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Pugachev AD, Kozlenko AS, Makarova NI, Rostovtseva IA, Ozhogin IV, Dmitriev VS, Borodkin GS, Tkachev VV, Utenyshev AN, Sazykina MA, Sazykin IS, Azhogina TN, Karchava SK, Klimova MV, Metelitsa AV, Lukyanov BS. Molecular design and synthesis of methoxy-substitued spiropyrans with photomodulated NIR-fluorescence. Photochem Photobiol Sci 2023; 22:2651-2673. [PMID: 37733213 DOI: 10.1007/s43630-023-00479-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/25/2023] [Accepted: 08/28/2023] [Indexed: 09/22/2023]
Abstract
This study focuses on the molecular design and synthesis of salt spiropyrans with near-IR fluorescence. The structure of the obtained compounds was confirmed by NMR, IR and mass spectroscopy. In the course of studying the spectral and photoluminescent characteristics, it was possible to reveal the effect of some substituents in various positions on the properties of spiropyran dyes. Due to the structural similarity of one of the isomers to cyanine dyes, the obtained compounds are of interest as potential fluorescent probes for bioimagimg, in particular, for DNA studies. To reveal their ability of binding to DNA molecules molecular docking was carried out. Toxic effects of compounds demonstrating NIR fluorescence were studied on biofilms, as well as using bacterial lux-biosensors.
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Affiliation(s)
- Artem D Pugachev
- Institute of Physical and Organic Chemistry, Southern Federal University, 344090 Stachki prosp., 194/2, Rostov-On-Don, Russian Federation.
| | - Anastasia S Kozlenko
- Institute of Physical and Organic Chemistry, Southern Federal University, 344090 Stachki prosp., 194/2, Rostov-On-Don, Russian Federation
| | - Nadezhda I Makarova
- Institute of Physical and Organic Chemistry, Southern Federal University, 344090 Stachki prosp., 194/2, Rostov-On-Don, Russian Federation
| | - Irina A Rostovtseva
- Institute of Physical and Organic Chemistry, Southern Federal University, 344090 Stachki prosp., 194/2, Rostov-On-Don, Russian Federation
| | - Ilya V Ozhogin
- Institute of Physical and Organic Chemistry, Southern Federal University, 344090 Stachki prosp., 194/2, Rostov-On-Don, Russian Federation
| | - Vitaly S Dmitriev
- Institute of Physical and Organic Chemistry, Southern Federal University, 344090 Stachki prosp., 194/2, Rostov-On-Don, Russian Federation
| | - Gennady S Borodkin
- Institute of Physical and Organic Chemistry, Southern Federal University, 344090 Stachki prosp., 194/2, Rostov-On-Don, Russian Federation
| | - Valery V Tkachev
- Federal Research Center of Problems of Chemical Physics and Medicinal Chemistry RAS, 142432 Ac. Semenov Avenue, 1, Moscow Region, Chernogolovka, Russian Federation
| | - Andrey N Utenyshev
- Federal Research Center of Problems of Chemical Physics and Medicinal Chemistry RAS, 142432 Ac. Semenov Avenue, 1, Moscow Region, Chernogolovka, Russian Federation
| | - Marina A Sazykina
- Academy of Biology and Biotechnologies, Southern Federal University, 344090 Stachki prosp., 194/1, Rostov-On-Don, Russian Federation
| | - Ivan S Sazykin
- Academy of Biology and Biotechnologies, Southern Federal University, 344090 Stachki prosp., 194/1, Rostov-On-Don, Russian Federation
| | - Tatiana N Azhogina
- Academy of Biology and Biotechnologies, Southern Federal University, 344090 Stachki prosp., 194/1, Rostov-On-Don, Russian Federation
| | - Shorena K Karchava
- Academy of Biology and Biotechnologies, Southern Federal University, 344090 Stachki prosp., 194/1, Rostov-On-Don, Russian Federation
| | - Maria V Klimova
- Academy of Biology and Biotechnologies, Southern Federal University, 344090 Stachki prosp., 194/1, Rostov-On-Don, Russian Federation
| | - Anatoly V Metelitsa
- Institute of Physical and Organic Chemistry, Southern Federal University, 344090 Stachki prosp., 194/2, Rostov-On-Don, Russian Federation
| | - Boris S Lukyanov
- Institute of Physical and Organic Chemistry, Southern Federal University, 344090 Stachki prosp., 194/2, Rostov-On-Don, Russian Federation
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Pronkin PG, Tatikolov AS. Photonics of Some Monomethine Cyanine Dyes in Solutions and in Complexes with Biomolecules. Int J Mol Sci 2023; 24:13954. [PMID: 37762255 PMCID: PMC10531095 DOI: 10.3390/ijms241813954] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/09/2023] [Revised: 09/03/2023] [Accepted: 09/09/2023] [Indexed: 09/29/2023] Open
Abstract
In search of new probes for biomolecules, the spectral fluorescent study of four monomethine cyanine dyes (MCD), both unsymmetrical and symmetrical, has been carried out in different organic solvents, in aqueous buffer solutions, and in the presence of DNA and HSA. The complexation of MCD with biomacromolecules leads to a steep growth of the fluorescence intensity. Complexes of MCD with dsDNA and HSA of various types were modeled in silico by molecular docking. Experiments on thermal dissociation of dsDNA in the presence of MCD showed the formation of intercalative complexes of MCD with DNA. Quenching of intrinsic fluorescence of HSA by MCD occurred with rate constants much higher than the diffusion limit, that is, in dye-HSA complexes. Effective constants of MCD complexation with the biomacromolecules were estimated. MCD 1 has the best characteristics as a possible fluorescent probe for dsDNA and can serve as a sensitive and selective probe for dsDNA in the presence of HSA. Photochemical properties of MCD complexed with DNA have been also studied. An increase in the quantum yield of the triplet states of MCD in complexes with DNA has been found, which may be important for using these dyes as potential candidates in photodynamic therapy.
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Affiliation(s)
| | - Alexander S. Tatikolov
- N.M. Emanuel Institute of Biochemical Physics, Russian Academy of Sciences, 4 Kosygin Str., 119334 Moscow, Russia;
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Pronkin PG, Tatikolov AS. Spectral-fluorescent and photochemical study of 6,6'-di(benzoylamino)trimethine cyanine dyes in solutions as possible probes for DNA. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2023; 292:122416. [PMID: 36746042 DOI: 10.1016/j.saa.2023.122416] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/05/2022] [Revised: 01/23/2023] [Accepted: 01/24/2023] [Indexed: 06/18/2023]
Abstract
Spectral-fluorescent and photochemical properties of trimethine cyanine dyes T-304, T-306, and T-307, having substituents in 6,6'-positions, in various organic solvents, in aqueous buffer solutions, in the presence of surfactants and ethanol additives, and the effect on these properties of addition of DNA have been studied. Strong aggregation of the dyes in aqueous and aqueous buffer solutions has been shown. This is due to increased hydrophobicity of the dyes, which makes it difficult to use them as spectral-fluorescent probes for DNA. In the presence of DNA, trimethine cyanines partially form highly fluorescent complexes of dye monomers with the biomolecule, with slight decomposition of the initial aggregates and the formation of aggregates on DNA molecules. The formation of different types of dye-DNA complexes, i.e., intercalation and binding in the DNA grooves, was modeled by molecular docking. Dye-DNA complexes were also studied by circular dichroism spectroscopy and by thermal dissociation of DNA. To reveal selectivity of the dyes, their interaction with human serum albumin was briefly studied. The presence of moderate concentrations of nonionic surfactants does not lead to a significant decomposition of aggregates, but leads to a biphasic dependence of the fluorescence intensity on the DNA concentration. At the same time, ethanol additives (15%) lead to a more or less linear concentration dependence of the fluorescence intensity, which makes it possible to use these dyes as fluorescent probes for DNA. The effective binding constants of the dyes to DNA and the limits of DNA detection using the dyes in the presence of 15% ethanol were estimated. Photoisomerization and generation of the triplet states of T-304, T-306, and T-307 have been also studied. Along with the fluorescence growth, complexation with DNA leads to an increase in the yield of the triplet states of the dyes. This creates a prerequisite for using the dyes in targeted PDT. In the presence of DNA, the decay kinetics of the triplet states are biexponential, which indicates different types of dye complexes with DNA. The rate constants of oxygen quenching of the triplet states of the dyes bound to DNA are significantly lower than the diffusion-controlled values (taking into account the spin-statistical factor), which is explained by the shielding effect on the triplet molecules in complexes with DNA. The data obtained show that dyes T-304, T-306 and T-307, with addition of 15% ethanol, can be used as possible fluorescent probes for DNA.
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Affiliation(s)
- P G Pronkin
- N.M. Emanuel Institute of Biochemical Physics, Russian Academy of Sciences, 4 Kosygin Str., 119334 Moscow, Russia.
| | - A S Tatikolov
- N.M. Emanuel Institute of Biochemical Physics, Russian Academy of Sciences, 4 Kosygin Str., 119334 Moscow, Russia
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Photonics of Trimethine Cyanine Dyes as Probes for Biomolecules. Molecules 2022; 27:molecules27196367. [PMID: 36234904 PMCID: PMC9573451 DOI: 10.3390/molecules27196367] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/28/2022] [Revised: 09/16/2022] [Accepted: 09/22/2022] [Indexed: 11/29/2022] Open
Abstract
Cyanine dyes are widely used as fluorescent probes in biophysics and medical biochemistry due to their unique photophysical and photochemical properties (their photonics). This review is focused on a subclass of the most widespread and studied cyanine dyes—trimethine cyanines, which can serve as potential probes for biomolecules. The works devoted to the study of the noncovalent interaction of trimethine cyanine dyes with biomolecules and changing the properties of these dyes upon the interaction are reviewed. In addition to the spectral-fluorescent properties, elementary photochemical properties of trimethine cyanines are considered, including: photoisomerization and back isomerization of the photoisomer, generation and decay of the triplet state, and its quenching by oxygen and other quenchers. The influence of DNA and other nucleic acids, proteins, and other biomolecules on these properties is covered. The interaction of a monomer dye molecule with a biomolecule usually leads to a fluorescence growth, damping of photoisomerization (if any), and an increase in intersystem crossing to the triplet state. Sometimes aggregation of dye molecules on biomolecules is observed. Quenching of the dye triplet state in a complex with biomolecules by molecular oxygen usually occurs with a rate constant much lower than the diffusion limit with allowance for the spin-statistical factor 1/9. The practical application of trimethine cyanines in biophysics and (medical) biochemistry is also considered. In conclusion, the prospects for further studies on the cyanine dye–biomolecule system and the development of new effective dye probes (including probes of a new type) for biomolecules are discussed.
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