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G-quadruplex-forming aptamers: Rhodamine 6G interaction

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G-quadruplex-forming aptamers: Rhodamine 6G interaction

Lukáš Trizna 1 Viktor Víglaský 1

1Department of Biochemistry, Institute of Chemistry, Faculty of Science, Pavol Jozef Šafárik University, Moyzesova 11, 040 01 Košice, Slovakia

G-quadruplexes (G4) are non-canonical DNA or RNA structures formed from G-rich sequences. Aptamers are short oligonucleotides, which can adopt  the three-dimensional structures able to bind any biomacromolecules (enzymes, proteins). Some aptamers contain G-quadruplex motif. Synthetically prepared DNA aptamers have the potential to be as electrochemical biosensors, they are frequently used in some microarrays, nano-devices. Aptamers are frequently used in therapeutics for treatment of various types of diseases [1]. They are also used for labeling of small organic molecules and biomacromolecules and for funcioning of nanoparticles and fluorescent probes with high quantum yield [2].

There is a possibility to use fluorescent probe Rhodamine 6G as G4 ligand. For this purpose the spectroscopic and electrophoretic methods are used in our work. Circular dichroism (CD) is a suitable biophysical method to analyse various G4-ligand interactions [3]. All the studied parallel G4s show characteristic induced CD signals in presence of Rhodamine 6G at 570 nm, 540 nm and 510 nm. UV-Vis spectra titrations, hypochromic and batochromic shifts, confirmed the G4-Rhodamine 6G interaction. The results of the effect of Rhodamine 6G fluorescent probe on stability and topology of applicable G-quadruplex aptamers are presented. Electrophroretic analysis also shows the effect of multimerisation. According to previous results, Rhodamine 6G appears to be highly selective ligand for parallel G4s in comparison to hybrid and antiparallel G4s and to other non-canonical structures. Fluorescent properties of Rhodamine 6G-G4 complexes should be applied for the detection of parallel G4s both in vitro and in vivo.

This work was supported by the Grant Agency of the Slovak Ministry of Education (VEGA No. 1/0138/20) and Internal Scientific Grant System of P. J. Šafárik University (VVGS-PF-2020-1431).
[1] Viglasky, V.; Hianik, T.: Gen Physiol Biophys, 2013, 32(2), 149.
[2] Lavis, L. D.: Annu. Rev. Biochem, 2017, 86, 825.
[3] Masiero, S.; et al.: Org Biomol Chem, 2010, 8(12), 2683.
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Application of G-quadruplex-forming aptamers 24.05.2021 14:28
Thank you for your contribution, nice study. In the conclusion you state that fluorescent properties of Rhodamine 6G-G4 complexes can be utilized for detection of parallel G4s (apart from in vitro) also un...Show all comments
Re: Application of G-quadruplex-forming aptamers 25.05.2021 12:29
Dear Assoc. prof. Waczulíková, thank you for your comment. In terms of biocompatibility and photostability, we have not done such analyses yet. This is our hypothesis and goal of next work. The aim of our ...Show all comments
Re: Re: Application of G-quadruplex-forming aptamers 29.05.2021 09:49
Thank you for your answe and I wish you a very good luck to you and your work.

A remark (in case you are not already informed about the upcoming event):

"Katedra gene...
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Re: Re: Re: Application of G-quadruplex-forming aptamers 30.05.2021 07:14
Thank you for the information. I know about this event and I'm looking forward to it. In addition, there is a series of webinars called "NUCLEIC ACID SECONDARY STRUCTURES: G4s AND BEYOND". This eve...Show all comments
Re: Re: Re: Re: Application of G-quadruplex-forming aptamers 30.05.2021 07:19
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