ArticleGenome biology2010
Substantial deletion overlap among divergent Arabidopsis genomes revealed by intersection of short reads and tiling arrays.
Article in Genome biology, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers.
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Who cites it
23 citing papers in PubMed.
- Genome wide landscaping of copy number variations for horse inter-breed variability.Animal biotechnology · 2025Article
- Structural variations in papaya genomes.BMC genomics · 2021Article
- AthCNV: A Map of DNA Copy Number Variations in the Arabidopsis Genome.The Plant cell · 2020Article
- CNVs into the wild: screening the genomes of conifer trees (Picea spp.) reveals fewer gene copy number variations in hybrids and links to adaptation.BMC genomics · 2017Article
- Between-species differences in gene copy number are enriched among functions critical for adaptive evolution in Arabidopsis halleri.BMC genomics · 2016Article
- The impact and origin of copy number variations in the Oryza species.BMC genomics · 2016Article
- Structural variations in plant genomes.Briefings in functional genomics · 2014Article
- A roadmap for functional structural variants in the soybean genome.G3 (Bethesda, Md.) · 2014Article
- Article
- Gramene 2013: comparative plant genomics resources.Nucleic acids research · 2014Article
- Copy number polymorphism in plant genomes.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2014Review
- Presence-absence variation in A. thaliana is primarily associated with genomic signatures consistent with relaxed selective constraints.Molecular biology and evolution · 2014Article
- Genome-wide copy number variations in Oryza sativa L.BMC genomics · 2013Article
- Suppression of Arabidopsis protophloem differentiation and root meristem growth by CLE45 requires the receptor-like kinase BAM3.Proceedings of the National Academy of Sciences of the United States of America · 2013Article
- Structural variants in the soybean genome localize to clusters of biotic stress-response genes.Plant physiology · 2012Article
- Natural genetic variation of root system architecture from Arabidopsis to Brachypodium: towards adaptive value.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2012Review
- Epigenetic and epigenomic variation in Arabidopsis thaliana.Trends in plant science · 2012Review
- Epiallelic variation in Arabidopsis thaliana.Cold Spring Harbor symposia on quantitative biology · 2012Review
- Context-dependent dual role of SKI8 homologs in mRNA synthesis and turnover.PLoS genetics · 2012Article
- Tandem quadruplication of HMA4 in the zinc (Zn) and cadmium (Cd) hyperaccumulator Noccaea caerulescens.PloS one · 2011Article
Corrections and comments
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Authors and funding
9 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Identification of small polymorphisms from next generation sequencing short read data is relatively easy, but detection of larger deletions is less straightforward. Here, we analyzed four divergent Arabidopsis accessions and found that intersection of absent short read coverage with weak tiling array hybridization signal reliably flags deletions. Interestingly, individual deletions were frequently observed in two or more of the accessions examined, suggesting that variation in gene content partly reflects a common history of deletion events.
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