Genome-wide association studies of salinity tolerance in local aman rice

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dc.authoridAlanazi, Yasmene Falah/0000-0003-3981-5111
dc.authoridAlalawy, Adel/0000-0002-5880-973X
dc.authoridIslam, A. K. M. Aminul/0000-0001-8270-5968
dc.contributor.authorJahan, Nusrat
dc.contributor.authorRaihan, Mohammad Sharif
dc.contributor.authorIslam, M. Moshiul
dc.contributor.authorEra, Farzana Mustafa
dc.contributor.authorAlalawy, Adel I.
dc.contributor.authorOmran, Awatif M. E.
dc.contributor.authorAlanazi, Yasmene F.
dc.date.accessioned2024-12-24T19:30:03Z
dc.date.available2024-12-24T19:30:03Z
dc.date.issued2024
dc.departmentSiirt Üniversitesi
dc.description.abstractThe present study aimed to identify and characterize new sources of salt tolerance among 94 rice genotypes from varied geographic origins. The genotypes were divided into five groups based on their morphological characteristics at both vegetative and reproductive stages using salinity scores from the Standard Evaluation System (SES). The experiment was designed as per CRD (Completely Randomized Design) with two sets of salinity treatments for 8 dS/meter and 12 dS/meter, respectively compared with one non-salinized control set. Using a Soil Plant Analysis Development (SPAD) meter, assessments of the apparent chlorophyll content (greenness) of the genotypes were done to comprehend the mechanism underlying their salt tolerance. To evaluate molecular genetic diversity, a panel of 1 K RiCA SNP markers was employed. Utilizing TASSEL 5.0 software, 598 filtered SNPs were used for molecular analysis. Whole-genome association studies (GWAS) were also used to investigate panicle number per plant (pn, tiller number per plant (till), SPAD value (spad), sterility (percent) (str), plant height (ph) and panicle length (pl). It is noteworthy that these characteristics oversee conveying the visible signs of salt damage in rice. Based on genotype data, diversity analysis divided the germplasm groups into four distinct clusters (I, II, III and IV). For the traits studied, thirteen significant marker -trait associations were discovered. According to the phenotypic screening, seven genotypes namely Koijuri, Asha, Kajal, Kaliboro, Hanumanjata, Akundi and Dular, are highly tolerant to salinity stress. The greenness of these genotypes was found to be more stable over time, indicating that these genotypes are more resistant to stress. Regarding their tolerance levels, the GWAS analysis produced comparable results, supporting that salinity -tolerant genotypes having minor alleles in significant SNP positions showed more greenness during the stress period. The Manhattan plot demonstrated that at the designated significant SNP position, the highly tolerant genotypes shared common alleles. These genotypes could therefore be seen as important genomic resources for accelerating the development and release of rice varieties that are tolerant to salinity.
dc.description.sponsorshipMinistry of Education, Bangladesh [LS2018732]
dc.description.sponsorshipMinistry of Education, Bangladesh for the support through the project entitled Genetic Analysis for Salt Tolerance in Rice (Oryza sativa L.) , Grant No. LS2018732.
dc.identifier.doi10.14715/cmb/2024.70.2.2
dc.identifier.endpage17
dc.identifier.issn0145-5680
dc.identifier.issn1165-158X
dc.identifier.issue2
dc.identifier.pmid38430047
dc.identifier.scopus2-s2.0-85186746053
dc.identifier.scopusqualityQ4
dc.identifier.startpage10
dc.identifier.urihttps://doi.org/10.14715/cmb/2024.70.2.2
dc.identifier.urihttps://hdl.handle.net/20.500.12604/7359
dc.identifier.volume70
dc.identifier.wosWOS:001199821400007
dc.identifier.wosqualityN/A
dc.indekslendigikaynakWeb of Science
dc.indekslendigikaynakScopus
dc.indekslendigikaynakPubMed
dc.language.isoen
dc.publisherC M B Assoc
dc.relation.ispartofCellular and Molecular Biology
dc.relation.publicationcategoryMakale - Uluslararası Hakemli Dergi - Kurum Öğretim Elemanı
dc.rightsinfo:eu-repo/semantics/openAccess
dc.snmzKA_20241222
dc.subjectGWAS
dc.subjectGermplasm
dc.subjectRice
dc.subjectSalt tolerance
dc.subjectSNP
dc.subjectSPAD
dc.titleGenome-wide association studies of salinity tolerance in local aman rice
dc.typeArticle

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