Genome-wide association analysis in identification of superior haplotypes for vegetative stage drought stress tolerance in rice
Water availability is the most critical factor limiting rice yield in rainfed agro-ecosystems. Drought stress during the vegetative stage inhibits key growth processes, such as leaf formation and tillering, significantly impacting yield. This study aimed to investigate the genetic basis of vegetativ...
| Main Authors: | , , , , , , , , , |
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| Format: | Journal Article |
| Language: | Inglés |
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Springer
2025
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| Online Access: | https://hdl.handle.net/10568/174450 |
| _version_ | 1855521889121730560 |
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| author | Nayak, Gyanisha Parameswaran, C. Vaidya, Nairita Parida, Madhuchhanda Sabarinathan, S. Chaudhari, Prabharani Sinha, Pallavi Singh, Vikas Kumar Samantaray, Sanghamitra Katara, Jawahar Lal |
| author_browse | Chaudhari, Prabharani Katara, Jawahar Lal Nayak, Gyanisha Parameswaran, C. Parida, Madhuchhanda Sabarinathan, S. Samantaray, Sanghamitra Singh, Vikas Kumar Sinha, Pallavi Vaidya, Nairita |
| author_facet | Nayak, Gyanisha Parameswaran, C. Vaidya, Nairita Parida, Madhuchhanda Sabarinathan, S. Chaudhari, Prabharani Sinha, Pallavi Singh, Vikas Kumar Samantaray, Sanghamitra Katara, Jawahar Lal |
| author_sort | Nayak, Gyanisha |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | Water availability is the most critical factor limiting rice yield in rainfed agro-ecosystems. Drought stress during the vegetative stage inhibits key growth processes, such as leaf formation and tillering, significantly impacting yield. This study aimed to investigate the genetic basis of vegetative stage drought tolerance and identify QTLs and genes associated with it through GWAS. A total of 19 major QTLs were identified for six traits: leaf rolling, relative water content, plant height, leaf area, tiller number, and leaf number, with phenotypic variances ranging from 10.55 to 80.05%. Additionally, haplotypes for six candidate genes were identified: OsCYP72A32 for leaf rolling, OsNCX5.2 for relative water content, OsSPX2 for plant height, OsSTA104 for tiller number, OsRING313 for leaf number and Os3BGlu6 for leaf area. Besides, genotypes such as NCS 901 A, H 15-23-DA, LOHAMBITRO and MEJANES 2 were found to be superior donors. These tolerant genotypes and superior haplotypes can be used in haplotype-based breeding programs to enhance drought tolerance in rice at vegetative stage. |
| format | Journal Article |
| id | CGSpace174450 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2025 |
| publishDateRange | 2025 |
| publishDateSort | 2025 |
| publisher | Springer |
| publisherStr | Springer |
| record_format | dspace |
| spelling | CGSpace1744502025-12-08T09:54:28Z Genome-wide association analysis in identification of superior haplotypes for vegetative stage drought stress tolerance in rice Nayak, Gyanisha Parameswaran, C. Vaidya, Nairita Parida, Madhuchhanda Sabarinathan, S. Chaudhari, Prabharani Sinha, Pallavi Singh, Vikas Kumar Samantaray, Sanghamitra Katara, Jawahar Lal drought tolerance water stress rainfed farming water availability yield components plant height leaf area relative water content genetic variation quantitative trait loci candidate genes haplotypes breeding programmes gene mapping phenotypic variation oryza sativa Water availability is the most critical factor limiting rice yield in rainfed agro-ecosystems. Drought stress during the vegetative stage inhibits key growth processes, such as leaf formation and tillering, significantly impacting yield. This study aimed to investigate the genetic basis of vegetative stage drought tolerance and identify QTLs and genes associated with it through GWAS. A total of 19 major QTLs were identified for six traits: leaf rolling, relative water content, plant height, leaf area, tiller number, and leaf number, with phenotypic variances ranging from 10.55 to 80.05%. Additionally, haplotypes for six candidate genes were identified: OsCYP72A32 for leaf rolling, OsNCX5.2 for relative water content, OsSPX2 for plant height, OsSTA104 for tiller number, OsRING313 for leaf number and Os3BGlu6 for leaf area. Besides, genotypes such as NCS 901 A, H 15-23-DA, LOHAMBITRO and MEJANES 2 were found to be superior donors. These tolerant genotypes and superior haplotypes can be used in haplotype-based breeding programs to enhance drought tolerance in rice at vegetative stage. 2025-03 2025-05-07T08:48:15Z 2025-05-07T08:48:15Z Journal Article https://hdl.handle.net/10568/174450 en Limited Access Springer Nayak, G., Parameswaran, C., Vaidya, N. et al. Genome-wide association analysis in identification of superior haplotypes for vegetative stage drought stress tolerance in rice. Physiol Mol Biol Plants 31, 435–452 (2025) |
| spellingShingle | drought tolerance water stress rainfed farming water availability yield components plant height leaf area relative water content genetic variation quantitative trait loci candidate genes haplotypes breeding programmes gene mapping phenotypic variation oryza sativa Nayak, Gyanisha Parameswaran, C. Vaidya, Nairita Parida, Madhuchhanda Sabarinathan, S. Chaudhari, Prabharani Sinha, Pallavi Singh, Vikas Kumar Samantaray, Sanghamitra Katara, Jawahar Lal Genome-wide association analysis in identification of superior haplotypes for vegetative stage drought stress tolerance in rice |
| title | Genome-wide association analysis in identification of superior haplotypes for vegetative stage drought stress tolerance in rice |
| title_full | Genome-wide association analysis in identification of superior haplotypes for vegetative stage drought stress tolerance in rice |
| title_fullStr | Genome-wide association analysis in identification of superior haplotypes for vegetative stage drought stress tolerance in rice |
| title_full_unstemmed | Genome-wide association analysis in identification of superior haplotypes for vegetative stage drought stress tolerance in rice |
| title_short | Genome-wide association analysis in identification of superior haplotypes for vegetative stage drought stress tolerance in rice |
| title_sort | genome wide association analysis in identification of superior haplotypes for vegetative stage drought stress tolerance in rice |
| topic | drought tolerance water stress rainfed farming water availability yield components plant height leaf area relative water content genetic variation quantitative trait loci candidate genes haplotypes breeding programmes gene mapping phenotypic variation oryza sativa |
| url | https://hdl.handle.net/10568/174450 |
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