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Adsorption of poly(rA) in duplex (A-motif) conformation on graphene oxide: spectroscopy and AFM study

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Abstract

The conformational diversity of nucleic acid structures, including the ability to self-assemble, such as an i/A-motif, significantly expands the horizon of possible applications of their hybrids with nanomaterials. In this work, the adsorption of polyriboadenylic acid (poly(rA) in the duplex (A-motif) conformation (at pH5) on graphene oxide (GO) was studied by UV absorption spectroscopy, thermal differential absorption spectroscopy, and atomic force microscopy. A new band with a maximum near 264 nm was revealed in the difference spectra of A-motif when GO was added to the solution. The appearance of this band is explained by the partial unzipping of the duplex and the disordering of stacked nitrogenous bases at adsorption on GO. Spectral changes in time show that the adsorption of a relatively long A-motif on GO takes a significant time (hours). Experiments with temperature heating (20→90 0C) of the A-motif adsorbed on GO showed that, upon adsorption its melting temperature and hyperchromic coefficient decrease, which indicates an imperfect duplex structure of the A-motif that is destabilized by GO. Possible physical reasons for the A-motif strong destabilization are discussed.

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Data availability

The datasets used during the current study are available from the corresponding author upon reasonable request.

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Funding

This work has been supported by funding from the National Academy of Sciences of Ukraine (Grant 0123U100628).

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Authors and Affiliations

  1. Verkin Institute for Low Temperature Physics and Engineering, National Academy of Sciences of Ukraine, 47, Nauky Ave, Kharkiv, 61103, Ukraine

    Maksym V. Karachevtsev, Vladimir A. Valeev & Victor A. Karachevtsev

  2. Borys Grinchenko Kyiv Metropolitan University, 18/2 Bulvarno-Kudriavska Str, Kyiv, 04053, Ukraine

    Oksana S. Lytvyn

Authors
  1. Maksym V. Karachevtsev
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  2. Vladimir A. Valeev
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  4. Victor A. Karachevtsev
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Contributions

All authors discussed the results and commented on the manuscript. M.V. K. and V. V. carried out the spectroscopic measurements, and thermal denaturation and analyzed data. O. L. performed A.F.M. measurements and analyzed the A.F.M. data. V.A.K. planned and coordinated the project. M.V.K. and V.A.K. wrote the paper.

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Correspondence to Victor A. Karachevtsev.

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Karachevtsev, M.V., Valeev, V.A., Lytvyn, O.S. et al. Adsorption of poly(rA) in duplex (A-motif) conformation on graphene oxide: spectroscopy and AFM study. Appl. Phys. A 130, 441 (2024). https://doi.org/10.1007/s00339-024-07610-8

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