Development of highly polymorphic SSR markers for chickpea (Cicer arietinum L.) and their use in parental polymorphism

Qadir, S.A. and Datta, S. and Singh, N.P. and Kumar, Shiv (2007) Development of highly polymorphic SSR markers for chickpea (Cicer arietinum L.) and their use in parental polymorphism. Indian Journal of Genetics and Plant Breeding, 67 (4). pp. 329-333.

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Simple sequence repeat (SSR) or microsatellite marker is currently the most preferred molecular marker system owing to their highly desirable properties viz., abundance, hyper-variability, and suitability for highthroughput analysis. Development of SSR markers using molecular methods is time consuming, laborious, and expensive. Use of computational approaches to mine ever-increasing sequences such as expressed sequence tags (ESTs) and genomic DNA sequences available in public databases permits rapid and economical discovery of SSRs. Because the number of SSR markers currently available in chickpea is very limited, the aim of this study was to develop and characterize more SSR markers. Twenty one hundred DNA sequences of chickpea were searched for SSRs and analyzed for the design of PCR primers amplifying the SSR reach regions. Di-nucleotide repeats were found to be the most abundant followed by tri- or mononucleotide repeats. The motifs AIT, GAiAG/CT/ACrrCI CAlTA, and CAAlTCT/AGAlCAGrrTG/ATT were the predominant mono-, di-, and tri-nucleotide SSRs, respectively. A subset of 64 primer pairs flanking SSR loci was used for screening polymorphism between two chickpea cultivars BG 256 and WR 315, which are parents of a Fusarium wilt mapping populations. Of them, 45 SSR markers (70.3%) were polymorphic between these two parents.

Item Type: Article
Author Affiliation: Division of Crop Improvement, Indian Institute of Pulses Research, Kanpur 208 024
Subjects: Crop Improvement > Genetics/Genomics
Crop Improvement > Plant Breeding
Divisions: Chickpea
Depositing User: Mr T L Gautham
Date Deposited: 28 Nov 2010 20:39
Last Modified: 29 Dec 2010 20:17
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