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Telegin FY, Karpova VS, Makshanova AO, Astrakhantsev RG, Marfin YS. Solvatochromic Sensitivity of BODIPY Probes: A New Tool for Selecting Fluorophores and Polarity Mapping. Int J Mol Sci 2023; 24:1217. [PMID: 36674731 PMCID: PMC9860957 DOI: 10.3390/ijms24021217] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/31/2022] [Revised: 12/21/2022] [Accepted: 12/28/2022] [Indexed: 01/11/2023] Open
Abstract
This research work is devoted to collecting a high-quality dataset of BODIPYs in a series of 10-30 solvents. In total, 115 individual compounds in 71 solvents are represented by 1698 arrays of the spectral and photophysical properties of the fluorophore. Each dye for a series of solvents is characterized by a calculated value of solvatochromic sensitivity according to a semiempirical approach applied to a series of solvents. The whole dataset is classified into 6 and 24 clusters of solvatochromic sensitivity, from high negative to high positive solvatochromism. The results of the analysis are visualized by the polarity mapping plots depicting, in terms of wavenumbers, the absorption versus emission, stokes shift versus - (absorption maxima + emission maxima), and quantum yield versus stokes shift. An analysis of the clusters combining several dyes in an individual series of solvents shows that dyes of a high solvatochromic sensitivity demonstrate regular behaviour of the corresponding plots suitable for polarity and viscosity mapping. The fluorophores collected in this study represent a high quality dataset of pattern dyes for analytical and bioanalytical applications. The developed tools could be applied for the analysis of the applicability domain of the fluorescent sensors.
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Affiliation(s)
- Felix Y. Telegin
- G.A. Krestov Institute of Solution Chemistry of the RAS, 153045 Ivanovo, Russia
| | - Viktoria S. Karpova
- Department of Inorganic Chemistry, Ivanovo State University of Chemistry and Technology, 153000 Ivanovo, Russia
| | - Anna O. Makshanova
- Department of Natural Sciences, Mendeleev University of Chemical Technology of Russia, 125047 Moscow, Russia
| | - Roman G. Astrakhantsev
- HSE Tikhonov Moscow Institute of Electronics and Mathematics, HSE University, 101000 Moscow, Russia
| | - Yuriy S. Marfin
- G.A. Krestov Institute of Solution Chemistry of the RAS, 153045 Ivanovo, Russia
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Kalyagin A, Antina L, Ksenofontov A, Antina E, Berezin M. Solvent-Dependent Fluorescence Properties of CH 2- bis(BODIPY)s. Int J Mol Sci 2022; 23:ijms232214402. [PMID: 36430881 PMCID: PMC9695564 DOI: 10.3390/ijms232214402] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/14/2022] [Revised: 11/16/2022] [Accepted: 11/17/2022] [Indexed: 11/22/2022] Open
Abstract
Biocompatible luminophores based on organic dyes, which have fluorescence characteristics that are highly sensitive to the properties of the solvating medium, are of particular interest as highly sensitive, selective, and easy-to-use analytical agents. We found that BODIPY dimers (2,2'-, 2,3'-3,3'-CH2-bis(BODIPY) (1-3)) demonstrate fluorescence characteristics with a high sensitivity to the presence of polar solvents. The intense fluorescence of 1-3 in nonpolar/low-polarity solvents is dramatically quenched in polar media (acetone, DMF, and DMSO). It has been established that the main reason for CH2-bis(BODIPY) fluorescence quenching is the specific solvation of dyes by electron-donating molecules (Solv) with the formation of stable supramolecular CH2-bis(BODIPY)·2Solv structures. Using steady-state absorption and fluorescence spectroscopy, time-resolved fluorescence spectroscopy, and computational modeling, the formation mechanism, composition, and structure of CH2-bis(BODIPY)·2Solv supramolecular complexes have been substantiated, and their stability has been evaluated. The results show the promise of developing fluorescent probes based on CH2-bis(BODIPY)s for detecting toxic N/O-containing compounds in solutions.
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Ksenofontov AA, Lukanov MM, Bocharov PS. Can machine learning methods accurately predict the molar absorption coefficient of different classes of dyes? SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2022; 279:121442. [PMID: 35660154 DOI: 10.1016/j.saa.2022.121442] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/07/2022] [Revised: 05/25/2022] [Accepted: 05/26/2022] [Indexed: 06/15/2023]
Abstract
In this article, we provide a convenient tool for all researchers to predict the value of the molar absorption coefficient for a wide number of dyes without any computer costs. The new model is based on RFR method (ALogPS, OEstate + Fragmentor + QNPR) and is able to predict the molar absorption coefficient with an accuracy (5-fold cross-validation RMSE) of 0.26 log unit. This accuracy was achieved due to the fact that the model was trained on data for more than 20,000 unique dye molecules. To our knowledge, this is the first model for predicting the molar absorption coefficient trained on such a large and diverse set of dyes. The model is available at https://ochem.eu/article/145413. We hope that the new model will allow researchers to predict dyes with practically significant spectral characteristics and verify existing experimental data.
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Affiliation(s)
- Alexander A Ksenofontov
- G.A. Krestov Institute of Solution Chemistry of the Russian Academy of Sciences, Akademicheskaya Street, 153045 Ivanovo, Russia.
| | - Michail M Lukanov
- G.A. Krestov Institute of Solution Chemistry of the Russian Academy of Sciences, Akademicheskaya Street, 153045 Ivanovo, Russia; Ivanovo State University of Chemistry and Technology, 7, Sheremetevskiy Avenue, Ivanovo 153000, Russia
| | - Pavel S Bocharov
- G.A. Krestov Institute of Solution Chemistry of the Russian Academy of Sciences, Akademicheskaya Street, 153045 Ivanovo, Russia
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Antina LA, Bumagina NA, Kalinkina VA, Lukanov MM, Ksenofontov AA, Kazak AV, Berezin MB, Antina EV. Aggregation behavior and spectroscopic properties of red-emitting distyryl-BODIPY in aqueous solution, Langmuir-Schaefer films and Pluoronic® F127 micelles. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2022; 278:121366. [PMID: 35588603 DOI: 10.1016/j.saa.2022.121366] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/29/2022] [Revised: 05/04/2022] [Accepted: 05/06/2022] [Indexed: 06/15/2023]
Abstract
Red-emitting distyryl substituted BODIPY dyes are among the most promising luminophors for bioimaging and optics applications. However, the practical application of BODIPYs is limited due to their high hydrophobicity and tendency to aggregate in aqueous organic solutions and solid phase. In this article, we propose an elegant solution to this problem. To this end, we carried out the detailed experimental and quantum-chemical study of the structural and spectral features of BF2-ms-phenyl-5,5'-bis(4-dimethylaminostyryl)-3,3'-dimethyl-2,2'-dipyrromethene (distyryl-BDP). The particular attention was paid to analysis of high sensitivity of the distyryl-BDP spectral characteristics to the solvent properties, and also the aggregation behavior features both in water-organic media and in mono- and multilayer Langmuir-Schaefer films. We selected the best conditions to obtain the hydrophilic micellar structures of distyryl-BDP with Pluronic® F127 having a high efficiency of dye solubilization. This method increasing the solubility improves the distyryl-BDP transport efficiency in physiological aqueous media. The aqueous solutions of distyryl-BDP-Pl micelles show the intense fluorescence in the phototherapy window region (λfl = 739 nm).
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Affiliation(s)
- Lubov A Antina
- G.A. Krestov Institute of Solution Chemistry of the Russian Academy of Sciences, 1 Akademicheskaya Str., 153045 Ivanovo, Russia.
| | - Natalia A Bumagina
- G.A. Krestov Institute of Solution Chemistry of the Russian Academy of Sciences, 1 Akademicheskaya Str., 153045 Ivanovo, Russia
| | - Valeria A Kalinkina
- G.A. Krestov Institute of Solution Chemistry of the Russian Academy of Sciences, 1 Akademicheskaya Str., 153045 Ivanovo, Russia; Ivanovo State University of Chemistry and Technology, 7 Sheremetievskiy Av., 153000 Ivanovo, Russia
| | - Michail M Lukanov
- G.A. Krestov Institute of Solution Chemistry of the Russian Academy of Sciences, 1 Akademicheskaya Str., 153045 Ivanovo, Russia; Ivanovo State University of Chemistry and Technology, 7 Sheremetievskiy Av., 153000 Ivanovo, Russia
| | - Alexander A Ksenofontov
- G.A. Krestov Institute of Solution Chemistry of the Russian Academy of Sciences, 1 Akademicheskaya Str., 153045 Ivanovo, Russia
| | - Alexander V Kazak
- Nanomaterials Research Institute, Ivanovo State University, Ermak Str., 39, 153025 Ivanovo, Russia; Moscow Region State University, Very Voloshinoy St., 24, 141014, Mytishchi, Russia
| | - Mikhail B Berezin
- G.A. Krestov Institute of Solution Chemistry of the Russian Academy of Sciences, 1 Akademicheskaya Str., 153045 Ivanovo, Russia
| | - Elena V Antina
- G.A. Krestov Institute of Solution Chemistry of the Russian Academy of Sciences, 1 Akademicheskaya Str., 153045 Ivanovo, Russia
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Antina EV, Berezin MB, V’yugin AI, Guseva GB, Bumagina NA, Antina LA, Ksenofontov AA, Nuraneeva EN, Kalyagin AA, Bocharov PS, Lukanov MM, Krasovskaya ZS, Kalinkina VA, Dogadaeva SA. Chemistry and Practical Application of Dipyrromethene Ligands, Salts, and Coordination Compounds as Optical Sensors for Analytes of Various Nature (A Review). RUSS J INORG CHEM+ 2022. [DOI: 10.1134/s0036023622030032] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
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Ksenofontov AA, Lukanov MM, Bocharov PS, Berezin MB, Tetko IV. Deep neural network model for highly accurate prediction of BODIPYs absorption. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2022; 267:120577. [PMID: 34776377 DOI: 10.1016/j.saa.2021.120577] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/11/2021] [Revised: 10/12/2021] [Accepted: 10/31/2021] [Indexed: 06/13/2023]
Abstract
A possibility to accurately predict the absorption maximum wavelength of BODIPYs was investigated. We found that previously reported models had a low accuracy (40-57 nm) to predict BODIPYs due to the limited dataset sizes and/or number of BODIPYs (few hundreds). New models developed in this study were based on data of 6000-plus fluorescent dyes (including 4000-plus BODIPYs) and the deep neural network architecture. The high prediction accuracy (five-fold cross-validation room mean squared error (RMSE) of 18.4 nm) was obtained using a consensus model, which was more accurate than individual models. This model provided the excellent accuracy (RMSE of 8 nm) for molecules previously synthesized in our laboratory as well as for prospective validation of three new BODIPYs. We found that solvent properties did not significantly influence the model accuracy since only few BODIPYs exhibited solvatochromism. The analysis of large prediction errors suggested that compounds able to have intermolecular interactions with solvent or salts were likely to be incorrectly predicted. The consensus model is freely available at https://ochem.eu/article/134921 and can help the other researchers to accelerate design of new dyes with desired properties.
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Affiliation(s)
- Alexander A Ksenofontov
- G.A. Krestov Institute of Solution Chemistry of the Russian Academy of Sciences, Akademicheskaya Street, 153045 Ivanovo, Russia.
| | - Michail M Lukanov
- G.A. Krestov Institute of Solution Chemistry of the Russian Academy of Sciences, Akademicheskaya Street, 153045 Ivanovo, Russia; Ivanovo State University of Chemistry and Technology, 7, Sheremetevskiy Avenue, Ivanovo 153000, Russia
| | - Pavel S Bocharov
- G.A. Krestov Institute of Solution Chemistry of the Russian Academy of Sciences, Akademicheskaya Street, 153045 Ivanovo, Russia; Ivanovo State University of Chemistry and Technology, 7, Sheremetevskiy Avenue, Ivanovo 153000, Russia
| | - Michail B Berezin
- G.A. Krestov Institute of Solution Chemistry of the Russian Academy of Sciences, Akademicheskaya Street, 153045 Ivanovo, Russia
| | - Igor V Tetko
- G.A. Krestov Institute of Solution Chemistry of the Russian Academy of Sciences, Akademicheskaya Street, 153045 Ivanovo, Russia; Helmholtz Zentrum München‑German Research Center for Environmental Health (GmbH), Institute of Structural Biology, Ingolstädter Landstraße 1, 85764 Neuherberg, Germany; BIGCHEM GmbH, Valerystr. 49, 85716 Unterschleißheim, Germany
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Antina LA, Kalyagin AA, Ksenofontov AA, Pavelyev RS, Lodochnikova OA, Islamov DR, Berezin MB, Antina EV. Effects of ms-aryl substitution on the structure and spectral properties of new CH(Ar)-bis(BODIPY) luminophores. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2022; 265:120393. [PMID: 34597923 DOI: 10.1016/j.saa.2021.120393] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/14/2021] [Revised: 09/03/2021] [Accepted: 09/07/2021] [Indexed: 06/13/2023]
Abstract
In this article, we present synthesis, spectral characteristics, and results of DFT calculations of new CH(R)-bis(BODIPY) 1-3. They are characterized by the conformational mobility and sensitivity of fluorescence to polarity, proton-, electron donor ability and viscosity of the solvation environment. It is shown that fluorescence intensity of 1-3 increases in the homologous series of alcohols (ethanol, 1-propanol, 1-butanol, 1-octanol, 1-decanol) mainly due to decrease of medium acidic properties. The viscosity of the medium effects on the 1-3 fluorescence in a lesser degree. Compared to 1 and 2, the 3 is the most sensitive towards viscosity both in low-viscosity homologous alcohols and in high-viscosity ethanol-glycerol mixtures. In this regard, the sensitivity of fluorescence of CH(MeOPh)-bis(BODIPY) (compound 3) to the viscosity was studied in binary mixtures of polar DMF and low-polarity toluene with castor and vaseline oils, as well as to the macroviscosity of the solvate environment in mixtures of toluene with polystyrene. Prospects of the practical application of CH(R)-bis(BODIPY)s are proposed for the analysis of polarity, proton-donor properties and viscosity of the medium.
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Affiliation(s)
- Lubov A Antina
- G.A. Krestov Institute of Solution Chemistry of the Russian Academy of Sciences, 1 Akademicheskaya Str., 153045 Ivanovo, Russia.
| | - Alexander A Kalyagin
- G.A. Krestov Institute of Solution Chemistry of the Russian Academy of Sciences, 1 Akademicheskaya Str., 153045 Ivanovo, Russia
| | - Alexander A Ksenofontov
- G.A. Krestov Institute of Solution Chemistry of the Russian Academy of Sciences, 1 Akademicheskaya Str., 153045 Ivanovo, Russia
| | - Roman S Pavelyev
- Kazan Federal University, 18 Kremlyovskaya st., 420008 Kazan, Russian Federation
| | - Olga A Lodochnikova
- Kazan Federal University, 18 Kremlyovskaya st., 420008 Kazan, Russian Federation; Arbuzov Institute of Organic and Physical Chemistry, FRC Kazan Scientific Center, Russian Academy of Sciences, 8 Arbuzov, 420088 Kazan, Russian Federation
| | - Daut R Islamov
- Kazan Federal University, 18 Kremlyovskaya st., 420008 Kazan, Russian Federation; Arbuzov Institute of Organic and Physical Chemistry, FRC Kazan Scientific Center, Russian Academy of Sciences, 8 Arbuzov, 420088 Kazan, Russian Federation
| | - Mikhail B Berezin
- G.A. Krestov Institute of Solution Chemistry of the Russian Academy of Sciences, 1 Akademicheskaya Str., 153045 Ivanovo, Russia
| | - Elena V Antina
- G.A. Krestov Institute of Solution Chemistry of the Russian Academy of Sciences, 1 Akademicheskaya Str., 153045 Ivanovo, Russia
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Antina LA, Kalyagin AA, Ksenofontov AA, Pavelyev RS, Lodochnikova OA, Islamov DR, Antina EV, Berezin MB. Effect of polar protic solvents on the photophysical properties of bis(BODIPY) dyes. J Mol Liq 2021. [DOI: 10.1016/j.molliq.2021.116416] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
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Telegin FY, Marfin YS. New insights into quantifying the solvatochromism of BODIPY based fluorescent probes. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2021; 255:119683. [PMID: 33799189 DOI: 10.1016/j.saa.2021.119683] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/09/2020] [Revised: 02/19/2021] [Accepted: 03/03/2021] [Indexed: 06/12/2023]
Abstract
A simple semiempiric phenomenological approach is developed for quantifying the solvent effect on the absorption and emission properties of BODIPYs. It is based on a new rule describing the linear relationship between the difference (Stokes shift) and the sum (double Gibbs free energy of electron transfer) for absorption and emission wavenumbers derived from a combination of solvent functions of Liptay theory. This rule is correspondent to changes of dipole moments in the ground and excited states. High reliability and advantages of the developed approach in comparison with traditional methods of the analysis of the solvatochromism based on Dimroth-Reichard and Lippert-Mataga solvent scales are illustrated for selected BODIPYs exhibiting positive, negative, and near-zero solvatochromism.
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Affiliation(s)
- Felix Y Telegin
- Department of Inorganic Chemistry, Ivanovo State University of Chemistry and Technology 7, Sheremetevsky Ave, Ivanovo 153000, Russia.
| | - Yuriy S Marfin
- Department of Inorganic Chemistry, Ivanovo State University of Chemistry and Technology 7, Sheremetevsky Ave, Ivanovo 153000, Russia
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Klimenko IV, Ksenofontov AA, Klimenko MS, Antina EV, Berezin MB, Lobanov AV. A New Water-Soluble Form of BODIPY Luminophores Based on Cremophor®: Synthesis, Spectral Properties, and in vitro Study. RUSSIAN JOURNAL OF PHYSICAL CHEMISTRY B 2021. [DOI: 10.1134/s199079312101019x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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Antina LA, Ksenofontov AA, Kalyagin AA, Bocharov PS, Kharitonova NV, Kazak AV, Antina EV, Berezin MB. The influence of alkylation on the photophysical properties of BODIPYs and their labeling in blood plasma proteins. J Mol Liq 2020. [DOI: 10.1016/j.molliq.2020.112717] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
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