Abstract
A survey of 480 10-mer primers for RAPD markers revealed general consistency in primer amplification strength among the flowering plant generaDatisca, Helianthus andYucca. Six characteristics of primer base sequences were analyzed: total (G+C) content; the amounts of G, A, C, and T taken separately; and the (G+C) content in the last four bases of the 3′ end. Of these, total (G+C) content showed the most value in predicting primer amplification strength. Since the consistency of amplification strength is true only globally, there are still many primers showing high variation in amplification strength among genera, most probably due to DNA sequence differences, but perhaps also resulting from experimental artifact. Nevertheless, we suggest that this survey be used as a rough guide for prioritizing primer deployment in RAPD studies involving plants in the hope of improving efficiency during the search for adequate levels of polymorphism, with the understanding that taxon-specific differences in primer amplification strength are bound to occur.
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Abbreviations
- RAPD:
-
random amplified polymorphic DNA
- CTAB:
-
hexadecyltrimethylammonium bromide
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Fritsch, P., Hanson, M.A., Spore, C.D. et al. Constancy of RAPD primer amplification strength among distantly related taxa of flowering plants. Plant Mol Biol Rep 11, 10–20 (1993). https://doi.org/10.1007/BF02670555
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DOI: https://doi.org/10.1007/BF02670555