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Advances in Crop Science and Technology

DNA Fingerprinting Based Decoding of Indica Rice (Oryza sativa L) Via Molecular Marker (SSR, ISSR, & RAPD) in Aerobic Condition

Ashu Singh* and Sengar RS
Tissue culture Lab, College of Biotechnology, University of Agriculture & Technology, Meerut, Indiq
Abstract :

Genetic improvement mainly depends on the extent of genetic variability present in the population. The molecular marker is a useful tool for assessing genetic variations and resolving cultivar identities. The objective of this study was to evaluate the genetic divergence of 30 rice varieties (Basmati, Non-Basmati, Aerobic) using 10 ISSR, RAPD markers each. The diversity or similarities and dissimilarities between all thirty rice varieties were calculated using 0 1 sheets. SSR primers RM-263 is highly informative since it recorded high PIC value (0.995). The resolving power varies between 0.132(RM-256) to 4.662(RM-222) with an average value of 2.7502. In RAPD analysis PIC values varies from 0.811(OPD-08) to 0.9925(OPF-13) with average of 0.9635 and resolving power varies from 1.32(OPJ-08) to 2.066(OPJ-13) with average of 1.8256. In ISSR analysis, PIC value ranged from 0.8791(ISSR6) to 0.9916(ISSR5) with an average value of 0.9482. The resolving power varies between 1.6(ISSR3) and 8.366(ISSR2) with an average value of 5.2708. The PIC values and Resolving power were calculated for individual primers. The analysis indicated that ISSR expressed maximum resolving power of 8.336 and RAPD gave maximum PIC values of 0.9925. RAPD primer OPF-13 gave the maximum accessions coverage (depending on the value of PIC) in the rice genome. Out of 52 amplified bands, 49 bands were polymorphic and 3 bands were monomorphic. The cluster analysis using the marker systems could distinguish the different genotypes. The dendogram generated on the principle of Unweight Pair Wise Method using Arithemetic Average (UPGMA) was constructed by Jaccard’s Coefficient and the genotypes were grouped in to clusters. The dendogram developed for aroma and quality traits showed that the genotypes with common phylogeny and geographical orientation tend to cluster together thus marker based molecular fingerprinting could serve as a sound basis in the identification of genetically distant accessions as well as in the duplicate sorting of the morphologically close accessions as the case is common in differentiating Basmati and non-basmati.

Keywords :
Phylogen; Polymorphism; Indica rice; Luster analysis; cTAB method; Genome coverage; Genetic diversity

Date Deposited : 04 Apr 2016 12:38

Last Modified : 04 Apr 2016 12:38

Official URL:

Volume 3, Number 2, May 2015 , ISSN ISSN: 2329-8863

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