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Appraisal of RAPD and ISSR markers for genetic diversity analysis among cowpea (Vigna unguiculata L.) genotypes

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Abstract

The genetic variability and relationships among 11 cowpea genotypes representing two cultivars and nine elite genotypes were analyzed using 22 random amplified polymorphic DNA (RAPD) and nine inter-simple sequence repeat (ISSR) markers. ISSR markers were more efficient than RAPD assay with regards to polymorphism detection. But the average numbers of polymorphic loci per primer and resolution power were found to be higher for RAPD than for ISSR. Also, the total number of genotype specific marker loci, Nei’s genetic diversity, Shannon’s information index, total heterozygosity, and average heterozygosity were prominent in RAPD as compared to ISSR markers. The regression test between the two Nei’s genetic diversity indices showed low regression (0.3733) between ISSR and RAPD + ISSR-based similarities but maximum (0.9823) for RAPD and RAPD + ISSR-based similarities. The RAPD- and ISSR-generated cultivar- or genotype-specific unique DNA fingerprints able to identify the most diverse genotypes. A dendrogram constructed based on RAPD and ISSR combined data indicated a very clear pattern of clustering according to the groups (cultivars and elite genotypes). The results of principal coordinate analysis were comparable to the cluster analysis. Cluster analysis showed that most diverse genotypes (GP-125 — small size with good seed quality; GP-129, GP-90L — big size with poor seed quality) were separated from moderately diverse cultivars and genotypes. The genetic closeness among GP-129 and GP-90L, JCPL-42, and JCPL-107 could be explained by the high degree of commonness in these genotypes.

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Authors and Affiliations

  1. Department of Biotechnology, Junagadh Agricultural University, Junagadh, 362 001, India

    Harsukh Popatbhai Gajera, Rinkal Kishorbhai Domadiya, Sunil Vrajlal Patel & Baljibhai Arjanbhai Golakiya

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  1. Harsukh Popatbhai Gajera
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  2. Rinkal Kishorbhai Domadiya
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  3. Sunil Vrajlal Patel
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  4. Baljibhai Arjanbhai Golakiya
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Correspondence to Harsukh Popatbhai Gajera.

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Gajera, H.P., Domadiya, R.K., Patel, S.V. et al. Appraisal of RAPD and ISSR markers for genetic diversity analysis among cowpea (Vigna unguiculata L.) genotypes. J. Crop Sci. Biotechnol. 17, 79–88 (2014). https://doi.org/10.1007/s12892-013-0062-1

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