Genomic reference resource for African cattle: Genome sequences and high-density array variants
The diversity in genome resources is fundamental to designing genomic strategies for local breed improvement and utilisation. These resources also support gene discovery and enhance our understanding of the mechanisms of resilience with applications beyond local breeds. Here, we report the genome se...
| Autores principales: | , , , , , , , , , , , , , , , , , , , , , , , , , , |
|---|---|
| Formato: | Journal Article |
| Lenguaje: | Inglés |
| Publicado: |
Springer
2024
|
| Materias: | |
| Acceso en línea: | https://hdl.handle.net/10568/151675 |
| _version_ | 1855543074108735488 |
|---|---|
| author | Tijjani, Abdulfatai Kambal, Sumaya Terefe, E. Njeru, Regina Ogugo, Moses Ndambuki, G. Missohou, A. Traore, A. Salim, B. Ezeasor, C. Hirwa, C.D. Obishakin, E.T. Diallo, B. Talaki, E. Abdoukarim, I.Y. Nash, O. Osei-Amponsah, R. Ravaorimanana, S. Issa, Y. Zegeye, T. Mukasa, C. Tiambo, Christian K. Prendergast, J.G.D. Kemp, Stephen J. Han Jianlin Marshall, Karen Hanotte, Olivier H. |
| author_browse | Abdoukarim, I.Y. Diallo, B. Ezeasor, C. Han Jianlin Hanotte, Olivier H. Hirwa, C.D. Issa, Y. Kambal, Sumaya Kemp, Stephen J. Marshall, Karen Missohou, A. Mukasa, C. Nash, O. Ndambuki, G. Njeru, Regina Obishakin, E.T. Ogugo, Moses Osei-Amponsah, R. Prendergast, J.G.D. Ravaorimanana, S. Salim, B. Talaki, E. Terefe, E. Tiambo, Christian K. Tijjani, Abdulfatai Traore, A. Zegeye, T. |
| author_facet | Tijjani, Abdulfatai Kambal, Sumaya Terefe, E. Njeru, Regina Ogugo, Moses Ndambuki, G. Missohou, A. Traore, A. Salim, B. Ezeasor, C. Hirwa, C.D. Obishakin, E.T. Diallo, B. Talaki, E. Abdoukarim, I.Y. Nash, O. Osei-Amponsah, R. Ravaorimanana, S. Issa, Y. Zegeye, T. Mukasa, C. Tiambo, Christian K. Prendergast, J.G.D. Kemp, Stephen J. Han Jianlin Marshall, Karen Hanotte, Olivier H. |
| author_sort | Tijjani, Abdulfatai |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | The diversity in genome resources is fundamental to designing genomic strategies for local breed improvement and utilisation. These resources also support gene discovery and enhance our understanding of the mechanisms of resilience with applications beyond local breeds. Here, we report the genome sequences of 555 cattle (208 of which comprise new data) and high-density (HD) array genotyping of 1,082 samples (537 new samples) from indigenous African cattle populations. The new sequences have an average genome coverage of ~30X, three times higher than the average (~10X) of the over 300 sequences already in the public domain. Following variant quality checks, we identified approximately 32.3 million sequence variants and 661,943 HD autosomal variants mapped to the Bos taurus reference genome (ARS-UCD1.2). The new datasets were generated as part of the Centre for Tropical Livestock Genetics and Health (CTLGH) Genomic Reference Resource for African Cattle (GRRFAC) initiative, which aspires to facilitate the generation of this livestock resource and hopes for its utilisation for complete indigenous breed characterisation and sustainable global livestock improvement. |
| format | Journal Article |
| id | CGSpace151675 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2024 |
| publishDateRange | 2024 |
| publishDateSort | 2024 |
| publisher | Springer |
| publisherStr | Springer |
| record_format | dspace |
| spelling | CGSpace1516752025-12-08T09:54:28Z Genomic reference resource for African cattle: Genome sequences and high-density array variants Tijjani, Abdulfatai Kambal, Sumaya Terefe, E. Njeru, Regina Ogugo, Moses Ndambuki, G. Missohou, A. Traore, A. Salim, B. Ezeasor, C. Hirwa, C.D. Obishakin, E.T. Diallo, B. Talaki, E. Abdoukarim, I.Y. Nash, O. Osei-Amponsah, R. Ravaorimanana, S. Issa, Y. Zegeye, T. Mukasa, C. Tiambo, Christian K. Prendergast, J.G.D. Kemp, Stephen J. Han Jianlin Marshall, Karen Hanotte, Olivier H. cattle genomics livestock The diversity in genome resources is fundamental to designing genomic strategies for local breed improvement and utilisation. These resources also support gene discovery and enhance our understanding of the mechanisms of resilience with applications beyond local breeds. Here, we report the genome sequences of 555 cattle (208 of which comprise new data) and high-density (HD) array genotyping of 1,082 samples (537 new samples) from indigenous African cattle populations. The new sequences have an average genome coverage of ~30X, three times higher than the average (~10X) of the over 300 sequences already in the public domain. Following variant quality checks, we identified approximately 32.3 million sequence variants and 661,943 HD autosomal variants mapped to the Bos taurus reference genome (ARS-UCD1.2). The new datasets were generated as part of the Centre for Tropical Livestock Genetics and Health (CTLGH) Genomic Reference Resource for African Cattle (GRRFAC) initiative, which aspires to facilitate the generation of this livestock resource and hopes for its utilisation for complete indigenous breed characterisation and sustainable global livestock improvement. 2024 2024-08-13T18:38:54Z 2024-08-13T18:38:54Z Journal Article https://hdl.handle.net/10568/151675 en Open Access Springer Tijjani, A., Kambal, S., Terefe, E., Njeru, R., Ogugo, M., Ndambuki, G., Missohou, A., Traore, A., Salim, B., Ezeasor, C., Hirwa, C.D., Obishakin, E.T., Diallo, B., Talaki, E., Abdoukarim, I.Y., Nash, O., Osei-Amponsah, R., Ravaorimanana, S., Issa, Y., Zegeye, T., Mukasa, C., Tiambo, C., Prendergast, J.G.D., Kemp, S.J., Jianlin Han, Marshall, K. and Hanotte, O. 2024. Genomic reference resource for African cattle: Genome sequences and high-density array variants. Scientific Data 11: 801. |
| spellingShingle | cattle genomics livestock Tijjani, Abdulfatai Kambal, Sumaya Terefe, E. Njeru, Regina Ogugo, Moses Ndambuki, G. Missohou, A. Traore, A. Salim, B. Ezeasor, C. Hirwa, C.D. Obishakin, E.T. Diallo, B. Talaki, E. Abdoukarim, I.Y. Nash, O. Osei-Amponsah, R. Ravaorimanana, S. Issa, Y. Zegeye, T. Mukasa, C. Tiambo, Christian K. Prendergast, J.G.D. Kemp, Stephen J. Han Jianlin Marshall, Karen Hanotte, Olivier H. Genomic reference resource for African cattle: Genome sequences and high-density array variants |
| title | Genomic reference resource for African cattle: Genome sequences and high-density array variants |
| title_full | Genomic reference resource for African cattle: Genome sequences and high-density array variants |
| title_fullStr | Genomic reference resource for African cattle: Genome sequences and high-density array variants |
| title_full_unstemmed | Genomic reference resource for African cattle: Genome sequences and high-density array variants |
| title_short | Genomic reference resource for African cattle: Genome sequences and high-density array variants |
| title_sort | genomic reference resource for african cattle genome sequences and high density array variants |
| topic | cattle genomics livestock |
| url | https://hdl.handle.net/10568/151675 |
| work_keys_str_mv | AT tijjaniabdulfatai genomicreferenceresourceforafricancattlegenomesequencesandhighdensityarrayvariants AT kambalsumaya genomicreferenceresourceforafricancattlegenomesequencesandhighdensityarrayvariants AT terefee genomicreferenceresourceforafricancattlegenomesequencesandhighdensityarrayvariants AT njeruregina genomicreferenceresourceforafricancattlegenomesequencesandhighdensityarrayvariants AT ogugomoses genomicreferenceresourceforafricancattlegenomesequencesandhighdensityarrayvariants AT ndambukig genomicreferenceresourceforafricancattlegenomesequencesandhighdensityarrayvariants AT missohoua genomicreferenceresourceforafricancattlegenomesequencesandhighdensityarrayvariants AT traorea genomicreferenceresourceforafricancattlegenomesequencesandhighdensityarrayvariants AT salimb genomicreferenceresourceforafricancattlegenomesequencesandhighdensityarrayvariants AT ezeasorc genomicreferenceresourceforafricancattlegenomesequencesandhighdensityarrayvariants AT hirwacd genomicreferenceresourceforafricancattlegenomesequencesandhighdensityarrayvariants AT obishakinet genomicreferenceresourceforafricancattlegenomesequencesandhighdensityarrayvariants AT diallob genomicreferenceresourceforafricancattlegenomesequencesandhighdensityarrayvariants AT talakie genomicreferenceresourceforafricancattlegenomesequencesandhighdensityarrayvariants AT abdoukarimiy genomicreferenceresourceforafricancattlegenomesequencesandhighdensityarrayvariants AT nasho genomicreferenceresourceforafricancattlegenomesequencesandhighdensityarrayvariants AT oseiamponsahr genomicreferenceresourceforafricancattlegenomesequencesandhighdensityarrayvariants AT ravaorimananas genomicreferenceresourceforafricancattlegenomesequencesandhighdensityarrayvariants AT issay genomicreferenceresourceforafricancattlegenomesequencesandhighdensityarrayvariants AT zegeyet genomicreferenceresourceforafricancattlegenomesequencesandhighdensityarrayvariants AT mukasac genomicreferenceresourceforafricancattlegenomesequencesandhighdensityarrayvariants AT tiambochristiank genomicreferenceresourceforafricancattlegenomesequencesandhighdensityarrayvariants AT prendergastjgd genomicreferenceresourceforafricancattlegenomesequencesandhighdensityarrayvariants AT kempstephenj genomicreferenceresourceforafricancattlegenomesequencesandhighdensityarrayvariants AT hanjianlin genomicreferenceresourceforafricancattlegenomesequencesandhighdensityarrayvariants AT marshallkaren genomicreferenceresourceforafricancattlegenomesequencesandhighdensityarrayvariants AT hanotteolivierh genomicreferenceresourceforafricancattlegenomesequencesandhighdensityarrayvariants |