of which about 86% are known variants (i.e., present in public databases), providing further confidence on the data quality. The dataset provides an excellent resource for investigating genetic diversity and local environmental adaptations with important implications for breed improvement and conservation purposes. 2022-02-14 2022-02-15T09:24:43Z 2022-02-15T09:24:43Z Journal Article https://hdl.handle.net/10568/118129 en https://doi.org/10.6084/m9.figshare.16999891 Open Access Springer Gheyas, A., Vallejo-Trujillo, A., Kebede, A., Dessie, T., Hanotte, O. and Smith, J. 2022. Whole genome sequences of 234 indigenous African chickens from Ethiopia. Scientific Data 9:53. |
| spellingShingle | animal breeding chickens genetics indigenous breeds poultry Gheyas, Almas A. Vallejo Trujillo, Adriana Kebede, Adebabay Dessie, Tadelle Hanotte, Olivier H. Smith, J. Whole genome sequences of 234 indigenous African chickens from Ethiopia |
| title | Whole genome sequences of 234 indigenous African chickens from Ethiopia |
| title_full | Whole genome sequences of 234 indigenous African chickens from Ethiopia |
| title_fullStr | Whole genome sequences of 234 indigenous African chickens from Ethiopia |
| title_full_unstemmed | Whole genome sequences of 234 indigenous African chickens from Ethiopia |
| title_short | Whole genome sequences of 234 indigenous African chickens from Ethiopia |
| title_sort | whole genome sequences of 234 indigenous african chickens from ethiopia |
| topic | animal breeding chickens genetics indigenous breeds poultry |
| url | https://hdl.handle.net/10568/118129 |
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