Characterisation and genetic diversity analysis of selected chickpea cultivars of nine countries using simple sequence repeat (SSR) markers

Sefera, T and Abebie, B and Gaur, P M and Assefa, K and Varshney, R K (2011) Characterisation and genetic diversity analysis of selected chickpea cultivars of nine countries using simple sequence repeat (SSR) markers. Crop and Pasture Science, 62 (2). pp. 177-187. ISSN 1836-5795

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The genomic DNA profiles of 48 chickpea cultivars released in nine countries and of historical significance to the chickpea breeding programs at ICRISAT and in Ethiopia were evaluated using 48 simple sequence repeat (SSR) markers. Across the cultivars, a total of 504 alleles representing the 48 SSR loci were detected with frequencies ranging from three to 22 (mean 10.5) alleles per locus. The polymorphism information content (PIC) for the SSR markers varied from 0.37 to 0.91 (mean 0.77). A subset of only three highly informative SSR markers (TA176, TA2, TA180) enabled complete discrimination among all 48 chickpea cultivars tested. Hierarchical neighbour-joining UPGMA cluster analysis based on simple matching dissimilarity matrix resolved the 48 cultivars into two major clusters representing desi and kabuli types. These cluster groupings of the cultivars were consistent with the pedigree information available for the cultivars as to the phenotypic classes of chickpea types. Analysis of the temporal patterns of the SSR diversity by classifying 48 chickpea cultivars into four periods of release revealed increasing tendencies in the overall genetic diversity from 0.42 for the earliest varieties developed in the 1970s to 0.62 for those released in the 1980s, and reached a maximum and equivalent level of 0.72 for the varieties developed in the 1990s and 2000s. Overall, the study ascertained that SSRs provide powerful marker tools in revealing genetic diversity and relationships in chickpeas, thereby proving useful for selection of parents in breeding programs and also for DNA fingerprint identification of cultivars.

Item Type: Article
Subjects: Mandate crops > Chickpea
Others > Genetics and Genomics
Depositing User: Mr Sanat Kumar Behera
Date Deposited: 24 Jan 2012 07:59
Last Modified: 24 Jan 2012 07:59
Official URL:
Acknowledgement: The authors are thankful to Chickpea Breeding programs of ICRISAT and Debre Ziet Agricultural Research Center (DZARC) of EIAR for providing the seeds of cultivars used in this study. Thanks are due to Tropical Legumes-I (TL-I) and Tropical Legume-II (TL-II) projects of Generation Challenge Program ( and Bill and Melinda Gates Foundation (BMGF) for supporting this study.
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