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Zeng X, Xu Q, Lai R, Tong X, Chen J, Wang D, Zhou X, Shao Y. Polarity-Specific and Pyrimidine-over-Purine Adaptive Triplex DNA Recognition by a Near-Infrared Fluorogenic Molecular Rotor. Anal Chem 2023; 95:15367-15374. [PMID: 37784221 DOI: 10.1021/acs.analchem.3c03147] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/04/2023]
Abstract
Triplex DNA structures have displayed a wide range of applications including nanosensing, molecule switching, and drug delivering. Therefore, it is of great importance to effectively recognize triplex DNA structures by a simple and highly selective manner. Herein, we found that a near-infrared fluorogenic probe of NIAD-4 with a molecular rotor (MR) merit can selectively recognize triplex DNA structures over G-quadruplex, i-motif, and duplex structures (Tri-over-QID selectivity), which is competent over the widely used MR probe of thioflavin T (ThT). Furthermore, NIAD-4 exhibits as well a high selectivity toward the 'pyrimidine-type' triplex structures (Y:R-Y type) with respect to the 'purine-type' triplex structures (R:R-Y type) (a Y-over-R selectivity). Interestingly, NIAD-4 recognizes the Y:R-Y triplex structures by a polarity-dependent manner. The 3' end triplet is the preferential binding field of NIAD-4 with respect to the 5' end one (a 3'-over-5' selectivity) as the 3' end triplet is more stable than the 5' end one in the Hoogsteen hydrogen bond. It is expected that the adaptive stacking interaction between NIAD-4 and the 3' end triplet favors the Tri-over-QID, Y-over-R, and 3'-over-5' selectivities since this MR probe has three rotating shafts matching well with the triplet in topology. Such a high selectivity of NIAD-4 opens a new route in designing sensors with DNA structures switching between triplex, i-motif, and G-quadruplex structures.
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Affiliation(s)
- Xingli Zeng
- Key Laboratory of the Ministry of Education for Advanced Catalysis Materials, College of Chemistry and Materials Science, Zhejiang Normal University, Jinhua 321004, Zhejiang, P. R. China
| | - Qiuda Xu
- Key Laboratory of the Ministry of Education for Advanced Catalysis Materials, College of Chemistry and Materials Science, Zhejiang Normal University, Jinhua 321004, Zhejiang, P. R. China
| | - Rong Lai
- Key Laboratory of the Ministry of Education for Advanced Catalysis Materials, College of Chemistry and Materials Science, Zhejiang Normal University, Jinhua 321004, Zhejiang, P. R. China
| | - Xiufang Tong
- Key Laboratory of the Ministry of Education for Advanced Catalysis Materials, College of Chemistry and Materials Science, Zhejiang Normal University, Jinhua 321004, Zhejiang, P. R. China
| | - Jiahui Chen
- Key Laboratory of the Ministry of Education for Advanced Catalysis Materials, College of Chemistry and Materials Science, Zhejiang Normal University, Jinhua 321004, Zhejiang, P. R. China
| | - Dandan Wang
- Key Laboratory of the Ministry of Education for Advanced Catalysis Materials, College of Chemistry and Materials Science, Zhejiang Normal University, Jinhua 321004, Zhejiang, P. R. China
| | - Xiaoshun Zhou
- Key Laboratory of the Ministry of Education for Advanced Catalysis Materials, College of Chemistry and Materials Science, Zhejiang Normal University, Jinhua 321004, Zhejiang, P. R. China
| | - Yong Shao
- Key Laboratory of the Ministry of Education for Advanced Catalysis Materials, College of Chemistry and Materials Science, Zhejiang Normal University, Jinhua 321004, Zhejiang, P. R. China
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Zingale E, Romeo A, Rizzo S, Cimino C, Bonaccorso A, Carbone C, Musumeci T, Pignatello R. Fluorescent Nanosystems for Drug Tracking and Theranostics: Recent Applications in the Ocular Field. Pharmaceutics 2022; 14:pharmaceutics14050955. [PMID: 35631540 PMCID: PMC9147643 DOI: 10.3390/pharmaceutics14050955] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/29/2022] [Revised: 04/23/2022] [Accepted: 04/25/2022] [Indexed: 12/14/2022] Open
Abstract
The greatest challenge associated with topical drug delivery for the treatment of diseases affecting the posterior segment of the eye is to overcome the poor bioavailability of the carried molecules. Nanomedicine offers the possibility to overcome obstacles related to physiological mechanisms and ocular barriers by exploiting different ocular routes. Functionalization of nanosystems by fluorescent probes could be a useful strategy to understand the pathway taken by nanocarriers into the ocular globe and to improve the desired targeting accuracy. The application of fluorescence to decorate nanocarrier surfaces or the encapsulation of fluorophore molecules makes the nanosystems a light probe useful in the landscape of diagnostics and theranostics. In this review, a state of the art on ocular routes of administration is reported, with a focus on pathways undertaken after topical application. Numerous studies are reported in the first section, confirming that the use of fluorescent within nanoparticles is already spread for tracking and biodistribution studies. The first section presents fluorescent molecules used for tracking nanosystems’ cellular internalization and permeation of ocular tissues; discussions on the classification of nanosystems according to their nature (lipid-based, polymer-based, metallic-based and protein-based) follows. The following sections are dedicated to diagnostic and theranostic uses, respectively, which represent an innovation in the ocular field obtained by combining dual goals in a single administration system. For its great potential, this application of fluorescent nanoparticles would experience a great development in the near future. Finally, a brief overview is dedicated to the use of fluorescent markers in clinical trials and the market in the ocular field.
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Affiliation(s)
- Elide Zingale
- Department of Pharmaceutical and Health Sciences, University of Catania, 95124 Catania, Italy; (E.Z.); (A.R.); (S.R.); (C.C.); (A.B.); (C.C.); (T.M.)
| | - Alessia Romeo
- Department of Pharmaceutical and Health Sciences, University of Catania, 95124 Catania, Italy; (E.Z.); (A.R.); (S.R.); (C.C.); (A.B.); (C.C.); (T.M.)
| | - Salvatore Rizzo
- Department of Pharmaceutical and Health Sciences, University of Catania, 95124 Catania, Italy; (E.Z.); (A.R.); (S.R.); (C.C.); (A.B.); (C.C.); (T.M.)
| | - Cinzia Cimino
- Department of Pharmaceutical and Health Sciences, University of Catania, 95124 Catania, Italy; (E.Z.); (A.R.); (S.R.); (C.C.); (A.B.); (C.C.); (T.M.)
| | - Angela Bonaccorso
- Department of Pharmaceutical and Health Sciences, University of Catania, 95124 Catania, Italy; (E.Z.); (A.R.); (S.R.); (C.C.); (A.B.); (C.C.); (T.M.)
- NANO-i—Research Center for Ocular Nanotechnology, University of Catania, 95124 Catania, Italy
| | - Claudia Carbone
- Department of Pharmaceutical and Health Sciences, University of Catania, 95124 Catania, Italy; (E.Z.); (A.R.); (S.R.); (C.C.); (A.B.); (C.C.); (T.M.)
- NANO-i—Research Center for Ocular Nanotechnology, University of Catania, 95124 Catania, Italy
| | - Teresa Musumeci
- Department of Pharmaceutical and Health Sciences, University of Catania, 95124 Catania, Italy; (E.Z.); (A.R.); (S.R.); (C.C.); (A.B.); (C.C.); (T.M.)
- NANO-i—Research Center for Ocular Nanotechnology, University of Catania, 95124 Catania, Italy
| | - Rosario Pignatello
- Department of Pharmaceutical and Health Sciences, University of Catania, 95124 Catania, Italy; (E.Z.); (A.R.); (S.R.); (C.C.); (A.B.); (C.C.); (T.M.)
- NANO-i—Research Center for Ocular Nanotechnology, University of Catania, 95124 Catania, Italy
- Correspondence:
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Lim E, Kwon J, Park J, Heo J, Kim SK. Selective thiolation and photoswitching mechanism of Cy5 studied by time-dependent density functional theory. Phys Chem Chem Phys 2020; 22:14125-14129. [PMID: 32542240 DOI: 10.1039/d0cp00026d] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
Abstract
Cy5 is one of the most widely used organic dyes with a photoswitching property. It can be reversibly photoconverted to the dark state through thiolation with primary thiols. Although photoswitching of Cy5 has been widely used in super-resolution nanoscopy, its thiolation mechanism remains unclear. We carried out time-dependent density functional theory calculations to investigate the excited state dynamics of Cy5 and observed its site-selective thiolation on both the ground and excited states. Scanning the excited state potential energy surfaces by rotating individual C-C bonds revealed structural similarity between the twisted form of Cy5 and the Cy5 subunit in the thiolated Cy5, which suggests that the dark state formation is strongly associated with the torsional motion on the excited state.
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Affiliation(s)
- Eunhak Lim
- Department of Chemistry, Seoul National University, Seoul 08826, Korea.
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Li D, Yang Y, Li C, Liu Y. The influence of hydrogen bonds on NIAD-4 for use in the optical imaging of amyloid fibrils. Phys Chem Chem Phys 2017; 19:15849-15855. [DOI: 10.1039/c7cp02268a] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The fast and accurate detection of amyloid fibrils, which are associated with many neurodegenerative diseases, is important for their early diagnosis.
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Affiliation(s)
- Donglin Li
- College of Physics and Materials Science
- Henan Normal University
- Xinxiang 453007
- China
| | - Yonggang Yang
- College of Physics and Materials Science
- Henan Normal University
- Xinxiang 453007
- China
| | - Chaozheng Li
- College of Physics and Materials Science
- Henan Normal University
- Xinxiang 453007
- China
| | - Yufang Liu
- College of Physics and Materials Science
- Henan Normal University
- Xinxiang 453007
- China
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Peccati F, Pantaleone S, Solans-Monfort X, Sodupe M. Fluorescent Markers for Amyloid-β Detection: Computational Insights. Isr J Chem 2016. [DOI: 10.1002/ijch.201600114] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Affiliation(s)
- Francesca Peccati
- Departament de Química; Universitat Autònoma de Barcelona; 08193 Bellaterra Spain
| | - Stefano Pantaleone
- Departament de Química; Universitat Autònoma de Barcelona; 08193 Bellaterra Spain
| | | | - Mariona Sodupe
- Departament de Química; Universitat Autònoma de Barcelona; 08193 Bellaterra Spain
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Fujimoto Y, Yamamoto N, Furukawa K, Sekiya H. Two Isomers of a Cyanostilbene Derivative in Viscous Solution Observed by Fluorescence Spectroscopy. CHEM LETT 2016. [DOI: 10.1246/cl.160143] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
Affiliation(s)
- Yuki Fujimoto
- Department of Chemistry, Faculty of Science, Kyushu University
| | - Norifumi Yamamoto
- Department of Life and Environmental Sciences, Faculty of Engineering, Chiba Institute of Technology
| | - Kazuki Furukawa
- Department of Chemistry, Faculty of Science, Kyushu University
| | - Hiroshi Sekiya
- Department of Chemistry, Faculty of Science, Kyushu University
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Hu J, Zhu H, Li Y, Wang X, Ma R, Guo Q, Xia A. Enhanced fluorescence of [[5′-(4-hydroxyphenyl)[2,2′-bithiophen]-5-yl]methylene]-propanedinitrile (NIAD-4): solvation induced micro-viscosity enhancement. Phys Chem Chem Phys 2016; 18:18750-7. [DOI: 10.1039/c6cp00881j] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The solvation induced micro-viscosity enhancement effects on the fluorescence of a novel amyloid fibril marker (NIAD-4) were investigated in different alcoholic and aprotic solvents.
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Affiliation(s)
- Jiangpu Hu
- Beijing National Laboratory for Molecular Sciences (BNLMS)
- Institute of Chemistry
- Chinese Academy of Sciences
- Beijing 100190
- P. R. China
| | - Huaning Zhu
- Beijing National Laboratory for Molecular Sciences (BNLMS)
- Institute of Chemistry
- Chinese Academy of Sciences
- Beijing 100190
- P. R. China
| | - Yang Li
- Beijing National Laboratory for Molecular Sciences (BNLMS)
- Institute of Chemistry
- Chinese Academy of Sciences
- Beijing 100190
- P. R. China
| | - Xian Wang
- Beijing National Laboratory for Molecular Sciences (BNLMS)
- Institute of Chemistry
- Chinese Academy of Sciences
- Beijing 100190
- P. R. China
| | - Renjun Ma
- Beijing National Laboratory for Molecular Sciences (BNLMS)
- Institute of Chemistry
- Chinese Academy of Sciences
- Beijing 100190
- P. R. China
| | - Qianjin Guo
- Beijing National Laboratory for Molecular Sciences (BNLMS)
- Institute of Chemistry
- Chinese Academy of Sciences
- Beijing 100190
- P. R. China
| | - Andong Xia
- Beijing National Laboratory for Molecular Sciences (BNLMS)
- Institute of Chemistry
- Chinese Academy of Sciences
- Beijing 100190
- P. R. China
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