Efficiency of Arbitrarily Amplified Dominant Markers (SCOT, ISSR and RAPD) for Diagnostic Fingerprinting in Tetraploid Potato

Abstract

Three molecular markering techniques: start codon targeted (SCOT), inter-simple sequence repeat (ISSR) and random amplified polymorphic DNA (RAPD) markers were compared for fingerprinting of 24 varieties and a segregating population of tetraploid potato. The number of scoreable and polymorphic bands produced using the SCOT, ISSR and RAPD primers for varieties was more than that of genotypes. SCOTs markers were more informative, followed by ISSRs marker, than other markers for the assessment of varieties based on polymorphism information content (PIC). There were no significant differences among these markers in terms of the evaluation of genotypes. All marker techniques individually illustrated that Diversity Index and Marker Index for varieties were higher than that of genotypes, and SCOT had superiority to other markers. The resolving power (Rp) of the SCOT, ISSR and RAPD techniques was 71.25, 46.62 and 30.63 for varieties and 21.38, 18.83 and 18.87 for genotypes, respectively. Standard Jaccard’s similarity coefficient of each marker technique revealed that similarity among varieties was less than that of the genotypes. Overall the Shannon index showed that relative genetic diversity of the varieties was high when SCOT markers were used but it was fairly similar when ISSR and RAPD markers were applied. The results of Analysis of Molecular Variance (AMOVA) revealed that variation within groups of varieties of a country was significantly higher than among groups. These results suggest that efficiency of SCOT, ISSR and RAPD markers was relatively the same in fingerprinting of genotypes but SCOT analysis is more effective in fingerprinting of potato varieties. Overall, our results indicate that SCOT, ISSR and RAPD fingerprinting could be used to detect polymorphism for genotypes and for varieties of potato.