Association of novel monomethine cyanine dyes with bacteriophage MS2:A fluorescence study

Abstract

Novel monomethine cyanine dyes Cl-YO, F-YO, Cl-YO-Et, Cl-YO-Bu, and YO-Pent were evaluated as agents to detect and characterise a small virus, the MS2 bacteriophage, using the dye and virus intrinsic fluorescence, kinetic and thermal properties, chemical denaturation, and molecular docking and quantum chemistry modelling. The examined compounds demonstrated enhanced fluorescence responses and high affinities (~1 μM−1) for the intact bacteriophage at physiological ionic strength. The linear Scatchard plots revealed the existence of one binding mode for most dyes. Strong evidence that the cyanines bind to the bacteriophage external surface were obtained, although the possibility of the dye penetration through the virus shell and subsequent complexation with the viral RNA was also tested. The main arguments in favour of the former were that i) the fluorescence of the MS2-bound fluorophores decreased under the influence of protein denaturants, urea and guanidine hydrochloride; ii) the fluorescence responses of the dyes to MS2 and bovine serum albumin were similar; and (iii) one order of magnitude higher sensitivity of the dyes to the yeast RNA was found. Simple docking studies suggested that one cyanine molecule is trapped in a cleft formed by three proteins composing the virus shell. Significant role of electrostatic forces in the stabilisation of the dye-MS2 complexes at low ionic strength (10 mM) was demonstrated, while the influence of steric, hydrophobic, and van-der-Waals interactions was expected to increase at physiological ionic strength. The spectral properties of the novel cyanine dyes compared to other fluorophores demonstrated higher sensitivity of the cyanines to MS2, rendering them promising agents for the investigation of the changes in the virus structure under the influence of heat (Cl-YO-Et, Cl-YO-Bu), denaturants (Cl-YO, F-YO), and ionic strength (all the compounds).

Publication DOI: https://doi.org/10.1016/j.molliq.2020.112569
Divisions: Life & Health Sciences > Biosciences
Life & Health Sciences > Cellular and Molecular Biomedicine
Life & Health Sciences
Engineering & Applied Sciences > Mathematics
Engineering & Applied Sciences > Systems analytics research institute (SARI)
Engineering & Applied Sciences
Additional Information: © 2020, Elsevier. Licensed under the Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International http://creativecommons.org/licenses/by-nc-nd/4.0/
Uncontrolled Keywords: Cyanine dyes,Dye-capsid interactions,Fluorescence,MS2 bacteriophage,MS2 capsid,Scatchard plots,Electronic, Optical and Magnetic Materials,Atomic and Molecular Physics, and Optics,Condensed Matter Physics,Spectroscopy,Physical and Theoretical Chemistry,Materials Chemistry
Full Text Link:
Related URLs: http://www.scop ... tnerID=8YFLogxK (Scopus URL)
https://www.sci ... 167732219366590 (Publisher URL)
PURE Output Type: Article
Published Date: 2020-03-15
Published Online Date: 2020-01-28
Accepted Date: 2020-01-23
Authors: Vus, Kateryna
Tarabara, Uliana
Balklava, Zita ( 0000-0001-9039-9710)
Nerukh, Dmitry ( 0000-0001-9005-9919)
Stich, Michael ( 0000-0001-8862-1044)
Laguta, Anna
Vodolazkaya, Natalya
Mchedlov-Petrossyan, Nikolay O.
Farafonov, Vladimir
Kriklya, Nika
Gorbenko, Galyna
Trusova, Valeriya
Zhytniakivska, Olga
Kurutos, Atanas
Gadjev, Nikolai
Deligeorgiev, Todor

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Version: Accepted Version

Access Restriction: Restricted to Repository staff only until 28 January 2021.

License: Creative Commons Attribution Non-commercial No Derivatives


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