ena-STUDY-Consiglio per la ricerca in agricoltura e l'analisi dell'economia agraria-30-05-2017-10:28:47:636-232
Genotype-by-sequencing disclosed genetic diversity and revealed unexpected synonymy in a representative collection of the Italian olive germplasm
We used genotyping-by-sequencing (GBS) to perform a genome-wide diversity study on a collection of 94 olive cultivars representative of the Italian germplasm. A reference-based and a reference-independent SNP calling pipeline generated 22,088 and 8,088 high-quality SNPs, respectively.Such SNP datasets were used to investigate genetic variation and establish relationships among the individuals across the population as independently assessed by a parametric and a non-parametric population structure analysis software. Even if the two pipelines generated a 3-fold difference in the number of SNPs, both unveiled wide genetic variability within Italian cultivars and allowed genotypes to be clustered based on the geographical area of cultivation as well as on traits related to morphology and fruit size.
We used genotyping-by-sequencing (GBS) to perform a genome-wide diversity study on a collection of 94 olive cultivars representative of the Italian germplasm. A reference-based and a reference-independent SNP calling pipeline generated 22,088 and 8,088 high-quality SNPs, respectively.Such SNP datasets were used to investigate genetic variation and establish relationships among the individuals across the population as independently assessed by a parametric and a non-parametric population structure analysis software. Even if the two pipelines generated a 3-fold difference in the number of SNPs, both unveiled wide genetic variability within Italian cultivars and allowed genotypes to be clustered based on the geographical area of cultivation as well as on traits related to morphology and fruit size.