Genome-wide association study for yield and yield related traits under reproductive stage drought in a diverse indica-aus rice panel
Reproductive-stage drought stress is a major impediment to rice production in rainfed areas. Conventional and marker-assisted breeding strategies for developing drought-tolerant rice varieties are being optimized by mining and exploiting adaptive traits, genetic diversity; identifying the alleles, a...
| Autores principales: | , , , , , , |
|---|---|
| Formato: | Journal Article |
| Lenguaje: | Inglés |
| Publicado: |
Springer
2020
|
| Materias: | |
| Acceso en línea: | https://hdl.handle.net/10568/164459 |
| _version_ | 1855538855836385280 |
|---|---|
| author | Bhandari, Aditi Sandhu, Nitika Bartholome, Jérôme Cao-Hamadoun, Tuong-Vi Ahmadi, Nourollah Kumari, Nilima Kumar, Arvind |
| author_browse | Ahmadi, Nourollah Bartholome, Jérôme Bhandari, Aditi Cao-Hamadoun, Tuong-Vi Kumar, Arvind Kumari, Nilima Sandhu, Nitika |
| author_facet | Bhandari, Aditi Sandhu, Nitika Bartholome, Jérôme Cao-Hamadoun, Tuong-Vi Ahmadi, Nourollah Kumari, Nilima Kumar, Arvind |
| author_sort | Bhandari, Aditi |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | Reproductive-stage drought stress is a major impediment to rice production in rainfed areas. Conventional and marker-assisted breeding strategies for developing drought-tolerant rice varieties are being optimized by mining and exploiting adaptive traits, genetic diversity; identifying the alleles, and understanding their interactions with genetic backgrounds for their increased contribution to drought tolerance. Field experiments were conducted in this study to identify marker-trait associations (MTAs) involved in response to yield under reproductive-stage (RS) drought. A diverse set of 280 indica-aus accessions was phenotyped for ten agronomic traits including yield and yield-related traits under normal irrigated condition and under two managed reproductive-stage drought environments. The accessions were genotyped with 215,250 single nucleotide polymorphism markers. Results The study identified a total of 219 significant MTAs for 10 traits and candidate gene analysis within a 200 kb window centred from GWAS identified SNP peaks detected these MTAs within/ in close proximity to 38 genes, 4 earlier reported major grain yield QTLs and 6 novel QTLs for 7 traits out of the 10. The significant MTAs were mainly located on chromosomes 1, 2, 5, 6, 9, 11 and 12 and the percent phenotypic variance captured for these traits ranged from 5 to 88%. The significant positive correlation of grain yield with yield-related and other agronomic traits except for flowering time, observed under different environments point towards their contribution in improving rice yield under drought. Seven promising accessions were identified for use in future genomics-assisted breeding programs targeting grain yield improvement under drought. Conclusion These results provide a promising insight into the complex genetic architecture of grain yield under reproductive-stage drought in different environments. Validation of major genomic regions reported in the study will enable their effectiveness to develop drought-tolerant varieties following marker-assisted selection as well as to identify genes and understanding the associated physiological mechanisms. |
| format | Journal Article |
| id | CGSpace164459 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2020 |
| publishDateRange | 2020 |
| publishDateSort | 2020 |
| publisher | Springer |
| publisherStr | Springer |
| record_format | dspace |
| spelling | CGSpace1644592024-12-19T14:13:31Z Genome-wide association study for yield and yield related traits under reproductive stage drought in a diverse indica-aus rice panel Bhandari, Aditi Sandhu, Nitika Bartholome, Jérôme Cao-Hamadoun, Tuong-Vi Ahmadi, Nourollah Kumari, Nilima Kumar, Arvind agronomy crop science plant science soil science Reproductive-stage drought stress is a major impediment to rice production in rainfed areas. Conventional and marker-assisted breeding strategies for developing drought-tolerant rice varieties are being optimized by mining and exploiting adaptive traits, genetic diversity; identifying the alleles, and understanding their interactions with genetic backgrounds for their increased contribution to drought tolerance. Field experiments were conducted in this study to identify marker-trait associations (MTAs) involved in response to yield under reproductive-stage (RS) drought. A diverse set of 280 indica-aus accessions was phenotyped for ten agronomic traits including yield and yield-related traits under normal irrigated condition and under two managed reproductive-stage drought environments. The accessions were genotyped with 215,250 single nucleotide polymorphism markers. Results The study identified a total of 219 significant MTAs for 10 traits and candidate gene analysis within a 200 kb window centred from GWAS identified SNP peaks detected these MTAs within/ in close proximity to 38 genes, 4 earlier reported major grain yield QTLs and 6 novel QTLs for 7 traits out of the 10. The significant MTAs were mainly located on chromosomes 1, 2, 5, 6, 9, 11 and 12 and the percent phenotypic variance captured for these traits ranged from 5 to 88%. The significant positive correlation of grain yield with yield-related and other agronomic traits except for flowering time, observed under different environments point towards their contribution in improving rice yield under drought. Seven promising accessions were identified for use in future genomics-assisted breeding programs targeting grain yield improvement under drought. Conclusion These results provide a promising insight into the complex genetic architecture of grain yield under reproductive-stage drought in different environments. Validation of major genomic regions reported in the study will enable their effectiveness to develop drought-tolerant varieties following marker-assisted selection as well as to identify genes and understanding the associated physiological mechanisms. 2020-12 2024-12-19T12:53:54Z 2024-12-19T12:53:54Z Journal Article https://hdl.handle.net/10568/164459 en Open Access Springer Bhandari, Aditi; Sandhu, Nitika; Bartholome, Jérôme; Cao-Hamadoun, Tuong-Vi; Ahmadi, Nourollah; Kumari, Nilima and Kumar, Arvind. 2020. Genome-wide association study for yield and yield related traits under reproductive stage drought in a diverse indica-aus rice panel. Rice, Volume 13, no. 1 |
| spellingShingle | agronomy crop science plant science soil science Bhandari, Aditi Sandhu, Nitika Bartholome, Jérôme Cao-Hamadoun, Tuong-Vi Ahmadi, Nourollah Kumari, Nilima Kumar, Arvind Genome-wide association study for yield and yield related traits under reproductive stage drought in a diverse indica-aus rice panel |
| title | Genome-wide association study for yield and yield related traits under reproductive stage drought in a diverse indica-aus rice panel |
| title_full | Genome-wide association study for yield and yield related traits under reproductive stage drought in a diverse indica-aus rice panel |
| title_fullStr | Genome-wide association study for yield and yield related traits under reproductive stage drought in a diverse indica-aus rice panel |
| title_full_unstemmed | Genome-wide association study for yield and yield related traits under reproductive stage drought in a diverse indica-aus rice panel |
| title_short | Genome-wide association study for yield and yield related traits under reproductive stage drought in a diverse indica-aus rice panel |
| title_sort | genome wide association study for yield and yield related traits under reproductive stage drought in a diverse indica aus rice panel |
| topic | agronomy crop science plant science soil science |
| url | https://hdl.handle.net/10568/164459 |
| work_keys_str_mv | AT bhandariaditi genomewideassociationstudyforyieldandyieldrelatedtraitsunderreproductivestagedroughtinadiverseindicaausricepanel AT sandhunitika genomewideassociationstudyforyieldandyieldrelatedtraitsunderreproductivestagedroughtinadiverseindicaausricepanel AT bartholomejerome genomewideassociationstudyforyieldandyieldrelatedtraitsunderreproductivestagedroughtinadiverseindicaausricepanel AT caohamadountuongvi genomewideassociationstudyforyieldandyieldrelatedtraitsunderreproductivestagedroughtinadiverseindicaausricepanel AT ahmadinourollah genomewideassociationstudyforyieldandyieldrelatedtraitsunderreproductivestagedroughtinadiverseindicaausricepanel AT kumarinilima genomewideassociationstudyforyieldandyieldrelatedtraitsunderreproductivestagedroughtinadiverseindicaausricepanel AT kumararvind genomewideassociationstudyforyieldandyieldrelatedtraitsunderreproductivestagedroughtinadiverseindicaausricepanel |