Genome-wide association mapping and genomic prediction for CBSD resistance in Manihot esculenta
Cassava (Manihot esculenta Crantz) is an important security crop that faces severe yield loses due to cassava brown streak disease (CBSD). Motivated by the slow progress of conventional breeding, genetic improvement of cassava is undergoing rapid change due to the implementation of quantitative trai...
| Autores principales: | , , , , , , , , , , |
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| Formato: | Journal Article |
| Lenguaje: | Inglés |
| Publicado: |
Springer
2018
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| Materias: | |
| Acceso en línea: | https://hdl.handle.net/10568/92346 |
| _version_ | 1855542981491163136 |
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| author | Kayondo, S.I. Carpio, D.P. del Lozano, R. Ozimati, A.A. Wolfe, M. Baguma, Yona K. Gracen, V. Offei, S. Ferguson, Morag E. Kawuki, R.S. Jannink, Jean-Luc |
| author_browse | Baguma, Yona K. Carpio, D.P. del Ferguson, Morag E. Gracen, V. Jannink, Jean-Luc Kawuki, R.S. Kayondo, S.I. Lozano, R. Offei, S. Ozimati, A.A. Wolfe, M. |
| author_facet | Kayondo, S.I. Carpio, D.P. del Lozano, R. Ozimati, A.A. Wolfe, M. Baguma, Yona K. Gracen, V. Offei, S. Ferguson, Morag E. Kawuki, R.S. Jannink, Jean-Luc |
| author_sort | Kayondo, S.I. |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | Cassava (Manihot esculenta Crantz) is an important security crop that faces severe yield loses due to cassava brown streak disease (CBSD). Motivated by the slow progress of conventional breeding, genetic improvement of cassava is undergoing rapid change due to the implementation of quantitative trait loci mapping, Genome-wide association mapping (GWAS), and genomic selection (GS). In this study, two breeding panels were genotyped for SNP markers using genotyping by sequencing and phenotyped for foliar and CBSD root symptoms at five locations in Uganda. Our GWAS study found two regions associated to CBSD, one on chromosome 4 which co-localizes with a Manihot glaziovii introgression segment and one on chromosome 11, which contains a cluster of nucleotide-binding site-leucine-rich repeat (NBS-LRR) genes. We evaluated the potential of GS to improve CBSD resistance by assessing the accuracy of seven prediction models. Predictive accuracy values varied between CBSD foliar severity traits at 3 months after planting (MAP) (0.27–0.32), 6 MAP (0.40–0.42) and root severity (0.31–0.42). For all traits, Random Forest and reproducing kernel Hilbert spaces regression showed the highest predictive accuracies. Our results provide an insight into the genetics of CBSD resistance to guide CBSD marker-assisted breeding and highlight the potential of GS to improve cassava breeding. |
| format | Journal Article |
| id | CGSpace92346 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2018 |
| publishDateRange | 2018 |
| publishDateSort | 2018 |
| publisher | Springer |
| publisherStr | Springer |
| record_format | dspace |
| spelling | CGSpace923462025-11-11T11:07:38Z Genome-wide association mapping and genomic prediction for CBSD resistance in Manihot esculenta Kayondo, S.I. Carpio, D.P. del Lozano, R. Ozimati, A.A. Wolfe, M. Baguma, Yona K. Gracen, V. Offei, S. Ferguson, Morag E. Kawuki, R.S. Jannink, Jean-Luc cassava manihot esculenta food security quantitative trait loci genome genomic selection cassava breeding cassava brown streak disease Cassava (Manihot esculenta Crantz) is an important security crop that faces severe yield loses due to cassava brown streak disease (CBSD). Motivated by the slow progress of conventional breeding, genetic improvement of cassava is undergoing rapid change due to the implementation of quantitative trait loci mapping, Genome-wide association mapping (GWAS), and genomic selection (GS). In this study, two breeding panels were genotyped for SNP markers using genotyping by sequencing and phenotyped for foliar and CBSD root symptoms at five locations in Uganda. Our GWAS study found two regions associated to CBSD, one on chromosome 4 which co-localizes with a Manihot glaziovii introgression segment and one on chromosome 11, which contains a cluster of nucleotide-binding site-leucine-rich repeat (NBS-LRR) genes. We evaluated the potential of GS to improve CBSD resistance by assessing the accuracy of seven prediction models. Predictive accuracy values varied between CBSD foliar severity traits at 3 months after planting (MAP) (0.27–0.32), 6 MAP (0.40–0.42) and root severity (0.31–0.42). For all traits, Random Forest and reproducing kernel Hilbert spaces regression showed the highest predictive accuracies. Our results provide an insight into the genetics of CBSD resistance to guide CBSD marker-assisted breeding and highlight the potential of GS to improve cassava breeding. 2018-01-24 2018-04-24T14:00:22Z 2018-04-24T14:00:22Z Journal Article https://hdl.handle.net/10568/92346 en Open Access application/pdf Springer Kayondo, S.I., Del Carpio, D.P., Lozano, R., Ozimati, A., Wolfe, M., Baguma, Y., ... & Jannink, J.L. (2018). Genome-wide association mapping and genomic prediction for CBSD resistance in Manihot esculenta. Scientific Reports, 8(1), 1-12. |
| spellingShingle | cassava manihot esculenta food security quantitative trait loci genome genomic selection cassava breeding cassava brown streak disease Kayondo, S.I. Carpio, D.P. del Lozano, R. Ozimati, A.A. Wolfe, M. Baguma, Yona K. Gracen, V. Offei, S. Ferguson, Morag E. Kawuki, R.S. Jannink, Jean-Luc Genome-wide association mapping and genomic prediction for CBSD resistance in Manihot esculenta |
| title | Genome-wide association mapping and genomic prediction for CBSD resistance in Manihot esculenta |
| title_full | Genome-wide association mapping and genomic prediction for CBSD resistance in Manihot esculenta |
| title_fullStr | Genome-wide association mapping and genomic prediction for CBSD resistance in Manihot esculenta |
| title_full_unstemmed | Genome-wide association mapping and genomic prediction for CBSD resistance in Manihot esculenta |
| title_short | Genome-wide association mapping and genomic prediction for CBSD resistance in Manihot esculenta |
| title_sort | genome wide association mapping and genomic prediction for cbsd resistance in manihot esculenta |
| topic | cassava manihot esculenta food security quantitative trait loci genome genomic selection cassava breeding cassava brown streak disease |
| url | https://hdl.handle.net/10568/92346 |
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