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Programming a topologically constrained DNA nanostructure into a sensor

Author

Listed:
  • Meng Liu

    (McMaster University
    Biointerfaces Institute, McMaster University)

  • Qiang Zhang

    (Biointerfaces Institute, McMaster University)

  • Zhongping Li

    (McMaster University)

  • Jimmy Gu

    (McMaster University)

  • John D. Brennan

    (Biointerfaces Institute, McMaster University)

  • Yingfu Li

    (McMaster University
    Biointerfaces Institute, McMaster University)

Abstract

Many rationally engineered DNA nanostructures use mechanically interlocked topologies to connect individual DNA components, and their physical connectivity is achieved through the formation of a strong linking duplex. The existence of such a structural element also poses a significant topological constraint on functions of component rings. Herein, we hypothesize and confirm that DNA catenanes with a strong linking duplex prevent component rings from acting as the template for rolling circle amplification (RCA). However, by using an RNA-containing DNA [2] catenane with a strong linking duplex, we show that a stimuli-responsive RNA-cleaving DNAzyme can linearize one component ring, and thus enable RCA, producing an ultra-sensitive biosensing system. As an example, a DNA catenane biosensor is engineered to detect the model bacterial pathogen Escherichia coli through binding of a secreted protein, with a detection limit of 10 cells ml−1, thus establishing a new platform for further applications of mechanically interlocked DNA nanostructures.

Suggested Citation

  • Meng Liu & Qiang Zhang & Zhongping Li & Jimmy Gu & John D. Brennan & Yingfu Li, 2016. "Programming a topologically constrained DNA nanostructure into a sensor," Nature Communications, Nature, vol. 7(1), pages 1-7, November.
    • Handle: RePEc:nat:natcom:v:7:y:2016:i:1:d:10.1038_ncomms12074
    DOI: 10.1038/ncomms12074
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