ArticleThe Plant cell2015
Genome-Wide Mapping of Structural Variations Reveals a Copy Number Variant That Determines Reproductive Morphology in Cucumber.
Article in The Plant cell, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 81 papers.
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Who cites it
81 citing papers in PubMed.
- A copy-number variation generates a long-noncoding RNA that enhances ClBige1b expression to suppress cell expansion and seed growth in watermelon.Plant communications · 2026Article
- Pangenome-resolved structural variation drives adaptation and trait evolution in cucumber.Nature genetics · 2026Article
- Graph-based pan-genome reveals structural variations associated with agronomic traits in mung bean.Nature genetics · 2026Article
- Skeleton-guided 3D digitization standardizes complex trait phenotyping and supports reproducible locus discovery in cucumber.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Article
- Genome-wide association studies in horticultural crops: decoding genetic diversity for precision breeding.Horticulture research · 2026Article
- Graph-based pangenome reveals structural variation dynamics during cucumber breeding.Nature genetics · 2026Article
- Integrated genome-wide domestication and association analyses reveal the complex genetic basis of parthenocarpy during cucumber domestication.Molecular horticulture · 2026Article
- A high-density SNP linkage map reveals a major LG3 QTL hotspot controlling early-maturity-related traits in ridge gourd (Frontiers in plant science · 2026Article
- Molecular mapping of flowering traits revealed a major QTL, qDFFF3.3.1 associated with early maturity in cucumber (Cucumis sativus L.).BMC plant biology · 2025Article
- Genome assemblies of IndianNAR genomics and bioinformatics · 2025Article
- An allelic resolution gene atlas for tetraploid potato provides insights into tuberization and stress resilience.The Plant journal : for cell and molecular biology · 2025Article
- Beautiful and delicious mutants: The origins, fates, and benefits of molecular sequence variation in plant evolution and breeding.Plant physiology · 2025Review
- Climate change and plant genomic plasticity.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2025Review
- A Systematic Review of the Advances and New Insights into Copy Number Variations in Plant Genomes.Plants (Basel, Switzerland) · 2025Review
- Pan-genomic analysis highlights genes associated with agronomic traits and enhances genomics-assisted breeding in alfalfa.Nature genetics · 2025Article
- The chromosome-scale genomes of two cultivated safflowers (Carthamus tinctorius) provide insights into the genetic diversity resulting from domestication.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2025Article
- Developmental innovation of inferior ovaries and flower sex orchestrated by KNOX1 in cucurbits.Nature plants · 2025Article
- Genome-wide identification of copy number variation in diverse black pepper accessions.Planta · 2025Article
- Current and future pangenomic research in cucurbit crops.Breeding science · 2025Article
- Revisit and explore the ethylene-independent mechanism of sex expression in cucumber (Cucumis sativus).Plant reproduction · 2024Review
21 more citing papers are in PubMed but not listed here.
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17 authors.
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Abstract
Structural variations (SVs) represent a major source of genetic diversity. However, the functional impact and formation mechanisms of SVs in plant genomes remain largely unexplored. Here, we report a nucleotide-resolution SV map of cucumber (Cucumis sativas) that comprises 26,788 SVs based on deep resequencing of 115 diverse accessions. The largest proportion of cucumber SVs was formed through nonhomologous end-joining rearrangements, and the occurrence of SVs is closely associated with regions of high nucleotide diversity. These SVs affect the coding regions of 1676 genes, some of which are associated with cucumber domestication. Based on the map, we discovered a copy number variation (CNV) involving four genes that defines the Female (F) locus and gives rise to gynoecious cucumber plants, which bear only female flowers and set fruit at almost every node. The CNV arose from a recent 30.2-kb duplication at a meiotically unstable region, likely via microhomology-mediated break-induced replication. The SV set provides a snapshot of structural variations in plants and will serve as an important resource for exploring genes underlying key traits and for facilitating practical breeding in cucumber.
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