1
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Jumeaux C, Spicer CD, Charchar P, Howes PD, Holme MN, Ma L, Rose NC, Nabarro J, Fascione MA, Rashid MH, Yarovsky I, Stevens MM. Strain-Promoted Cycloadditions in Lipid Bilayers Triggered by Liposome Fusion. Angew Chem Int Ed Engl 2024; 63:e202314786. [PMID: 38438780 DOI: 10.1002/anie.202314786] [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: 10/02/2023] [Indexed: 03/06/2024]
Abstract
Due to the variety of roles served by the cell membrane, its composition and structure are complex, making it difficult to study. Bioorthogonal reactions, such as the strain promoted azide-alkyne cycloaddition (SPAAC), are powerful tools for exploring the function of biomolecules in their native environment but have been largely unexplored within the context of lipid bilayers. Here, we developed a new approach to study the SPAAC reaction in liposomal membranes using azide- and strained alkyne-functionalized Förster resonance energy transfer (FRET) dye pairs. This study represents the first characterization of the SPAAC reaction between diffusing molecules inside liposomal membranes. Potential applications of this work include in situ bioorthogonal labeling of membrane proteins, improved understanding of membrane dynamics and fluidity, and the generation of new probes for biosensing assays.
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Affiliation(s)
- Coline Jumeaux
- Department of Materials, Department of Bioengineering, and Institute of Biomedical Engineering, Imperial College London, London, SW7 2AZ, United Kingdom
| | - Christopher D Spicer
- Department of Materials, Department of Bioengineering, and Institute of Biomedical Engineering, Imperial College London, London, SW7 2AZ, United Kingdom
- Department of Medical Biochemistry and Biophysics, Karolinska Institute, Stockholm, 17177, Sweden
- Department of Chemistry and York Biomedical Research Institute, University of York, Heslington, YO10 5DD, United Kingdom
| | - Patrick Charchar
- School of Engineering, RMIT University, Melbourne, Victoria, 3001, Australia
| | - Philip D Howes
- Department of Materials, Department of Bioengineering, and Institute of Biomedical Engineering, Imperial College London, London, SW7 2AZ, United Kingdom
- Present Addresses: Department of Engineering and Design, School of Engineering and Informatics, University of Sussex, BN1 9RH, Brighton, United Kingdom
| | - Margaret N Holme
- Department of Medical Biochemistry and Biophysics, Karolinska Institute, Stockholm, 17177, Sweden
| | - Li Ma
- Department of Materials, Department of Bioengineering, and Institute of Biomedical Engineering, Imperial College London, London, SW7 2AZ, United Kingdom
- Department of Medical Biochemistry and Biophysics, Karolinska Institute, Stockholm, 17177, Sweden
| | - Nicholas C Rose
- Department of Chemistry and York Biomedical Research Institute, University of York, Heslington, YO10 5DD, United Kingdom
| | - Joe Nabarro
- Department of Chemistry and York Biomedical Research Institute, University of York, Heslington, YO10 5DD, United Kingdom
| | - Martin A Fascione
- Department of Chemistry and York Biomedical Research Institute, University of York, Heslington, YO10 5DD, United Kingdom
| | - M Harunur Rashid
- School of Engineering, RMIT University, Melbourne, Victoria, 3001, Australia
- Present Addresses: Department of Mathematics and Physics, North South University, Bashundhara, Dhaka, 1229, Bangladesh
| | - Irene Yarovsky
- School of Engineering, RMIT University, Melbourne, Victoria, 3001, Australia
| | - Molly M Stevens
- Department of Materials, Department of Bioengineering, and Institute of Biomedical Engineering, Imperial College London, London, SW7 2AZ, United Kingdom
- Department of Medical Biochemistry and Biophysics, Karolinska Institute, Stockholm, 17177, Sweden
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2
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Maller C, Schedel F, Köhn M. A Modular Approach for the Synthesis of Diverse Heterobifunctional Cyanine Dyes. J Org Chem 2024; 89:3844-3856. [PMID: 38413005 PMCID: PMC10949230 DOI: 10.1021/acs.joc.3c02673] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/20/2023] [Revised: 02/07/2024] [Accepted: 02/13/2024] [Indexed: 02/29/2024]
Abstract
Herein, we present a straightforward synthetic route for the design and synthesis of diverse heterobifunctional cyanine 5 dyes. We optimized the workup by harnessing the pH- and functional group-dependent solubility of the asymmetric cyanine 5 dyes. Therefore, purification through chromatography is deferred until the last synthesis step. Demonstrating successful large-scale synthesis, our modular approach prevents functional group degradation by introducing them in the last synthesis step. These modifiable heterobifunctional dyes offer significant utility in advancing biological studies.
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Affiliation(s)
- Corina Maller
- Signalling
Research Centres BIOSS and CIBSS, University
of Freiburg, Freiburg 79104, Germany
- Faculty
of Chemistry and Pharmacy, University of
Freiburg, Freiburg 79104, Germany
- Faculty
of Biology, University of Freiburg, Freiburg 79104, Germany
| | - Franziska Schedel
- Signalling
Research Centres BIOSS and CIBSS, University
of Freiburg, Freiburg 79104, Germany
- Faculty
of Chemistry and Pharmacy, University of
Freiburg, Freiburg 79104, Germany
- Faculty
of Biology, University of Freiburg, Freiburg 79104, Germany
- Spermann
Graduate School of Biology and Medicine (SGBM), University of Freiburg, Freiburg 79104, Germany
| | - Maja Köhn
- Signalling
Research Centres BIOSS and CIBSS, University
of Freiburg, Freiburg 79104, Germany
- Faculty
of Biology, University of Freiburg, Freiburg 79104, Germany
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3
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Zhao H, Chen K, Liu M, Wang Z, Li L, Li M, Sun P, Zhou H, Fan Q, Shen Q. A Mitochondria-Targeted NIR-II Molecule Fluorophore for Precise Cancer Phototheranostics. J Med Chem 2024; 67:467-478. [PMID: 38147641 DOI: 10.1021/acs.jmedchem.3c01677] [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: 12/28/2023]
Abstract
Subcellular organelle mitochondria are becoming a key player and a driver of cancer. Mitochondrial targeting phototheranostics has attracted increasing attention for precise cancer therapy. However, those phototheranostic systems still face great challenges, including complex and multiple components, light scattering, and insufficient therapeutic efficacy. Herein, a molecular fluorophore IR-TPP-1100 was tactfully designed by molecular engineering for mitochondria-targeted fluorescence imaging-guided phototherapy in the second near-infrared window (NIR-II). IR-TPP-1100 not only exhibited prominent photophysical properties and high photothermal conversion efficiency but also achieved excellent mitochondria-targeting ability. The mitochondria-targeting IR-TPP-1100 enabled NIR-II fluorescence and photoacoustic dual-modality imaging of mitochondria at the organism level. Moreover, it integrated photothermal and photodynamic therapy, obtaining remarkable tumor therapeutic efficacy by inducing mitochondrial apoptosis. These results indicate that IR-TPP-1100 has great potential for precise cancer therapy and provides a promising strategy for developing mitochondria-targeting NIR-II phototheranostic agents.
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Affiliation(s)
- Honghai Zhao
- State Key Laboratory of Organic Electronics and Information Displays & Jiangsu Key Laboratory for Biosensors, Institute of Advanced Materials (IAM), Nanjing University of Posts & Telecommunications, Nanjing 210023, China
| | - Kai Chen
- State Key Laboratory of Organic Electronics and Information Displays & Jiangsu Key Laboratory for Biosensors, Institute of Advanced Materials (IAM), Nanjing University of Posts & Telecommunications, Nanjing 210023, China
| | - Mengwei Liu
- State Key Laboratory of Organic Electronics and Information Displays & Jiangsu Key Laboratory for Biosensors, Institute of Advanced Materials (IAM), Nanjing University of Posts & Telecommunications, Nanjing 210023, China
| | - Zhihang Wang
- State Key Laboratory of Organic Electronics and Information Displays & Jiangsu Key Laboratory for Biosensors, Institute of Advanced Materials (IAM), Nanjing University of Posts & Telecommunications, Nanjing 210023, China
| | - Lei Li
- State Key Laboratory of Organic Electronics and Information Displays & Jiangsu Key Laboratory for Biosensors, Institute of Advanced Materials (IAM), Nanjing University of Posts & Telecommunications, Nanjing 210023, China
| | - Meixing Li
- State Key Laboratory of Organic Electronics and Information Displays & Jiangsu Key Laboratory for Biosensors, Institute of Advanced Materials (IAM), Nanjing University of Posts & Telecommunications, Nanjing 210023, China
| | - Pengfei Sun
- State Key Laboratory of Organic Electronics and Information Displays & Jiangsu Key Laboratory for Biosensors, Institute of Advanced Materials (IAM), Nanjing University of Posts & Telecommunications, Nanjing 210023, China
| | - Hui Zhou
- State Key Laboratory of Organic Electronics and Information Displays & Jiangsu Key Laboratory for Biosensors, Institute of Advanced Materials (IAM), Nanjing University of Posts & Telecommunications, Nanjing 210023, China
| | - Quli Fan
- State Key Laboratory of Organic Electronics and Information Displays & Jiangsu Key Laboratory for Biosensors, Institute of Advanced Materials (IAM), Nanjing University of Posts & Telecommunications, Nanjing 210023, China
| | - Qingming Shen
- State Key Laboratory of Organic Electronics and Information Displays & Jiangsu Key Laboratory for Biosensors, Institute of Advanced Materials (IAM), Nanjing University of Posts & Telecommunications, Nanjing 210023, China
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4
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Archipowa N, Wittmann L, Köckenberger J, Ertl FJ, Gleixner J, Keller M, Heinrich MR, Kutta RJ. Characterization of Fluorescent Dyes Frequently Used for Bioimaging: Photophysics and Photocatalytical Reactions with Proteins. J Phys Chem B 2023; 127:9532-9542. [PMID: 37903729 DOI: 10.1021/acs.jpcb.3c04484] [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: 11/01/2023]
Abstract
Derivatives of the rhodamine-based dye 5-TAMRA (5-carboxy-tetramethylrhodamine) and the indocarbocyanine-type Cy3B (cyclized derivative of the cyanine dye Cy3), both representing important fluorophores frequently used for the labeling of biomolecules (proteins, nucleic acids) and bioactive compounds, such as receptor ligands, were photophysically investigated in aqueous solution, i.e., in neat phosphate-buffered saline (PBS) and in PBS supplemented with 1 wt % bovine serum albumin (BSA). The dyes exhibit comparable absorption (λabs,max: 550-569 nm) and emission wavelengths (λem,max: 580-582 nm), and similar S1 lifetimes (2.27-2.75 ns), and their excited state deactivation proceeds mainly via the lowest excited singlet state (triplet quantum yield ca. 1%). However, the probes show marked differences with respect to their fluorescence quantum yield and photostability. While 5-TAMRA shows a lower quantum yield (37-39%) than the Cy3B derivative (ca. 57%), its photostability is considerably higher compared to Cy3B. Generally, the impact of the protein on the photophysics is low. However, on prolonged illumination, both fluorescent dyes undergo a photocatalytic reaction with tryptophan residues of BSA mediated by sensitized singlet oxygen resulting in a tryptophan photoproduct with an absorption maximum around 330 nm. The overall results of this work will assist in choosing the right dye for the labeling of bioactive compounds, and the study demonstrates that experiments performed with 5-TAMRA or Cy3B-labeled compounds in a biological environment may be influenced by photochemical modification of experimentally relevant proteins at aromatic amino acid residues.
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Affiliation(s)
- Nataliya Archipowa
- Institute of Biophysics and Physical Biochemistry, Faculty of Biology and Preclinical Medicine, University of Regensburg, D-93053 Regensburg, Germany
| | - Lukas Wittmann
- Institute of Physical and Theoretical Chemistry, Faculty of Chemistry and Pharmacy, University of Regensburg, Universitätsstraße 31, D-93053 Regensburg, Germany
| | - Johannes Köckenberger
- Department of Chemistry and Pharmacy, Molecular and Clinical Pharmacy, Friedrich-Alexander-University Erlangen-Nürnberg, Nikolaus-Fiebiger-Straße 10, D-91058 Erlangen, Germany
| | - Fabian J Ertl
- Institute of Pharmacy, Faculty of Chemistry and Pharmacy, University of Regensburg, Universitätsstraße 31, D-93053 Regensburg, Germany
| | - Jakob Gleixner
- Institute of Pharmacy, Faculty of Chemistry and Pharmacy, University of Regensburg, Universitätsstraße 31, D-93053 Regensburg, Germany
| | - Max Keller
- Institute of Pharmacy, Faculty of Chemistry and Pharmacy, University of Regensburg, Universitätsstraße 31, D-93053 Regensburg, Germany
| | - Markus R Heinrich
- Department of Chemistry and Pharmacy, Molecular and Clinical Pharmacy, Friedrich-Alexander-University Erlangen-Nürnberg, Nikolaus-Fiebiger-Straße 10, D-91058 Erlangen, Germany
| | - Roger Jan Kutta
- Institute of Physical and Theoretical Chemistry, Faculty of Chemistry and Pharmacy, University of Regensburg, Universitätsstraße 31, D-93053 Regensburg, Germany
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5
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Maschio R, Buonsanti F, Crivellin F, Ferretti F, Lattuada L, Maisano F, Orio L, Pizzuto L, Campanella R, Clouet A, Cavallotti C, Giovenzana GB. Improved synthesis of DA364, an NIR fluorescence RGD probe targeting α vβ 3 integrin. Org Biomol Chem 2023; 21:8584-8592. [PMID: 37855098 DOI: 10.1039/d3ob01206a] [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: 10/20/2023]
Abstract
Optical imaging (OI) is gaining increasing attention in medicine as a non-invasive diagnostic imaging technology and as a useful tool for image-guided surgery. OI exploits the light emitted in the near-infrared region by fluorescent molecules able to penetrate living tissues. Cyanines are an important class of fluorescent molecules and by their conjugation to peptides it is possible to achieve optical imaging of tumours by selective targeting. We report here the improvements obtained in the synthesis of DA364, a small fluorescent probe (1.5 kDa) prepared by conjugation of pentamethine cyanine Cy5.5 to an RGD peptidomimetic, which can target tumour cells overexpressing integrin αvβ3 receptors.
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Affiliation(s)
- Rachele Maschio
- Dipartimento di Scienze del Farmaco, Università del Piemonte Orientale, Largo Donegani 2/3, 28100 Novara, Italy.
| | - Federica Buonsanti
- Bracco Imaging Spa, Bracco Research Centre, Via Ribes 5, 10010 Colleretto Giacosa, TO, Italy.
| | - Federico Crivellin
- Bracco Imaging Spa, Bracco Research Centre, Via Ribes 5, 10010 Colleretto Giacosa, TO, Italy.
| | - Fulvio Ferretti
- Bracco Imaging Spa, Bracco Research Centre, Via Ribes 5, 10010 Colleretto Giacosa, TO, Italy.
| | - Luciano Lattuada
- Bracco Imaging Spa, Bracco Research Centre, Via Ribes 5, 10010 Colleretto Giacosa, TO, Italy.
| | - Federico Maisano
- Bracco Imaging Spa, Bracco Research Centre, Via Ribes 5, 10010 Colleretto Giacosa, TO, Italy.
| | - Laura Orio
- Bracco Imaging Spa, Bracco Research Centre, Via Ribes 5, 10010 Colleretto Giacosa, TO, Italy.
| | - Lorena Pizzuto
- Bracco Imaging Spa, Bracco Research Centre, Via Ribes 5, 10010 Colleretto Giacosa, TO, Italy.
| | - Raphael Campanella
- Bracco Suisse SA, Route de la Galaise 31, 1228 Plan le Ouates, Switzerland
| | - Anthony Clouet
- Bracco Suisse SA, Route de la Galaise 31, 1228 Plan le Ouates, Switzerland
| | | | - Giovanni B Giovenzana
- Dipartimento di Scienze del Farmaco, Università del Piemonte Orientale, Largo Donegani 2/3, 28100 Novara, Italy.
- CAGE Chemicals Srl, Via Bovio 6, 28100 Novara, Italy
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6
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Samanta S, Lai K, Wu F, Liu Y, Cai S, Yang X, Qu J, Yang Z. Xanthene, cyanine, oxazine and BODIPY: the four pillars of the fluorophore empire for super-resolution bioimaging. Chem Soc Rev 2023; 52:7197-7261. [PMID: 37743716 DOI: 10.1039/d2cs00905f] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 09/26/2023]
Abstract
In the realm of biological research, the invention of super-resolution microscopy (SRM) has enabled the visualization of ultrafine sub-cellular structures and their functions in live cells at the nano-scale level, beyond the diffraction limit, which has opened up a new window for advanced biomedical studies to unravel the complex unknown details of physiological disorders at the sub-cellular level with unprecedented resolution and clarity. However, most of the SRM techniques are highly reliant on the personalized special photophysical features of the fluorophores. In recent times, there has been an unprecedented surge in the development of robust new fluorophore systems with personalized features for various super-resolution imaging techniques. To date, xanthene, cyanine, oxazine and BODIPY cores have been authoritatively utilized as the basic fluorophore units in most of the small-molecule-based organic fluorescent probe designing strategies for SRM owing to their excellent photophysical characteristics and easy synthetic acquiescence. Since the future of next-generation SRM studies will be decided by the availability of advanced fluorescent probes and these four fluorescent building blocks will play an important role in progressive new fluorophore design, there is an urgent need to review the recent advancements in designing fluorophores for different SRM methods based on these fluorescent dye cores. This review article not only includes a comprehensive discussion about the recent developments in designing fluorescent probes for various SRM techniques based on these four important fluorophore building blocks with special emphasis on their effective integration into live cell super-resolution bio-imaging applications but also critically evaluates the background of each of the fluorescent dye cores to highlight their merits and demerits towards developing newer fluorescent probes for SRM.
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Affiliation(s)
- Soham Samanta
- Center for Biomedical Optics and Photonics & Key Laboratory of Optoelectronic Devices and Systems of Ministry of Education and Guangdong Province, College of Physics and Optoelectronic Engineering, Shenzhen University, Shenzhen 518060, China.
| | - Kaitao Lai
- Center for Biomedical Optics and Photonics & Key Laboratory of Optoelectronic Devices and Systems of Ministry of Education and Guangdong Province, College of Physics and Optoelectronic Engineering, Shenzhen University, Shenzhen 518060, China.
| | - Feihu Wu
- Center for Biomedical Optics and Photonics & Key Laboratory of Optoelectronic Devices and Systems of Ministry of Education and Guangdong Province, College of Physics and Optoelectronic Engineering, Shenzhen University, Shenzhen 518060, China.
| | - Yingchao Liu
- Center for Biomedical Optics and Photonics & Key Laboratory of Optoelectronic Devices and Systems of Ministry of Education and Guangdong Province, College of Physics and Optoelectronic Engineering, Shenzhen University, Shenzhen 518060, China.
| | - Songtao Cai
- Center for Biomedical Optics and Photonics & Key Laboratory of Optoelectronic Devices and Systems of Ministry of Education and Guangdong Province, College of Physics and Optoelectronic Engineering, Shenzhen University, Shenzhen 518060, China.
| | - Xusan Yang
- Institute of Physics, Chinese Academy of Sciences, Beijing, 100190, China
| | - Junle Qu
- Center for Biomedical Optics and Photonics & Key Laboratory of Optoelectronic Devices and Systems of Ministry of Education and Guangdong Province, College of Physics and Optoelectronic Engineering, Shenzhen University, Shenzhen 518060, China.
| | - Zhigang Yang
- Center for Biomedical Optics and Photonics & Key Laboratory of Optoelectronic Devices and Systems of Ministry of Education and Guangdong Province, College of Physics and Optoelectronic Engineering, Shenzhen University, Shenzhen 518060, China.
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7
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Köckenberger J, Klemt I, Sauer C, Arkhypov A, Reshetnikov V, Mokhir A, Heinrich MR. Cyanine- and Rhodamine-Derived Alkynes for the Selective Targeting of Cancerous Mitochondria through Radical Thiol-Yne Coupling in Live Cells. Chemistry 2023; 29:e202301340. [PMID: 37171462 DOI: 10.1002/chem.202301340] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/28/2023] [Revised: 05/08/2023] [Accepted: 05/11/2023] [Indexed: 05/13/2023]
Abstract
Despite their long history and their synthetic potential underlined by various recent advances, radical thiol-yne coupling reactions have so far only rarely been exploited for the functionalization of biomolecules, and no examples yet exist for their application in live cells - although natural thiols show widespread occurrence therein. By taking advantage of the particular cellular conditions of mitochondria in cancer cells, we have demonstrated that radical thiol-yne coupling represents a powerful reaction principle for the selective targeting of these organelles. Within our studies, fluorescently labeled reactive alkyne probes were investigated, for which the fluorescent moiety was chosen to enable both mitochondria accumulation as well as highly sensitive detection. After preliminary studies under cell-free conditions, the most promising alkyne-dye conjugates were evaluated in various cellular experiments comprising analysis by flow cytometry and microscopy. All in all, these results pave the way for improved future therapeutic strategies relying on live-cell compatibility and selectivity among cellular compartments.
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Affiliation(s)
- Johannes Köckenberger
- Department of Chemistry and Pharmacy Pharmaceutical Chemistry, Friedrich-Alexander-Universität Erlangen-Nürnberg, Nikolaus-Fiebiger-Str. 10, 91058, Erlangen, Germany
| | - Insa Klemt
- Department of Chemistry and Pharmacy, Organic Chemistry II, Friedrich-Alexander-Universität Erlangen-Nürnberg, Nikolaus-Fiebiger-Str. 10, 91058, Erlangen, Germany
| | - Caroline Sauer
- Department of Chemistry and Pharmacy Pharmaceutical Chemistry, Friedrich-Alexander-Universität Erlangen-Nürnberg, Nikolaus-Fiebiger-Str. 10, 91058, Erlangen, Germany
| | - Anton Arkhypov
- Department of Chemistry and Pharmacy, Organic Chemistry II, Friedrich-Alexander-Universität Erlangen-Nürnberg, Nikolaus-Fiebiger-Str. 10, 91058, Erlangen, Germany
| | - Viktor Reshetnikov
- Department of Chemistry and Pharmacy, Organic Chemistry II, Friedrich-Alexander-Universität Erlangen-Nürnberg, Nikolaus-Fiebiger-Str. 10, 91058, Erlangen, Germany
| | - Andriy Mokhir
- Department of Chemistry and Pharmacy, Organic Chemistry II, Friedrich-Alexander-Universität Erlangen-Nürnberg, Nikolaus-Fiebiger-Str. 10, 91058, Erlangen, Germany
| | - Markus R Heinrich
- Department of Chemistry and Pharmacy Pharmaceutical Chemistry, Friedrich-Alexander-Universität Erlangen-Nürnberg, Nikolaus-Fiebiger-Str. 10, 91058, Erlangen, Germany
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8
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Graßl F, Konrad MMB, Krüll J, Pezerovic A, Zähnle L, Burkovski A, Heinrich MR. Tuning the Polarity of Antibiotic-Cy5 Conjugates Enables Highly Selective Labeling of Binding Sites. Chemistry 2023; 29:e202301208. [PMID: 37247408 DOI: 10.1002/chem.202301208] [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: 04/17/2023] [Revised: 05/22/2023] [Accepted: 05/25/2023] [Indexed: 05/31/2023]
Abstract
Multidrug-resistant bacteria pose a major threat to global health, even as newly introduced antibiotics continue to lose their therapeutic value. Against this background, deeper insights into bacterial interaction with antibiotic drugs are urgently required, whereas fluorescently labeled drug conjugates can serve as highly valuable tools. Herein, the preparation and biological evaluation of 13 new fluorescent antibiotic-Cy5 dye conjugates is described, in which the tuning of the polarity of the Cy5 dye proved to be a key element to achieve highly favorable properties for various fields of application.
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Affiliation(s)
- Fabian Graßl
- Department of Chemistry and Pharmacy, Pharmaceutical Chemistry, Friedrich-Alexander-Universität Erlangen-Nürnberg, Nikolaus-Fiebiger-Str. 10, 91058, Erlangen, Germany
| | - Maike M B Konrad
- Department of Biology, Microbiology Division, Friedrich-Alexander Universität Erlangen-Nürnberg, Staudtstr. 5, 91058, Erlangen, Germany
| | - Jasmin Krüll
- Department of Chemistry and Pharmacy, Pharmaceutical Chemistry, Friedrich-Alexander-Universität Erlangen-Nürnberg, Nikolaus-Fiebiger-Str. 10, 91058, Erlangen, Germany
| | - Azra Pezerovic
- Department of Chemistry and Pharmacy, Pharmaceutical Chemistry, Friedrich-Alexander-Universität Erlangen-Nürnberg, Nikolaus-Fiebiger-Str. 10, 91058, Erlangen, Germany
| | - Leon Zähnle
- Department of Chemistry and Pharmacy, Pharmaceutical Chemistry, Friedrich-Alexander-Universität Erlangen-Nürnberg, Nikolaus-Fiebiger-Str. 10, 91058, Erlangen, Germany
| | - Andreas Burkovski
- Department of Biology, Microbiology Division, Friedrich-Alexander Universität Erlangen-Nürnberg, Staudtstr. 5, 91058, Erlangen, Germany
| | - Markus R Heinrich
- Department of Chemistry and Pharmacy, Pharmaceutical Chemistry, Friedrich-Alexander-Universität Erlangen-Nürnberg, Nikolaus-Fiebiger-Str. 10, 91058, Erlangen, Germany
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9
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Barresi E, Baldanzi C, Roncetti M, Roggia M, Baglini E, Lepori I, Vitiello M, Salerno S, Tedeschi L, Da Settimo F, Cosconati S, Poliseno L, Taliani S. A cyanine-based NIR fluorescent Vemurafenib analog to probe BRAF V600E in cancer cells. Eur J Med Chem 2023; 256:115446. [PMID: 37182332 DOI: 10.1016/j.ejmech.2023.115446] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/11/2022] [Revised: 04/28/2023] [Accepted: 05/02/2023] [Indexed: 05/16/2023]
Abstract
BRAF represents one of the most frequently mutated protein kinase genes and BRAFV600E mutation may be found in many types of cancer, including hairy cell leukemia (HCL), anaplastic thyroid cancer (ATC), colorectal cancer and melanoma. Herein, a fluorescent probe, based on the structure of the highly specific BRAFV600E inhibitor Vemurafenib (Vem, 1) and featuring the NIR fluorophore cyanine-5 (Cy5), was straightforwardly synthesized and characterized (Vem-L-Cy5, 3), showing promising spectroscopic properties. Biological validation in BRAFV600E-mutated cancer cells evidenced the ability of 3 to penetrate inside the cells, specifically binding to its elective target BRAFV600E with high affinity, and inhibiting MEK phosphorylation and cell growth with a potency comparable to that of native Vem 1. Taken together, these data highlight Vem-L-Cy5 3 as a useful tool to probe BRAFV600E mutation in cancer cells, and suitable to acquire precious insights for future developments of more informed BRAF inhibitors-centered therapeutic strategies.
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Affiliation(s)
- Elisabetta Barresi
- Department of Pharmacy, University of Pisa, Via Bonanno 6, 56126, Pisa, Italy; Center for Instrument Sharing of the University of Pisa (CISUP), University of Pisa, Lungarno Pacinotti 43/44, 56126, Pisa, Italy
| | - Caterina Baldanzi
- Institute of Clinical Physiology, CNR, Via Moruzzi 1, 56124, Pisa, Italy; Oncogenomics Unit, Core Research Laboratory, ISPRO, Via Moruzzi 1, 56124, Pisa, Italy
| | - Marta Roncetti
- Institute of Clinical Physiology, CNR, Via Moruzzi 1, 56124, Pisa, Italy; Oncogenomics Unit, Core Research Laboratory, ISPRO, Via Moruzzi 1, 56124, Pisa, Italy; University of Siena, Siena, Italy
| | - Michele Roggia
- DiSTABiF, University of Campania "Luigi Vanvitelli", Via Vivaldi 43, 81100, Caserta, Italy
| | - Emma Baglini
- Department of Pharmacy, University of Pisa, Via Bonanno 6, 56126, Pisa, Italy
| | - Irene Lepori
- Institute of Clinical Physiology, CNR, Via Moruzzi 1, 56124, Pisa, Italy; Oncogenomics Unit, Core Research Laboratory, ISPRO, Via Moruzzi 1, 56124, Pisa, Italy; Department of Microbiology, University of Massachusetts, Amherst, MA, USA
| | - Marianna Vitiello
- Institute of Clinical Physiology, CNR, Via Moruzzi 1, 56124, Pisa, Italy; Oncogenomics Unit, Core Research Laboratory, ISPRO, Via Moruzzi 1, 56124, Pisa, Italy
| | - Silvia Salerno
- Department of Pharmacy, University of Pisa, Via Bonanno 6, 56126, Pisa, Italy; Center for Instrument Sharing of the University of Pisa (CISUP), University of Pisa, Lungarno Pacinotti 43/44, 56126, Pisa, Italy
| | - Lorena Tedeschi
- Institute of Clinical Physiology, CNR, Via Moruzzi 1, 56124, Pisa, Italy
| | - Federico Da Settimo
- Department of Pharmacy, University of Pisa, Via Bonanno 6, 56126, Pisa, Italy; Center for Instrument Sharing of the University of Pisa (CISUP), University of Pisa, Lungarno Pacinotti 43/44, 56126, Pisa, Italy
| | - Sandro Cosconati
- DiSTABiF, University of Campania "Luigi Vanvitelli", Via Vivaldi 43, 81100, Caserta, Italy
| | - Laura Poliseno
- Institute of Clinical Physiology, CNR, Via Moruzzi 1, 56124, Pisa, Italy; Oncogenomics Unit, Core Research Laboratory, ISPRO, Via Moruzzi 1, 56124, Pisa, Italy.
| | - Sabrina Taliani
- Department of Pharmacy, University of Pisa, Via Bonanno 6, 56126, Pisa, Italy; Center for Instrument Sharing of the University of Pisa (CISUP), University of Pisa, Lungarno Pacinotti 43/44, 56126, Pisa, Italy.
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10
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Effect of Trimethine Cyanine Dye- and Folate-Conjugation on the In Vitro Biological Activity of Proapoptotic Peptides. Biomolecules 2022; 12:biom12050725. [PMID: 35625652 PMCID: PMC9138991 DOI: 10.3390/biom12050725] [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: 04/07/2022] [Revised: 05/10/2022] [Accepted: 05/16/2022] [Indexed: 11/17/2022] Open
Abstract
Despite continuous advances, anticancer therapy still faces several technical hurdles, such as selectivity on cellular and subcellular targets of therapeutics. Toward addressing these limitations, we have combined the use of proapoptotic peptides, trimethine cyanine dye, and folate to target the mitochondria of tumor cells. A series of proapoptotic peptides and their conjugates with a cyanine dye and/or folate were synthesized in the solid phase, and their toxicity in different human cell lines was assessed. Cyanine-bearing conjugates were found to be up to 100-fold more cytotoxic than the parent peptides and to localize in mitochondria. However, the addition of a folate motif did not enhance the potency or selectivity of the resulting conjugates toward tumor cells that overexpress folate receptor α. Furthermore, while dual-labeled constructs were also found to localize within the target organelle, they were not generally selective towards folate receptor α-positive cell lines in vitro.
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11
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Babity S, Couture F, Campos EVR, Hedtrich S, Hagen R, Fehr D, Bonmarin M, Brambilla D. A Naked Eye-Invisible Ratiometric Fluorescent Microneedle Tattoo for Real-Time Monitoring of Inflammatory Skin Conditions. Adv Healthc Mater 2022; 11:e2102070. [PMID: 34921529 DOI: 10.1002/adhm.202102070] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/27/2021] [Revised: 12/13/2021] [Indexed: 01/05/2023]
Abstract
The field of portable healthcare monitoring devices has an urgent need for the development of real-time, noninvasive sensing and detection methods for various physiological analytes. Currently, transdermal sensing techniques are severely limited in scope (i.e., measurement of heart rate or sweat composition), or else tend to be invasive, often needing to be performed in a clinical setting. This study proposes a minimally invasive alternative strategy, consisting of using dissolving polymeric microneedles to deliver naked eye-invisible functional fluorescent ratiometric microneedle tattoos directly to the skin for real-time monitoring and quantification of physiological and pathological parameters. Reactive oxygen species are overexpressed in the skin in association with various pathological conditions. Here, one demonstrates for the first time the microneedle-based delivery to the skin of active fluorescent sensors in the form of an invisible, ratiometric microneedle tattoo capable of sensing reactive oxygen species in a reconstructed human-based skin disease model, as well as an in vivo model of UV-induced dermal inflammation. One also elaborates a universal ratiometric quantification concept coupled with a custom-built, multiwavelength portable fluorescence detection system. Fully realized, this approach presents an opportunity for the minimally invasive monitoring of a broad range of physiological parameters through the skin.
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Affiliation(s)
- Samuel Babity
- Faculté de Pharmacie Université de Montréal C.P. 6128, Succursale Centre‐ville, Montréal Québec H3C 3J7 Canada
| | - Frédéric Couture
- TransBIOTech 201 Monseigneur‐Bourget Lévis Québec G6V 6Z9 Canada
- Nutraceuticals and Functional Foods Institute (INAF) Université Laval, Québec Québec G1K 7P4 Canada
- Centre intégré de santé et de services sociaux de Chaudière‐Appalaches Lévis Québec G6E 3E2 Canada
| | - Estefânia V. R. Campos
- Faculty of Pharmaceutical Sciences University of British Columbia 2405 Wesbrook Mall Vancouver British Columbia V6T 1Z3 Canada
- Human and Natural Sciences Center Federal University of ABC Santo Andre SP 09210‐580 Brazil
| | - Sarah Hedtrich
- Faculty of Pharmaceutical Sciences University of British Columbia 2405 Wesbrook Mall Vancouver British Columbia V6T 1Z3 Canada
| | - Raphael Hagen
- School of Engineering Zurich University of Applied Sciences Technikumstrasse 9 Winterthur 8400 Switzerland
| | - Daniel Fehr
- School of Engineering Zurich University of Applied Sciences Technikumstrasse 9 Winterthur 8400 Switzerland
| | - Mathias Bonmarin
- School of Engineering Zurich University of Applied Sciences Technikumstrasse 9 Winterthur 8400 Switzerland
| | - Davide Brambilla
- Faculté de Pharmacie Université de Montréal C.P. 6128, Succursale Centre‐ville, Montréal Québec H3C 3J7 Canada
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12
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Lemke C, Benýšek J, Brajtenbach D, Breuer C, Jílková A, Horn M, Buša M, Ulrychová L, Illies A, Kubatzky KF, Bartz U, Mareš M, Gütschow M. An Activity-Based Probe for Cathepsin K Imaging with Excellent Potency and Selectivity. J Med Chem 2021; 64:13793-13806. [PMID: 34473502 DOI: 10.1021/acs.jmedchem.1c01178] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Abstract
The cysteine protease cathepsin K is a target for the treatment of diseases associated with high bone turnover. Cathepsin K is mainly expressed in osteoclasts and responsible for the destruction of the proteinaceous components of the bone matrix. We designed various fluorescent activity-based probes (ABPs) and their precursors that bind to and inactivate cathepsin K. ABP 25 exhibited extraordinary potency (kinac/Ki = 35,300 M-1s-1) and selectivity for human cathepsin K. Crystal structures of cathepsin K in complex with ABP 25 and its nonfluorescent precursor 21 were determined to characterize the binding mode of this new type of acrylamide-based Michael acceptor with the particular orientation of the dibenzylamine moiety to the primed subsite region. The cyanine-5 containing probe 25 allowed for sensitive detection of cathepsin K, selective visualization in complex proteomes, and live cell imaging of a human osteosarcoma cell line, underlining its applicability in a pathophysiological environment.
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Affiliation(s)
- Carina Lemke
- Pharmaceutical Institute, Pharmaceutical & Medicinal Chemistry, University of Bonn, An der Immenburg 4, Bonn 53121, Germany
| | - Jakub Benýšek
- Institute of Organic Chemistry and Biochemistry of the Czech Academy of Sciences, Flemingovo n. 2, Prague 16610, Czech Republic.,First Faculty of Medicine, Charles University, Kateřinská 32, Prague 12108, Czech Republic
| | - Dominik Brajtenbach
- Pharmaceutical Institute, Pharmaceutical & Medicinal Chemistry, University of Bonn, An der Immenburg 4, Bonn 53121, Germany
| | - Christian Breuer
- Pharmaceutical Institute, Pharmaceutical & Medicinal Chemistry, University of Bonn, An der Immenburg 4, Bonn 53121, Germany.,Department of Natural Sciences, University of Applied Sciences Bonn-Rhein-Sieg, von-Liebig-Str. 20, Rheinbach 53359, Germany
| | - Adéla Jílková
- Institute of Organic Chemistry and Biochemistry of the Czech Academy of Sciences, Flemingovo n. 2, Prague 16610, Czech Republic
| | - Martin Horn
- Institute of Organic Chemistry and Biochemistry of the Czech Academy of Sciences, Flemingovo n. 2, Prague 16610, Czech Republic
| | - Michal Buša
- Institute of Organic Chemistry and Biochemistry of the Czech Academy of Sciences, Flemingovo n. 2, Prague 16610, Czech Republic.,Department of Biochemistry, Faculty of Science, Charles University, Hlavova 8, Prague 12800, Czech Republic
| | - Lenka Ulrychová
- Institute of Organic Chemistry and Biochemistry of the Czech Academy of Sciences, Flemingovo n. 2, Prague 16610, Czech Republic
| | - Annika Illies
- Pharmaceutical Institute, Pharmaceutical & Medicinal Chemistry, University of Bonn, An der Immenburg 4, Bonn 53121, Germany
| | - Katharina F Kubatzky
- Department of Infectious Diseases, Medical Microbiology and Hygiene, Heidelberg University Hospital, Im Neuenheimer Feld 324, Heidelberg 69120, Germany
| | - Ulrike Bartz
- Department of Natural Sciences, University of Applied Sciences Bonn-Rhein-Sieg, von-Liebig-Str. 20, Rheinbach 53359, Germany
| | - Michael Mareš
- Institute of Organic Chemistry and Biochemistry of the Czech Academy of Sciences, Flemingovo n. 2, Prague 16610, Czech Republic
| | - Michael Gütschow
- Pharmaceutical Institute, Pharmaceutical & Medicinal Chemistry, University of Bonn, An der Immenburg 4, Bonn 53121, Germany
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13
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Nanoparticle shell structural cues drive in vitro transport properties, tissue distribution and brain accessibility in zebrafish. Biomaterials 2021; 277:121085. [PMID: 34461457 DOI: 10.1016/j.biomaterials.2021.121085] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/13/2021] [Revised: 07/26/2021] [Accepted: 08/23/2021] [Indexed: 01/14/2023]
Abstract
Zwitterion polymers with strong antifouling properties have been suggested as the prime alternative to polyethylene glycol (PEG) for drug nanocarriers surface coating. It is believed that PEG coating shortcomings, such as immune responses and incomplete protein repellency, could be overcome by zwitterionic polymers. However, no systematic study has been conducted so far to complete a comparative appraisal of PEG and zwitterionic-coating effects on nanoparticles (NPs) stealthness, cell uptake, cell barrier translocation and biodistribution in the context of nanocarriers brain targeting. Core-shell polymeric particles with identical cores and a shell of either PEG or poly(2-methacryloyloxyethyl phosphorylcholine (PMPC) were prepared by impinging jet mixer nanoprecipitation. NPs with similar size and surface potential were systematically compared using in vitro and in vivo assays. NPs behavior differences were rationalized based on their protein-particles interactions. PMPC-coated NPs were significantly more endocytosed by mouse macrophages or brain resident macrophages compared to PEGylated NPs but exhibited the remarkable ability to cross the blood-brain barrier in in vitro models. Nanoscale flow cytometry assays showed significantly more adsorbed proteins on PMPC-coated NPs than PEG-coated NPs. In vivo, distribution in zebrafish larvae, showed a strong propensity for PMPC-coated NPs to adhere to the vascular endothelium, while PEG-coated NPs were able to circulate for a longer time and escape the bloodstream to penetrate deep into the cerebral tissue. The stark differences between these two types of particles, besides their similarities in size and surface potential, points towards the paramount role of surface chemistry in controlling NPs fate likely via the formation of distinct protein corona for each coating.
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14
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Colas K, Doloczki S, Posada Urrutia M, Dyrager C. Prevalent Bioimaging Scaffolds: Synthesis, Photophysical Properties and Applications. European J Org Chem 2021. [DOI: 10.1002/ejoc.202001658] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Affiliation(s)
- Kilian Colas
- Department of Chemistry – BMC Uppsala University Box 576 75123 Uppsala Sweden
| | - Susanne Doloczki
- Department of Chemistry – BMC Uppsala University Box 576 75123 Uppsala Sweden
| | | | - Christine Dyrager
- Department of Chemistry – BMC Uppsala University Box 576 75123 Uppsala Sweden
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15
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Zakharenkova SA, Katkova EA, Doroshenko IA, Kriveleva AS, Lebedeva AN, Vidinchuk TA, Shik AV, Abramchuk SS, Podrugina TA, Beklemishev MK. Aggregation-based fluorescence amplification strategy: "turn-on" sensing of aminoglycosides using near-IR carbocyanine dyes and pre-micellar surfactants. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2021; 247:119109. [PMID: 33147554 DOI: 10.1016/j.saa.2020.119109] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/02/2020] [Revised: 10/02/2020] [Accepted: 10/14/2020] [Indexed: 06/11/2023]
Abstract
This study is aimed at developing sensing schemes without obtaining selective receptors. A series of simple carbocyanine dyes was synthesized, whose emission was quenched in water with formation of nanoparticles in the range of 20-100 nm. Fluorescence in near-IR region is "turned on" in the presence of a drug cation of middle molecular weight (400-700 Da) and sodium dodecyl sulfate (SDS), as well as anionic drugs and a cationic surfactant (cetyltrimethylammonium bromide, CTAB). Aggregates (clusters) up to 100-200 nm in size were detected using dynamic light scattering (DLS) and Rayleigh light scattering (RLS) techniques in the systems: cationic analyte-SDS, carbocyanine dye-CTAB, and in all brightly fluorescent ternary systems dye-surfactant-analyte. Small ions (<200 Da) incapable of multi-point binding do not form the aggregates or cause the emission enhancement. The "turn-on" signal is only observed at the surfactant submicellar concentrations insufficient to solubilize the dye nanoparticles. Based on these findings, we suggest a rapid and simple method for the detection of ≥4·10-5 mol/L of neomycin in urine. The proposed strategy paves the way for developing more selective methods.
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Affiliation(s)
- Sofia A Zakharenkova
- M.V. Lomonosov Moscow State University, Department of Chemistry, 119991 GSP-1 Moscow, Russia
| | - Ekaterina A Katkova
- M.V. Lomonosov Moscow State University, Department of Chemistry, 119991 GSP-1 Moscow, Russia
| | - Irina A Doroshenko
- M.V. Lomonosov Moscow State University, Department of Chemistry, 119991 GSP-1 Moscow, Russia
| | - Anna S Kriveleva
- M.V. Lomonosov Moscow State University, Department of Chemistry, 119991 GSP-1 Moscow, Russia
| | - Aleksandra N Lebedeva
- M.V. Lomonosov Moscow State University, Department of Chemistry, 119991 GSP-1 Moscow, Russia
| | - Tatyana A Vidinchuk
- M.V. Lomonosov Moscow State University, Department of Chemistry, 119991 GSP-1 Moscow, Russia
| | - Anna V Shik
- M.V. Lomonosov Moscow State University, Department of Chemistry, 119991 GSP-1 Moscow, Russia
| | - Sergei S Abramchuk
- Nesmeyanov Institute of Organoelement Compounds (INEOS), Russian Academy of Sciences, Vavilova 28, Moscow 119991, Russia
| | - Tatyana A Podrugina
- M.V. Lomonosov Moscow State University, Department of Chemistry, 119991 GSP-1 Moscow, Russia
| | - Mikhail K Beklemishev
- M.V. Lomonosov Moscow State University, Department of Chemistry, 119991 GSP-1 Moscow, Russia.
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16
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Zakharenkova SA, Kriveleva AS, Katkova EA, Doroshenko IA, Polovkov NY, Podrugina TA, Beklemishev MK. Non-covalent binding and selective fluorescent sensing of dipyrone with a carbocyanine dye and cetyltrimethylammonium bromide. Methods Appl Fluoresc 2021; 9. [PMID: 33053517 DOI: 10.1088/2050-6120/abc13c] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/04/2020] [Accepted: 10/14/2020] [Indexed: 11/12/2022]
Abstract
The work is aimed at the search of selective fluorescent sensors without using specific artificial receptors, antibodies, enzymes etc. With this end in view, methods based on non-covalent binding of target analytes are sought. We observed dramatic changes in the emission spectrum of a carbocyanine dye in a micellar surfactant solution (cetyltrimethylammonium bromide, CTAB) in the presence of dipyrone (metamizol, analgin): the 480 nm band intensity increases with a simultaneous decrease in intensity in near-IR region (720 nm). MALDI and NMR-1H data show the intact molecules of dipyrone and the dye. The detection can be performed in the presence of other organic species and inorganic salts. Dipyrone testing is feasible within 5 × 10-7-5 × 10-4M with RSDs of 3.5% by using a visualizer instead of a spectrofluorimeter.
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Affiliation(s)
- Sofia A Zakharenkova
- Lomonosov Moscow State University, Department of Chemistry, 119991 GSP-1, Moscow, Russia
| | - Anna S Kriveleva
- Lomonosov Moscow State University, Department of Chemistry, 119991 GSP-1, Moscow, Russia
| | - Ekaterina A Katkova
- Lomonosov Moscow State University, Department of Chemistry, 119991 GSP-1, Moscow, Russia
| | - Irina A Doroshenko
- Lomonosov Moscow State University, Department of Chemistry, 119991 GSP-1, Moscow, Russia
| | - Nikolai Yu Polovkov
- Topchiev Institute of Petrochemical Synthesis, Russian Academy of Sciences, Leninsky Prospect 29, 119991 Moscow, Russia
| | - Tatyana A Podrugina
- Lomonosov Moscow State University, Department of Chemistry, 119991 GSP-1, Moscow, Russia
| | - Mikhail K Beklemishev
- Lomonosov Moscow State University, Department of Chemistry, 119991 GSP-1, Moscow, Russia
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17
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Babity S, Brambilla D. Data on the removal of peroxides from functionalized polyethylene glycol (PEG) and effects on the stability and sensitivity of resulting PEGylated conjugates. Data Brief 2020; 32:106258. [PMID: 32964079 PMCID: PMC7490725 DOI: 10.1016/j.dib.2020.106258] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/21/2020] [Revised: 08/11/2020] [Accepted: 08/26/2020] [Indexed: 11/25/2022] Open
Abstract
Cyanine-5 (Cy5) is a fluorescent dye active in the far-red region of the visible spectrum (λex = 646 nm, λem = 662 nm) [1]. While Cy5 displays fluorescence in its oxidized form, it can be readily converted to its non-fluorescent hydrocyanine equivalent (H-Cy5) when exposed to reducing agents. H-Cy5 can then be converted back to its fluorescent oxidized form when exposed to reactive oxygen species (ROS), allowing it to act as a highly sensitive, high wavelength fluorescent ROS sensor [2]. However, H-Cy5 is a small, poorly water-soluble molecule, and is rapidly taken up into cells in vivo, preventing its use for sensing extracellular ROS, which are implicated in inflammation, wound healing, and other processes [3], [4], [5], [6]. A solution to this lies in the conjugation of Cy5 to a polyethylene glycol (PEG) polymer, increasing its solubility [7]. This conjugate (Cy5-PEG) can be reduced to H-Cy5-PEG to allow the highly sensitive detection of ROS in an aqueous extracellular environment. However, after PEG conjugation, a significant decrease in stability and sensitivity is observed, likely owing to the presence of ROS contaminants in commercial samples of PEG. It has been reported that these ROS impurities can be removed from PEG through a simple freeze-drying procedure [8]. Here, we demonstrate that a simple, straightforward method for the purification of PEG can allow the synthesis of a highly functional, water-soluble ROS sensor that could be used for extracellular ROS sensing.
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Affiliation(s)
- Samuel Babity
- Faculté de Pharmacie, Université de Montréal, 2940 Chemin de Polytechnique, Montréal, Canada
| | - Davide Brambilla
- Faculté de Pharmacie, Université de Montréal, 2940 Chemin de Polytechnique, Montréal, Canada
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18
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Wu L, Chen L, Kou M, Dong Y, Deng W, Ge L, Bao H, Chen Q, Li D. The ratiometric fluorescent probes for monitoring the reactive inorganic sulfur species (RISS) signal in the living cell. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2020; 231:118141. [PMID: 32062515 DOI: 10.1016/j.saa.2020.118141] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/27/2019] [Revised: 02/02/2020] [Accepted: 02/06/2020] [Indexed: 06/10/2023]
Abstract
RSSs (reactive sulfur species) and their metabolites, such as H2S, Sn2-, SO32-/HSO3-, S2O42- and S2O52- (Reactive Inorganic Sulfur Species, RISSs), play a crucial role in the cushion against oxidative stress and the other physiological events. The molecular mechanisms how they affect cellular signaling and other physiological events remain largely unknown. To address their physiological functions, the techniques that can track their levels should be invaluable. Herein, six coumarin hemicyanine scaffolds (CH-RISSs) were synthesized and their fast and strong responses upon H2S, Sn2-, SO32-, HSO3-, S2O42- and S2O52- (Reactive Inorganic Sulfur Species, RISSs) were clarified in the absorption (colorimetric) and fluorescence (ratiometric) spectra, which showed good stability in the physiological pH (7.4). Upon the analytes, the maxima absorption of CH-RISSs switched from ~580 nm to ~400 nm in the absorption spectra. The fluorescence of CH-RISSs depleted at 650-660 nm and increased at 480-505 nm upon the RISSs. Both of coumarin hemicyanine structures with C12 alkyl chain (CH-RISS-3 and CH-RISS-6) showed quick and robust ratiometric fluorescence switch in the living cell imaging. Access to the fluorescent probes for RISSs sets the stage for applying the developing technologies to probe reactive sulfur biology in living systems.
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Affiliation(s)
- Linye Wu
- Fujian Key Laboratory of Innate Immune Biology, Biomedical Research Center of South China, College of Life Sciences, Fujian Normal University, 1 Keji Road, Fuzhou 350117, PR China; Provincial University Key Laboratory of Cellular Stress Response and Metabolic Regulation, College of Life Sciences, Fujian Normal University, Fuzhou 350117, PR China
| | - Langjun Chen
- Fujian Key Laboratory of Innate Immune Biology, Biomedical Research Center of South China, College of Life Sciences, Fujian Normal University, 1 Keji Road, Fuzhou 350117, PR China; Provincial University Key Laboratory of Cellular Stress Response and Metabolic Regulation, College of Life Sciences, Fujian Normal University, Fuzhou 350117, PR China
| | - Meng Kou
- Fujian Key Laboratory of Innate Immune Biology, Biomedical Research Center of South China, College of Life Sciences, Fujian Normal University, 1 Keji Road, Fuzhou 350117, PR China; Provincial University Key Laboratory of Cellular Stress Response and Metabolic Regulation, College of Life Sciences, Fujian Normal University, Fuzhou 350117, PR China
| | - Yanqiu Dong
- Fujian Key Laboratory of Innate Immune Biology, Biomedical Research Center of South China, College of Life Sciences, Fujian Normal University, 1 Keji Road, Fuzhou 350117, PR China
| | - Weili Deng
- Fujian Key Laboratory of Innate Immune Biology, Biomedical Research Center of South China, College of Life Sciences, Fujian Normal University, 1 Keji Road, Fuzhou 350117, PR China; Provincial University Key Laboratory of Cellular Stress Response and Metabolic Regulation, College of Life Sciences, Fujian Normal University, Fuzhou 350117, PR China
| | - Liang Ge
- Key Laboratory of Coal to Ethylene Glycol and Its Related Technology, Fujian Institute of Research on the Structure of Matter, Chinese Academy of Sciences, 155 Yangqiao Road West, Fuzhou 350002, PR China
| | - Hongli Bao
- Key Laboratory of Coal to Ethylene Glycol and Its Related Technology, Fujian Institute of Research on the Structure of Matter, Chinese Academy of Sciences, 155 Yangqiao Road West, Fuzhou 350002, PR China
| | - Qi Chen
- Fujian Key Laboratory of Innate Immune Biology, Biomedical Research Center of South China, College of Life Sciences, Fujian Normal University, 1 Keji Road, Fuzhou 350117, PR China.
| | - Daliang Li
- Fujian Key Laboratory of Innate Immune Biology, Biomedical Research Center of South China, College of Life Sciences, Fujian Normal University, 1 Keji Road, Fuzhou 350117, PR China; Provincial University Key Laboratory of Cellular Stress Response and Metabolic Regulation, College of Life Sciences, Fujian Normal University, Fuzhou 350117, PR China.
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19
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Liu SL, Wang ZG, Xie HY, Liu AA, Lamb DC, Pang DW. Single-Virus Tracking: From Imaging Methodologies to Virological Applications. Chem Rev 2020; 120:1936-1979. [PMID: 31951121 PMCID: PMC7075663 DOI: 10.1021/acs.chemrev.9b00692] [Citation(s) in RCA: 110] [Impact Index Per Article: 27.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
![]()
Uncovering
the mechanisms of virus infection and assembly is crucial
for preventing the spread of viruses and treating viral disease. The
technique of single-virus tracking (SVT), also known as single-virus
tracing, allows one to follow individual viruses at different parts
of their life cycle and thereby provides dynamic insights into fundamental
processes of viruses occurring in live cells. SVT is typically based
on fluorescence imaging and reveals insights into previously unreported
infection mechanisms. In this review article, we provide the readers
a broad overview of the SVT technique. We first summarize recent advances
in SVT, from the choice of fluorescent labels and labeling strategies
to imaging implementation and analytical methodologies. We then describe
representative applications in detail to elucidate how SVT serves
as a valuable tool in virological research. Finally, we present our
perspectives regarding the future possibilities and challenges of
SVT.
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Affiliation(s)
- Shu-Lin Liu
- State Key Laboratory of Medicinal Chemical Biology, Tianjin Key Laboratory of Biosensing and Molecular Recognition, Research Center for Analytical Sciences, College of Chemistry, and School of Medicine , Nankai University , Tianjin 300071 , P. R. China.,Engineering Research Center of Nano-Geomaterials of Ministry of Education, Faculty of Materials Science and Chemistry , China University of Geosciences , Wuhan 430074 , P. R. China
| | - Zhi-Gang Wang
- State Key Laboratory of Medicinal Chemical Biology, Tianjin Key Laboratory of Biosensing and Molecular Recognition, Research Center for Analytical Sciences, College of Chemistry, and School of Medicine , Nankai University , Tianjin 300071 , P. R. China
| | - Hai-Yan Xie
- School of Life Science , Beijing Institute of Technology , Beijing 100081 , P. R. China
| | - An-An Liu
- State Key Laboratory of Medicinal Chemical Biology, Tianjin Key Laboratory of Biosensing and Molecular Recognition, Research Center for Analytical Sciences, College of Chemistry, and School of Medicine , Nankai University , Tianjin 300071 , P. R. China
| | - Don C Lamb
- Physical Chemistry, Department of Chemistry, Center for Nanoscience (CeNS), and Center for Integrated Protein Science Munich (CIPSM) and Nanosystems Initiative Munich (NIM) , Ludwig-Maximilians-Universität , München , 81377 , Germany
| | - Dai-Wen Pang
- State Key Laboratory of Medicinal Chemical Biology, Tianjin Key Laboratory of Biosensing and Molecular Recognition, Research Center for Analytical Sciences, College of Chemistry, and School of Medicine , Nankai University , Tianjin 300071 , P. R. China.,College of Chemistry and Molecular Sciences, State Key Laboratory of Virology, The Institute for Advanced Studies, and Wuhan Institute of Biotechnology , Wuhan University , Wuhan 430072 , P. R. China
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20
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Utreja D, Sharma S, Goyal A, Kaur K, Kaushal S. Synthesis and Biological Activity of Quaternary Quinolinium Salts: A Review. CURR ORG CHEM 2020. [DOI: 10.2174/1385272823666191023122704] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
Abstract
Heterocyclic chemistry is the only branch of chemistry that has applications in
varied areas such as dyes, photosensitizers, coordination compounds, polymeric materials,
biological, and many other fields. Quinoline and its derivatives have always engrossed
both synthetic chemists and biologists because of their diverse chemical and pharmacological
properties as these ring systems can be easily found in various natural products, especially
in alkaloids. Among alkaloids, quinoline derivatives i.e. quinolinium salts have
attracted much attention nowadays owing to their diverse biological profile such as antimicrobial,
antitumor, antifungal, hypotensive, anti-HIV, analgesics and anti-inflammatory,
etc. Quinoline and its analogs have recently been examined for their modes of function in
the inhibition of tyrosine kinases, proteasome, tubulin polymerization, topoisomerase, and
DNA repair. These observations have been guiding scientists for the expansion of new quinoline derivatives
with improved and varied biological activities. Quinolinium salts have immense possibilities and scope to investigate
these compounds as potential drug candidates. Therefore, we shall present a concise compilation of
this work to aid in present knowledge and to help researchers explore an interesting quinoline class having medicinal
potential.
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Affiliation(s)
- Divya Utreja
- Department of Chemistry, Punjab Agricultural University, Ludhiana 141004, India
| | - Shivali Sharma
- Department of Chemistry, Punjab Agricultural University, Ludhiana 141004, India
| | - Akhil Goyal
- Department of Chemistry, Punjab Agricultural University, Ludhiana 141004, India
| | - Komalpreet Kaur
- Department of Chemistry, Punjab Agricultural University, Ludhiana 141004, India
| | - Sonia Kaushal
- Department of Chemistry, Punjab Agricultural University, Ludhiana 141004, India
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22
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Zhdanova KA, Ezhov AV, Bragina NA, Mironov AF. Synthesis of new binary porphyrin–cyanine conjugates and their self-aggregation in organic-aqueous media. MENDELEEV COMMUNICATIONS 2018. [DOI: 10.1016/j.mencom.2018.11.021] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
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23
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Natyrov AN, Vlasova NA, Matvienko IV, Volkov EM, Bayramov VM, Kurochkin VE, Alexeev JI. Synthesis of Unsymmetrical Polymethine Cyanine Fluorescent Dyes for Nucleic Acid Analysis by Real-Time PCR. RUSSIAN JOURNAL OF BIOORGANIC CHEMISTRY 2018. [DOI: 10.1134/s1068162018040131] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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24
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Soethoudt M, Alachouzos G, van Rooden EJ, Moya-Garzón MD, van den Berg RJ, Heitman LH, van der Stelt M. Development of a Cannabinoid-Based Photoaffinity Probe to Determine the Δ 8/9-Tetrahydrocannabinol Protein Interaction Landscape in Neuroblastoma Cells. Cannabis Cannabinoid Res 2018; 3:136-151. [PMID: 29992186 PMCID: PMC6038054 DOI: 10.1089/can.2018.0003] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022] Open
Abstract
Introduction: Δ9-Tetrahydrocannabinol (THC), the principle psychoactive ingredient in Cannabis, is widely used for its therapeutic effects in a large variety of diseases, but it also has numerous neurological side effects. The cannabinoid receptors (CBRs) are responsible to a large extent for these, but not all biological responses are mediated via the CBRs. Objectives: The identification of additional target proteins of THC to enable a better understanding of the (adverse) physiological effects of THC. Methods: In this study, a chemical proteomics approach using a two-step photoaffinity probe is applied to identify potential proteins that may interact with THC. Results: Photoaffinity probe 1, containing a diazirine as a photocrosslinker, and a terminal alkyne as a ligation handle, was synthesized in 14 steps. It demonstrated high affinity for both CBRs. Subsequently, two-step photoaffinity labeling in neuroblastoma cells led to identification of four potential novel protein targets of THC. The identification of these putative protein hits is a first step towards a better understanding of the protein interaction profile of THC, which could ultimately lead to the development of novel therapeutics based on THC.
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Affiliation(s)
- Marjolein Soethoudt
- Department of Molecular Physiology, Leiden Institute of Chemistry, Leiden University, Leiden, The Netherlands
- Division of Drug Discovery and Safety, Leiden Academic Centre for Drug Research, Leiden University, Leiden, The Netherlands
| | - Georgios Alachouzos
- Department of Molecular Physiology, Leiden Institute of Chemistry, Leiden University, Leiden, The Netherlands
| | - Eva J. van Rooden
- Department of Molecular Physiology, Leiden Institute of Chemistry, Leiden University, Leiden, The Netherlands
| | - María Dolores Moya-Garzón
- Department of Molecular Physiology, Leiden Institute of Chemistry, Leiden University, Leiden, The Netherlands
| | | | - Laura H. Heitman
- Division of Drug Discovery and Safety, Leiden Academic Centre for Drug Research, Leiden University, Leiden, The Netherlands
| | - Mario van der Stelt
- Department of Molecular Physiology, Leiden Institute of Chemistry, Leiden University, Leiden, The Netherlands
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25
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Perry A, Kousseff CJ. Synthesis and metal binding properties of N-alkylcarboxyspiropyrans. Beilstein J Org Chem 2017; 13:1542-1550. [PMID: 28845199 PMCID: PMC5550821 DOI: 10.3762/bjoc.13.154] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/08/2017] [Accepted: 07/19/2017] [Indexed: 11/23/2022] Open
Abstract
Spiropyrans bearing an N-alkylcarboxylate tether are a common structure in dynamic, photoactive materials and serve as colourimetric/fluorimetric cation receptors. In this study, we describe an efficient synthesis of spiropyrans with 2-12 carbon atom alkylcarboxylate substituents, and a systematic analysis of their interactions with metal cations using 1H NMR and UV-visible spectroscopy. All N-alkylcarboxyspiropyrans in this study displayed a strong preference for binding divalent metal cations and a modest increase in M2+ binding affinity correlated with increased alkycarboxylate tether length.
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Affiliation(s)
- Alexis Perry
- Biosciences, University of Exeter, Stocker Road, Exeter EX4 4QD, UK
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26
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Kodger TE, Lu PJ, Wiseman GR, Weitz DA. Stable, Fluorescent Polymethylmethacrylate Particles for the Long-Term Observation of Slow Colloidal Dynamics. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2017; 33:6382-6389. [PMID: 28560881 DOI: 10.1021/acs.langmuir.7b00852] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/07/2023]
Abstract
Suspensions of solid micron-scale colloidal particles in liquid solvents are a foundational model system used to explore a wide range of phase transitions, including crystallization, gelation, spinodal decomposition, and the glass transition. One of the most commonly used systems for these investigations is the fluorescent spherical particles of polymethylmethacrylate (PMMA) suspended in a mixture of nonpolar solvents that match the density and the refractive index of the particles to minimize sedimentation and scattering. However, the particles can swell in these solvents, changing their size and density, and may leak the fluorescent dye over days to weeks; this constrains the exploration of slow and kinetically limited processes, such as near-boundary phase separation or the glass transition. In this paper, we produce PMMA colloidal particles that employ polymerizable and photostable cyanine-based fluorescent monomers spanning the range of visible wavelengths and a polymeric stabilizer prepared from polydimethylsiloxane, PDMS-graft-PMMA. Using microcalorimetry, we characterize the thermodynamics of an accelerated equilibration process for these dispersions in the buoyancy- and refractive-index-matching solvents. We use confocal differential dynamic microscopy to demonstrate that they behave as hard spheres. The suspended particles are stable for months to years, maintaining fixed particle size and density, and do not leak dye. Thus, these particles enable longer term experiments than may have been possible earlier; we demonstrate this by observing spinodal decomposition in a mixture of these particles with a depletant polymer in the microgravity environment of the International Space Station. Using fluorescence microscopy, we observe coarsening over several months and measure the growth of the characteristic length scale to be a fraction of a picometer per second; this rate is among the slowest observed in a phase-separating system. Our protocols should facilitate the synthesis of a variety of particles.
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Affiliation(s)
- Thomas E Kodger
- Department of Physics and SEAS, Harvard University , Cambridge, Massachusetts 02138, United States
| | - Peter J Lu
- Department of Physics and SEAS, Harvard University , Cambridge, Massachusetts 02138, United States
| | - G Reid Wiseman
- International Space Station, Low Earth Orbit, and NASA Johnson Space Center , Houston, Texas 77058, United States
| | - David A Weitz
- Department of Physics and SEAS, Harvard University , Cambridge, Massachusetts 02138, United States
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27
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Astakhova K, Golovin AV, Prokhorenko IA, Ustinov AV, Stepanova IA, Zatsepin TS, Korshun VA. Design of 2′-phenylethynylpyrene excimer forming DNA/RNA probes for homogeneous SNP detection: The attachment manner matters. Tetrahedron 2017. [DOI: 10.1016/j.tet.2017.04.045] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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28
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Vasilyeva SV, Burakova EA, Zhdanova LG, Anisimenko MS, Stetsenko DA. Fluorescent labeling of Taqman oligonucleotide probes via Cu(I)-catalyzed alkyne-azide cycloaddition (CuAAC) click chemistry. RUSSIAN JOURNAL OF BIOORGANIC CHEMISTRY 2017. [DOI: 10.1134/s1068162017010113] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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29
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Alagumalai A, M K MF, Vellimalai P, Sil MC, Nithyanandhan J. Effect of Out-of-Plane Alkyl Group's Position in Dye-Sensitized Solar Cell Efficiency: A Structure-Property Relationship Utilizing Indoline-Based Unsymmetrical Squaraine Dyes. ACS APPLIED MATERIALS & INTERFACES 2016; 8:35353-35367. [PMID: 27957855 DOI: 10.1021/acsami.6b12730] [Citation(s) in RCA: 32] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/06/2023]
Abstract
Squaraine dyes are promising chromophores to harvest visible and near-infrared (NIR) photons. A series of indoline-based unsymmetrical squaraine (SQ) dyes that contain alkyl chains at sp3 C- and N- atoms of indoline moieties with a carboxylic acid anchoring group were synthesized. The optical and electrochemical properties of the SQ dyes in solution were nearly identical as there was no change in the D-A-D SQ framework; however, remarkable changes with respect to the power conversion efficiencies (PCE) were observed depending upon the position of alkyl groups in the dye. Introduction of alkyl groups to the indoline unit that was away from anchoring unit were helped in more dye loading with controlled organization of dyes on surface, increased charge transfer resistance, long electron lifetime, and hence higher PCE than that of the corresponding isomer in which the alkyl groups funtionalized indoline unit contains the carboxylic acid anchoring group. Careful analysis of incident photon-to-current conversion efficiency (IPCE) profiles indicated the presence of aggregated structure on the TiO2 surface that contributes to the charge injection in the presence of a coadsorbent. A dye-sensitized solar cell (DSSC) device made out of SQ5 was achieved an efficiency of 9.0%, with an open-circuit potential (Voc) of 660 mV and short-circuit current density (Jsc) of 19.82 mA/cm2, under simulated AM 1.5G illumination (100 mW/cm2). The IPCE profile of SQ5 shows an onset near to 750 nm with a good quantum efficiency (>80%) in the range of 550-700 nm, indicating the importance of self-organization of dyes on the TiO2 surface for an efficient charge injection. This present investigation revealed the importance of position of alkyl groups in the squaraine-based dyes for the better PCE.
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Affiliation(s)
- Ananthan Alagumalai
- Physical and Materials Chemistry Division, CSIR-National Chemical Laboratory, CSIR-Network of Institutes for Solar Energy , Dr. Homi Bhaba Road, Pune 411008, India
| | - Munavvar Fairoos M K
- Physical and Materials Chemistry Division, CSIR-National Chemical Laboratory, CSIR-Network of Institutes for Solar Energy , Dr. Homi Bhaba Road, Pune 411008, India
| | - Punitharasu Vellimalai
- Physical and Materials Chemistry Division, CSIR-National Chemical Laboratory, CSIR-Network of Institutes for Solar Energy , Dr. Homi Bhaba Road, Pune 411008, India
- Academy of Scientific and Innovative Research (AcSIR) , New Delhi 110025, India
| | - Manik Chandra Sil
- Physical and Materials Chemistry Division, CSIR-National Chemical Laboratory, CSIR-Network of Institutes for Solar Energy , Dr. Homi Bhaba Road, Pune 411008, India
- Academy of Scientific and Innovative Research (AcSIR) , New Delhi 110025, India
| | - Jayaraj Nithyanandhan
- Physical and Materials Chemistry Division, CSIR-National Chemical Laboratory, CSIR-Network of Institutes for Solar Energy , Dr. Homi Bhaba Road, Pune 411008, India
- Academy of Scientific and Innovative Research (AcSIR) , New Delhi 110025, India
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30
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Herbst E, Shabat D. FRET-based cyanine probes for monitoring ligation reactions and their applications to mechanistic studies and catalyst screening. Org Biomol Chem 2016; 14:3715-28. [PMID: 26909686 DOI: 10.1039/c5ob02127h] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
There is an ever-increasing need to design better methods to selectively connect two molecules under mild aqueous conditions on a small scale. The process of finding such methods significantly relies on the employment of an appropriate assay. We report here a modular FRET-based assay to monitor such reactions and illustrate how the assay is used to monitor two particular reactions: native chemical ligation (NCL) and oxime ligation. For both reactions we show that by employing appropriately designed probes FRET measurements could be used to monitor the reaction's progress. We additionally demonstrate the usefulness of the developed probe system to study the mechanisms of the ligation reactions, for example, in monitoring the formation of a trimeric intermediate in the NCL reaction. Finally, we demonstrate that FRET measurements conducted in our system allow the quantification of the reaction yield and we show the application of our FRET-based assay to catalyst screening for the oxime ligation.
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Affiliation(s)
- E Herbst
- School of Chemistry, Department of Organic Chemistry, Raymond and Beverly Sackler Faculty of Exact Sciences, Tel-Aviv University, Tel Aviv, 69978 Israel
| | - D Shabat
- School of Chemistry, Department of Organic Chemistry, Raymond and Beverly Sackler Faculty of Exact Sciences, Tel-Aviv University, Tel Aviv, 69978 Israel
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31
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Cyanine-based 1-amino-1-deoxyglucose as fluorescent probes for glucose transporter mediated bioimaging. Biochem Biophys Res Commun 2016; 474:240-246. [DOI: 10.1016/j.bbrc.2016.03.133] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/19/2016] [Accepted: 03/27/2016] [Indexed: 02/04/2023]
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32
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García-López V, Jeffet J, Kuwahara S, Martí AA, Ebenstein Y, Tour JM. Synthesis and Photostability of Unimolecular Submersible Nanomachines: Toward Single-Molecule Tracking in Solution. Org Lett 2016; 18:2343-6. [PMID: 27124281 PMCID: PMC4877667 DOI: 10.1021/acs.orglett.6b00506] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/23/2023]
Abstract
![]()
The
synthesis and photophysical properties of a series of photostable
unimolecular submersible nanomachines (USNs) are reported as a first
step toward the analysis of their trajectories in solution. The USNs
have a light-driven rotatory motor for propulsion in solution and
photostable cy5-COT fluorophores for their tracking. These cy5-COT
fluorophores are found to provide an almost 2-fold increase in photostability
compared to the previous USN versions and do not affect the rotation
of the motor.
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Affiliation(s)
| | - Jonathan Jeffet
- School of Chemistry, Raymond and Beverly Sackler Faculty of Exact Sciences, Tel Aviv University , Ramat Aviv 69978, Israel
| | - Shunsuke Kuwahara
- Department of Chemistry, Faculty of Science, Toho University , 2-2-1 Miyama, Funabashi, Chiba 274-8510, Japan
| | | | - Yuval Ebenstein
- School of Chemistry, Raymond and Beverly Sackler Faculty of Exact Sciences, Tel Aviv University , Ramat Aviv 69978, Israel
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33
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Ryabinin VA, Kostina EV, Maksakova GA, Sinyakov AN. Synthesis of TaqMan probes using bisphosphoramidite of cyanine dye Cy3. RUSSIAN JOURNAL OF BIOORGANIC CHEMISTRY 2016. [DOI: 10.1134/s1068162015050131] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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34
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A Near-Infrared Fluorescence Probe for Thiols Based on Analyte-Specific Cleavage of Carbamate and Its Application in Bioimaging. European J Org Chem 2015. [DOI: 10.1002/ejoc.201403398] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
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35
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Steponavičiūtė R, Martynaitis V, Bieliauskas A, Šačkus A. Synthesis of new fluorescent building blocks via the microwave-assisted annulation reaction of 1,1,2-trimethyl-1H-benzo[e]indole with acrylic acid and its derivatives. Tetrahedron 2014. [DOI: 10.1016/j.tet.2014.01.070] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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36
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Synthesis of quaternary heterocyclic salts. Molecules 2013; 18:14306-19. [PMID: 24256924 PMCID: PMC4086059 DOI: 10.3390/molecules181114306] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/07/2013] [Revised: 10/28/2013] [Accepted: 10/28/2013] [Indexed: 12/03/2022] Open
Abstract
The microwave synthesis of twenty quaternary ammonium salts is described. The syntheses feature comparable yields to conventional synthetic methods reported in the current literature with reduced reaction times and the absence of solvent or minimal solvent.
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37
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Liu L, Xing T, Mao C, Lai B, Yan L. Preparation of Near-Infrared PEGylated Polypeptide for Potential Visible Drug Delivery. JOURNAL OF MACROMOLECULAR SCIENCE PART A-PURE AND APPLIED CHEMISTRY 2012. [DOI: 10.1080/10601325.2012.736265] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
Affiliation(s)
- Luxuan Liu
- a Hefei National Laboratory for Physical Sciences at the Microscale and Department of Chemical Physics , University of Science and Technology of China , Hefei , P.R.China
| | - Tao Xing
- a Hefei National Laboratory for Physical Sciences at the Microscale and Department of Chemical Physics , University of Science and Technology of China , Hefei , P.R.China
| | - Chengqiong Mao
- a Hefei National Laboratory for Physical Sciences at the Microscale and Department of Chemical Physics , University of Science and Technology of China , Hefei , P.R.China
| | - Bin Lai
- a Hefei National Laboratory for Physical Sciences at the Microscale and Department of Chemical Physics , University of Science and Technology of China , Hefei , P.R.China
| | - Lifeng Yan
- a Hefei National Laboratory for Physical Sciences at the Microscale and Department of Chemical Physics , University of Science and Technology of China , Hefei , P.R.China
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38
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Efficient method for the synthesis of dideoxyuridine-5′-triphosphate fluorescent derivative. Russ Chem Bull 2012. [DOI: 10.1007/s11172-012-0059-9] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
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39
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Facile synthesis of spiro[benzo[e]indole-2,2′-piperidine] derivatives and their transformation to novel fluorescent scaffolds. Tetrahedron 2012. [DOI: 10.1016/j.tet.2012.08.073] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
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40
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Ondrus AE, Lee HLD, Iwanaga S, Parsons WH, Andresen BM, Moerner W, Bois JD. Fluorescent saxitoxins for live cell imaging of single voltage-gated sodium ion channels beyond the optical diffraction limit. CHEMISTRY & BIOLOGY 2012; 19:902-12. [PMID: 22840778 PMCID: PMC3731772 DOI: 10.1016/j.chembiol.2012.05.021] [Citation(s) in RCA: 46] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/24/2012] [Revised: 05/24/2012] [Accepted: 05/25/2012] [Indexed: 12/19/2022]
Abstract
A desire to better understand the role of voltage-gated sodium channels (Na(V)s) in signal conduction and their dysregulation in specific disease states motivates the development of high precision tools for their study. Nature has evolved a collection of small molecule agents, including the shellfish poison (+)-saxitoxin, that bind to the extracellular pore of select Na(V) isoforms. As described in this report, de novo chemical synthesis has enabled the preparation of fluorescently labeled derivatives of (+)-saxitoxin, STX-Cy5, and STX-DCDHF, which display reversible binding to Na(V)s in live cells. Electrophysiology and confocal fluorescence microscopy studies confirm that these STX-based dyes function as potent and selective Na(V) labels. The utility of these probes is underscored in single-molecule and super-resolution imaging experiments, which reveal Na(V) distributions well beyond the optical diffraction limit in subcellular features such as neuritic spines and filopodia.
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Affiliation(s)
- Alison E. Ondrus
- Department of Chemistry, Stanford University, 333 Campus Drive, Stanford, CA 94305-5080, USA
| | - Hsiao-lu D. Lee
- Department of Chemistry, Stanford University, 333 Campus Drive, Stanford, CA 94305-5080, USA
| | - Shigeki Iwanaga
- SYSMEX Corporation, Central Research Laboratories, 4-4-4, Takatsukadai, Nishi-ku, Kobe 651-2271, Japan
| | - William H. Parsons
- Department of Chemistry, Stanford University, 333 Campus Drive, Stanford, CA 94305-5080, USA
| | - Brian M. Andresen
- Department of Chemistry, Stanford University, 333 Campus Drive, Stanford, CA 94305-5080, USA
| | - W.E. Moerner
- Department of Chemistry, Stanford University, 333 Campus Drive, Stanford, CA 94305-5080, USA
| | - J. Du Bois
- Department of Chemistry, Stanford University, 333 Campus Drive, Stanford, CA 94305-5080, USA
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41
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Sinha SH, Owens EA, Feng Y, Yang Y, Xie Y, Tu Y, Henary M, Zheng YG. Synthesis and evaluation of carbocyanine dyes as PRMT inhibitors and imaging agents. Eur J Med Chem 2012; 54:647-59. [PMID: 22749641 DOI: 10.1016/j.ejmech.2012.06.017] [Citation(s) in RCA: 32] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/10/2012] [Revised: 06/04/2012] [Accepted: 06/09/2012] [Indexed: 11/25/2022]
Abstract
Protein arginine methylation regulates multiple biological processes. Deregulation of protein arginine methyltransferase (PRMT) activities has been observed in many disease phenotypes. Small molecule probes that target PRMTs with strong affinity and selectivity can be used as valuable tools to dissect biological mechanisms of arginine methylation and establish the role of PRMT proteins in a disease process. In this work, we report synthesis and evaluation of a class of carbocyanine compounds containing indolium, benz[e]indolium or benz[c,d]indolium heterocyclic moieties that bind to the predominant arginine methyltransferase PRMT1 and inhibit its methyltransferase activity at low micromolar potencies. In particular, the developed molecules have long wavelength colorimetric and fluorometric photoactivities, which can be used for optical and near-infrared fluorescence imaging in cells or biological tissues. Together, these new chemical probes have potential application in PRMT studies both as enzyme inhibitors and as fluorescent dyes for microscope imaging.
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42
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Altevogt née Kienzler A, Flehr R, Gehne S, Kumke MU, Bannwarth W. Verification and Biophysical Characterization of a New Three-Color Förster Resonance-Energy-Transfer (FRET) System in DNA. Helv Chim Acta 2012. [DOI: 10.1002/hlca.201100460] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
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43
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Efficient reverse click labeling of azide oligonucleotides with multiple alkynyl Cy-Dyes applied to the synthesis of HyBeacon probes for genetic analysis. Tetrahedron 2012. [DOI: 10.1016/j.tet.2011.11.041] [Citation(s) in RCA: 33] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/20/2023]
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44
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Tsybulsky DA, Kvach MV, Stepanova IA, Korshun VA, Shmanai VV. 4',5'-Dichloro-2',7'-dimethoxy-5(6)-carboxyfluorescein (JOE): synthesis and spectral properties of oligonucleotide conjugates. J Org Chem 2011; 77:977-84. [PMID: 22148236 DOI: 10.1021/jo202229t] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/15/2023]
Abstract
A convenient procedure for the preparation of the fluorescent dye 4',5'-dichloro-2',7'-dimethoxy-5(6)-carboxyfluorescein (JOE) is reported; the overall yield achieved starting from isovanillin is 10 times higher (40% vs 4%) compared to the known procedure. Isomers (5- and 6-) are easily chromatographically separable as pentafluorophenyl esters of 3',6'-O-bis(cyclohexylcarbonyl) derivatives. Four non-nucleoside JOE phosphoramidites based on 5- and 6-isomers and flexible 6-aminohexanol (AH) or rigid 4-trans-aminocyclohexanol (ACH) linkers have been prepared and used for oligonucleotide labeling. Spectral and photophysical properties of 5'-JOE-modified oligonucleotides have been studied. Fluorescence quantum yield of the dye correlates with the nature of the linker (rigid vs flexible) and with the presence of dG nucleosides in close proximity to a JOE residue.
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Affiliation(s)
- Dmitry A Tsybulsky
- Institute of Physical Organic Chemistry, Surganova 13, 220072 Minsk, Belarus
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45
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Vytla D, Combs-Bachmann RE, Hussey AM, Hafez I, Chambers JJ. Silent, fluorescent labeling of native neuronal receptors. Org Biomol Chem 2011; 9:7151-61. [PMID: 21897969 DOI: 10.1039/c1ob05963g] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
We have developed a minimally-perturbing strategy that enables labeling and subcellular visualization of endogenous dendritic receptors on live, wild-type neurons. Specifically, calcium-permeable non-NMDA glutamate receptors expressed in hippocampal neurons can be targeted with this novel synthetic tri-functional molecule. This ligand-directed probe was targeted towards AMPA receptors and bears an electrophilic group for covalent bond formation with an amino acid side chain on the extracellular side of the ion channel. This molecule was designed in such a way that the use-dependent, polyamine-based ligand accumulates the chemically-reactive group at the extracellular side of these polyamine-sensitive receptors, thereby allowing covalent bond formation between an electrophilic moiety on the nanoprobe and a nucleophilic amino acid sidechain on the receptor. Bioconjugation of this molecule results in a stable covalent bond between the nanoprobe and the target receptor. Subsequent photolysis of a portion of the nanoprobe may then be employed to effect ligand release allowing the receptor to re-enter the non-liganded state, all the while retaining the fluorescent beacon for visualization. This technology allows for rapid fluorescent labeling of native polyamine-sensitive receptors and further advances the field of fluorescent labeling of native biological molecules.
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Affiliation(s)
- Devaiah Vytla
- Department of Chemistry, University of Massachusetts Amherst, Amherst, MA 01003, USA
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46
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Karlova MG, Pischalnikova AV, Ramonova AA, Moisenovich MM, Sokolova OS, Shaitan KV. In vitro fluorescence assay to study the folding of Kv ion channels. Biophysics (Nagoya-shi) 2011. [DOI: 10.1134/s0006350911020138] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022] Open
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47
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Weisbrod SH, Marx A. Novel strategies for the site-specific covalent labelling of nucleic acids. Chem Commun (Camb) 2008:5675-85. [PMID: 19009049 DOI: 10.1039/b809528k] [Citation(s) in RCA: 181] [Impact Index Per Article: 11.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
To broaden the scope of applications in DNA nano- and biotechnology, material science, diagnostics and molecular recognition the functionalization of DNA is of utmost importance. In the last decade many new methods have been developed to achieve this goal. Apart from the direct chemical synthesis of modified DNA by automated phosphoramidite chemistry incorporation of labelled triphosphates and the post-synthetic labelling approach evolved as valuable methods. New bioorthogonal reactions as Diels-Alder, click and Staudinger ligations pushed forward the post-synthetic approach as new insights into DNA polymerase substrate specificity allowed generation and amplification of labelled DNA strands. These novel developments are summarized herein.
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Affiliation(s)
- Samuel H Weisbrod
- Department of Chemistry and Konstanz Research School Chemical Biology, University of Konstanz, 78457, Konstanz, Germany
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