ArticleGenome biology2017
DNA methylation dynamics during early plant life.
Article in Genome biology, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 116 papers.
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Who cites it
116 citing papers in PubMed, 249 citations in OpenAlex.
- Understanding epigenetic regulation in nonmodel plants: transcriptomic responses to seed demethylation in leaves and roots of the annual herb Erodium cicutarium (Geraniaceae).G3 (Bethesda, Md.) · 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
- DNA methylation remodeling reveals epigenetic regulation of early embryogenesis in Arabidopsis hybrid.Communications biology · 2026Article
- Aging drives a program of DNA methylation decay in plant organs.Science (New York, N.Y.) · 2026Article
- Reconfiguration of DNA methylation at growth resumption after winter dormancy in Kiwifruit.Scientific reports · 2025Article
- The genome of the vining fernProceedings of the National Academy of Sciences of the United States of America · 2025Article
- Decoding hybridization barriers: the molecular and genetic orchestration of the triploid block in Arabidopsis thaliana.BMC plant biology · 2025Review
- Epigenetics in the modern era of crop improvements.Science China. Life sciences · 2025Review
- Regulation of seed germination: ROS, epigenetic, and hormonal aspects.Journal of advanced research · 2025Review
- Demethylating drugs alter protoplast development, regeneration, and the genome stability of protoplast-derived regenerants of cabbage.BMC plant biology · 2025Article
- A space for time. Exploring temporal regulation of plant development across spatial scales.The Plant journal : for cell and molecular biology · 2025Review
- Epigenetic gene regulation in plants and its potential applications in crop improvement.Nature reviews. Molecular cell biology · 2025Review
- From chromatin to crop: epigenetic innovations in bioenergy systems.Frontiers in plant science · 2025Review
- DEMETER DNA demethylase reshapes the global DNA methylation landscape and controls cell identity transition during plant regeneration.BMC genomics · 2024Article
- Establishment of single-cell transcriptional states during seed germination.Nature plants · 2024Article
- DNA methylation variations underlie lettuce domestication and divergence.Genome biology · 2024Article
- Population genomics and epigenomics of Spirodela polyrhiza provide insights into the evolution of facultative asexuality.Communications biology · 2024Article
- Multi-omic analysis of the extension of broccoli quality during storage by folic acid.Journal of advanced research · 2024Article
- Profiling genome-wide methylation in two maples: Fine-scale approaches to detection with nanopore technology.Evolutionary applications · 2024Article
- Interplay between coding and non-coding regulation drives the Arabidopsis seed-to-seedling transition.Nature communications · 2024Article
56 more citing papers are in PubMed but not listed here.
Corrections and comments
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Authors and funding
7 authors at 2 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundCytosine methylation is crucial for gene regulation and silencing of transposable elements in mammals and plants. While this epigenetic mark is extensively reprogrammed in the germline and early embryos of mammals, the extent to which DNA methylation is reset between generations in plants remains largely unknown.
resultsUsing Arabidopsis as a model, we uncovered distinct DNA methylation dynamics over transposable element sequences during the early stages of plant development. Specifically, transposable elements and their relics show invariably high methylation at CG sites but increasing methylation at CHG and CHH sites. This non-CG methylation culminates in mature embryos, where it reaches saturation for a large fraction of methylated CHH sites, compared to the typical 10-20% methylation level observed in seedlings or adult plants. Moreover, the increase in CHH methylation during embryogenesis matches the hypomethylated state in the early endosperm. Finally, we show that interfering with the embryo-to-seedling transition results in the persistence of high CHH methylation levels after germination, specifically over sequences that are targeted by the RNA-directed DNA methylation (RdDM) machinery.
conclusionOur findings indicate the absence of extensive resetting of DNA methylation patterns during early plant life and point instead to an important role of RdDM in reinforcing DNA methylation of transposable element sequences in every cell of the mature embryo. Furthermore, we provide evidence that this elevated RdDM activity is a specific property of embryogenesis.
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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.