Genomic fingerprinting by microsatellite-primed PCR: a critical evaluation

Single PCR primers complementary to microsatellite repeats were used to amplify genomic DNA samples from various plant species, as well as from human, yeast, and Escherichia coli DNA. Most primers generated distinct amplification products, resulting in fingerprint-like banding patterns after agarose gel electrophoresis and ethidium bromide staining. These fingerprints allowed distinction among different plant taxa at an interspecific as well as intraspecific level. Unexpectedly, some of the primers produced bands with the E. coli template DNA as well. A detailed examination of the influence of PCR conditions, especially the annealing temperature, on the quality of banding patterns suggested that the majority of bands were generated by mismatch priming in a way similar to random amplified polymorphic DNAs (RAPDs).