Genome-wide investigations reveal the population structure and selection signatures of Nigerian cattle adaptation in the sub-Saharan tropics
Cattle are considered to be the most desirable livestock by small scale farmers. In Africa, although comprehensive genomic studies have been carried out on cattle, the genetic variations in indigenous cattle from Nigeria have not been fully explored. In this study, genome-wide analysis based on geno...
| Main Authors: | , , , , , , , , , , , , , , , , , |
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| Format: | Journal Article |
| Language: | Inglés |
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Springer
2022
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| Online Access: | https://hdl.handle.net/10568/119346 |
| _version_ | 1855515668290469888 |
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| author | Mauki, D.H. Tijjani, Abdulfatai Cheng Ma Ng'ang'a, S.I. Mark, A.I., Sanke, O.J. Abdussamad, A.M. Olaogun, S.C. Ibrahim, J. Dawuda, P.M. Mangbon, G.F. Kazwala, R.R. Gwakisa, P.S. Ting‑Ting Yin Yan Li Min‑Sheng Peng Adeola, A.C. Ya‑Ping Zhang |
| author_browse | Abdussamad, A.M. Adeola, A.C. Cheng Ma Dawuda, P.M. Gwakisa, P.S. Ibrahim, J. Kazwala, R.R. Mangbon, G.F. Mark, A.I., Mauki, D.H. Min‑Sheng Peng Ng'ang'a, S.I. Olaogun, S.C. Sanke, O.J. Tijjani, Abdulfatai Ting‑Ting Yin Yan Li Ya‑Ping Zhang |
| author_facet | Mauki, D.H. Tijjani, Abdulfatai Cheng Ma Ng'ang'a, S.I. Mark, A.I., Sanke, O.J. Abdussamad, A.M. Olaogun, S.C. Ibrahim, J. Dawuda, P.M. Mangbon, G.F. Kazwala, R.R. Gwakisa, P.S. Ting‑Ting Yin Yan Li Min‑Sheng Peng Adeola, A.C. Ya‑Ping Zhang |
| author_sort | Mauki, D.H. |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | Cattle are considered to be the most desirable livestock by small scale farmers. In Africa, although comprehensive genomic studies have been carried out on cattle, the genetic variations in indigenous cattle from Nigeria have not been fully explored. In this study, genome-wide analysis based on genotyping-by-sequencing (GBS) of 193 Nigerian cattle was used to reveal new insights on the history of West African cattle and their adaptation to the tropical African environment, particularly in sub-Saharan region.The GBS data were evaluated against whole-genome sequencing (WGS) data and high rate of variant concordance between the two platforms was evident with high correlated genetic distance matrices genotyped by both methods suggestive of the reliability of GBS applicability in population genetics. The genetic structure of Nigerian cattle was observed to be homogenous and unique from other African cattle populations. Selection analysis for the genomic regions harboring imprints of adaptation revealed genes associated with immune responses, growth and reproduction, efficiency of feeds utilization, and heat tolerance. Our findings depict potential convergent adaptation between African cattle, dogs and humans with adaptive genesSPRY2andITGB1BP1possibly involved in common physiological activities.The study presents unique genetic patterns of Nigerian cattle which provide new insights on the history of cattle in West Africa based on their population structure and the possibility of parallel adaptation between African cattle, dogs and humans in Africa which require further investigations. |
| format | Journal Article |
| id | CGSpace119346 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2022 |
| publishDateRange | 2022 |
| publishDateSort | 2022 |
| publisher | Springer |
| publisherStr | Springer |
| record_format | dspace |
| spelling | CGSpace1193462025-12-08T09:54:28Z Genome-wide investigations reveal the population structure and selection signatures of Nigerian cattle adaptation in the sub-Saharan tropics Mauki, D.H. Tijjani, Abdulfatai Cheng Ma Ng'ang'a, S.I. Mark, A.I., Sanke, O.J. Abdussamad, A.M. Olaogun, S.C. Ibrahim, J. Dawuda, P.M. Mangbon, G.F. Kazwala, R.R. Gwakisa, P.S. Ting‑Ting Yin Yan Li Min‑Sheng Peng Adeola, A.C. Ya‑Ping Zhang animal breeding cattle genetics livestock genomes biotechnology Cattle are considered to be the most desirable livestock by small scale farmers. In Africa, although comprehensive genomic studies have been carried out on cattle, the genetic variations in indigenous cattle from Nigeria have not been fully explored. In this study, genome-wide analysis based on genotyping-by-sequencing (GBS) of 193 Nigerian cattle was used to reveal new insights on the history of West African cattle and their adaptation to the tropical African environment, particularly in sub-Saharan region.The GBS data were evaluated against whole-genome sequencing (WGS) data and high rate of variant concordance between the two platforms was evident with high correlated genetic distance matrices genotyped by both methods suggestive of the reliability of GBS applicability in population genetics. The genetic structure of Nigerian cattle was observed to be homogenous and unique from other African cattle populations. Selection analysis for the genomic regions harboring imprints of adaptation revealed genes associated with immune responses, growth and reproduction, efficiency of feeds utilization, and heat tolerance. Our findings depict potential convergent adaptation between African cattle, dogs and humans with adaptive genesSPRY2andITGB1BP1possibly involved in common physiological activities.The study presents unique genetic patterns of Nigerian cattle which provide new insights on the history of cattle in West Africa based on their population structure and the possibility of parallel adaptation between African cattle, dogs and humans in Africa which require further investigations. 2022-12 2022-04-19T16:33:13Z 2022-04-19T16:33:13Z Journal Article https://hdl.handle.net/10568/119346 en Open Access Springer Mauki, D.H., Tijjani, A., Cheng Ma, Ng’ang’a, S.I., Mark, A.I., Sanke, O.J., Abdussamad, A.M., Olaogun, S.C., Ibrahim, J., Dawuda, P.M., Mangbon, G.F., Kazwala, R.R., Gwakisa, P.S., Ting‑Ting Yin, Yan Li, Min‑Sheng Peng, Adeola, A.C. and Ya‑Ping Zhang. 2022. Genome-wide investigations reveal the population structure and selection signatures of Nigerian cattle adaptation in the sub-Saharan tropics. BMC Genomics 23:306. |
| spellingShingle | animal breeding cattle genetics livestock genomes biotechnology Mauki, D.H. Tijjani, Abdulfatai Cheng Ma Ng'ang'a, S.I. Mark, A.I., Sanke, O.J. Abdussamad, A.M. Olaogun, S.C. Ibrahim, J. Dawuda, P.M. Mangbon, G.F. Kazwala, R.R. Gwakisa, P.S. Ting‑Ting Yin Yan Li Min‑Sheng Peng Adeola, A.C. Ya‑Ping Zhang Genome-wide investigations reveal the population structure and selection signatures of Nigerian cattle adaptation in the sub-Saharan tropics |
| title | Genome-wide investigations reveal the population structure and selection signatures of Nigerian cattle adaptation in the sub-Saharan tropics |
| title_full | Genome-wide investigations reveal the population structure and selection signatures of Nigerian cattle adaptation in the sub-Saharan tropics |
| title_fullStr | Genome-wide investigations reveal the population structure and selection signatures of Nigerian cattle adaptation in the sub-Saharan tropics |
| title_full_unstemmed | Genome-wide investigations reveal the population structure and selection signatures of Nigerian cattle adaptation in the sub-Saharan tropics |
| title_short | Genome-wide investigations reveal the population structure and selection signatures of Nigerian cattle adaptation in the sub-Saharan tropics |
| title_sort | genome wide investigations reveal the population structure and selection signatures of nigerian cattle adaptation in the sub saharan tropics |
| topic | animal breeding cattle genetics livestock genomes biotechnology |
| url | https://hdl.handle.net/10568/119346 |
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