Assessment of PCR-based simple sequence repeats to fingerprint North American potato cultivars

Seven primer pairs flanking di- and tri-nucleotide repeat sequences, identified from previously sequenced regions of the potato genome, were examined for their potential use in DNA-fingerprinting of thirty-nineSolanum tuberosum subsp. tuberosum cultivars (released between 1861 and 1988) and one diploidS. phureja breeding line. Of the simple sequence repeats (SSRs), the primers for six SSRs amplified DNA sequences within the potato genome between cultivars for a total of 14 bands. The polymerase chain reaction (PCR)based amplification products generated from each primer pair consisted of 1 to 2 bands per cultivar but band variation among cultivars demonstrated up to 4 bands per SSR. A similarity matrix generated from five SSRs was able to distinguish 24 of the 40 cultivars. However, when the potato cultivars were grouped by tuber type (round white-skinned, long white-skinned, russetskinned, red-skinned, and yellow flesh) only five pairs of cultivars remained indistinguishable: Atlantic/Katahdin, Belchip/Wauseon, Red LaSoda/Bliss Triumph, Red Pontiac/Norland, and Burbank/Spunta. Although SSRs did not generate unique fingerprints for all of the North American genotypes examined, the potential to discriminate most cultivars should increase as additional SSRs are identified in potato.