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CAPS-microsatellites: use of CAPS method to convert non-polymorphic microsatellites into useful markers

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Abstract

Microsatellites found in expressed sequence tags (ESTs) have several advantages in comparison to conventional microsatellites developed from genomic DNA. Advantages of EST-microsatellites include better transferability between the species and lower development cost of primer pairs. However, in many cases the amplified products of genomic DNA are larger than their expected sizes based on ESTs and these markers have low level of polymorphism. In the present study we report on a new approach as a modest modification of the cleavage amplified polymorphic sequence (CAPS) called CAPS-microsatellites. Using a total of 20 EST-microsatellite primer pairs on four Capsicum species and two Gossypium species we observed that all 20 monomorphic EST-microsatellites could be converted into polymorphic markers among the species used. Further analyses using a total of 37 F2 individuals obtained from two Capsicum annuum L. lines indicated that CAPS-microsatellite markers usually segregated as co-dominant fashions, discriminating the homozygous from heterozygous genotypes and could be used in genetic analyses of plant species.

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Acknowledgments

This work was supported in part by the Scientific and Technological Research Council and The Scientific Research Projects Coordination Unit of Akdeniz University. The authors thank to anonymous referees for contributing valuable information to this manuscript.

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Authors and Affiliations

  1. Faculty of Agriculture, Department of Horticulture, Akdeniz University, 07059, Antalya, Turkey

    Ayse Gul Ince & A. Naci Onus

  2. Faculty of Agriculture, Department of Field Crops, Akdeniz University, 07059, Antalya, Turkey

    Mehmet Karaca

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  1. Ayse Gul Ince
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  2. Mehmet Karaca
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  3. A. Naci Onus
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Correspondence to Mehmet Karaca.

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Ince, A.G., Karaca, M. & Naci Onus, A. CAPS-microsatellites: use of CAPS method to convert non-polymorphic microsatellites into useful markers. Mol Breeding 25, 491–499 (2010). https://doi.org/10.1007/s11032-009-9347-y

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  • DOI: https://doi.org/10.1007/s11032-009-9347-y

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