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6mer seed toxicity in tumor suppressive microRNAs

Author

Listed:
  • Quan Q. Gao

    (Northwestern University)

  • William E. Putzbach

    (Northwestern University)

  • Andrea E. Murmann

    (Northwestern University)

  • Siquan Chen

    (The University of Chicago)

  • Aishe A. Sarshad

    (NIH)

  • Johannes M. Peter

    (DigiPen Institute of Technology)

  • Elizabeth T. Bartom

    (Northwestern University)

  • Markus Hafner

    (NIH)

  • Marcus E. Peter

    (Northwestern University
    Northwestern University)

Abstract

Many small-interfering (si)RNAs are toxic to cancer cells through a 6mer seed sequence (positions 2–7 of the guide strand). Here we performed an siRNA screen with all 4096 6mer seeds revealing a preference for guanine in positions 1 and 2 and a high overall G or C content in the seed of the most toxic siRNAs for four tested human and mouse cell lines. Toxicity of these siRNAs stems from targeting survival genes with C-rich 3′UTRs. The master tumor suppressor miRNA miR-34a-5p is toxic through such a G-rich 6mer seed and is upregulated in cells subjected to genotoxic stress. An analysis of all mature miRNAs suggests that during evolution most miRNAs evolved to avoid guanine at the 5′ end of the 6mer seed sequence of the guide strand. In contrast, for certain tumor-suppressive miRNAs the guide strand contains a G-rich toxic 6mer seed, presumably to eliminate cancer cells.

Suggested Citation

  • Quan Q. Gao & William E. Putzbach & Andrea E. Murmann & Siquan Chen & Aishe A. Sarshad & Johannes M. Peter & Elizabeth T. Bartom & Markus Hafner & Marcus E. Peter, 2018. "6mer seed toxicity in tumor suppressive microRNAs," Nature Communications, Nature, vol. 9(1), pages 1-16, December.
    • Handle: RePEc:nat:natcom:v:9:y:2018:i:1:d:10.1038_s41467-018-06526-1
    DOI: 10.1038/s41467-018-06526-1
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    Cited by:

    1. Bidur Paudel & Si-Yeon Jeong & Carolina Pena Martinez & Alexis Rickman & Ashley Haluck-Kangas & Elizabeth T. Bartom & Kristina Fredriksen & Amira Affaneh & John A. Kessler & Joseph R. Mazzulli & Andre, 2024. "Death Induced by Survival gene Elimination (DISE) correlates with neurotoxicity in Alzheimer’s disease and aging," Nature Communications, Nature, vol. 15(1), pages 1-19, December.

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