ArticleBMC genomics2014
Mating system shifts and transposable element evolution in the plant genus Capsella.
Article in BMC genomics, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 29 papers.
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Who cites it
29 citing papers in PubMed.
- T2T genomes ofGenome research · 2026Article
- Simple sequence repeats and their expansions: role in plant development, environmental response and adaptation.The New phytologist · 2025Review
- Hill-Robertson interference may bias the inference of fitness effects of new mutations in highly selfing species.Evolution; international journal of organic evolution · 2025Article
- Chromosome-Scale Assembly of Capsella orientalis, Maternal Progenitor of Cosmopolitan Allotetraploid C. bursa-pastoris.Genome biology and evolution · 2025Article
- Hill-Robertson interference may bias the inference of fitness effects of new mutations in highly selfing species.bioRxiv : the preprint server for biology · 2024Article
- Causes and Consequences of Varying Transposable Element Activity: An Evolutionary Perspective.Annual review of genomics and human genetics · 2024Review
- Article
- Chromosome-level Genome Assembly of Euphorbia peplus, a Model System for Plant Latex, Reveals that Relative Lack of Ty3 Transposons Contributed to Its Small Genome Size.Genome biology and evolution · 2023Article
- Annotation of thePlants (Basel, Switzerland) · 2023Article
- Species-specific chromatin landscape determines how transposable elements shape genome evolution.eLife · 2022Article
- Transposable Elements: Distribution, Polymorphism, and Climate Adaptation inFrontiers in plant science · 2022Article
- Article
- Population Genomics of Transitions to Selfing in Brassicaceae Model Systems.Methods in molecular biology (Clifton, N.J.) · 2020Article
- Transposable elements drive rapid phenotypic variation inProceedings of the National Academy of Sciences of the United States of America · 2019Article
- Article
- Outbreeders pull harder in a parental tug-of-war.Proceedings of the National Academy of Sciences of the United States of America · 2018Article
- Selfish genetic elements.PLoS genetics · 2018Review
- Transposable Elements Contribute to the Adaptation of Arabidopsis thaliana.Genome biology and evolution · 2018Article
- Parallel Evolution of Common Allelic Variants Confers Flowering Diversity inThe Plant cell · 2018Article
- Balancing selection and trans-specific polymorphisms.Genome biology · 2017Article
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6 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundDespite having predominately deleterious fitness effects, transposable elements (TEs) are major constituents of eukaryote genomes in general and of plant genomes in particular. Although the proportion of the genome made up of TEs varies at least four-fold across plants, the relative importance of the evolutionary forces shaping variation in TE abundance and distributions across taxa remains unclear. Under several theoretical models, mating system plays an important role in governing the evolutionary dynamics of TEs. Here, we use the recently sequenced Capsella rubella reference genome and short-read whole genome sequencing of multiple individuals to quantify abundance, genome distributions, and population frequencies of TEs in three recently diverged species of differing mating system, two self-compatible species (C. rubella and C. orientalis) and their self-incompatible outcrossing relative, C. grandiflora.
resultsWe detect different dynamics of TE evolution in our two self-compatible species; C. rubella shows a small increase in transposon copy number, while C. orientalis shows a substantial decrease relative to C. grandiflora. The direction of this change in copy number is genome wide and consistent across transposon classes. For insertions near genes, however, we detect the highest abundances in C. grandiflora. Finally, we also find differences in the population frequency distributions across the three species.
conclusionOverall, our results suggest that the evolution of selfing may have different effects on TE evolution on a short and on a long timescale. Moreover, cross-species comparisons of transposon abundance are sensitive to reference genome bias, and efforts to control for this bias are key when making comparisons across species.
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