home icon user icon
Welcome to International Network for Natural Sciences | INNS Pub.
Home My Account
Submit Manuscript
double_slash
breadcumb_bg

Identification of salt tolerant rice genotypes and their genetic diversity analysis using SSR markers

Paper Details

Research Paper 01/09/2012
Views (399) Download (7)
current_issue_feature_image
publication_file

Identification of salt tolerant rice genotypes and their genetic diversity analysis using SSR markers

Prabir Dhar, M. Ashrafuzzaman, S. N. Begum, M. M. Islam, M. M. H. Chowdhury
Int. J. Biosci.2( 9), 40-50, September 2012.
Certificate: IJB 2012 [Generate Certificate]
Key: Genetic diversityGenotypesRiceSalinitySSR marker

Abstract

Twenty six rice germplasms were used to evaluate salinity tolerance at the seedling stage. Salinity and non-salinized setup were maintained at seedling stage. Phenotyping for salinity screening of the rice genotypes was done using salinized (EC level 12 dS /m) nutrient solution in hydroponic system following IRRI standard protocol. Genotypes were evaluated individually for salinity tolerance on 1-9 scale on the basis of seedling growth parameters following modified SES of IRRI. At the seedling stage, sixteen moderately tolerant and ten susceptible genotypes were identified using Standard Evaluation Score (SES).On the basis of SES score and phenotypic performance, out of 26 rice germplasms two (BINAdhan-8 and AYT SL-3)were selected as compare to other germplasms. For genotypic salt tolerance of 26 rice germplasms, DNA was extracted from leaf samples using CTAB mini-prep method. Then six selected SSR markers viz., RM10701, RM304, RM11757, RM336, RM7075, and RM152 were used for identification of salt tolerant genotypes. The band obtain from reaction with different markers were compared to the selected genotypes (BINAdhan-8 and AYT SL-3). Assessment of genetic diversity is an essential component in germplasm characterization and conservation. In DNA profiling, a total of 60 alleles were detected with an average number of alleles of 10 per locus (range 8 to 12 per locus) and the PIC values ranged from a low of the 0.7459 (RM152) to a high of 0.8908 (RM10701) and averaged 0.857. Positive correlations were found between gene diversity, PIC value and number of allele. The Unweighted Pair Group Method of Arithmetic Means (UPGMA) dendrogram constructed from (Nei’s, 1972) genetic distance produced two main clusters of 26 rice germplasms. The lowest genetic distance (0.200) was found in CSR-28 vs. CSR90-IR-2 genotype pair indicating that they are genetically much closer among the genotypes. A cluster was consisted with a moderate salt tolerant due to higher similarity, while the mostly susceptible germplasms in the second cluster due to lower genetic distance between germplasms.

VIEWS 11
Cover PDF

Ashraf M. 2009. Biotechnological approach of improving plant salt tolerance using antioxidant as marker. Biotechnology Advances 27, 84-93.

Bhuiyan MR. 2005. Efficiency in evaluating salt tolerance in rice using phenotypic and marker assisted selection. M.Sc. dissertation, Department of Genetics and Plant Breeding, Bangladesh Agricultural University, Mymensingh, Bangladesh, p. 96.

Chakravarthi BK, Naravaneni R. 2006. SSR marker based DNA fingerprinting and diversity study in rice (Oryza sativa L). African Journal of Biotechnology 5(9), 684-688.

Mohammadi-Nejad G, Singh RK, Arzani A, Rezaie AM, Sabouri H, Gregorio GB. 2010. Evaluation of salinity tolerance in rice genotypes. International Journal of Plant Production 4 (3), 1735-8043.

IRRI (International Rice Research Institute). 1997. Rice Almanac. IRRI-WARDCIAT. Los Banos, Laguna. Philippines, p. 308

Islam MM. 2004. Mapping salinity tolerance genes in rice (Oryza sativa L.) at reproductive stage. Ph.D. dissertation. University of the Philippines, Philippines, 1.

Jain S, Jain RK, Mccouch SR. 2004. Genetic analysis of Indian aromatic and quality rice (Oryza sativa L.) germplasm using panels of fluorescently-labeled microsatellite markers. Theoretical and Applied Genetics 109, 965–977.

Jayamani P, Negrao S, Martins M, Macas B, Oliveira MM. 2007. Genetic relatedness of Portuguese rice accessions from diverse origins as assessed by microsatellite markers. Crop Science 47, 879–886.

Krishnamurthy P, Ranathunge K, Franke R, Prakash HS, Schreiber L, Mathew MK. 2009. The role of root apoplastic transport barriers in salt tolerance of rice (Oryza sativa L.). Planta 230(1), 119-34.

Kobayashi S and Yoshida T. 2005. Identification of main paddy rice cultivars in Tochigi prefecture by RAPD analysis. Japanese Journal of Crop Science 74(2), 207-211.

Nei M. 1972. Genetic distance between populations. American Naturalist, 106, 283-292.

Ni J, Colowit PM, Mackill DJ. 2002. Evaluation of genetic diversity in rice subspecies using microsatellite markers. Crop Science, 42, 601–607.

Haque S. A. 2006. Salinity problems and crop production in coastal regions of Bangladesh. Pakistan Journal of Botany 38(5), 1359-136.

Thomson MJ, Tai TH, Mcclung AM, Lai XH, Hinga ME. 2003. Mapping quantitative trait loci for yield, yield components and morphological traits in an advanced backcross population between Oryza rufipogon and the Oryza cultivar Jefferson. Theoretical and Applied Genetics 107(3), 479-493.

Submit Manuscript