ArticleNature communications2020
Transposon age and non-CG methylation.
Article in Nature communications, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 42 papers.
What it found
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Who cites it
42 citing papers in PubMed, 73 citations in OpenAlex.
- Repeated drought induces a reproducible DNA methylation response associated with gene expression inbioRxiv : the preprint server for biology · 2026Article
- Methionine overaccumulation reinforces heterochromatic non-CG hypermethylation and transposon silencing in Arabidopsis.Plant physiology · 2026Article
- Crossover control: A key to unlocking genetic diversity in plant breeding.Journal of integrative plant biology · 2026Review
- Comprehensive benchmarking of tools for nanopore-based detection of DNA methylation.Nature communications · 2026Article
- Transposon expansion is associated with reorganization of small RNA and DNA methylation landscapes in the morphologically minimal angiosperm Wolffia brasiliensis.The Plant journal : for cell and molecular biology · 2026Article
- The histone variant H2A.W restricts heterochromatic crossovers inProceedings of the National Academy of Sciences of the United States of America · 2025Article
- Accurate cross-species 5mC detection for Oxford Nanopore sequencing in plants with DeepPlant.Nature communications · 2025Article
- Atypical epigenetic and small RNA control of degenerated transposons and their fragments in clonally reproducingGenome research · 2025Article
- Review
- An atlas of the tomato epigenome reveals that KRYPTONITE shapes TAD-like boundaries through the control of H3K9ac distribution.Proceedings of the National Academy of Sciences of the United States of America · 2024Article
- H1 restricts euchromatin-associated methylation pathways from heterochromatic encroachment.eLife · 2024Article
- Profiling genome-wide methylation in two maples: Fine-scale approaches to detection with nanopore technology.Evolutionary applications · 2024Article
- Evolutionary insights into 3D genome organization and epigenetic landscape ofLife science alliance · 2024Article
- Warmer temperature during asexual reproduction induce methylome, transcriptomic, and lasting phenotypic changes inHorticulture research · 2023Article
- Multi-omic analyses reveal the unique properties of chia (Salvia hispanica) seed metabolism.Communications biology · 2023Article
- Article
- On the prediction of non-CG DNA methylation using machine learning.NAR genomics and bioinformatics · 2023Article
- Technology-driven approaches for meiosis research in tomato and wild relatives.Plant reproduction · 2023Article
- Contribution of RdDM to the ecotype-specific differential methylation on conserved as well as highly variable regions between Arabidopsis ecotypes.BMC genomics · 2023Article
- Rearranged Endogenized Plant Pararetroviruses as Evidence of Heritable RNA-based Immunity.Molecular biology and evolution · 2023Article
Corrections and comments
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Authors and funding
2 authors at 1 institution in 1 country.
Funding
Abstract
Silencing of transposable elements (TEs) is established by small RNA-directed DNA methylation (RdDM). Maintenance of silencing is then based on a combination of RdDM and RNA-independent mechanisms involving DNA methyltransferase MET1 and chromodomain DNA methyltransferases (CMTs). Involvement of RdDM, according to this model should decrease with TE age but here we show a different pattern in tomato and Arabidopsis. In these species the CMTs silence long terminal repeat (LTR) transposons in the distal chromatin that are younger than those affected by RdDM. To account for these findings we propose that, after establishment of primary RdDM as in the original model, there is an RNA-independent maintenance phase involving CMTs followed by secondary RdDM. This progression of epigenetic silencing in the gene-rich distal chromatin is likely to influence the transcriptome either in cis or in trans depending on whether the mechanisms are RNA-dependent or -independent.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.