ArticlePLoS genetics2018
Population sequencing reveals clonal diversity and ancestral inbreeding in the grapevine cultivar Chardonnay.
Article in PLoS genetics, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 49 papers.
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Who cites it
49 citing papers in PubMed.
- Automated Seed Morphometry Identifies Morphotypes Associated with Major Grapevine Haplotypic Lineages.Plants (Basel, Switzerland) · 2026Article
- A dual genome-methylome map of clonal evolution in grapevine.Genome biology · 2026Article
- Genome resequencing and custom genotyping elucidates the origin and dissemination history of an emblematic grapevine cultivar, 'Tempranillo Tinto'.Horticulture research · 2025Article
- Identification and Genetic Analysis of Downy Mildew Resistance in Intraspecific Hybrids ofPlants (Basel, Switzerland) · 2025Article
- Harnessing clonal diversity in grapevine: from genomic insights to modern breeding applications.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2025Review
- Mapping-based genome size estimation.BMC genomics · 2025Article
- Impacts of reproductive systems on grapevine genome and breeding.Nature communications · 2025Article
- Genome Scan Analysis for Advancing Knowledge and Conservation Strategies of Primitivo Clones (Plants (Basel, Switzerland) · 2025Article
- In Silico Identification of the Laccase-Encoding Gene in the Transcriptome of the Amazon River PrawnGenes · 2024Article
- Diploid genome assembly of the Malbec grapevine cultivar enables haplotype-aware analysis of transcriptomic differences underlying clonal phenotypic variation.Horticulture research · 2024Article
- The Genome of Vitis zhejiang-adstricta Strengthens the Protection and Utilization of the Endangered Ancient Grape Endemic to China.Plant & cell physiology · 2024Article
- The haplotype-resolved T2T genome of teinturier cultivar Yan73 reveals the genetic basis of anthocyanin biosynthesis in grapes.Horticulture research · 2023Article
- Identification of grapevine clones via high-throughput amplicon sequencing: a proof-of-concept study.G3 (Bethesda, Md.) · 2023Article
- Chimeras in Merlot grapevine revealed by phased assembly.BMC genomics · 2023Article
- The complete reference genome for grapevine (Horticulture research · 2023Article
- Article
- Exploring genetic diversity and population structure of a large grapevine (Frontiers in plant science · 2023Article
- Chardonnay Marc as a New Model for Upcycled Co-products in the Food Industry: Concentration of Diverse Natural Products Chemistry for Consumer Health and Sensory Benefits.Journal of agricultural and food chemistry · 2022Review
- De novo whole-genome assembly in an interspecific hybrid table grape, 'Shine Muscat'.DNA research : an international journal for rapid publication of reports on genes and genomes · 2022Article
- Somatic mutations during rapid clonal domestication ofEvolutionary applications · 2022Article
Corrections and comments
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Authors and funding
8 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Chardonnay is the basis of some of the world's most iconic wines and its success is underpinned by a historic program of clonal selection. There are numerous clones of Chardonnay available that exhibit differences in key viticultural and oenological traits that have arisen from the accumulation of somatic mutations during centuries of asexual propagation. However, the genetic variation that underlies these differences remains largely unknown. To address this knowledge gap, a high-quality, diploid-phased Chardonnay genome assembly was produced from single-molecule real time sequencing, and combined with re-sequencing data from 15 different Chardonnay clones. There were 1620 markers identified that distinguish the 15 clones. These markers were reliably used for clonal identification of independently sourced genomic material, as well as in identifying a potential genetic basis for some clonal phenotypic differences. The predicted parentage of the Chardonnay haplomes was elucidated by mapping sequence data from the predicted parents of Chardonnay (Gouais blanc and Pinot noir) against the Chardonnay reference genome. This enabled the detection of instances of heterosis, with differentially-expanded gene families being inherited from the parents of Chardonnay. Most surprisingly however, the patterns of nucleotide variation present in the Chardonnay genome indicate that Pinot noir and Gouais blanc share an extremely high degree of kinship that has resulted in the Chardonnay genome displaying characteristics that are indicative of inbreeding.
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