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Fast and sensitive multivalent spatial pattern-recognition for circular RNA detection

Author

Listed:
  • Zhixin Zhou

    (Southeast University)

  • Bing Han

    (Southeast University)

  • Yu Wang

    (Southeast University)

  • Nina Lin

    (Southeast University)

  • Zhongqiu Zhou

    (Southeast University)

  • Yuan Zhang

    (Southeast University)

  • Ying Bai

    (Southeast University)

  • Ling Shen

    (Southeast University)

  • Yanfei Shen

    (Southeast University)

  • Yuanjian Zhang

    (Southeast University)

  • Honghong Yao

    (Southeast University
    Nantong University
    Southeast University
    Nanjing Medical University)

Abstract

While circular RNAs (circRNAs) exhibit lower abundance compared to corresponding linear RNAs, they demonstrate potent biological functions. Nevertheless, challenges arise from the low concentration and distinctive structural features of circRNAs, rendering existing methods operationally intricate and less sensitive. Here, we engineer an intelligent tetrahedral DNA framework (TDF) possessing precise spatial pattern-recognition properties with exceptional sensing speed and sensitivity for circRNAs. The signal output of TDF sensor occurs only when multivalent spatial pattern-recognition of a circRNA in unamplified samples. Using this sensor, we visualize the real-time response of endogenous circRNA expression in vitro neuronal cells and in vivo brain between pre-stroke and post-stroke male mice, identify the patients with acute ischemic stroke in clinical samples, as well as track the delivery of circRNA in photochromic stroked animal model. Thus, the TDF sensor provides a fast and sensitive tool for the detection of circRNA abundance in both physiological and pathophysiological conditions.

Suggested Citation

  • Zhixin Zhou & Bing Han & Yu Wang & Nina Lin & Zhongqiu Zhou & Yuan Zhang & Ying Bai & Ling Shen & Yanfei Shen & Yuanjian Zhang & Honghong Yao, 2024. "Fast and sensitive multivalent spatial pattern-recognition for circular RNA detection," Nature Communications, Nature, vol. 15(1), pages 1-15, December.
    • Handle: RePEc:nat:natcom:v:15:y:2024:i:1:d:10.1038_s41467-024-55364-x
    DOI: 10.1038/s41467-024-55364-x
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    References listed on IDEAS

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    1. Andrew N. Clarkson & Ben S. Huang & Sarah E. MacIsaac & Istvan Mody & S. Thomas Carmichael, 2010. "Reducing excessive GABA-mediated tonic inhibition promotes functional recovery after stroke," Nature, Nature, vol. 468(7321), pages 305-309, November.
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