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Acoustic Characterization of Nanoswitch Structures: Application to the DNA Holliday Junction

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    Acoustic Characterization of Nanoswitch Structures: Application to the DNA Holliday Junction
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    † Institute of Molecular Biology and Biotechnology, Foundation for Research and Technology Hellas, 100 N. Plastira, Vassilika Vouton, 70013 Heraklion, Greece
    ‡ Department of Biology, University of Crete, Vassilika Vouton, 71409 Heraklion, Greece
    * To whom correspondence should be addressed. Tel: (30) 2810 394373 (Office). Tel: (30) 2810 394093 (Lab). Fax: +30 2810 394408. E-mail address: [email protected]
    ¶These authors contributed equally.
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    Nano Letters

    Cite this: Nano Lett. 2010, 10, 12, 5093–5097
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    https://doi.org/10.1021/nl103491v
    Published November 1, 2010
    Copyright © 2010 American Chemical Society
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    Abstract

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    A novel biophysical approach in combination with an acoustic device is demonstrated as a sensitive, rapid, and label-free technique for characterizing various structures of the DNA Holliday Junction (J1) nanoswitch. We were successful in discriminating the “closed” from the “open” state, as well as confirming that the digestion of the J1 junction resulted in the two, anticipated, rod-shaped, 20 bp long fragments. Furthermore, we propose a possible structure for the ∼10 nm long (DNA58) component participating in the J1 assembly. This work reveals the potential of acoustic devices as a powerful tool for molecular conformation studies.

    Copyright © 2010 American Chemical Society

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    Additional information regarding the DNA sequence, J1 assembly, T7 endonuclease and the viscosity measurements. This material is available free of charge via the Internet at http://pubs.acs.org.

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    Cite this: Nano Lett. 2010, 10, 12, 5093–5097
    Click to copy citationCitation copied!
    https://doi.org/10.1021/nl103491v
    Published November 1, 2010
    Copyright © 2010 American Chemical Society
    Request reuse permissions

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