Genome-wide association study of grain size traits in indica rice multiparent advanced generation intercross (MAGIC) population
Rice grain size plays a crucial role in determining grain quality and yield. In this study, two multiparent advanced generation intercross (MAGIC) populations, DC1 and BIM, were evaluated for grain size across three environments and genotyped with 55K array-based SNP detection and genotype-by-sequen...
| Autores principales: | , , , , |
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| Formato: | Journal Article |
| Lenguaje: | Inglés |
| Publicado: |
Frontiers Media
2020
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| Materias: | |
| Acceso en línea: | https://hdl.handle.net/10568/164513 |
| _version_ | 1855540929486651392 |
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| author | Ponce, Kimberly Zhang, Ya Guo, Longbiao Leng, Yujia Ye, Guoyou |
| author_browse | Guo, Longbiao Leng, Yujia Ponce, Kimberly Ye, Guoyou Zhang, Ya |
| author_facet | Ponce, Kimberly Zhang, Ya Guo, Longbiao Leng, Yujia Ye, Guoyou |
| author_sort | Ponce, Kimberly |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | Rice grain size plays a crucial role in determining grain quality and yield. In this study, two multiparent advanced generation intercross (MAGIC) populations, DC1 and BIM, were evaluated for grain size across three environments and genotyped with 55K array-based SNP detection and genotype-by-sequencing (GBS), respectively, to identify QTLs and SNPs associated with grain length, grain width, grain length–width ratio, grain thickness, and thousand grain weight. A total of 18 QTLs were identified for the five grain size-related traits and explained 6.43–63.35% of the total phenotypic variance. Twelve of these QTLs colocalized with the cloned genes, GS3, GW5/qSW5, GW7/GL7/SLG7, and GW8/OsSPL16, of which the first two genes showed the strongest effect for grain length and grain width, respectively. Four potential new genes were also identified from the QTLs, which exhibited both genetic background independency and environment stability and could be validated in future studies. Moreover, the significant SNP markers identified are valuable for direct utilization in marker-assisted breeding to improve rice grain size. |
| format | Journal Article |
| id | CGSpace164513 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2020 |
| publishDateRange | 2020 |
| publishDateSort | 2020 |
| publisher | Frontiers Media |
| publisherStr | Frontiers Media |
| record_format | dspace |
| spelling | CGSpace1645132024-12-19T14:13:40Z Genome-wide association study of grain size traits in indica rice multiparent advanced generation intercross (MAGIC) population Ponce, Kimberly Zhang, Ya Guo, Longbiao Leng, Yujia Ye, Guoyou plant science Rice grain size plays a crucial role in determining grain quality and yield. In this study, two multiparent advanced generation intercross (MAGIC) populations, DC1 and BIM, were evaluated for grain size across three environments and genotyped with 55K array-based SNP detection and genotype-by-sequencing (GBS), respectively, to identify QTLs and SNPs associated with grain length, grain width, grain length–width ratio, grain thickness, and thousand grain weight. A total of 18 QTLs were identified for the five grain size-related traits and explained 6.43–63.35% of the total phenotypic variance. Twelve of these QTLs colocalized with the cloned genes, GS3, GW5/qSW5, GW7/GL7/SLG7, and GW8/OsSPL16, of which the first two genes showed the strongest effect for grain length and grain width, respectively. Four potential new genes were also identified from the QTLs, which exhibited both genetic background independency and environment stability and could be validated in future studies. Moreover, the significant SNP markers identified are valuable for direct utilization in marker-assisted breeding to improve rice grain size. 2020-04-24 2024-12-19T12:53:59Z 2024-12-19T12:53:59Z Journal Article https://hdl.handle.net/10568/164513 en Open Access Frontiers Media Ponce, Kimberly; Zhang, Ya; Guo, Longbiao; Leng, Yujia and Ye, Guoyou. 2020. Genome-wide association study of grain size traits in indica rice multiparent advanced generation intercross (MAGIC) population. Front. Plant Sci., Volume 11 |
| spellingShingle | plant science Ponce, Kimberly Zhang, Ya Guo, Longbiao Leng, Yujia Ye, Guoyou Genome-wide association study of grain size traits in indica rice multiparent advanced generation intercross (MAGIC) population |
| title | Genome-wide association study of grain size traits in indica rice multiparent advanced generation intercross (MAGIC) population |
| title_full | Genome-wide association study of grain size traits in indica rice multiparent advanced generation intercross (MAGIC) population |
| title_fullStr | Genome-wide association study of grain size traits in indica rice multiparent advanced generation intercross (MAGIC) population |
| title_full_unstemmed | Genome-wide association study of grain size traits in indica rice multiparent advanced generation intercross (MAGIC) population |
| title_short | Genome-wide association study of grain size traits in indica rice multiparent advanced generation intercross (MAGIC) population |
| title_sort | genome wide association study of grain size traits in indica rice multiparent advanced generation intercross magic population |
| topic | plant science |
| url | https://hdl.handle.net/10568/164513 |
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