Chromosome-scale assembly of the African yam bean genome
Genomics-informed breeding of locally adapted, nutritious, albeit underutilised African crops can help mitigate food and nutrition insecurity challenges in Africa, particularly against the backdrop of climate change. However, utilisation of modern genome-assisted crop improvement tools including gen...
| Main Authors: | , , , , , , , , , , , , , , , , , , , , |
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| Format: | Journal Article |
| Language: | Inglés |
| Published: |
2024
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| Online Access: | https://hdl.handle.net/10568/168900 |
| _version_ | 1855543089446256640 |
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| author | Waweru, Bernice Njaci, Isaac Paliwal, R. Maranga, M. Muli, Collins Murungi, E. Kaimenyi, D. Lyimo, B. Nigussie, H. Ahadi, B.B. Assefa, E. Ishag, H. Olomitutu, O. Abberton, M. Darby, C. Uauy, C. Yao, Nasser Adewale, D. Emmrich, P. Domelevo Entfellner, Jean-Baka Shorinola, Oluwaseyi |
| author_browse | Abberton, M. Adewale, D. Ahadi, B.B. Assefa, E. Darby, C. Domelevo Entfellner, Jean-Baka Emmrich, P. Ishag, H. Kaimenyi, D. Lyimo, B. Maranga, M. Muli, Collins Murungi, E. Nigussie, H. Njaci, Isaac Olomitutu, O. Paliwal, R. Shorinola, Oluwaseyi Uauy, C. Waweru, Bernice Yao, Nasser |
| author_facet | Waweru, Bernice Njaci, Isaac Paliwal, R. Maranga, M. Muli, Collins Murungi, E. Kaimenyi, D. Lyimo, B. Nigussie, H. Ahadi, B.B. Assefa, E. Ishag, H. Olomitutu, O. Abberton, M. Darby, C. Uauy, C. Yao, Nasser Adewale, D. Emmrich, P. Domelevo Entfellner, Jean-Baka Shorinola, Oluwaseyi |
| author_sort | Waweru, Bernice |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | Genomics-informed breeding of locally adapted, nutritious, albeit underutilised African crops can help mitigate food and nutrition insecurity challenges in Africa, particularly against the backdrop of climate change. However, utilisation of modern genome-assisted crop improvement tools including genomic selection and genome editing for many African indigenous crops is hampered by the scarcity of genomic resources. Here we report on the assembly of the genome of African yam bean (<i>Sphenostylis stenocarpa</i>), a tuberous legume crop that is indigenous to Africa. By combining Nanopore-based assembly with Hi-C scaffolding, we produced a high-quality chromosome-scale assembly with an N50 of 69.5 Mbp. Using transcriptome evidence from Nanopore RNASeq and protein homology evidence from related crops, we predicted and annotated 31,614 putative protein coding genes. We also show how this genome substantially improves anchoring of genetic markers from African yam bean, confirming its significance as a resource for genetic research in African yam bean. |
| format | Journal Article |
| id | CGSpace168900 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2024 |
| publishDateRange | 2024 |
| publishDateSort | 2024 |
| record_format | dspace |
| spelling | CGSpace1689002025-12-08T09:54:28Z Chromosome-scale assembly of the African yam bean genome Waweru, Bernice Njaci, Isaac Paliwal, R. Maranga, M. Muli, Collins Murungi, E. Kaimenyi, D. Lyimo, B. Nigussie, H. Ahadi, B.B. Assefa, E. Ishag, H. Olomitutu, O. Abberton, M. Darby, C. Uauy, C. Yao, Nasser Adewale, D. Emmrich, P. Domelevo Entfellner, Jean-Baka Shorinola, Oluwaseyi crops genomics Genomics-informed breeding of locally adapted, nutritious, albeit underutilised African crops can help mitigate food and nutrition insecurity challenges in Africa, particularly against the backdrop of climate change. However, utilisation of modern genome-assisted crop improvement tools including genomic selection and genome editing for many African indigenous crops is hampered by the scarcity of genomic resources. Here we report on the assembly of the genome of African yam bean (<i>Sphenostylis stenocarpa</i>), a tuberous legume crop that is indigenous to Africa. By combining Nanopore-based assembly with Hi-C scaffolding, we produced a high-quality chromosome-scale assembly with an N50 of 69.5 Mbp. Using transcriptome evidence from Nanopore RNASeq and protein homology evidence from related crops, we predicted and annotated 31,614 putative protein coding genes. We also show how this genome substantially improves anchoring of genetic markers from African yam bean, confirming its significance as a resource for genetic research in African yam bean. 2024-12-18 2025-01-13T11:28:14Z 2025-01-13T11:28:14Z Journal Article https://hdl.handle.net/10568/168900 en Open Access Waweru, B., Njaci, I., Paliwal, R., Maranga, M., Muli, C., Murungi, E., Kaimenyi, D., Lyimo, B., Nigussie, H., Ahadi, B.B., Assefa, E., Ishag, H., Olomitutu, O., Abberton, M., Darby, C., Uauy, C., Yao, N., Adewale, D., Emmrich, P., Domelevo Entfellner, J.-B. and Shorinola, O. 2024. Chromosome-scale assembly of the African yam bean genome. Scientific Data 11: 1384. |
| spellingShingle | crops genomics Waweru, Bernice Njaci, Isaac Paliwal, R. Maranga, M. Muli, Collins Murungi, E. Kaimenyi, D. Lyimo, B. Nigussie, H. Ahadi, B.B. Assefa, E. Ishag, H. Olomitutu, O. Abberton, M. Darby, C. Uauy, C. Yao, Nasser Adewale, D. Emmrich, P. Domelevo Entfellner, Jean-Baka Shorinola, Oluwaseyi Chromosome-scale assembly of the African yam bean genome |
| title | Chromosome-scale assembly of the African yam bean genome |
| title_full | Chromosome-scale assembly of the African yam bean genome |
| title_fullStr | Chromosome-scale assembly of the African yam bean genome |
| title_full_unstemmed | Chromosome-scale assembly of the African yam bean genome |
| title_short | Chromosome-scale assembly of the African yam bean genome |
| title_sort | chromosome scale assembly of the african yam bean genome |
| topic | crops genomics |
| url | https://hdl.handle.net/10568/168900 |
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