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Transposon age and non-CG methylation

Author

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  • Zhengming Wang

    (University of Cambridge)

  • David C. Baulcombe

    (University of Cambridge)

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.

Suggested Citation

  • Zhengming Wang & David C. Baulcombe, 2020. "Transposon age and non-CG methylation," Nature Communications, Nature, vol. 11(1), pages 1-9, December.
    • Handle: RePEc:nat:natcom:v:11:y:2020:i:1:d:10.1038_s41467-020-14995-6
    DOI: 10.1038/s41467-020-14995-6
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    Cited by:

    1. Peng Ni & Neng Huang & Fan Nie & Jun Zhang & Zhi Zhang & Bo Wu & Lu Bai & Wende Liu & Chuan-Le Xiao & Feng Luo & Jianxin Wang, 2021. "Genome-wide detection of cytosine methylations in plant from Nanopore data using deep learning," Nature Communications, Nature, vol. 12(1), pages 1-11, December.
    2. Li He & Huan Huang & Mariem Bradai & Cheng Zhao & Yin You & Jun Ma & Lun Zhao & Rosa Lozano-Durán & Jian-Kang Zhu, 2022. "DNA methylation-free Arabidopsis reveals crucial roles of DNA methylation in regulating gene expression and development," Nature Communications, Nature, vol. 13(1), pages 1-16, December.

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