Genetic-Relationship Assessment and Population Structure in Common Bean (Phaseolus vulgaris L.) Using SSR and SNP markers

Common bean (Phaseolus vulgaris L.) is a diverse legume species which are separated into Andean and Mesoamerican genepools. The knowledge of the genetic-relationship level of accessions is important for future genetic analysis. The main objective of this research was to determine the genetic diverstiy level in 173 common bean accessions collected all around the world and to study population structure of common beans using simple sequence repeat (SSR) and single nucleotide polymorphism (SNP).  For the purpose of determine SNP, we used a GBS protocol based on next generation sequencing technologies. After filtering, 33 microsatellite and 16,366 SNP markers in common bean were genotyped in this study. Using a model-based approach, implemented in the software STRUCTURE, we identified three populations in common bean, including one of Andean and one of Mesoamerican origins). Andean genotypes were included in POP I and Mesoamerican geneotyeps belonged to POP III. STRUCTURE analysis confirmed genetic relationships among accessions and populations observed with a Principal Coordinate Analysis (PCA) which also clustered common bean accessions in three groups. Genetic distances between cultivars were determined based on the marker data and calculated between 0,002 (#61 Sırık boncuk-Tokat and #130 Yerli 23 koy cesidi- Antalya) - 0,962 (#47 Hatay taze oturak- Bandirma and #82 Taze fasulye- Havsa, Edirne). These findings are useful for parental selection consideration in common bean breeding, and the utility of GBS in genetic-diversity analysis of genetic-relationship assessment.