Mapping and characterization of new EST-derived microsatellites for potato (Solanum tuberosum L.)

Abstract

Microsatellites, or simple sequence repeats (SSRs) are very useful molecular markers for a number of plant species. They are commonly used in cultivar identification, plant variety protection, as anchor markers in genetic mapping, and in marker-assisted breeding. Early development of SSRs was hampered by the high cost of library screening and clone sequencing. Currently, large public SSR datasets exist for many crop species, but the number of publicly available, mapped SSRs for potato is relatively low (approximately 100). We have utilized a database mining approach to identify SSR-containing sequences in The Institute For Genomic Research Potato Gene Index database (http://www.tigr.org), focusing on sequences with size polymorphisms present in this dataset. Ninety-four primer pairs flanking SSR sequences were synthesized and used to amplify potato DNA. This study rendered 61 useful SSRs that were located in pre-existing genetic maps, fingerprinted in a set of 30 cultivars from South America, North America, and Europe or a combination thereof. The high proportion of success (65%) of expressed sequence tag-derived SSRs obtained in this work validates the use of transcribed sequences as a source of markers. These markers will be useful for genetic mapping, taxonomic studies, marker-assisted selection, and cultivar identification.

Single Nucleotide Polymorphisms in the Allene Oxide Synthase 2 Gene Are Associated With Field Resistance to Late Blight in Populations of Tetraploid Potato Cultivars

“…Genetic mapping of the SSR markers in the experimental mapping population F1840 (Gebhardt et al 2003) (http:/ /www.gabipd.org/database/maps.shtml) was consistent with previously identified chromosomal locations (Milbourne et al 1998;Feingold et al 2005). Principal component analysis using the SSR genotypic data showed that the BNA and SKP genotypes were intermixed (data not shown), indicating that the BNA and SKP populations were sampled from similar germplasm pools.…”

“…Simple sequence repeat (SSR) markers were PCR amplified from genomic DNA of tetraploid, heterozygous individuals using primers and conditions reported in Milbourne et al (1998) (STM**** markers in Figure 2) and Feingold et al (2005) (StI*** markers in Figure 2). SSR alleles were size separated on Spreadex gels (Elchrom Scientific, CH-6330 Cham, Switzerland) according to the supplier's instructions.…”

Molecular characterization and genetic diversity of potato cultivars using SSR and RAPD markers

“…The informativeness of the SSR primers ranged from 0.97 for primer StI046 to 0.21 for primer STM0019 (Table 3). Similarly, the PIC values in other studies of potato varieties also varied according to the primers tested, evidencing high information and polymorphism levels detected by SSR markers (Norero et al 2002, Feingold et al 2005.…”

Using SSR to Evaluate the Genetic Diversity of Potato Cultivars from Yunnan Province (SW China)

“…2) from those applied in other studies (Ghislain et al, 2004;Feingold et al, 2005;Reid and Kerr, 2007), based on high polymorphism and discrimination ability.…”