Evaluation of SSR and SNP markers in Rubus glaucus Benth progenitors selection

Abstract

Abstract Rubus glaucus Benth (known as “mora de castilla”) is a Colombian agricultural product, with probably, the major potential. This fruit combines features of Idaeobatus and Rubus subgenera. Despite its recognized importance in the economy of small producers, this crop has received little technological development; as a result, sowing procedures of this specie is done by using local cultivars asexually propagated by producers. Associated Rubus producers in Colombia has noticed the necessity to formalize the offer of planting material, starting with plant breeding programs tending to the obtention of more productive varieties with morphological features that facilitates cultural activities. This study presents the results of the evaluation of SSR and SNPs markers obtained in previous experimental works from a RNA-Seq transcriptome analysis. It was evaluated 15 promissory R. glaucus cultivars, which could be potential progenitors in future breeding schemes. Genetic characterization was accomplished by testing 22 SSR microsatellite and 78 single nucleotide polymorphisms (SNPs) markers. From evaluated SSR markers, 15 yielded positive PCR amplification generating 29 loci and 58 alleles. From evaluated SNPs markers, 36 yielded positive PCR amplification. Obtained sequences from amplified products with SNPs showed high homology with species belonging to Rosaceae family. Selection criteria of progenitors were based on the results of molecular characterizations and useful morphological features in the culture management. This research demonstrates the utility of molecular markers to assess genetic diversity of potential progenitors susceptible to plant breeding processes. This process, highly known as development of parental populations, determines in a great manner the success of plant breeding processes.