High throughput analysis of grape genetic diversity as a tool for germplasm collection management
- 14 January 2011
- journal article
- Published by Springer Science and Business Media LLC in Theoretical and Applied Genetics
- Vol. 122 (6), 1233-1245
- https://doi.org/10.1007/s00122-010-1527-y
Abstract
Using 20 SSR markers well scattered across the 19 grape chromosomes, we analyzed 4,370 accessions of the INRA grape repository at Vassal, mostly cultivars of Vitis vinifera subsp. sativa (3,727), but also accessions of V. vinifera subsp. sylvestris (80), interspecific hybrids (364), and rootstocks (199). The analysis revealed 2,836 SSR single profiles: 2,323 sativa cultivars, 72 wild individuals (sylvestris), 306 interspecific hybrids, and 135 rootstocks, corresponding to 2,739 different cultivars in all. A total of 524 alleles were detected, with a mean of 26.20 alleles per locus. For the 2,323 cultivars of V. vinifera, 338 alleles were detected with a mean of 16.9 alleles per locus. The mean genetic diversity (GDI) was 0.797 and the level of heterozygosity was 0.76, with broad variation from 0.20 to 1. Interspecific hybrids and rootstocks were more heterozygous and more diverse (GDI = 0.839 and 0.865, respectively) than V. vinifera cultivars (GDI = 0.769), Vitis vinifera subsp. sylvestris being the least divergent with GDI = 0.708. Principal coordinates analysis distinguished the four groups. Slight clonal polymorphism was detected. The limit between clonal variation and cultivar polymorphism was set at four allelic differences out of 40. SSR markers were useful as a complementary tool to traditional ampelography for cultivar identification. Finally, a set of nine SSR markers was defined that was sufficient to distinguish 99.8% of the analyzed accessions. This set is suitable for routine characterization and will be valuable for germplasm management.This publication has 53 references indexed in Scilit:
- The SSR-based molecular profile of 1005 grapevine (Vitis vinifera L.) accessions uncovers new synonymy and parentages, and reveals a large admixture amongst varieties of different geographic originTheoretical and Applied Genetics, 2010
- A clarified position for solanum lycopersicum var. cerasiformein the evolutionary history of tomatoes (solanaceae)BMC Plant Biology, 2008
- Microsatellite-based molecular diversity of bread wheat germplasm and association mapping of wheat resistance to the Russian wheat aphidGenetica, 2008
- A SNP transferability survey within the genus VitisBMC Plant Biology, 2008
- A set of microsatellite markers with long core repeat optimized for grape (Vitis spp.) genotypingBMC Plant Biology, 2008
- Untranslated leader region polymorphism of Tvv1, a retrotransposon family, is a novel marker useful for analyzing genetic diversity and relatedness in the genus VitisTheoretical and Applied Genetics, 2007
- The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phylaNature, 2007
- An integrated SSR map of grapevine based on five mapping populationsTheoretical and Applied Genetics, 2006
- Development of a standard set of microsatellite reference alleles for identification of grape cultivarsTheoretical and Applied Genetics, 2004
- Evidence of a secondary grapevine domestication centre detected by SSR analysisTheoretical and Applied Genetics, 2003