Molecular characterization of potato cultivars using SSR markers

Abstract

The potato crop has a very narrow genetic base, so the use of molecular markers is a very important tool in the characterization of germplasm banks and evaluation of genetic divergence. The objective of this study was to identify, using microsatellite or simple sequence repeat (SSR) markers, 38 accessions of potato from two collections of commercial cultivars. For the molecular characterization 10 loci were used, generating a total of 46 alleles, which were analyzed as binary data. A cluster analysis was performed with the Jaccard´s similarity coefficient and the UPGMA method, using the software NTSYSpc. On average, the number of alleles per locus was 4.6, ranging from two alleles for primers STM1049, STM 1053 and STM 1104 to 12 alleles per locus for primer STM0019a. Of the 46 alleles, only five were monomorphic, therefore presenting 89.1% polymorphism. The polymorphism information content (PIC) varied from 0.13 to 0.86, with an average of 0.54. The Jaccard´s coefficient varied from 0.41 to 0.93, showing high genetic variability among accessions. Two possible duplicates [Atlantic (Canada) and Atlantic (Chile), and Colorado and Ágata (EPAMIG) (duplicates with these SSRs, which did not separate them)] were identified. High similarity was also shown by cultivars Chipie and Melodie (EPAMIG), Voyager and Gourmandine (EPAMIG), Eole and Caesar (EPAMIG), and Cupido and Santé (Pirassu). The most genetically divergent accessions (Lady Rosetta and HPC-7B) were also identified.

Simple sequence repeat analysis of new potato varieties developed in Alberta, Canada

“…In total, 44 unique alleles were detected for the 10 different loci, and the number of alleles per locus ranged from two for STPoAc58 to six for STM0030 and STM0037, with an average of 4.4 (Table ). This average number of alleles per locus was similar to those reported by Namugga, Sibiya, Melis, and Barekye () (avg = 3.9), Favoretto, Veasey, and Melo () (avg = 4.6) and Bali et al. () (avg = 4.6), but lower than in Fu et al.…”

The selection and validation of a marker set for the differentiation of onion cultivars from the Czech Republic

“…Such an H value has been shown to be appropriate for the differentiation of various species, either propagated vegetatively or through self-pollinating, as indicated by other authors (Favoretto et al 2011;Gong & Deng 2012;Wang et al 2013). Thus, we concluded that our set of markers generated a sufficient number of data-points to allow for an unambiguous distinction of the analysed cultivars.…”

Microsatellite analysis indicates the specific genetic basis of Czech bolting garlic

“…The value is comparable to that (0.62) obtained by Smith et al (1997) for wheat SSRs. Moreover, such an H value was shown to be appropriate for the differentiation of various species, either vegetatively propagated or self-pollinating, as indicated by other authors (Favoretto et al 2011;Gong & Deng 2012;Wang et al 2013). Thus, we concluded that our set of markers generated a sufficient number of data points to allow for an unambiguous distinction of the analysed varieties.…”