Genome-wide association study for salinity tolerance in the African rice, Oryza glaberrima
Oryza sativa, L., and Oryza glaberima, Steud, are the two most-grown rice species, making rice the second most-produced crop globally. While O. sativa is widely cultivated due to its high yield and marketability, O. glaberrima possesses valuable genetic traits for stress tolerance, including resista...
| Autores principales: | , , , , , , |
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| Formato: | Journal Article |
| Lenguaje: | Inglés |
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Springer
2025
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| Materias: | |
| Acceso en línea: | https://hdl.handle.net/10568/175737 |
| _version_ | 1855531653141626880 |
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| author | Mheni, Nafeti Titus Kilasi, Newton Bilaro, Atugonza Ndjiondjop, Marie-Noelle Dixit, Shalabh Ismail, Abdelbagi M. Msolla, Susan Nchimbi |
| author_browse | Bilaro, Atugonza Dixit, Shalabh Ismail, Abdelbagi M. Kilasi, Newton Mheni, Nafeti Titus Msolla, Susan Nchimbi Ndjiondjop, Marie-Noelle |
| author_facet | Mheni, Nafeti Titus Kilasi, Newton Bilaro, Atugonza Ndjiondjop, Marie-Noelle Dixit, Shalabh Ismail, Abdelbagi M. Msolla, Susan Nchimbi |
| author_sort | Mheni, Nafeti Titus |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | Oryza sativa, L., and Oryza glaberima, Steud, are the two most-grown rice species, making rice the second most-produced crop globally. While O. sativa is widely cultivated due to its high yield and marketability, O. glaberrima possesses valuable genetic traits for stress tolerance, including resistance to drought, flooding, and salinity. Genome-wide association studies (GWAS) have gained more popularity in O. sativa than in O. glaberrima, providing information on biological mechanisms underlying key agronomic traits. The current study aimed to find the essential genes for salinity tolerance in O. glaberrimathrough marker-trait associations (MTAs) for traits related to salinity. Using the Yoshida nutrient solution, this study evaluated a previously developed association mapping panel of 335 O. glaberrima accessions under screen house conditions. The association mapping panel was genotyped using 9990 single nucleotide polymorphism (SNP) markers. Using 6103 polymorphic SNP markers, a GWAS was conducted to detect genomic regions associated with salinity tolerance. 34 MTAs were identified using the mixed linear model approach, representing 11 genomic regions on chromosomes 1, 3, 4, 5, 6, 7, 8, 9, 10, 11, and 12, except on chromosome 2, highlighting different significant loci contributing to salinity stress tolerance. Among the tested accessions, 21 genotypes were categorized as tolerant to moderately tolerant based on the standard evaluation system score, representing promising materials for breeding programs. The identified SNPs, genotypes, and genomic regions are valuable resources for understanding the potential genes and developing functional markers for salinity tolerance screening in African rice. This study underscores the potential of O. glaberrima as a genetic resource for improving rice productivity in salt-affected areas, thereby contributing to sustainable rice production. |
| format | Journal Article |
| id | CGSpace175737 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2025 |
| publishDateRange | 2025 |
| publishDateSort | 2025 |
| publisher | Springer |
| publisherStr | Springer |
| record_format | dspace |
| spelling | CGSpace1757372025-11-12T04:58:25Z Genome-wide association study for salinity tolerance in the African rice, Oryza glaberrima Mheni, Nafeti Titus Kilasi, Newton Bilaro, Atugonza Ndjiondjop, Marie-Noelle Dixit, Shalabh Ismail, Abdelbagi M. Msolla, Susan Nchimbi oryza sativa oryza glaberrima salinity tolerance drought resistance flooding tolerance genetic resources marker-assisted selection genotypes agronomic traits breeding sustainable agriculture Oryza sativa, L., and Oryza glaberima, Steud, are the two most-grown rice species, making rice the second most-produced crop globally. While O. sativa is widely cultivated due to its high yield and marketability, O. glaberrima possesses valuable genetic traits for stress tolerance, including resistance to drought, flooding, and salinity. Genome-wide association studies (GWAS) have gained more popularity in O. sativa than in O. glaberrima, providing information on biological mechanisms underlying key agronomic traits. The current study aimed to find the essential genes for salinity tolerance in O. glaberrimathrough marker-trait associations (MTAs) for traits related to salinity. Using the Yoshida nutrient solution, this study evaluated a previously developed association mapping panel of 335 O. glaberrima accessions under screen house conditions. The association mapping panel was genotyped using 9990 single nucleotide polymorphism (SNP) markers. Using 6103 polymorphic SNP markers, a GWAS was conducted to detect genomic regions associated with salinity tolerance. 34 MTAs were identified using the mixed linear model approach, representing 11 genomic regions on chromosomes 1, 3, 4, 5, 6, 7, 8, 9, 10, 11, and 12, except on chromosome 2, highlighting different significant loci contributing to salinity stress tolerance. Among the tested accessions, 21 genotypes were categorized as tolerant to moderately tolerant based on the standard evaluation system score, representing promising materials for breeding programs. The identified SNPs, genotypes, and genomic regions are valuable resources for understanding the potential genes and developing functional markers for salinity tolerance screening in African rice. This study underscores the potential of O. glaberrima as a genetic resource for improving rice productivity in salt-affected areas, thereby contributing to sustainable rice production. 2025-06 2025-07-23T05:58:22Z 2025-07-23T05:58:22Z Journal Article https://hdl.handle.net/10568/175737 en Limited Access application/pdf Springer Mheni, Nafeti Titus, Newton Kilasi, Atugonza Bilaro, Marie-Noelle Ndjiondjop, Shalabh Dixit, Abdelbagi M. Ismail, and Susan Nchimbi Msolla. "Genome-wide association study for salinity tolerance in the African rice, Oryza glaberrima." Euphytica 221, no. 6 (2025): 1-18. |
| spellingShingle | oryza sativa oryza glaberrima salinity tolerance drought resistance flooding tolerance genetic resources marker-assisted selection genotypes agronomic traits breeding sustainable agriculture Mheni, Nafeti Titus Kilasi, Newton Bilaro, Atugonza Ndjiondjop, Marie-Noelle Dixit, Shalabh Ismail, Abdelbagi M. Msolla, Susan Nchimbi Genome-wide association study for salinity tolerance in the African rice, Oryza glaberrima |
| title | Genome-wide association study for salinity tolerance in the African rice, Oryza glaberrima |
| title_full | Genome-wide association study for salinity tolerance in the African rice, Oryza glaberrima |
| title_fullStr | Genome-wide association study for salinity tolerance in the African rice, Oryza glaberrima |
| title_full_unstemmed | Genome-wide association study for salinity tolerance in the African rice, Oryza glaberrima |
| title_short | Genome-wide association study for salinity tolerance in the African rice, Oryza glaberrima |
| title_sort | genome wide association study for salinity tolerance in the african rice oryza glaberrima |
| topic | oryza sativa oryza glaberrima salinity tolerance drought resistance flooding tolerance genetic resources marker-assisted selection genotypes agronomic traits breeding sustainable agriculture |
| url | https://hdl.handle.net/10568/175737 |
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