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Mechanism for full-length RNA processing of Arabidopsis genes containing intragenic heterochromatin

Author

Listed:
  • Hidetoshi Saze

    (Okinawa Institute of Science and Technology
    PRESTO, Japan Science and Technology Agency (JST))

  • Junko Kitayama

    (National Institute of Genetics)

  • Kazuya Takashima

    (National Institute of Genetics)

  • Saori Miura

    (Okinawa Institute of Science and Technology)

  • Yoshiko Harukawa

    (Okinawa Institute of Science and Technology)

  • Tasuku Ito

    (National Institute of Genetics
    Graduate School of Science, The University of Tokyo, Hongo)

  • Tetsuji Kakutani

    (National Institute of Genetics
    Graduate School of Science, The University of Tokyo, Hongo)

Abstract

Genomes of higher eukaryotes contain many transposable elements, which often localize within the transcribed regions of active genes. Although intragenic transposable elements can be silenced to form heterochromatin, the impact of intragenic heterochromatin on transcription and RNA processing remains largely unexplored. Here we show using a flowering plant, Arabidopsis, that full-length transcript formation over intragenic heterochromatin depends on a protein named IBM2 (Increase in Bonsai Methylation 2), which has a Bromo-Adjacent Homology domain and an RNA recognition motif. Mutation of ibm2 triggers premature termination of transcripts with 3′ RNA processing around intragenic heterochromatin at loci including the H3K9 demethylase gene IBM1. The need for IBM2 is circumvented in variant alleles that lack the heterochromatic domain. Our results reveal a mechanism that masks deleterious effects of intragenic heterochromatin, providing evolutionary sources for genetic and epigenetic variations.

Suggested Citation

  • Hidetoshi Saze & Junko Kitayama & Kazuya Takashima & Saori Miura & Yoshiko Harukawa & Tasuku Ito & Tetsuji Kakutani, 2013. "Mechanism for full-length RNA processing of Arabidopsis genes containing intragenic heterochromatin," Nature Communications, Nature, vol. 4(1), pages 1-9, October.
    • Handle: RePEc:nat:natcom:v:4:y:2013:i:1:d:10.1038_ncomms3301
    DOI: 10.1038/ncomms3301
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    Cited by:

    1. 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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