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A rapid inducible RNA decay system reveals fast mRNA decay in P-bodies

Author

Listed:
  • Lauren A. Blake

    (Johns Hopkins University School of Medicine
    Johns Hopkins University School of Medicine)

  • Leslie Watkins

    (Johns Hopkins University School of Medicine
    Johns Hopkins University School of Medicine)

  • Yang Liu

    (Johns Hopkins University School of Medicine
    Johns Hopkins University School of Medicine
    University of Utah)

  • Takanari Inoue

    (Johns Hopkins University School of Medicine
    Johns Hopkins University School of Medicine)

  • Bin Wu

    (Johns Hopkins University School of Medicine
    Johns Hopkins University School of Medicine
    Johns Hopkins University School of Medicine)

Abstract

RNA decay is vital for regulating mRNA abundance and gene expression. Existing technologies lack the spatiotemporal precision or transcript specificity to capture the stochastic and transient decay process. We devise a general strategy to inducibly recruit protein factors to modulate target RNA metabolism. Specifically, we introduce a Rapid Inducible Decay of RNA (RIDR) technology to degrade target mRNAs within minutes. The fast and synchronous induction enables direct visualization of mRNA decay dynamics in cells. Applying RIDR to endogenous ACTB mRNA reveals rapid formation and dissolution of RNA granules in pre-existing P-bodies. Time-resolved RNA distribution measurements demonstrate rapid RNA decay inside P-bodies, which is further supported by knocking down P-body constituent proteins. Light and oxidative stress modulate P-body behavior, potentially reconciling the contradictory literature about P-body function. This study reveals compartmentalized RNA decay kinetics, establishing RIDR as a pivotal tool for exploring the spatiotemporal RNA metabolism in cells.

Suggested Citation

  • Lauren A. Blake & Leslie Watkins & Yang Liu & Takanari Inoue & Bin Wu, 2024. "A rapid inducible RNA decay system reveals fast mRNA decay in P-bodies," Nature Communications, Nature, vol. 15(1), pages 1-14, December.
    • Handle: RePEc:nat:natcom:v:15:y:2024:i:1:d:10.1038_s41467-024-46943-z
    DOI: 10.1038/s41467-024-46943-z
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