ArticlePloS one2018
Extended diversity analysis of cultivated grapevine Vitis vinifera with 10K genome-wide SNPs.
Article in PloS one, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 84 papers.
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Who cites it
84 citing papers in PubMed.
- Automated Seed Morphometry Identifies Morphotypes Associated with Major Grapevine Haplotypic Lineages.Plants (Basel, Switzerland) · 2026Article
- Pangenomic analyses in the cultivated grapevine confirm high genomic collinearity and extensive dispensable gene content likely involved in adaptation.G3 (Bethesda, Md.) · 2026Article
- Optimized protocol for efficient generation, confirmation, transformation, and CRISPR editing of grapevine hairy roots.Journal of experimental botany · 2026Article
- Evolution of crop phenotypic spaces through domestication.The New phytologist · 2026Article
- Ancient DNA reveals 4000 years of grapevine diversity, viticulture and clonal propagation in France.Nature communications · 2026Article
- A topological map of the genetic components of grapevine-Admixture meets SOMmelier machine learning.PLoS computational biology · 2026Article
- An advanced genotyping tool to inspect grapevine variability: the AxiomFrontiers in plant science · 2026Article
- Article
- The genome ofHorticulture research · 2025Article
- Seed Morphometry Reveals Two Major Groups in Spanish Grapevine Cultivars.Plants (Basel, Switzerland) · 2025Article
- Parental Reconstruction from a Half-Sib Population of Stoneless JujubePlants (Basel, Switzerland) · 2024Article
- Single nucleotide polymorphism (SNP) analysis reveals ancestry and genetic diversity of cultivated and wild grapevines in Croatia.BMC plant biology · 2024Article
- Seed morphometrics unravels the evolutionary history of grapevine in France.Scientific reports · 2024Article
- Haplotype-resolved genome assembly and implementation of VitExpress, an open interactive transcriptomic platform for grapevine.Proceedings of the National Academy of Sciences of the United States of America · 2024Article
- Genetic relationships and introgression events between wild and cultivated grapevines (Vitis vinifera L.): focus on Italian Lambruscos.Scientific reports · 2024Article
- Unraveling the diversity and cultural heritage of fruit crops through paleogenomics.Trends in genetics : TIG · 2024Review
- Dissecting the complex genetic basis of pre- and post-harvest traits inHorticulture research · 2024Article
- Novel loci associated with resistance to downy and powdery mildew in grapevine.Frontiers in plant science · 2024Article
- The genetic characterization of grapevines prospected in old Serbian vineyards reveals multiple relationships between traditional varieties of the Balkans.Frontiers in plant science · 2024Article
- TaqMan® and HRM approaches for SNP genotyping in genetic traceability of musts and wines.Current research in food science · 2024Article
24 more citing papers are in PubMed but not listed here.
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Authors and funding
18 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Grapevine is a very important crop species that is mainly cultivated worldwide for fruits, wine and juice. Identification of the genetic bases of performance traits through association mapping studies requires a precise knowledge of the available diversity and how this diversity is structured and varies across the whole genome. An 18k SNP genotyping array was evaluated on a panel of Vitis vinifera cultivars and we obtained a data set with no missing values for a total of 10207 SNPs and 783 different genotypes. The average inter-SNP spacing was ~47 kbp, the mean minor allele frequency (MAF) was 0.23 and the genetic diversity in the sample was high (He = 0.32). Fourteen SNPs, chosen from those with the highest MAF values, were sufficient to identify each genotype in the sample. Parentage analysis revealed 118 full parentages and 490 parent-offspring duos, thus confirming the close pedigree relationships within the cultivated grapevine. Structure analyses also confirmed the main divisions due to an eastern-western gradient and human usage (table vs. wine). Using a multivariate approach, we refined the structure and identified a total of eight clusters. Both the genetic diversity (He, 0.26-0.32) and linkage disequilibrium (LD, 28.8-58.2 kbp) varied between clusters. Despite the short span LD, we also identified some non-recombining haplotype blocks that may complicate association mapping. Finally, we performed a genome-wide association study that confirmed previous works and also identified new regions for important performance traits such as acidity. Taken together, all the results contribute to a better knowledge of the genetics of the cultivated grapevine.
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