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Comparison of genetic variation and differentiation among annual Cicer species using start codon targeted (SCoT) polymorphism, DAMD-PCR, and ISSR markers

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Abstract

Three molecular markers, including start codon targeted (SCoT) polymorphism, directed amplification of minisatellite-region DNA polymerase chain reaction (DAMD-PCR), and inter simple sequence repeat (ISSR) markers, were compared in terms of their informativeness and efficiency for analysis of genetic relationships among 38 accessions of eight annual Cicer species. The results were as follows: (1) the highest level of detected polymorphism was observed for all three marker types; (2) the rate of diversity for the three marker techniques was approximately equal, and the correlation coefficients of similarity were statistically significant for all three marker systems; (3) the three molecular markers showed relatively similar phylogenetic grouping for examined species. Diversity analysis showed that Cicer reticulatum is the closest wild species to the cultivated chickpea, and this finding supports the hypothesis that C. reticulatum is the most probable progenitor of the cultivated species. C. bijugum, C. judaicum, and C. pinnatifidum were clustered together, and in other clusters C. yamashitae and C. cuneatum were grouped close together. To our knowledge, this is the first detailed comparison of performance among two targeted DNA region molecular markers (SCoT and DAMD-PCR) and the ISSR technique on a set of samples of Cicer. The results provide guidance for future efficient use of these molecular methods in genetic analysis of Cicer.

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Acknowledgments

We would like to thank Islamic Azad University, Sanandaj Branch for support of this study. Also, we wish to present our special thanks to the International Center for Agricultural Research in the Dry Areas (ICARDA), Aleppo, Syria and the Australian Temperate Field Crops Collection (ATFCC) at the Victorian Institute for Dryland Agriculture (VIDA), Horsham, Australia for kindly supplying seeds of Cicer species.

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  1. College of Agriculture, Kermanshah Branch, Islamic Azad University, Kermanshah, Iran

    Baharak Amirmoradi

  2. College of Agriculture, Sanandaj Branch, Islamic Azad University, Sanandaj, Iran

    Reza Talebi & Ezaat Karami

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  1. Baharak Amirmoradi
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  2. Reza Talebi
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  3. Ezaat Karami
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Correspondence to Reza Talebi.

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Amirmoradi, B., Talebi, R. & Karami, E. Comparison of genetic variation and differentiation among annual Cicer species using start codon targeted (SCoT) polymorphism, DAMD-PCR, and ISSR markers. Plant Syst Evol 298, 1679–1688 (2012). https://doi.org/10.1007/s00606-012-0669-6

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