ArticleGenome biology2013
Distribution, functional impact, and origin mechanisms of copy number variation in the barley genome.
Article in Genome biology, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 68 papers.
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Who cites it
68 citing papers in PubMed.
- Next-Generation Genotyping: Innovations Driving Plant Genomic Improvement.Life (Basel, Switzerland) · 2026Review
- Fine-mapping, candidate gene identification, and marker development for the apple scab resistance gene Rvi2.Journal of experimental botany · 2026Article
- Genome-Wide Analyses of Copy Number Variants in 751 Populus trichocarpa Individuals From Natural Populations.Genome biology and evolution · 2025Article
- A Systematic Review of the Advances and New Insights into Copy Number Variations in Plant Genomes.Plants (Basel, Switzerland) · 2025Review
- A comprehensive map of DNA-segment copy number variation in 491 genomes of common wheat uncovers genes associated with multiple agronomic traits.Plant communications · 2025Article
- A view of the pan-genome of domesticated Cowpea (Vigna unguiculata [L.] Walp.).The plant genome · 2024Article
- Copy number variations at theFrontiers in plant science · 2024Article
- The NLRomes of Zea mays NAM founder lines and Zea luxurians display presence-absence variation, integrated domain diversity, and mobility.Molecular plant pathology · 2023Article
- Structural variation of GL1 gene determines the trichome formation in Brassica juncea.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2023Article
- Comparative gene retention analysis in barley, wild emmer, and bread wheat pangenome lines reveals factors affecting gene retention following gene duplication.BMC biology · 2023Article
- Accurate prediction of quantitative traits with failed SNP calls in canola and maize.Frontiers in plant science · 2023Article
- Fine mapping of a stripe rust resistance gene YrZM175 in bread wheat.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2022Article
- Structural variants in the barley gene pool: precision and sensitivity to detect them using short-read sequencing and their association with gene expression and phenotypic variation.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2022Article
- The rice pangenome branches out.Cell research · 2022Article
- Novel Fusarium wilt resistance genes uncovered in natural and cultivated strawberry populations are found on three non-homoeologous chromosomes.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2022Article
- Oxford Nanopore and Bionano Genomics technologies evaluation for plant structural variation detection.BMC genomics · 2022Article
- Genomic prediction of the recombination rate variation in barley - A route to highly recombinogenic genotypes.Plant biotechnology journal · 2022Article
- CNVs with adaptive potential inLife science alliance · 2022Article
- How the pan-genome is changing crop genomics and improvement.Genome biology · 2021Review
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8 more citing papers are in PubMed but not listed here.
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Authors and funding
17 authors.
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Abstract
backgroundThere is growing evidence for the prevalence of copy number variation (CNV) and its role in phenotypic variation in many eukaryotic species. Here we use array comparative genomic hybridization to explore the extent of this type of structural variation in domesticated barley cultivars and wild barleys.
resultsA collection of 14 barley genotypes including eight cultivars and six wild barleys were used for comparative genomic hybridization. CNV affects 14.9% of all the sequences that were assessed. Higher levels of CNV diversity are present in the wild accessions relative to cultivated barley. CNVs are enriched near the ends of all chromosomes except 4H, which exhibits the lowest frequency of CNVs. CNV affects 9.5% of the coding sequences represented on the array and the genes affected by CNV are enriched for sequences annotated as disease-resistance proteins and protein kinases. Sequence-based comparisons of CNV between cultivars Barke and Morex provided evidence that DNA repair mechanisms of double-strand breaks via single-stranded annealing and synthesis-dependent strand annealing play an important role in the origin of CNV in barley.
conclusionsWe present the first catalog of CNVs in a diploid Triticeae species, which opens the door for future genome diversity research in a tribe that comprises the economically important cereal species wheat, barley, and rye. Our findings constitute a valuable resource for the identification of CNV affecting genes of agronomic importance. We also identify potential mechanisms that can generate variation in copy number in plant genomes.
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