Characterization of adaptation mechanisms in sorghum using a multireference back-cross nested association mapping design and envirotyping
Identifying the genetic factors impacting the adaptation of crops to environmental conditions is of key interest for conservation and selection purposes. It can be achieved using population genomics, and evolutionary or quantitative genetics. Here we present a sorghum multireference back-cross neste...
| Autores principales: | , , , , , , , , , , , , , , , , , , , , , |
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| Formato: | Journal Article |
| Lenguaje: | Inglés |
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Oxford University Press
2024
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| Acceso en línea: | https://hdl.handle.net/10568/162585 |
| _version_ | 1855534239394562048 |
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| author | Garin, Vincent Chiaka Diallo Mohamed Lamine Tékété Korotimi Théra Guitton, Baptiste Karim Dagno Abdoulaye G. Diallo Kouressy, Mamoutou Leiser, Willmar Rattunde, Fred Sissoko, Ibrahima Touré, Aboubacar Nébié, Baloua Moussa Samaké Kholovà, Jana Berger, Angélique Frouin, Julien Pot, David Vaksmann, Michel Weltzien-Rattunde, Eva Niaba Témé Rami, Jean-François |
| author_browse | Abdoulaye G. Diallo Berger, Angélique Chiaka Diallo Frouin, Julien Garin, Vincent Guitton, Baptiste Karim Dagno Kholovà, Jana Korotimi Théra Kouressy, Mamoutou Leiser, Willmar Mohamed Lamine Tékété Moussa Samaké Niaba Témé Nébié, Baloua Pot, David Rami, Jean-François Rattunde, Fred Sissoko, Ibrahima Touré, Aboubacar Vaksmann, Michel Weltzien-Rattunde, Eva |
| author_facet | Garin, Vincent Chiaka Diallo Mohamed Lamine Tékété Korotimi Théra Guitton, Baptiste Karim Dagno Abdoulaye G. Diallo Kouressy, Mamoutou Leiser, Willmar Rattunde, Fred Sissoko, Ibrahima Touré, Aboubacar Nébié, Baloua Moussa Samaké Kholovà, Jana Berger, Angélique Frouin, Julien Pot, David Vaksmann, Michel Weltzien-Rattunde, Eva Niaba Témé Rami, Jean-François |
| author_sort | Garin, Vincent |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | Identifying the genetic factors impacting the adaptation of crops to environmental conditions is of key interest for conservation and selection purposes. It can be achieved using population genomics, and evolutionary or quantitative genetics. Here we present a sorghum multireference back-cross nested association mapping population composed of 3,901 lines produced by crossing 24 diverse parents to 3 elite parents from West and Central Africa-back-cross nested association mapping. The population was phenotyped in environments characterized by differences in photoperiod, rainfall pattern, temperature levels, and soil fertility. To integrate the multiparental and multi-environmental dimension of our data we proposed a new approach for quantitative trait loci (QTL) detection and parental effect estimation. We extended our model to estimate QTL effect sensitivity to environmental covariates, which facilitated the integration of envirotyping data. Our models allowed spatial projections of the QTL effects in agro-ecologies of interest. We utilized this strategy to analyze the genetic architecture of flowering time and plant height, which represents key adaptation mechanisms in environments like West Africa. Our results allowed a better characterization of well-known genomic regions influencing flowering time concerning their response to photoperiod with Ma6 and Ma1 being photoperiod-sensitive and the region of possible candidate gene Elf3 being photoperiod-insensitive. We also accessed a better understanding of plant height genetic determinism with the combined effects of phenology-dependent (Ma6) and independent (qHT7.1 and Dw3) genomic regions. Therefore, we argue that the West and Central Africa-back-cross nested association mapping and the presented analytical approach constitute unique resources to better understand adaptation in sorghum with direct application to develop climate-smart varieties. |
| format | Journal Article |
| id | CGSpace162585 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2024 |
| publishDateRange | 2024 |
| publishDateSort | 2024 |
| publisher | Oxford University Press |
| publisherStr | Oxford University Press |
| record_format | dspace |
| spelling | CGSpace1625852025-12-08T09:54:28Z Characterization of adaptation mechanisms in sorghum using a multireference back-cross nested association mapping design and envirotyping Garin, Vincent Chiaka Diallo Mohamed Lamine Tékété Korotimi Théra Guitton, Baptiste Karim Dagno Abdoulaye G. Diallo Kouressy, Mamoutou Leiser, Willmar Rattunde, Fred Sissoko, Ibrahima Touré, Aboubacar Nébié, Baloua Moussa Samaké Kholovà, Jana Berger, Angélique Frouin, Julien Pot, David Vaksmann, Michel Weltzien-Rattunde, Eva Niaba Témé Rami, Jean-François genotype environment interaction adaptation genetic maps association mapping quantitative trait loci sorghum Identifying the genetic factors impacting the adaptation of crops to environmental conditions is of key interest for conservation and selection purposes. It can be achieved using population genomics, and evolutionary or quantitative genetics. Here we present a sorghum multireference back-cross nested association mapping population composed of 3,901 lines produced by crossing 24 diverse parents to 3 elite parents from West and Central Africa-back-cross nested association mapping. The population was phenotyped in environments characterized by differences in photoperiod, rainfall pattern, temperature levels, and soil fertility. To integrate the multiparental and multi-environmental dimension of our data we proposed a new approach for quantitative trait loci (QTL) detection and parental effect estimation. We extended our model to estimate QTL effect sensitivity to environmental covariates, which facilitated the integration of envirotyping data. Our models allowed spatial projections of the QTL effects in agro-ecologies of interest. We utilized this strategy to analyze the genetic architecture of flowering time and plant height, which represents key adaptation mechanisms in environments like West Africa. Our results allowed a better characterization of well-known genomic regions influencing flowering time concerning their response to photoperiod with Ma6 and Ma1 being photoperiod-sensitive and the region of possible candidate gene Elf3 being photoperiod-insensitive. We also accessed a better understanding of plant height genetic determinism with the combined effects of phenology-dependent (Ma6) and independent (qHT7.1 and Dw3) genomic regions. Therefore, we argue that the West and Central Africa-back-cross nested association mapping and the presented analytical approach constitute unique resources to better understand adaptation in sorghum with direct application to develop climate-smart varieties. 2024-04-03 2024-11-21T22:18:58Z 2024-11-21T22:18:58Z Journal Article https://hdl.handle.net/10568/162585 en Open Access application/pdf Oxford University Press Garin, V., Diallo, C., Tékété, M. L., Théra, K., Guitton, B., Dagno, K., Diallo, A. G., Kouressy, M., Leiser, W., Rattunde, F., Sissoko, I., Touré, A., Nébié, B., Samaké, M., Kholovà, J., Berger, A., Frouin, J., Pot, D., Vaksmann, M., . . . Rami, J. (2024). Characterization of adaptation mechanisms in sorghum using a multireference back-cross nested association mapping design and envirotyping. Genetics, 226(4), iyae003. https://doi.org/10.1093/genetics/iyae003 |
| spellingShingle | genotype environment interaction adaptation genetic maps association mapping quantitative trait loci sorghum Garin, Vincent Chiaka Diallo Mohamed Lamine Tékété Korotimi Théra Guitton, Baptiste Karim Dagno Abdoulaye G. Diallo Kouressy, Mamoutou Leiser, Willmar Rattunde, Fred Sissoko, Ibrahima Touré, Aboubacar Nébié, Baloua Moussa Samaké Kholovà, Jana Berger, Angélique Frouin, Julien Pot, David Vaksmann, Michel Weltzien-Rattunde, Eva Niaba Témé Rami, Jean-François Characterization of adaptation mechanisms in sorghum using a multireference back-cross nested association mapping design and envirotyping |
| title | Characterization of adaptation mechanisms in sorghum using a multireference back-cross nested association mapping design and envirotyping |
| title_full | Characterization of adaptation mechanisms in sorghum using a multireference back-cross nested association mapping design and envirotyping |
| title_fullStr | Characterization of adaptation mechanisms in sorghum using a multireference back-cross nested association mapping design and envirotyping |
| title_full_unstemmed | Characterization of adaptation mechanisms in sorghum using a multireference back-cross nested association mapping design and envirotyping |
| title_short | Characterization of adaptation mechanisms in sorghum using a multireference back-cross nested association mapping design and envirotyping |
| title_sort | characterization of adaptation mechanisms in sorghum using a multireference back cross nested association mapping design and envirotyping |
| topic | genotype environment interaction adaptation genetic maps association mapping quantitative trait loci sorghum |
| url | https://hdl.handle.net/10568/162585 |
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