A high-resolution genome-wide association study of the grain ionome and agronomic traits in rice Oryza sativa subsp. indica
This study presents a comprehensive study of the genetic bases controlling variation in the rice ionome employing genome-wide association studies (GWAS) with a diverse panel ofindicaaccessions, each genotyped with 5.2 million markers. GWAS was performed for twelve elements including B, Ca, Co, Cu, F...
| Main Authors: | , , , , |
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| Format: | Journal Article |
| Language: | Inglés |
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Springer
2021
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| Subjects: | |
| Online Access: | https://hdl.handle.net/10568/164191 |
| _version_ | 1855538522667089920 |
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| author | Cu, Suong T. Warnock, Nicholas I. Pasuquin, Julie Dingkuhn, Michael Stangoulis, James |
| author_browse | Cu, Suong T. Dingkuhn, Michael Pasuquin, Julie Stangoulis, James Warnock, Nicholas I. |
| author_facet | Cu, Suong T. Warnock, Nicholas I. Pasuquin, Julie Dingkuhn, Michael Stangoulis, James |
| author_sort | Cu, Suong T. |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | This study presents a comprehensive study of the genetic bases controlling variation in the rice ionome employing genome-wide association studies (GWAS) with a diverse panel ofindicaaccessions, each genotyped with 5.2 million markers. GWAS was performed for twelve elements including B, Ca, Co, Cu, Fe, K, Mg, Mn, Mo, Na, P, and Zn and four agronomic traits including days to 50% flowering, grain yield, plant height and thousand grain weight. GWAS identified 128 loci associated with the grain elements and 57 associated with the agronomic traits. There were sixteen co-localization regions containing QTL for two or more traits. Fourteen grain element quantitative trait loci were stable across growing environments, which can be strong candidates to be used in marker-assisted selection to improve the concentrations of nutritive elements in rice grain. Potential candidate genes were revealed includingOsNAS3linked to the locus that controls the variation of Zn and Co concentrations. The effects of starch synthesis and grain filling on multiple grain elements were elucidated through the likely involvement ofOsSUS1andOsGSSB1genes. Overall, our study provides crucial insights into the genetic basis of ionomic variations in rice and will facilitate improvement in breeding for trace mineral content. |
| format | Journal Article |
| id | CGSpace164191 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2021 |
| publishDateRange | 2021 |
| publishDateSort | 2021 |
| publisher | Springer |
| publisherStr | Springer |
| record_format | dspace |
| spelling | CGSpace1641912025-03-19T20:47:38Z A high-resolution genome-wide association study of the grain ionome and agronomic traits in rice Oryza sativa subsp. indica Cu, Suong T. Warnock, Nicholas I. Pasuquin, Julie Dingkuhn, Michael Stangoulis, James rice nutrition trace elements genetic maps models crop yield plant height zinc iron This study presents a comprehensive study of the genetic bases controlling variation in the rice ionome employing genome-wide association studies (GWAS) with a diverse panel ofindicaaccessions, each genotyped with 5.2 million markers. GWAS was performed for twelve elements including B, Ca, Co, Cu, Fe, K, Mg, Mn, Mo, Na, P, and Zn and four agronomic traits including days to 50% flowering, grain yield, plant height and thousand grain weight. GWAS identified 128 loci associated with the grain elements and 57 associated with the agronomic traits. There were sixteen co-localization regions containing QTL for two or more traits. Fourteen grain element quantitative trait loci were stable across growing environments, which can be strong candidates to be used in marker-assisted selection to improve the concentrations of nutritive elements in rice grain. Potential candidate genes were revealed includingOsNAS3linked to the locus that controls the variation of Zn and Co concentrations. The effects of starch synthesis and grain filling on multiple grain elements were elucidated through the likely involvement ofOsSUS1andOsGSSB1genes. Overall, our study provides crucial insights into the genetic basis of ionomic variations in rice and will facilitate improvement in breeding for trace mineral content. 2021-09-28 2024-12-19T12:53:35Z 2024-12-19T12:53:35Z Journal Article https://hdl.handle.net/10568/164191 en Open Access Springer Cu, Suong T.; Warnock, Nicholas I.; Pasuquin, Julie; Dingkuhn, Michael and Stangoulis, James. 2021. A high-resolution genome-wide association study of the grain ionome and agronomic traits in rice Oryza sativa subsp. indica. Sci Rep, Volume 11, no. 1 https://doi.org/10.1038/s41598-021-98573-w |
| spellingShingle | rice nutrition trace elements genetic maps models crop yield plant height zinc iron Cu, Suong T. Warnock, Nicholas I. Pasuquin, Julie Dingkuhn, Michael Stangoulis, James A high-resolution genome-wide association study of the grain ionome and agronomic traits in rice Oryza sativa subsp. indica |
| title | A high-resolution genome-wide association study of the grain ionome and agronomic traits in rice Oryza sativa subsp. indica |
| title_full | A high-resolution genome-wide association study of the grain ionome and agronomic traits in rice Oryza sativa subsp. indica |
| title_fullStr | A high-resolution genome-wide association study of the grain ionome and agronomic traits in rice Oryza sativa subsp. indica |
| title_full_unstemmed | A high-resolution genome-wide association study of the grain ionome and agronomic traits in rice Oryza sativa subsp. indica |
| title_short | A high-resolution genome-wide association study of the grain ionome and agronomic traits in rice Oryza sativa subsp. indica |
| title_sort | high resolution genome wide association study of the grain ionome and agronomic traits in rice oryza sativa subsp indica |
| topic | rice nutrition trace elements genetic maps models crop yield plant height zinc iron |
| url | https://hdl.handle.net/10568/164191 |
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