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The unusual structural properties and potential biological relevance of switchback DNA

Author

Listed:
  • Bharath Raj Madhanagopal

    (University at Albany, State University of New York)

  • Hannah Talbot

    (University at Albany, State University of New York)

  • Arlin Rodriguez

    (University at Albany, State University of New York)

  • Jiss Maria Louis

    (University at Albany, State University of New York)

  • Hana Zeghal

    (University at Albany, State University of New York)

  • Sweta Vangaveti

    (University at Albany, State University of New York)

  • Kaalak Reddy

    (University at Albany, State University of New York
    University at Albany, State University of New York)

  • Arun Richard Chandrasekaran

    (University at Albany, State University of New York
    University at Albany, State University of New York)

Abstract

Synthetic DNA motifs form the basis of nucleic acid nanotechnology. The biochemical and biophysical properties of these motifs determine their applications. Here, we present a detailed characterization of switchback DNA, a globally left-handed structure composed of two parallel DNA strands. Compared to a conventional duplex, switchback DNA shows lower thermodynamic stability and requires higher magnesium concentration for assembly but exhibits enhanced biostability against some nucleases. Strand competition and strand displacement experiments show that component sequences have an absolute preference for duplex complements instead of their switchback partners. Further, we hypothesize a potential role for switchback DNA as an alternate structure in sequences containing short tandem repeats. Together with small molecule binding experiments and cell studies, our results open new avenues for switchback DNA in biology and nanotechnology.

Suggested Citation

  • Bharath Raj Madhanagopal & Hannah Talbot & Arlin Rodriguez & Jiss Maria Louis & Hana Zeghal & Sweta Vangaveti & Kaalak Reddy & Arun Richard Chandrasekaran, 2024. "The unusual structural properties and potential biological relevance of switchback DNA," Nature Communications, Nature, vol. 15(1), pages 1-15, December.
    • Handle: RePEc:nat:natcom:v:15:y:2024:i:1:d:10.1038_s41467-024-50348-3
    DOI: 10.1038/s41467-024-50348-3
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    References listed on IDEAS

    as
    1. Nadrian C. Seeman, 2003. "DNA in a material world," Nature, Nature, vol. 421(6921), pages 427-431, January.
    2. Yu He & Tao Ye & Min Su & Chuan Zhang & Alexander E. Ribbe & Wen Jiang & Chengde Mao, 2008. "Hierarchical self-assembly of DNA into symmetric supramolecular polyhedra," Nature, Nature, vol. 452(7184), pages 198-201, March.
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