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Bui Phuoc Tam. 2016. Responses to salinity stress in a rice (Oryza sativa L.) diversity panel at reproductive stage. MSc. Thesis Abstract. IRRI- UPLP, the Philippines. July 2016.
Thứ hai, 15-08-2016 | 07:37:21



Advisers: Dr. Jose E. Hernadez (UPLP) and Dr. Abdelbagi M. Ismail (IRRI)


Rice (Oryza sativa L.) is the most important food crop in the world and feeds over half of the global population. However, rice production has been decreased due to climate change, especially salinity. Understanding the genetic bases of the diverse morphological and physiological traits associated with rice adaptation to salt affected environments provides the basis for improving yield, quality, and sustainability of rice productivity in saline areas. A rice diversity panel of 329 genotypes was evaluated for salinity tolerance based on morphological and physiological parameters. Several traits associated with tolerance were mapped using genome-wide association studies (GWAS) based on the 44,000 SNP chip to identify significant SNPs associated with salinity tolerance at reproductive stage. Genetypes from six subpopulations within the panel were grown in a hydroponic culture solution with electrical conductivity of 10 dS m-1 adjusted using sodium chloride. Salt injury was recorded visually using SES scores every two weeks after booting. Morphological data, photosynthetic pigments, and sodium and potassium concentrations were measured. GWAS analysis was run to detect SNPs using R-studio, candidate genes were identified using GSL-Galaxy, and association of genes and networks were obtained by RiceFREND. Overall, salinity tolerance of aus and indica was higher than that of other subpopulations. GWAS identified 39 highly significant SNPs (-log10P > 4) among 422 SNPs, in which, 24 SNPs (61.5%) were associated with physiological traits. Among 475 candidate genes from the highly significant SNPs, 23 of the candidate genes on chromosomes 1, 6, 10 and 12 co-localized with previously identified QTLs for salinity tolerance. GWAS showed more advantages in increasing the resolution power for mapping QTLs and in detecting more alleles. Several physiological traits correlated with each other and with salinity tolerance based on SES score, suggesting contribution to salinity tolerance during the reproductive stage. Candidate genes at most significant associations are now being identified for further validation and for furture use in molecular breeding programs to enhance rice salinity tolerance.          

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