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Molecular characterization and identification of new sources of tolerance to submergence and salinity from rice landraces of coastal India

Published online by Cambridge University Press:  09 January 2019

R. Samal ,
P. S. Roy ,
M. K. Kar ,
B. C. Patra ,
S. S. C. Patnaik  and
J. N. Reddy
R. Samal
Affiliation:
Division of Crop Improvement, National Rice Research Institute, Cuttack, Odisha, India
P. S. Roy*
Affiliation:
Division of Crop Improvement, National Rice Research Institute, Cuttack, Odisha, India
M. K. Kar
Affiliation:
Division of Crop Improvement, National Rice Research Institute, Cuttack, Odisha, India
B. C. Patra
Affiliation:
Division of Crop Improvement, National Rice Research Institute, Cuttack, Odisha, India
S. S. C. Patnaik
Affiliation:
Division of Crop Improvement, National Rice Research Institute, Cuttack, Odisha, India
J. N. Reddy
Affiliation:
Division of Crop Improvement, National Rice Research Institute, Cuttack, Odisha, India
*
*Corresponding author. E-mail: [email protected]
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Abstract

Trait-specific characterization of rice landraces has significant potential for germplasm management, varietal identification and mining of novel gene/allele for various traits. In the current study, we have characterized 98 unique rice landraces collected from coastal regions of India, affected by submergence and salinity, based on Sub1 and Saltol quantitative trait loci (QTL) linked microsatellite markers. Among these genotypes, four genotypes (IC536558, IC536559, IC536604 and IC536604-1) collected from Kerala and two genotypes (AC34902 and IC324589) collected from West Bengal were identified with tolerance to submergence and salinity stress. A high level of genetic diversity of He = 0.349 and 0.529 at Sub1 and Saltol QTL region was detected by QTL-linked microsatellite markers, respectively. At Sub1 region one genotype, AC34902, was detected with maximum allelic similarity with FR13A, a known submergence tolerant variety. Besides, five genotypes (IC211188-1, IC536604-1, IC536604, IC536558 and IC536559) showed comparatively close genetic relationship with the salt tolerant variety FL478 for Saltol QTL and were clustered together in the neighbour joining dendrogram. Considering the haplotype structure, five genotypes (IC203801, IC203778, IC324584, IC413608 and IC413638) were identified which did not contain any common allele similar to FR13A but were still tolerant to submergence. These individuals need further characterization for identification of new alleles responsible for their tolerance.

Keywords

haplotypericeSSRstresstolerance
Type
Research Article
Information
Plant Genetic Resources , Volume 17 , Issue 3 , June 2019 , pp. 221 - 231
Copyright
Copyright © NIAB 2019 

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