Superior haplotypes towards the development of blast and bacterial blight-resistant rice
Rice blast and bacterial leaf blight, are major disease, significantly threatens rice yield in all rice growing regions under favorable conditions and identification of resistance genes and their superior haplotypes is a potential strategy for effectively managing and controlling this devastating di...
| Autores principales: | , , , , , , |
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| Formato: | Journal Article |
| Lenguaje: | Inglés |
| Publicado: |
Frontiers Media
2024
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| Materias: | |
| Acceso en línea: | https://hdl.handle.net/10568/163831 |
| _version_ | 1855535787017240576 |
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| author | Alam, Shamshad Sundaram, Krishna Tesman Singh, Uma Maheshwar Srinivas Prasad, Madamshetty Laha, Gouri Sankar Sinha, Pallavi Singh, Vikas Kumar |
| author_browse | Alam, Shamshad Laha, Gouri Sankar Singh, Uma Maheshwar Singh, Vikas Kumar Sinha, Pallavi Srinivas Prasad, Madamshetty Sundaram, Krishna Tesman |
| author_facet | Alam, Shamshad Sundaram, Krishna Tesman Singh, Uma Maheshwar Srinivas Prasad, Madamshetty Laha, Gouri Sankar Sinha, Pallavi Singh, Vikas Kumar |
| author_sort | Alam, Shamshad |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | Rice blast and bacterial leaf blight, are major disease, significantly threatens rice yield in all rice growing regions under favorable conditions and identification of resistance genes and their superior haplotypes is a potential strategy for effectively managing and controlling this devastating disease. In this study, we conducted a genome-wide association study (GWAS) using a diverse set of 147 rice accessions for blast and bacterial blight diseases in replications. Results revealed 23 (9 for blast and 14 for BLB) significant marker-trait associations (MTAs) that corresponded to 107 and 210 candidate genes for blast and BLB, respectively. The haplo-pheno analysis of the candidate genes led to the identification of eight superior haplotypes for blast, with an average SES score ranging from 0.00 to 1.33, and five superior haplotypes for BLB, with scores ranging from 1.52cm to 4.86cm superior haplotypes. Among these, superior haplotypes LOC_OS12G39700-H4 and LOC_Os06g30440-H33 were identified with the lowest average blast scores of 0.00-0.67, and superior haplotype LOC_Os02g12660-H39 exhibited the lowest average lesion length (1.88 - 2.06cm) for BLB. A total of ten accessions for blast and eight accessions for BLB were identified carrying superior haplotypes were identified. These haplotypes belong to aus and indx subpopulations of five countries (Bangladesh, Brazil, India, Myanmar, and Pakistan). For BLB resistance, eight accessions from six countries (Bangladesh, China, India, Myanmar, Pakistan, and Sri Lanka) and four subpopulations (aus, ind1A, ind2, and ind3) were identified carrying superior haplotypes. Interestingly, four candidate genes, LOC_Os06g21040, LOC_Os04g23960, LOC_Os12g39700, and LOC_Os01g24640 encoding transposon and retrotransposon proteins were among those with superior haplotypes known to play a crucial role in plant defense responses. These identified superior haplotypes have the potential to be combined into a single genetic background through haplotype-based breeding for a broader resistance spectrum against blast and bacterial blight diseases. |
| format | Journal Article |
| id | CGSpace163831 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2024 |
| publishDateRange | 2024 |
| publishDateSort | 2024 |
| publisher | Frontiers Media |
| publisherStr | Frontiers Media |
| record_format | dspace |
| spelling | CGSpace1638312025-12-08T10:29:22Z Superior haplotypes towards the development of blast and bacterial blight-resistant rice Alam, Shamshad Sundaram, Krishna Tesman Singh, Uma Maheshwar Srinivas Prasad, Madamshetty Laha, Gouri Sankar Sinha, Pallavi Singh, Vikas Kumar haplotypes candidate genes resistance genes phenotypes genome-wide association studies blasts Rice blast and bacterial leaf blight, are major disease, significantly threatens rice yield in all rice growing regions under favorable conditions and identification of resistance genes and their superior haplotypes is a potential strategy for effectively managing and controlling this devastating disease. In this study, we conducted a genome-wide association study (GWAS) using a diverse set of 147 rice accessions for blast and bacterial blight diseases in replications. Results revealed 23 (9 for blast and 14 for BLB) significant marker-trait associations (MTAs) that corresponded to 107 and 210 candidate genes for blast and BLB, respectively. The haplo-pheno analysis of the candidate genes led to the identification of eight superior haplotypes for blast, with an average SES score ranging from 0.00 to 1.33, and five superior haplotypes for BLB, with scores ranging from 1.52cm to 4.86cm superior haplotypes. Among these, superior haplotypes LOC_OS12G39700-H4 and LOC_Os06g30440-H33 were identified with the lowest average blast scores of 0.00-0.67, and superior haplotype LOC_Os02g12660-H39 exhibited the lowest average lesion length (1.88 - 2.06cm) for BLB. A total of ten accessions for blast and eight accessions for BLB were identified carrying superior haplotypes were identified. These haplotypes belong to aus and indx subpopulations of five countries (Bangladesh, Brazil, India, Myanmar, and Pakistan). For BLB resistance, eight accessions from six countries (Bangladesh, China, India, Myanmar, Pakistan, and Sri Lanka) and four subpopulations (aus, ind1A, ind2, and ind3) were identified carrying superior haplotypes. Interestingly, four candidate genes, LOC_Os06g21040, LOC_Os04g23960, LOC_Os12g39700, and LOC_Os01g24640 encoding transposon and retrotransposon proteins were among those with superior haplotypes known to play a crucial role in plant defense responses. These identified superior haplotypes have the potential to be combined into a single genetic background through haplotype-based breeding for a broader resistance spectrum against blast and bacterial blight diseases. 2024-02-28 2024-12-19T12:53:04Z 2024-12-19T12:53:04Z Journal Article https://hdl.handle.net/10568/163831 en Open Access Frontiers Media Alam, Shamshad; Sundaram, Krishna Tesman; Singh, Uma Maheshwar; Srinivas Prasad, Madamshetty; Laha, Gouri Sankar; Sinha, Pallavi and Singh, Vikas Kumar. 2024. Superior haplotypes towards the development of blast and bacterial blight-resistant rice. Front. Plant Sci., Volume 15 |
| spellingShingle | haplotypes candidate genes resistance genes phenotypes genome-wide association studies blasts Alam, Shamshad Sundaram, Krishna Tesman Singh, Uma Maheshwar Srinivas Prasad, Madamshetty Laha, Gouri Sankar Sinha, Pallavi Singh, Vikas Kumar Superior haplotypes towards the development of blast and bacterial blight-resistant rice |
| title | Superior haplotypes towards the development of blast and bacterial blight-resistant rice |
| title_full | Superior haplotypes towards the development of blast and bacterial blight-resistant rice |
| title_fullStr | Superior haplotypes towards the development of blast and bacterial blight-resistant rice |
| title_full_unstemmed | Superior haplotypes towards the development of blast and bacterial blight-resistant rice |
| title_short | Superior haplotypes towards the development of blast and bacterial blight-resistant rice |
| title_sort | superior haplotypes towards the development of blast and bacterial blight resistant rice |
| topic | haplotypes candidate genes resistance genes phenotypes genome-wide association studies blasts |
| url | https://hdl.handle.net/10568/163831 |
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