African suid genomes provide insights into the local adaptation to diverse African environments
African wild suids consist of several endemic species that represent ancient members of the family Suidae and have colonized diverse habitats on the African continent. However, limited genomic resources for African wild suids hinder our understanding of their evolution and genetic diversity. In this...
| Main Authors: | , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , |
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| Format: | Journal Article |
| Language: | Inglés |
| Published: |
Oxford University Press
2022
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| Subjects: | |
| Online Access: | https://hdl.handle.net/10568/125687 |
| _version_ | 1855519240144027648 |
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| author | Hai-Bing Xie Chen Yan Adeola, A.C. Kun Wang Cui-Ping Huang Ming-Min Xu Qiang Qiu Xue Yin Chen-Yu Fan Yun-Fei Ma Ting-Ting Yin Yun Gao Jia-Kun Deng Okeyoyin, A.O. Oluwole, O.O. Omotosho, O. Okoro, V.M.O. Omitogun, O.G. Dawuda, P.M. Olaogun, S.C. Nneji, L.M. Ayoola, A.O. Sanke, O.J. Luka, P.D. Okoth, Edward A. Lekolool, I. Mijele, D. Bishop, Richard P. Jianlin Han Wen Wang Min-Sheng Peng Ya-Ping Zhang |
| author_browse | Adeola, A.C. Ayoola, A.O. Bishop, Richard P. Chen Yan Chen-Yu Fan Cui-Ping Huang Dawuda, P.M. Hai-Bing Xie Jia-Kun Deng Jianlin Han Kun Wang Lekolool, I. Luka, P.D. Mijele, D. Min-Sheng Peng Ming-Min Xu Nneji, L.M. Okeyoyin, A.O. Okoro, V.M.O. Okoth, Edward A. Olaogun, S.C. Oluwole, O.O. Omitogun, O.G. Omotosho, O. Qiang Qiu Sanke, O.J. Ting-Ting Yin Wen Wang Xue Yin Ya-Ping Zhang Yun Gao Yun-Fei Ma |
| author_facet | Hai-Bing Xie Chen Yan Adeola, A.C. Kun Wang Cui-Ping Huang Ming-Min Xu Qiang Qiu Xue Yin Chen-Yu Fan Yun-Fei Ma Ting-Ting Yin Yun Gao Jia-Kun Deng Okeyoyin, A.O. Oluwole, O.O. Omotosho, O. Okoro, V.M.O. Omitogun, O.G. Dawuda, P.M. Olaogun, S.C. Nneji, L.M. Ayoola, A.O. Sanke, O.J. Luka, P.D. Okoth, Edward A. Lekolool, I. Mijele, D. Bishop, Richard P. Jianlin Han Wen Wang Min-Sheng Peng Ya-Ping Zhang |
| author_sort | Hai-Bing Xie |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | African wild suids consist of several endemic species that represent ancient members of the family Suidae and have colonized diverse habitats on the African continent. However, limited genomic resources for African wild suids hinder our understanding of their evolution and genetic diversity. In this study, we assembled high-quality genomes of a common warthog (Phacochoerus africanus), a red river hog (Potamochoerus porcus), as well as an East Asian Diannan small-ear pig (Sus scrofa). Phylogenetic analysis showed that common warthog and red river hog diverged from their common ancestor around the Miocene/Pliocene boundary, putatively predating their entry into Africa. We detected species-specific selective signals associated with sensory perception and interferon signaling pathways in common warthog and red river hog, respectively, which contributed to their local adaptation to savannah and tropical rainforest environments, respectively. The structural variation and evolving signals in genes involved in T-cell immunity, viral infection, and lymphoid development were identified in their ancestral lineage. Our results provide new insights into the evolutionary histories and divergent genetic adaptations of African suids. |
| format | Journal Article |
| id | CGSpace125687 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2022 |
| publishDateRange | 2022 |
| publishDateSort | 2022 |
| publisher | Oxford University Press |
| publisherStr | Oxford University Press |
| record_format | dspace |
| spelling | CGSpace1256872025-12-08T10:06:44Z African suid genomes provide insights into the local adaptation to diverse African environments Hai-Bing Xie Chen Yan Adeola, A.C. Kun Wang Cui-Ping Huang Ming-Min Xu Qiang Qiu Xue Yin Chen-Yu Fan Yun-Fei Ma Ting-Ting Yin Yun Gao Jia-Kun Deng Okeyoyin, A.O. Oluwole, O.O. Omotosho, O. Okoro, V.M.O. Omitogun, O.G. Dawuda, P.M. Olaogun, S.C. Nneji, L.M. Ayoola, A.O. Sanke, O.J. Luka, P.D. Okoth, Edward A. Lekolool, I. Mijele, D. Bishop, Richard P. Jianlin Han Wen Wang Min-Sheng Peng Ya-Ping Zhang suidae swine pig breeds genomes african swine fever genetics molecular biology African wild suids consist of several endemic species that represent ancient members of the family Suidae and have colonized diverse habitats on the African continent. However, limited genomic resources for African wild suids hinder our understanding of their evolution and genetic diversity. In this study, we assembled high-quality genomes of a common warthog (Phacochoerus africanus), a red river hog (Potamochoerus porcus), as well as an East Asian Diannan small-ear pig (Sus scrofa). Phylogenetic analysis showed that common warthog and red river hog diverged from their common ancestor around the Miocene/Pliocene boundary, putatively predating their entry into Africa. We detected species-specific selective signals associated with sensory perception and interferon signaling pathways in common warthog and red river hog, respectively, which contributed to their local adaptation to savannah and tropical rainforest environments, respectively. The structural variation and evolving signals in genes involved in T-cell immunity, viral infection, and lymphoid development were identified in their ancestral lineage. Our results provide new insights into the evolutionary histories and divergent genetic adaptations of African suids. 2022-12-05 2022-11-28T10:40:58Z 2022-11-28T10:40:58Z Journal Article https://hdl.handle.net/10568/125687 en Open Access Oxford University Press Xie, H.-B., Yan, C., Adeola, A.C., Wang, K., Huang, C.-P., Xu, M.-M., Qiu, Q., Yin, X., Fan, C.-Y., Ma, Y.-F., Yin, T.-T., Gao, Y., Deng, J.-K., Okeyoyin, A.O., Oluwole, O.O., Omotosho, O., Okoro, V.M.O., Omitogun, O.G., Dawuda, P.M., Olaogun, S.C., Nneji, L.M., Ayoola, A.O., Sanke, O.J., Luka, P.D., Okoth, E., Lekolool, I., Mijele, D., Bishop, R.P., Han, J., Wang, W., Peng, M.-S. and Zhang, Y.-P. 2022. African suid genomes provide insights into the local adaptation to diverse African environments. Molecular Biology and Evolution 39(12): msac256. |
| spellingShingle | suidae swine pig breeds genomes african swine fever genetics molecular biology Hai-Bing Xie Chen Yan Adeola, A.C. Kun Wang Cui-Ping Huang Ming-Min Xu Qiang Qiu Xue Yin Chen-Yu Fan Yun-Fei Ma Ting-Ting Yin Yun Gao Jia-Kun Deng Okeyoyin, A.O. Oluwole, O.O. Omotosho, O. Okoro, V.M.O. Omitogun, O.G. Dawuda, P.M. Olaogun, S.C. Nneji, L.M. Ayoola, A.O. Sanke, O.J. Luka, P.D. Okoth, Edward A. Lekolool, I. Mijele, D. Bishop, Richard P. Jianlin Han Wen Wang Min-Sheng Peng Ya-Ping Zhang African suid genomes provide insights into the local adaptation to diverse African environments |
| title | African suid genomes provide insights into the local adaptation to diverse African environments |
| title_full | African suid genomes provide insights into the local adaptation to diverse African environments |
| title_fullStr | African suid genomes provide insights into the local adaptation to diverse African environments |
| title_full_unstemmed | African suid genomes provide insights into the local adaptation to diverse African environments |
| title_short | African suid genomes provide insights into the local adaptation to diverse African environments |
| title_sort | african suid genomes provide insights into the local adaptation to diverse african environments |
| topic | suidae swine pig breeds genomes african swine fever genetics molecular biology |
| url | https://hdl.handle.net/10568/125687 |
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