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Mirloup A, Berthomé Y, Riché S, Wagner P, Hanser F, Laurent A, Iturrioz X, Llorens-Cortes C, Karpenko J, Bonnet D. Alared: Solvatochromic and Fluorogenic Red Amino Acid for Ratiometric Live-Cell Imaging of Bioactive Peptides. Chemistry 2024; 30:e202401296. [PMID: 38641990 DOI: 10.1002/chem.202401296] [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: 04/11/2024] [Accepted: 04/17/2024] [Indexed: 04/21/2024]
Abstract
To fill the need for environmentally sensitive fluorescent unnatural amino acids able to operate in the red region of the spectrum, we have designed and synthesized Alared, a red solvatochromic and fluorogenic amino acid derived from the Nile Red chromophore. The new unnatural amino acid can be easily integrated into bioactive peptides using classical solid-phase peptide synthesis. The fluorescence quantum yield and the emission maximum of Alared-labeled peptides vary in a broad range depending on the peptide's environment, making Alared a powerful reporter of biomolecular interactions. Due to its red-shifted absorption and emission spectra, Alared-labeled peptides could be followed in living cells with minimal interference from cellular autofluorescence. Using ratiometric fluorescence microscopy, we were able to track the fate of the Alared-labeled peptide agonists of the apelin G protein-coupled receptor upon receptor activation and internalization. Due to its color-shifting environmentally sensitive emission, Alared allowed for distinguishing the fractions of peptides that are specifically bound to the receptor or unspecifically bound to different cellular membranes.
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Affiliation(s)
- Antoine Mirloup
- Laboratoire d'Innovation Thérapeutique, UMR7200 CNRS/, Université de Strasbourg, Institut du Médicament de Strasbourg, 74 route du Rhin, F-67000, Strasbourg, France
| | - Yann Berthomé
- Laboratoire d'Innovation Thérapeutique, UMR7200 CNRS/, Université de Strasbourg, Institut du Médicament de Strasbourg, 74 route du Rhin, F-67000, Strasbourg, France
| | - Stéphanie Riché
- Laboratoire d'Innovation Thérapeutique, UMR7200 CNRS/, Université de Strasbourg, Institut du Médicament de Strasbourg, 74 route du Rhin, F-67000, Strasbourg, France
| | - Patrick Wagner
- Laboratoire d'Innovation Thérapeutique, UMR7200 CNRS/, Université de Strasbourg, Institut du Médicament de Strasbourg, 74 route du Rhin, F-67000, Strasbourg, France
| | - Fabien Hanser
- Laboratoire d'Innovation Thérapeutique, UMR7200 CNRS/, Université de Strasbourg, Institut du Médicament de Strasbourg, 74 route du Rhin, F-67000, Strasbourg, France
| | - Arthur Laurent
- Laboratoire d'Innovation Thérapeutique, UMR7200 CNRS/, Université de Strasbourg, Institut du Médicament de Strasbourg, 74 route du Rhin, F-67000, Strasbourg, France
| | - Xavier Iturrioz
- Université Paris Saclay, CEA, INRAE, Medicines and Technologies for Health Department, SIMoS, F-91190, Gif-sur-Yvette, France
| | - Catherine Llorens-Cortes
- Université Paris Saclay, CEA, INRAE, Medicines and Technologies for Health Department, SIMoS, F-91190, Gif-sur-Yvette, France
- Laboratory of Central Neuropeptides in the Regulation of Body Fluid Homeostasis and Cardiovascular Functions, College de France, INSERM U1050/CNRS UMR7241, 11 Place Marcelin Berthelot, 75005, Paris, France
| | - Julie Karpenko
- Laboratoire d'Innovation Thérapeutique, UMR7200 CNRS/, Université de Strasbourg, Institut du Médicament de Strasbourg, 74 route du Rhin, F-67000, Strasbourg, France
| | - Dominique Bonnet
- Laboratoire d'Innovation Thérapeutique, UMR7200 CNRS/, Université de Strasbourg, Institut du Médicament de Strasbourg, 74 route du Rhin, F-67000, Strasbourg, France
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2
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Steves MA, He C, Xu K. Single-Molecule Spectroscopy and Super-Resolution Mapping of Physicochemical Parameters in Living Cells. Annu Rev Phys Chem 2024; 75:163-183. [PMID: 38360526 DOI: 10.1146/annurev-physchem-070623-034225] [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] [Indexed: 02/17/2024]
Abstract
By superlocalizing the positions of millions of single molecules over many camera frames, a class of super-resolution fluorescence microscopy methods known as single-molecule localization microscopy (SMLM) has revolutionized how we understand subcellular structures over the past decade. In this review, we highlight emerging studies that transcend the outstanding structural (shape) information offered by SMLM to extract and map physicochemical parameters in living mammalian cells at single-molecule and super-resolution levels. By encoding/decoding high-dimensional information-such as emission and excitation spectra, motion, polarization, fluorescence lifetime, and beyond-for every molecule, and mass accumulating these measurements for millions of molecules, such multidimensional and multifunctional super-resolution approaches open new windows into intracellular architectures and dynamics, as well as their underlying biophysical rules, far beyond the diffraction limit.
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Affiliation(s)
- Megan A Steves
- Department of Chemistry, University of California, Berkeley, California, USA;
| | - Changdong He
- Department of Chemistry, University of California, Berkeley, California, USA;
| | - Ke Xu
- Department of Chemistry, University of California, Berkeley, California, USA;
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3
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Lampkin BJ, Goldberg BJ, Kritzer JA. BenzoHTag, a fluorogenic self-labeling protein developed using molecular evolution. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2024:2023.10.29.564634. [PMID: 38617361 PMCID: PMC11014480 DOI: 10.1101/2023.10.29.564634] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 04/16/2024]
Abstract
Self-labeling proteins are powerful tools in chemical biology as they enable the precise cellular localization of a synthetic molecule, often a fluorescent dye, with the genetic specificity of a protein fusion. HaloTag7 is the most popular self-labeling protein due to its fast labeling kinetics and the simplicity of its chloroalkane ligand. Reaction rates of HaloTag7 with different chloroalkane-containing substrates is highly variable and rates are only very fast for rhodamine-based dyes. This is a major limitation for the HaloTag system because fast labeling rates are critical for live-cell assays. Here, we report a molecular evolution system for HaloTag using yeast surface display that enables the screening of libraries up to 108 variants to improve reaction rates with any substrate of interest. We applied this method to produce a HaloTag variant, BenzoHTag, which has improved performance with a fluorogenic benzothiadiazole dye. The resulting system has improved brightness and conjugation kinetics, allowing for robust, no-wash fluorescent labeling in live cells. The new BenzoHTag-benzothiadiazole system has improved performance in live-cell assays compared to the existing HaloTag7-silicon rhodamine system, including saturation of intracellular enzyme in under 100 seconds and robust labeling at dye concentrations as low as 7 nM. It was also found to be orthogonal to the silicon HaloTag7-rhodamine system, enabling multiplexed no-wash labeling in live cells. The BenzoHTag system, and the ability to optimize HaloTag for a broader collection of substrates using molecular evolution, will be very useful for the development of cell-based assays for chemical biology and drug development.
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4
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Zhou Y, Wang Q, Chanmungkalakul S, Wu X, Xiao H, Miao R, Liu X, Fang Y. Fluorogenic Rhodamine Probes with Pyrrole Substitution Enables STED and Lifetime Imaging of Lysosomes in Live Cells. Chemistry 2024; 30:e202303707. [PMID: 38221317 DOI: 10.1002/chem.202303707] [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: 11/09/2023] [Revised: 12/27/2023] [Accepted: 01/12/2024] [Indexed: 01/16/2024]
Abstract
Fluorogenic dyes with high brightness, large turn-on ratios, excellent photostability, favorable specificity, low cytotoxicity, and high membrane permeability are essential for high-resolution fluorescence imaging in live cells. In this study, we endowed these desirable properties to a rhodamine derivative by simply replacing the N, N-diethyl group with a pyrrole substituent. The resulting dye, Rh-NH, exhibited doubled Stokes shifts (54 nm) and a red-shift of more than 50 nm in fluorescence spectra compared to Rhodamine B. Rh-NH preferentially exists in a non-emissive but highly permeable spirolactone form. Upon binding to lysosomes, the collective effects of low pH, low polarity, and high viscosity endow Rh-NH with significant fluorescence turn-on, making it a suitable candidate for wash-free, high-contrast lysosome tracking. Consequently, Rh-NH enabled us to successfully explore stimulated emission depletion (STED) super-resolution imaging of lysosome dynamics, as well as fluorescence lifetime imaging of lysosomes in live cells.
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Affiliation(s)
- Ying Zhou
- Key Laboratory of Applied Surface and Colloid Chemistry (Ministry of Education), School of Chemistry and Chemical Engineering, Shaanxi Normal University, Xi'an, 710119, P. R. China
| | - Qiuping Wang
- Key Laboratory of Applied Surface and Colloid Chemistry (Ministry of Education), School of Chemistry and Chemical Engineering, Shaanxi Normal University, Xi'an, 710119, P. R. China
| | - Supphachok Chanmungkalakul
- Fluorescence Research Group, Singapore University of Technology and Design, 8 Somapah Road, Singapore, 487372, Singapore
| | - Xia Wu
- Fluorescence Research Group, Singapore University of Technology and Design, 8 Somapah Road, Singapore, 487372, Singapore
| | - Hui Xiao
- Colledge of Life Science, Shaanxi Normal University, Xi'an, 710119, P. R. China
| | - Rong Miao
- Key Laboratory of Applied Surface and Colloid Chemistry (Ministry of Education), School of Chemistry and Chemical Engineering, Shaanxi Normal University, Xi'an, 710119, P. R. China
| | - Xiaogang Liu
- Fluorescence Research Group, Singapore University of Technology and Design, 8 Somapah Road, Singapore, 487372, Singapore
| | - Yu Fang
- Key Laboratory of Applied Surface and Colloid Chemistry (Ministry of Education), School of Chemistry and Chemical Engineering, Shaanxi Normal University, Xi'an, 710119, P. R. China
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5
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Pivovarenko VG, Klymchenko AS. Fluorescent Probes Based on Charge and Proton Transfer for Probing Biomolecular Environment. CHEM REC 2024; 24:e202300321. [PMID: 38158338 DOI: 10.1002/tcr.202300321] [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: 10/08/2023] [Revised: 12/11/2023] [Indexed: 01/03/2024]
Abstract
Fluorescent probes for sensing fundamental properties of biomolecular environment, such as polarity and hydration, help to study assembly of lipids into biomembranes, sensing interactions of biomolecules and imaging physiological state of the cells. Here, we summarize major efforts in the development of probes based on two photophysical mechanisms: (i) an excited-state intramolecular charge transfer (ICT), which is represented by fluorescent solvatochromic dyes that shift their emission band maximum as a function of environment polarity and hydration; (ii) excited-state intramolecular proton transfer (ESIPT), with particular focus on 5-membered cyclic systems, represented by 3-hydroxyflavones, because they exhibit dual emission sensitive to the environment. For both ICT and ESIPT dyes, the design of the probes and their biological applications are summarized. Thus, dyes bearing amphiphilic anchors target lipid membranes and report their lipid organization, while targeting ligands direct them to specific organelles for sensing their local environment. The labels, amino acid and nucleic acid analogues inserted into biomolecules enable monitoring their interactions with membranes, proteins and nucleic acids. While ICT probes are relatively simple and robust environment-sensitive probes, ESIPT probes feature high information content due their dual emission. They constitute a powerful toolbox for addressing multitude of biological questions.
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Affiliation(s)
- Vasyl G Pivovarenko
- Department of Chemistry, Kyiv National Taras Shevchenko University, 01033, Kyiv, Ukraine
| | - Andrey S Klymchenko
- Laboratoire de Bioimagerie et Pathologies, UMR 7021 CNRS, ITI SysChem, Université de Strasbourg, 67401, Illkirch, France
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6
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Pelletier R, Danylchuk DI, Benaissa H, Broch F, Vauchelles R, Gautier A, Klymchenko AS. Genetic Targeting of Solvatochromic Dyes for Probing Nanoscale Environments of Proteins in Organelles. Anal Chem 2023. [PMID: 37229557 DOI: 10.1021/acs.analchem.3c00515] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/27/2023]
Abstract
A variety of protein tags are available for genetically encoded protein labeling, which allow their precise localization and tracking inside the cells. A new dimension in protein imaging can be offered by combining protein tags with polarity-sensitive fluorescent probes, which provide information about local nanoscale environments of target proteins within the subcellular compartments (organelles). Here, we designed three fluorescent probes based on solvatochromic nile red dye, conjugated to a HaloTag reactive targeting group through polyethylene glycol linkers of varying lengths. The probe with medium linker length, NR12-Halo, was found to label specifically a large variety of proteins localized in defined cell compartments, such as plasma membranes (outer and inner leaflets), endoplasmic reticulum, Golgi apparatus, cytosol, microtubules, actin, and chromatin. Owing to its polarity-sensitive fluorophore, the probe clearly distinguished the proteins localized within apolar lipid membranes from other proteins. Moreover, it revealed dramatic changes in the environment during the life cycle of proteins from biosynthesis to their expected localization and, finally, to recycling inside lysosomes. Heterogeneity in the local polarity of some membrane proteins also suggested a formation of low-polar protein aggregates, for example, within cell-cell contacts. The approach also showed that mechanical stress (cell shrinking by osmotic shock) induced a general polarity decrease in membrane proteins, probably due to the condensation of biomolecules. Finally, the nanoenvironment of some membrane proteins was affected by a polyunsaturated fatty acid diet, which provided the bridge between organization of lipids and proteins. The developed solvatochromic HaloTag probe constitutes a promising tool for probing nanoscale environments of proteins and their interactions within subcellular structures.
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Affiliation(s)
- Rémi Pelletier
- Laboratoire de Bioimagerie et Pathologies, UMR 7021 CNRS, Université de Strasbourg, 74 Route du Rhin, Strasbourg, Illkirch 67401, France
| | - Dmytro I Danylchuk
- Laboratoire de Bioimagerie et Pathologies, UMR 7021 CNRS, Université de Strasbourg, 74 Route du Rhin, Strasbourg, Illkirch 67401, France
| | - Hela Benaissa
- CNRS, Laboratoire des Biomolécules, LBM, Sorbonne Université, École Normale Supérieure, Université PSL, Paris 75005 France
| | - Fanny Broch
- CNRS, Laboratoire des Biomolécules, LBM, Sorbonne Université, École Normale Supérieure, Université PSL, Paris 75005 France
| | - Romain Vauchelles
- Laboratoire de Bioimagerie et Pathologies, UMR 7021 CNRS, Université de Strasbourg, 74 Route du Rhin, Strasbourg, Illkirch 67401, France
| | - Arnaud Gautier
- CNRS, Laboratoire des Biomolécules, LBM, Sorbonne Université, École Normale Supérieure, Université PSL, Paris 75005 France
| | - Andrey S Klymchenko
- Laboratoire de Bioimagerie et Pathologies, UMR 7021 CNRS, Université de Strasbourg, 74 Route du Rhin, Strasbourg, Illkirch 67401, France
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7
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Dreyer R, Pfukwa R, Barth S, Hunter R, Klumperman B. The Evolution of SNAP-Tag Labels. Biomacromolecules 2023; 24:517-530. [PMID: 36607253 DOI: 10.1021/acs.biomac.2c01238] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
Abstract
The conjugation of proteins with synthetic molecules can be conducted in many different ways. In this Perspective, we focus on tag-based techniques and specifically on the SNAP-tag technology. The SNAP-tag technology makes use of a fusion protein between a protein of interest and an enzyme tag that enables the actual conjugation reaction. The SNAP-tag is based on the O6-alkylguanine-DNA alkyltransferase (AGT) enzyme and is optimized to react selectively with O6-benzylguanine (BG) substrates. BG-containing dye derivatives have frequently been used to introduce a fluorescent tag to a specific protein. We believe that the site-specific conjugation of polymers to proteins can significantly benefit from the SNAP-tag technology. Especially, polymers synthesized via reversible deactivation radical polymerization allow for the facile introduction of a BG end group to enable SNAP-tag conjugation.
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Affiliation(s)
- Rudolf Dreyer
- Stellenbosch University, Department of Chemistry and Polymer Science, Private Bag X1, Matieland 7602, South Africa
| | - Rueben Pfukwa
- Stellenbosch University, Department of Chemistry and Polymer Science, Private Bag X1, Matieland 7602, South Africa
| | - Stefan Barth
- Medical Biotechnology and Immunotherapy Research Unit, Institute of Infectious Disease and Molecular Medicine, Faculty of Health Sciences, University of Cape Town, Observatory 7935, South Africa.,South African Research Chair in Cancer Biotechnology, Department of Integrative Biomedical Sciences, Faculty of Health Sciences, University of Cape Town, Observatory 7935, South Africa
| | - Roger Hunter
- Department of Chemistry, Faculty of Science, University of Cape Town, Rondebosch 7701, South Africa
| | - Bert Klumperman
- Stellenbosch University, Department of Chemistry and Polymer Science, Private Bag X1, Matieland 7602, South Africa
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8
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Umebayashi M, Takemoto S, Reymond L, Sundukova M, Hovius R, Bucci A, Heppenstall PA, Yokota H, Johnsson K, Riezman H. A covalently linked probe to monitor local membrane properties surrounding plasma membrane proteins. J Cell Biol 2022; 222:213783. [PMID: 36571579 PMCID: PMC9802683 DOI: 10.1083/jcb.202206119] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/28/2022] [Revised: 09/21/2022] [Accepted: 12/09/2022] [Indexed: 12/27/2022] Open
Abstract
Functional membrane proteins in the plasma membrane are suggested to have specific membrane environments that play important roles to maintain and regulate their function. However, the local membrane environments of membrane proteins remain largely unexplored due to the lack of available techniques. We have developed a method to probe the local membrane environment surrounding membrane proteins in the plasma membrane by covalently tethering a solvatochromic, environment-sensitive dye, Nile Red, to a GPI-anchored protein and the insulin receptor through a flexible linker. The fluidity of the membrane environment of the GPI-anchored protein depended upon the saturation of the acyl chains of the lipid anchor. The local environment of the insulin receptor was distinct from the average plasma membrane fluidity and was quite dynamic and heterogeneous. Upon addition of insulin, the local membrane environment surrounding the receptor specifically increased in fluidity in an insulin receptor-kinase dependent manner and on the distance between the dye and the receptor.
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Affiliation(s)
- Miwa Umebayashi
- https://ror.org/01swzsf04Department of Biochemistry and National Centre for Competence in Research in Chemical Biology, Sciences II, University of Geneva, Geneva, Switzerland,Myoridge Co. Ltd., Kyoto, Japan
| | - Satoko Takemoto
- Image Processing Research Team, RIKEN Centre for Advanced Photonics, Wako, Japan
| | - Luc Reymond
- Ecole Polytechnique Fédérale de Lausanne, Institute of Chemical Sciences and Engineering (ISIC), Institute of Bioengineering, National Centre of Competence in Research (NCCR) in Chemical Biology, Lausanne, Switzerland
| | - Mayya Sundukova
- Epigenetics and Neurobiology Unit, European Molecular Biology Laboratory Rome, Monterotondo, Italy,https://ror.org/000xsnr85Instituto Biofisika (UPV/EHU, CSIC), University of the Basque Country, Leioa, Spain,Fundación Biofísica Bizkaia/Biofisika Bizkaia Fundazioa (FBB), Leioa, Spain
| | - Ruud Hovius
- Ecole Polytechnique Fédérale de Lausanne, Institute of Chemical Sciences and Engineering (ISIC), Institute of Bioengineering, National Centre of Competence in Research (NCCR) in Chemical Biology, Lausanne, Switzerland
| | - Annalisa Bucci
- Epigenetics and Neurobiology Unit, European Molecular Biology Laboratory Rome, Monterotondo, Italy
| | - Paul A. Heppenstall
- Epigenetics and Neurobiology Unit, European Molecular Biology Laboratory Rome, Monterotondo, Italy
| | - Hideo Yokota
- Image Processing Research Team, RIKEN Centre for Advanced Photonics, Wako, Japan
| | - Kai Johnsson
- Department of Chemical Biology, Max Planck Institute for Medical Research, Heidelberg, Germany
| | - Howard Riezman
- https://ror.org/01swzsf04Department of Biochemistry and National Centre for Competence in Research in Chemical Biology, Sciences II, University of Geneva, Geneva, Switzerland,Correspondence to Howard Riezman:
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9
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Choosing the Probe for Single-Molecule Fluorescence Microscopy. Int J Mol Sci 2022; 23:ijms232314949. [PMID: 36499276 PMCID: PMC9735909 DOI: 10.3390/ijms232314949] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/26/2022] [Revised: 11/18/2022] [Accepted: 11/24/2022] [Indexed: 12/03/2022] Open
Abstract
Probe choice in single-molecule microscopy requires deeper evaluations than those adopted for less sensitive fluorescence microscopy studies. Indeed, fluorophore characteristics can alter or hide subtle phenomena observable at the single-molecule level, wasting the potential of the sophisticated instrumentation and algorithms developed for advanced single-molecule applications. There are different reasons for this, linked, e.g., to fluorophore aspecific interactions, brightness, photostability, blinking, and emission and excitation spectra. In particular, these spectra and the excitation source are interdependent, and the latter affects the autofluorescence of sample substrate, medium, and/or biological specimen. Here, we review these and other critical points for fluorophore selection in single-molecule microscopy. We also describe the possible kinds of fluorophores and the microscopy techniques based on single-molecule fluorescence. We explain the importance and impact of the various issues in fluorophore choice, and discuss how this can become more effective and decisive for increasingly demanding experiments in single- and multiple-color applications.
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10
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Wang L, Hsiung CH, Liu X, Wang S, Loredo A, Zhang X, Xiao H. Xanthone-based solvatochromic fluorophores for quantifying micropolarity of protein aggregates. Chem Sci 2022; 13:12540-12549. [PMID: 36382293 PMCID: PMC9629104 DOI: 10.1039/d2sc05004h] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/08/2022] [Accepted: 10/12/2022] [Indexed: 01/31/2023] Open
Abstract
Proper three-dimensional structures are essential for maintaining the functionality of proteins and for avoiding pathological consequences of improper folding. Misfolding and aggregation of proteins have been both associated with neurodegenerative disease. Therefore, a variety of fluorogenic tools that respond to both polarity and viscosity have been developed to detect protein aggregation. However, the rational design of highly sensitive fluorophores that respond solely to polarity has remained elusive. In this work, we demonstrate that electron-withdrawing heteroatoms with (d-p)-π* conjugation can stabilize lowest unoccupied molecular orbital (LUMO) energy levels and promote bathochromic shifts. Guided by computational analyses, we have devised a novel series of xanthone-based solvatochromic fluorophores that have rarely been systematically studied. The resulting probes exhibit superior sensitivity to polarity but are insensitive to viscosity. As proof of concept, we have synthesized protein targeting probes for live-cell confocal imaging intended to quantify the polarity of misfolded and aggregated proteins. Interestingly, our results reveal several layers of protein aggregates in a way that we had not anticipated. First, microenvironments with reduced polarity were validated in the misfolding and aggregation of folded globular proteins. Second, granular aggregates of AgHalo displayed a less polar environment than aggregates formed by folded globular protein represented by Htt-polyQ. Third, our studies reveal that granular protein aggregates formed in response to different types of stressors exhibit significant polarity differences. These results show that the solvatochromic fluorophores solely responsive to polarity represent a new class of indicators that can be widely used for detecting protein aggregation in live cells, thus paving the way for elucidating cellular mechanisms of protein aggregation as well as therapeutic approaches to managing intracellular aggregates.
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Affiliation(s)
- Lushun Wang
- Department of Chemistry, Rice University6100 Main StreetHoustonTexas77005USA
| | - Chia-Heng Hsiung
- Department of Chemistry, Pennsylvania State University, University ParkPA 16802USA,Department of Biochemistry and Molecular Biology, Pennsylvania State University, University ParkPA 16802USA
| | - Xiaojing Liu
- Department of Chemistry, Pennsylvania State University, University ParkPA 16802USA
| | - Shichao Wang
- Department of Chemistry, Rice University6100 Main StreetHoustonTexas77005USA
| | - Axel Loredo
- Department of Chemistry, Rice University6100 Main StreetHoustonTexas77005USA
| | - Xin Zhang
- Department of Chemistry, Pennsylvania State University, University ParkPA 16802USA,Department of Biochemistry and Molecular Biology, Pennsylvania State University, University ParkPA 16802USA
| | - Han Xiao
- Department of Chemistry, Rice University6100 Main StreetHoustonTexas77005USA,Department of Biosciences, Rice University6100 Main StreetHoustonTexas77005USA,Department of Bioengineering, Rice University6100 Main StreetHoustonTexas77005USA
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11
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Fiala T, Mosharov EV, Wang J, Mendieta AM, Choi SJ, Fialova E, Hwu C, Sulzer D, Sames D. Chemical Targeting of Rhodol Voltage-Sensitive Dyes to Dopaminergic Neurons. ACS Chem Neurosci 2022; 13:1251-1262. [PMID: 35400149 DOI: 10.1021/acschemneuro.1c00862] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022] Open
Abstract
Optical imaging of changes in the membrane potential of living cells can be achieved by means of fluorescent voltage-sensitive dyes (VSDs). A particularly challenging task is to efficiently deliver these highly lipophilic probes to specific neuronal subpopulations in brain tissue. We have tackled this task by designing a solubilizing, hydrophilic polymer platform that carries a high-affinity ligand for a membrane protein marker of interest and a fluorescent VSD. Here, we disclose an improved design of polymer-supported probes for chemical, nongenetic targeting of voltage sensors to axons natively expressing the dopamine transporter in ex vivo mouse brain tissue. We first show that for negatively charged rhodol VSDs functioning on the photoinduced electron transfer principle, poly(ethylene glycol) as a carrier enables targeting with higher selectivity than the polysaccharide dextran in HEK cell culture. In the same experimental setting, we also demonstrate that incorporation of an azetidine ring into the rhodol chromophore substantially increases the brightness and voltage sensitivity of the respective VSD. We show that the superior properties of the optimized sensor are transferable to recording of electrically evoked activity from dopaminergic axons in mouse striatal slices after averaging of multiple trials. Finally, we suggest the next milestones for the field to achieve single-scan recordings with nongenetically targeted VSDs in native brain tissue.
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Affiliation(s)
- Tomas Fiala
- Department of Chemistry, Columbia University, New York, New York 10027, United States
| | - Eugene V. Mosharov
- Department of Neurology, Columbia University Irving Medical Center, New York, New York 10032, United States
| | - Jihang Wang
- Department of Chemistry, Columbia University, New York, New York 10027, United States
| | - Adriana M. Mendieta
- Department of Chemistry, Columbia University, New York, New York 10027, United States
| | - Se Joon Choi
- Department of Psychiatry, Columbia University Irving Medical Center, New York, New York 10032, United States
| | - Eva Fialova
- Department of Chemistry, Columbia University, New York, New York 10027, United States
| | - Christopher Hwu
- Department of Chemistry, Columbia University, New York, New York 10027, United States
| | - David Sulzer
- Department of Neurology, Columbia University Irving Medical Center, New York, New York 10032, United States
- Department of Psychiatry, Columbia University Irving Medical Center, New York, New York 10032, United States
- Department of Pharmacology, Columbia University Irving Medical Center, New York, New York 10032, United States
- Department of Molecular Therapeutics, New York State Psychiatric Institute, New York, New York 10032, United States
| | - Dalibor Sames
- Department of Chemistry, Columbia University, New York, New York 10027, United States
- NeuroTechnology Center at Columbia University, New York, New York 10027, United States
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12
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Dong X, Wan W, Zeng L, Jin W, Huang Y, Shen D, Bai Y, Zhao Q, Zhang L, Liu Y, Gao Z. Regulation of Fluorescence Solvatochromism To Resolve Cellular Polarity upon Protein Aggregation. Anal Chem 2021; 93:16447-16455. [PMID: 34859995 DOI: 10.1021/acs.analchem.1c03401] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/30/2023]
Abstract
Common solvatochromic fluorophores exhibit a bathochromic fluorescence emission wavelength shift accompanied by intensity attenuation due to the presence of nonradiative decay pathways at the excited state. Such intrinsic but inevitable fluorescence quenching of solvatochromism impedes its applications to faithfully quantify local polarity, especially in a polar environment. Herein, we report a new donor-π-acceptor (D-π-A) type solvatochromic fluorophore scaffold containing a perfluorophenyl group that exhibits both a solvatochromic emission wavelength shift and a controllable emission intensity upon polarity fluctuation. The regulation of fluorescence solvatochromism and colors was achieved by tuning the aryl donors. We exploited such desired solvatochromism of these probes to monitor protein misfolding and aggregation via wavelength shift. Finally, the polarity of pathogenic aggregated proteins was quantified by HaloTag bioorthogonal labeling technology in live cells. While much effort has been devoted to resolving the morphology of pathogenic aggregated proteins, this work provides quantitative hints regarding the chemical information at this disease-related protein interphase.
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Affiliation(s)
- Xuepeng Dong
- The Second Hospital of Dalian Medical University, 467 Zhongshan Road, Dalian, 116023, P. R. China
| | - Wang Wan
- CAS Key Laboratory of Separation Science for Analytical Chemistry, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, 457 Zhongshan Road, Dalian 116023, P. R. China
| | - Lianggang Zeng
- CAS Key Laboratory of Separation Science for Analytical Chemistry, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, 457 Zhongshan Road, Dalian 116023, P. R. China
| | - Wenhan Jin
- CAS Key Laboratory of Separation Science for Analytical Chemistry, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, 457 Zhongshan Road, Dalian 116023, P. R. China
| | - Yanan Huang
- CAS Key Laboratory of Separation Science for Analytical Chemistry, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, 457 Zhongshan Road, Dalian 116023, P. R. China
| | - Di Shen
- CAS Key Laboratory of Separation Science for Analytical Chemistry, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, 457 Zhongshan Road, Dalian 116023, P. R. China
| | - Yulong Bai
- CAS Key Laboratory of Separation Science for Analytical Chemistry, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, 457 Zhongshan Road, Dalian 116023, P. R. China.,University of the Chinese Academy of Sciences, Beijing 100049, P. R. China
| | - Qun Zhao
- CAS Key Laboratory of Separation Science for Analytical Chemistry, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, 457 Zhongshan Road, Dalian 116023, P. R. China
| | - Lihua Zhang
- CAS Key Laboratory of Separation Science for Analytical Chemistry, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, 457 Zhongshan Road, Dalian 116023, P. R. China
| | - Yu Liu
- CAS Key Laboratory of Separation Science for Analytical Chemistry, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, 457 Zhongshan Road, Dalian 116023, P. R. China
| | - Zhenming Gao
- The Second Hospital of Dalian Medical University, 467 Zhongshan Road, Dalian, 116023, P. R. China
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13
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Qin X, Yang X, Du L, Li M. Polarity-based fluorescence probes: properties and applications. RSC Med Chem 2021; 12:1826-1838. [PMID: 34825183 PMCID: PMC8597426 DOI: 10.1039/d1md00170a] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/17/2021] [Accepted: 08/07/2021] [Indexed: 11/21/2022] Open
Abstract
Local polarity can affect the physical or chemical behaviors of surrounding molecules, especially in organisms. Cell polarity is the ultimate feedback of cellular status and regulation mechanisms. Hence, the abnormal alteration of polarity in organisms is closely linked with functional disorders and many diseases. It is incredibly significant to monitor and detect local polarity to explain the biological processes and diagnoses of some diseases. Because of their in vivo safe and real-time monitoring, several polarity-sensitive fluorophores and fluorescent probes have gradually emerged and been used in modern research. This review summarizes the fluorescence properties and applications of several representative polarity-sensitive fluorescent probes.
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Affiliation(s)
- Xiaojun Qin
- School of Pharmacy, Guangxi Medical University Nanning Guangxi 530021 China
- Department of Medicinal Chemistry, Key Laboratory of Chemical Biology (MOE), School of Pharmacy, Cheeloo College of Medicine, Shandong University Jinan Shandong 250012 China
| | - Xingye Yang
- Department of Medicinal Chemistry, Key Laboratory of Chemical Biology (MOE), School of Pharmacy, Cheeloo College of Medicine, Shandong University Jinan Shandong 250012 China
| | - Lupei Du
- Department of Medicinal Chemistry, Key Laboratory of Chemical Biology (MOE), School of Pharmacy, Cheeloo College of Medicine, Shandong University Jinan Shandong 250012 China
| | - Minyong Li
- Department of Medicinal Chemistry, Key Laboratory of Chemical Biology (MOE), School of Pharmacy, Cheeloo College of Medicine, Shandong University Jinan Shandong 250012 China
- State Key Laboratory of Microbial Technology, Shandong University Jinan Shandong 250100 China
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14
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Tobias JM, Rajic G, Viray AEG, Icka-Araki D, Frank JA. Genetically-targeted photorelease of endocannabinoids enables optical control of GPR55 in pancreatic β-cells. Chem Sci 2021; 12:13506-13512. [PMID: 34777770 PMCID: PMC8528030 DOI: 10.1039/d1sc02527a] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/06/2021] [Accepted: 09/09/2021] [Indexed: 12/23/2022] Open
Abstract
Fatty acid amides (FAAs) are a family of second-messenger lipids that target cannabinoid receptors, and are known mediators of glucose-stimulated insulin secretion from pancreatic β-cells. Due to the diversity observed in FAA structure and pharmacology, coupled with the expression of at least 3 different cannabinoid G protein-coupled receptors in primary and model β-cells, our understanding of their role is limited by our inability to control their actions in time and space. To investigate the mechanisms by which FAAs regulate β-cell excitability, we developed the Optically-Cleavable Targeted (OCT)-ligand approach, which combines the spatial resolution of self-labeling protein (SNAP-) tags with the temporal control of photocaged ligands. By linking a photocaged FAA to an o-benzylguanine (BG) motif, FAA signalling can be directed towards genetically-defined cellular membranes. We designed a probe to release palmitoylethanolamide (PEA), a GPR55 agonist known to stimulate glucose-stimulated insulin secretion (GSIS). When applied to β-cells, OCT-PEA revealed that plasma membrane GPR55 stimulates β-cell Ca2+ activity via phospholipase C. Moving forward, the OCT-ligand approach can be translated to other ligands and receptors, and will open up new experimental possibilities in targeted pharmacology.
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Affiliation(s)
- Janelle M Tobias
- Vollum Institute, Oregon Health & Science University Portland OR USA
- Department of Chemical Physiology & Biochemistry, Oregon Health & Science University Portland OR USA
- Graduate Program in Physiology & Pharmacology, Oregon Health & Science University Portland OR USA
| | - Gabriela Rajic
- Vollum Institute, Oregon Health & Science University Portland OR USA
| | - Alexander E G Viray
- Vollum Institute, Oregon Health & Science University Portland OR USA
- Department of Chemical Physiology & Biochemistry, Oregon Health & Science University Portland OR USA
| | - David Icka-Araki
- Vollum Institute, Oregon Health & Science University Portland OR USA
- Department of Chemical Physiology & Biochemistry, Oregon Health & Science University Portland OR USA
- Graduate Program in Biomedical Sciences, Oregon Health & Science University Portland OR USA
| | - James A Frank
- Vollum Institute, Oregon Health & Science University Portland OR USA
- Department of Chemical Physiology & Biochemistry, Oregon Health & Science University Portland OR USA
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15
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Fam KT, Saladin L, Klymchenko AS, Collot M. Confronting molecular rotors and self-quenched dimers as fluorogenic BODIPY systems to probe biotin receptors in cancer cells. Chem Commun (Camb) 2021; 57:4807-4810. [PMID: 33982709 DOI: 10.1039/d1cc00108f] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
Probing receptors at the cell surface to monitor their expression level can be performed with fluorogenic dyes. Biotin receptors (BRs) are particularly interesting as they are overexpressed in cancer cells. Herein, to image BRs, we adapted and systematically compared two fluorogenic systems based on BODIPYs: a molecular rotor and a self-quenched dimer that light up in response to high viscosity and low polarity of the membrane, respectively. The fluorogenic dimer proved to be more efficient than the rotor and allowed BRs to be imaged in cancer cells, which can effectively be discriminated from non-cancer cells.
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Affiliation(s)
- Kyong T Fam
- Laboratoire de Bioimagerie et Pathologies, UMR 7021, CNRS/Université de Strasbourg, 74 route du Rhin, Illkirch-Graffenstaden 67401, France.
| | - Lazare Saladin
- Laboratoire de Bioimagerie et Pathologies, UMR 7021, CNRS/Université de Strasbourg, 74 route du Rhin, Illkirch-Graffenstaden 67401, France.
| | - Andrey S Klymchenko
- Laboratoire de Bioimagerie et Pathologies, UMR 7021, CNRS/Université de Strasbourg, 74 route du Rhin, Illkirch-Graffenstaden 67401, France.
| | - Mayeul Collot
- Laboratoire de Bioimagerie et Pathologies, UMR 7021, CNRS/Université de Strasbourg, 74 route du Rhin, Illkirch-Graffenstaden 67401, France.
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16
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Abstract
Systematically dissecting the molecular basis of the cell surface as well as its related biological activities is considered as one of the most cutting-edge fields in fundamental sciences. The advent of various advanced cell imaging techniques allows us to gain a glimpse of how the cell surface is structured and coordinated with other cellular components to respond to intracellular signals and environmental stimuli. Nowadays, cell surface-related studies have entered a new era featured by a redirected aim of not just understanding but artificially manipulating/remodeling the cell surface properties. To meet this goal, biologists and chemists are intensely engaged in developing more maneuverable cell surface labeling strategies by exploiting the cell's intrinsic biosynthetic machinery or direct chemical/physical binding methods for imaging, sensing, and biomedical applications. In this review, we summarize the recent advances that focus on the visualization of various cell surface structures/dynamics and accurate monitoring of the microenvironment of the cell surface. Future challenges and opportunities in these fields are discussed, and the importance of cell surface-based studies is highlighted.
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Affiliation(s)
- Hao-Ran Jia
- State Key Laboratory of Bioelectronics, School of Biological Science and Medical Engineering, Southeast University, 2 Sipailou Road, Nanjing 210096, P. R. China.
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17
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Toward Homogenous Antibody Drug Conjugates Using Enzyme-Based Conjugation Approaches. Pharmaceuticals (Basel) 2021; 14:ph14040343. [PMID: 33917962 PMCID: PMC8068374 DOI: 10.3390/ph14040343] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/19/2021] [Revised: 04/02/2021] [Accepted: 04/04/2021] [Indexed: 01/17/2023] Open
Abstract
In the last few decades, antibody-based diagnostic and therapeutic applications have been well established in medicine and have revolutionized cancer managements by improving tumor detection and treatment. Antibodies are unique medical elements due to their powerful properties of being able to recognize specific antigens and their therapeutic mechanisms such as blocking specific pathways, antibody-dependent cellular cytotoxicity, and complement-dependent cytotoxicity. Furthermore, modification techniques have paved the way for improving antibody properties and to develop new classes of antibody-conjugate-based diagnostic and therapeutic agents. These techniques allow arming antibodies with various effector molecules. However, these techniques are utilizing the most frequently used amino acid residues for bioconjugation, such as cysteine and lysine. These bioconjugation approaches generate heterogeneous products with different functional and safety profiles. This is mainly due to the abundance of lysine and cysteine side chains. To overcome these limitations, different site-direct conjugation methods have been applied to arm the antibodies with therapeutic or diagnostics molecules to generate unified antibody conjugates with tailored properties. This review summarizes some of the enzyme-based site-specific conjugation approaches.
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18
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Sayed SM, Jia HR, Jiang YW, Zhu YX, Ma L, Yin F, Hussain I, Khan A, Ma Q, Wu FG, Lu X. Photostable AIE probes for wash-free, ultrafast, and high-quality plasma membrane staining. J Mater Chem B 2021; 9:4303-4308. [PMID: 33908594 DOI: 10.1039/d1tb00049g] [Citation(s) in RCA: 17] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Abstract
Plasma membrane (PM), a fundamental building component of a cell, is responsible for a variety of cell functions and biological processes. However, it is still challenging to acquire its morphology and morphological variation information via an effective approach. Herein, we report a PM imaging study regarding an aggregation-induced emission luminogen (AIEgen) called tetraphenylethylene-naphthalimide+ (TPE-NIM+), which is derived from our previously reported tetraphenylethylene-naphthalimide (TPE-NIM). The designed AIEgen (TPE-NIM+) shows significant characteristics of ultrafast staining, high photostability, wash-free property, and long retention time at the PM, which can structurally be correlated with its positively charged quaternary amine and hydrophobic moiety. TPE-NIM+ is further applied for staining of different cell lines, proving its universal PM imaging capability. Most importantly, we demonstrate that TPE-NIM+ can clearly delineate the contours of densely packed living cells with high cytocompatibility. Therefore, TPE-NIM+ as a PM imaging reagent superior to currently available commercial PM dyes shall find a number of applications in the biological/biomedical fields and even beyond.
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Affiliation(s)
- Sayed Mir Sayed
- State Key Laboratory of Bioelectronics, School of Biological Science and Medical Engineering, Southeast University, 2 Sipailou Road, Nanjing 210096, P. R. China.
| | - Hao-Ran Jia
- State Key Laboratory of Bioelectronics, School of Biological Science and Medical Engineering, Southeast University, 2 Sipailou Road, Nanjing 210096, P. R. China.
| | - Yao-Wen Jiang
- State Key Laboratory of Bioelectronics, School of Biological Science and Medical Engineering, Southeast University, 2 Sipailou Road, Nanjing 210096, P. R. China.
| | - Ya-Xuan Zhu
- State Key Laboratory of Bioelectronics, School of Biological Science and Medical Engineering, Southeast University, 2 Sipailou Road, Nanjing 210096, P. R. China.
| | - Liang Ma
- State Key Laboratory of Bioelectronics, School of Biological Science and Medical Engineering, Southeast University, 2 Sipailou Road, Nanjing 210096, P. R. China.
| | - Feifei Yin
- State Key Laboratory of Bioelectronics, School of Biological Science and Medical Engineering, Southeast University, 2 Sipailou Road, Nanjing 210096, P. R. China.
| | - Imtiaz Hussain
- State Key Laboratory of Bioelectronics, School of Biological Science and Medical Engineering, Southeast University, 2 Sipailou Road, Nanjing 210096, P. R. China.
| | - Arshad Khan
- State Key Laboratory of Bioelectronics, School of Biological Science and Medical Engineering, Southeast University, 2 Sipailou Road, Nanjing 210096, P. R. China.
| | - Qian Ma
- Jiangsu Key Laboratory of Oral Diseases, Nanjing Medical University, Department of General Dentistry, Affiliated Hospital of Stomatology, Nanjing Medical University, Nanjing 210029, Jiangsu, China
| | - Fu-Gen Wu
- State Key Laboratory of Bioelectronics, School of Biological Science and Medical Engineering, Southeast University, 2 Sipailou Road, Nanjing 210096, P. R. China.
| | - Xiaolin Lu
- State Key Laboratory of Bioelectronics, School of Biological Science and Medical Engineering, Southeast University, 2 Sipailou Road, Nanjing 210096, P. R. China.
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19
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Liu C, Gao X, Yuan J, Zhang R. Advances in the development of fluorescence probes for cell plasma membrane imaging. Trends Analyt Chem 2020. [DOI: 10.1016/j.trac.2020.116092] [Citation(s) in RCA: 34] [Impact Index Per Article: 8.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
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20
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A novel fluorescence probe based on specific recognition of GABA A receptor for imaging cell membrane. Talanta 2020; 219:121317. [PMID: 32887057 DOI: 10.1016/j.talanta.2020.121317] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/09/2020] [Revised: 06/15/2020] [Accepted: 06/20/2020] [Indexed: 01/19/2023]
Abstract
Long and real time imaging of cell membrane is very important for better understanding of cell performances in physiological and pathological processes. Nowadays, fluorescence probe analysis has become an indispensable tool for monitoring cell membrane. Herein, a novel fluorescent probe based on specific recognition of GABAA receptor was developed for imaging cell membrane. The probe synthesized in this work has been successfully applied to image different kinds of cell membrane with some advantages over the reported probes. Moreover, the probe also showed good superiority in the preliminary screening GABAA drugs.
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21
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Chen J, Boott CE, Lewis L, Siu A, Al-Debasi R, Carta V, Fogh AA, Kurek DZ, Wang L, MacLachlan MJ, Hum G. Amino Acid-Containing Phase-Selective Organogelators: A Water-Based Delivery System for Oil Spill Treatment. ACS OMEGA 2020; 5:18758-18765. [PMID: 32775877 PMCID: PMC7408258 DOI: 10.1021/acsomega.0c01821] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/20/2020] [Accepted: 07/09/2020] [Indexed: 05/05/2023]
Abstract
The simple structural modification of replacing a terminal carboxylic acid with a primary amide group was found to lower the minimum gelation concentration (MGC), by at least an order of magnitude, for a series of N-lauroyl-l-amino acid phase-selective organogelators in decane. The amide-functionalized analogue N-lauroyl-l-alanine-CONH2 was demonstrated to gel a broad range of solvents from diesel to THF at MGCs of 2.5% w/v or less, as well as to produce gels with a higher thermal stability (ca. 30 °C) and enhanced mechanical properties (5 times increase in complex modulus), compared to the carboxylic acid analogue, N-lauroyl-l-alanine-COOH. These improved properties may be due to the additional hydrogen bonding in the primary amide analogue as revealed by SCXRD. Most significantly for this study, the introduction of the primary amide functionality enabled N-lauroyl-l-alanine-CONH2 to form a self-assembled fibrillar network in water. The aqueous network could then actively uptake and rapidly gel decane, diesel, and diluted bitumen ("dilbit") with MGCs of 2.5% w/v or less. This aqueous delivery method is advantageous for oil-remediation applications as no harmful carrier solvents are required and the gel can be easily separated from the water, allowing the oil to be recovered and the gelator recycled.
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Affiliation(s)
- Jun Chen
- BC
Research Inc., 12920
Mitchell Rd, Richmond BC
V6V 1M8, Canada
| | - Charlotte E. Boott
- Department
of Chemistry, University of British Columbia, 2036 Main Mall, Vancouver, British Columbia V6T 1Z1, Canada
| | - Lev Lewis
- Department
of Chemistry, University of British Columbia, 2036 Main Mall, Vancouver, British Columbia V6T 1Z1, Canada
| | - Andrew Siu
- BC
Research Inc., 12920
Mitchell Rd, Richmond BC
V6V 1M8, Canada
| | - Renad Al-Debasi
- BC
Research Inc., 12920
Mitchell Rd, Richmond BC
V6V 1M8, Canada
| | - Veronica Carta
- Department
of Chemistry, University of British Columbia, 2036 Main Mall, Vancouver, British Columbia V6T 1Z1, Canada
| | - Amanda A. Fogh
- BC
Research Inc., 12920
Mitchell Rd, Richmond BC
V6V 1M8, Canada
| | - Daniel Z. Kurek
- BC
Research Inc., 12920
Mitchell Rd, Richmond BC
V6V 1M8, Canada
| | - Lilo Wang
- BC
Research Inc., 12920
Mitchell Rd, Richmond BC
V6V 1M8, Canada
| | - Mark J. MacLachlan
- Department
of Chemistry, University of British Columbia, 2036 Main Mall, Vancouver, British Columbia V6T 1Z1, Canada
| | - Gabriel Hum
- BC
Research Inc., 12920
Mitchell Rd, Richmond BC
V6V 1M8, Canada
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22
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Fam KT, Collot M, Klymchenko AS. Probing biotin receptors in cancer cells with rationally designed fluorogenic squaraine dimers. Chem Sci 2020; 11:8240-8248. [PMID: 34094177 PMCID: PMC8163205 DOI: 10.1039/d0sc01973a] [Citation(s) in RCA: 21] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/06/2020] [Accepted: 07/08/2020] [Indexed: 12/15/2022] Open
Abstract
Fluorogenic probes enable imaging biomolecular targets with high sensitivity and maximal signal-to-background ratio under non-wash conditions. Here, we focus on the molecular design of biotinylated dimeric squaraines that undergo aggregation-caused quenching in aqueous media through intramolecular H-type dimerization, but turn on their fluorescence in apolar environment due to target-mediated disaggregation. Our structure-property study revealed that depending on the linkers used to connect the squaraine dyes, different aggregation patterns could be obtained (intramolecular dimerization versus intermolecular aggregation) leading to different probing efficiencies. Using a relatively short l-lysine linker we developed a bright fluorogenic probe, Sq2B, displaying only intramolecular dimerization-caused quenching properties in aqueous media. The latter was successfully applied for imaging biotin receptors, in particular sodium-dependent multivitamin transporter (SMVT), which are overexpressed at the surface of cancer cells. Competitive displacement with SMVT-targets, such as biotin, lipoic acid or sodium pantothenate, showed Sq2B targeting ability to SMVT. This fluorogenic probe for biotin receptors could distinguish cancer cells (HeLa and KB) from model non-cancer cell lines (NIH/3T3 and HEK293T). The obtained results provide guidelines for development of new dimerization-based fluorogenic probes and propose bright tools for imaging biotin receptors, which is particularly important for specific detection of cancer cells.
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Affiliation(s)
- Kyong T Fam
- Nanochemistry and Bioimaging Group, Laboratoire de Bioimagerie et Pathologies, CNRS UMR 7021, Université de Strasbourg, Faculté de Pharmacie 67401 Illkirch France
| | - Mayeul Collot
- Nanochemistry and Bioimaging Group, Laboratoire de Bioimagerie et Pathologies, CNRS UMR 7021, Université de Strasbourg, Faculté de Pharmacie 67401 Illkirch France
| | - Andrey S Klymchenko
- Nanochemistry and Bioimaging Group, Laboratoire de Bioimagerie et Pathologies, CNRS UMR 7021, Université de Strasbourg, Faculté de Pharmacie 67401 Illkirch France
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23
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Poc P, Gutzeit VA, Ast J, Lee J, Jones BJ, D'Este E, Mathes B, Lehmann M, Hodson DJ, Levitz J, Broichhagen J. Interrogating surface versus intracellular transmembrane receptor populations using cell-impermeable SNAP-tag substrates. Chem Sci 2020; 11:7871-7883. [PMID: 34123074 PMCID: PMC8163392 DOI: 10.1039/d0sc02794d] [Citation(s) in RCA: 24] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/15/2020] [Accepted: 07/02/2020] [Indexed: 01/13/2023] Open
Abstract
Employing self-labelling protein tags for the attachment of fluorescent dyes has become a routine and powerful technique in optical microscopy to visualize and track fused proteins. However, membrane permeability of the dyes and the associated background signals can interfere with the analysis of extracellular labelling sites. Here we describe a novel approach to improve extracellular labelling by functionalizing the SNAP-tag substrate benzyl guanine ("BG") with a charged sulfonate ("SBG"). This chemical manipulation can be applied to any SNAP-tag substrate, improves solubility, reduces non-specific staining and renders the bioconjugation handle impermeable while leaving its cargo untouched. We report SBG-conjugated fluorophores across the visible spectrum, which cleanly label SNAP-fused proteins in the plasma membrane of living cells. We demonstrate the utility of SBG-conjugated fluorophores to interrogate class A, B and C G protein-coupled receptors (GPCRs) using a range of imaging approaches including nanoscopic superresolution imaging, analysis of GPCR trafficking from intra- and extracellular pools, in vivo labelling in mouse brain and analysis of receptor stoichiometry using single molecule pull down.
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Affiliation(s)
- Pascal Poc
- Max Planck Institute for Medical Research, Department of Chemical Biology Jahnstr. 29 69120 Heidelberg Germany
| | - Vanessa A Gutzeit
- Neuroscience Graduate Program, Weill Cornell Medicine New York NY 10065 USA
| | - Julia Ast
- Institute of Metabolism and Systems Research (IMSR), Centre of Membrane Proteins and Receptors (COMPARE), University of Birmingham Birmingham UK
- Centre for Endocrinology, Diabetes and Metabolism, Birmingham Health Partners Birmingham UK
| | - Joon Lee
- Department of Biochemistry, Weill Cornell Medicine New York NY 10065 USA
| | - Ben J Jones
- Section of Investigative Medicine, Imperial College London London W12 0NN UK
| | - Elisa D'Este
- Optical Microscopy Facility, Max Planck Institute for Medical Research Heidelberg Germany
| | - Bettina Mathes
- Max Planck Institute for Medical Research, Department of Chemical Biology Jahnstr. 29 69120 Heidelberg Germany
| | - Martin Lehmann
- Leibniz-Forschungsinstitut für Molekulare Pharmakologie (FMP), Department of Pharmacology and Cell Biology Robert-Rössle-Str. 10 13125 Berlin Germany
| | - David J Hodson
- Institute of Metabolism and Systems Research (IMSR), Centre of Membrane Proteins and Receptors (COMPARE), University of Birmingham Birmingham UK
- Centre for Endocrinology, Diabetes and Metabolism, Birmingham Health Partners Birmingham UK
| | - Joshua Levitz
- Department of Biochemistry, Weill Cornell Medicine New York NY 10065 USA
- Tri-Institutional PhD Program in Chemical Biology New York NY 10065 USA
| | - Johannes Broichhagen
- Max Planck Institute for Medical Research, Department of Chemical Biology Jahnstr. 29 69120 Heidelberg Germany
- Leibniz-Forschungsinstitut für Molekulare Pharmakologie (FMP), Department of Chemical Biology Robert-Rössle-Str. 10 13125 Berlin Germany
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24
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Fiala T, Wang J, Dunn M, Šebej P, Choi SJ, Nwadibia EC, Fialova E, Martinez DM, Cheetham CE, Fogle KJ, Palladino MJ, Freyberg Z, Sulzer D, Sames D. Chemical Targeting of Voltage Sensitive Dyes to Specific Cells and Molecules in the Brain. J Am Chem Soc 2020; 142:9285-9301. [PMID: 32395989 DOI: 10.1021/jacs.0c00861] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Voltage sensitive fluorescent dyes (VSDs) are important tools for probing signal transduction in neurons and other excitable cells. The impact of these highly lipophilic sensors has, however, been limited due to the lack of cell-specific targeting methods in brain tissue or living animals. We address this key challenge by introducing a nongenetic molecular platform for cell- and molecule-specific targeting of synthetic VSDs in the brain. We employ a dextran polymer particle to overcome the inherent lipophilicity of VSDs by dynamic encapsulation and high-affinity ligands to target the construct to specific neuronal cells utilizing only native components of the neurotransmission machinery at physiological expression levels. Dichloropane, a monoamine transporter ligand, enables targeting of dense dopaminergic axons in the mouse striatum and sparse noradrenergic axons in the mouse cortex in acute brain slices. PFQX in conjunction with ligand-directed acyl imidazole chemistry enables covalent labeling of AMPA-type glutamate receptors in the same brain regions. Probe variants bearing either a classical electrochromic ANEP dye or state-of-the-art VoltageFluor-type dye respond to membrane potential changes in a similar manner to the parent dyes, as shown by whole-cell patch recording. We demonstrate the feasibility of optical voltage recording with our probes in brain tissue with one-photon and two-photon fluorescence microscopy and define the signal limits of optical voltage imaging with synthetic sensors under a low photon budget determined by the native expression levels of the target proteins. This work demonstrates the feasibility of a chemical targeting approach and expands the possibilities of cell-specific imaging and pharmacology.
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Affiliation(s)
- Tomas Fiala
- Department of Chemistry, Columbia University, New York, New York 10027, United States
| | - Jihang Wang
- Department of Chemistry, Columbia University, New York, New York 10027, United States
| | - Matthew Dunn
- Department of Chemistry, Columbia University, New York, New York 10027, United States
| | - Peter Šebej
- Department of Chemistry, Columbia University, New York, New York 10027, United States
| | - Se Joon Choi
- Department of Psychiatry, Columbia University Irving Medical Center, New York, New York 10027, United States
| | - Ekeoma C Nwadibia
- Department of Chemistry, Columbia University, New York, New York 10027, United States
| | - Eva Fialova
- Department of Chemistry, Columbia University, New York, New York 10027, United States
| | - Diana M Martinez
- Department of Psychiatry, Columbia University Irving Medical Center, New York, New York 10027, United States
| | - Claire E Cheetham
- Department of Neurobiology, University of Pittsburgh, Pittsburgh, Pennsylvania 15260, United States
| | - Keri J Fogle
- Department of Pharmacology & Chemical Biology, University of Pittsburgh, Pittsburgh, Pennsylvania 15260, United States.,Pittsburgh Institute of Neurodegenerative Diseases (PIND), University of Pittsburgh, Pittsburgh, Pennsylvania 15260, United States
| | - Michael J Palladino
- Department of Pharmacology & Chemical Biology, University of Pittsburgh, Pittsburgh, Pennsylvania 15260, United States.,Pittsburgh Institute of Neurodegenerative Diseases (PIND), University of Pittsburgh, Pittsburgh, Pennsylvania 15260, United States
| | - Zachary Freyberg
- Department of Psychiatry, University of Pittsburgh, Pittsburgh, Pennsylvania 15213, United States.,Department of Cell Biology, University of Pittsburgh, Pittsburgh, Pennsylvania 15213, United States
| | - David Sulzer
- Department of Psychiatry, Columbia University Irving Medical Center, New York, New York 10027, United States.,Department of Psychiatry, Columbia University Irving Medical Center, New York, New York 10027, United States.,Department of Pharmacology, Columbia University Irving Medical Center, New York, New York 10027, United States.,Department of Molecular Therapeutics, New York Psychiatric Institute, New York, New York 10032, United States
| | - Dalibor Sames
- Department of Chemistry, Columbia University, New York, New York 10027, United States.,NeuroTechnology Center at Columbia University, New York, New York 10027, United States
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25
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Perkins LA, Bruchez MP. Fluorogen activating protein toolset for protein trafficking measurements. Traffic 2020; 21:333-348. [PMID: 32080949 PMCID: PMC7462100 DOI: 10.1111/tra.12722] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/17/2020] [Revised: 02/17/2020] [Accepted: 02/18/2020] [Indexed: 12/11/2022]
Abstract
Throughout the past decade the use of fluorogen activating proteins (FAPs) has expanded with several unique reporter dyes that support a variety of methods to specifically quantify protein trafficking events. The platform's capabilities have been demonstrated in several systems and shared for widespread use. This review will highlight the current FAP labeling techniques for protein traffic measurements and focus on the use of the different designed fluorogenic dyes for selective and specific labeling applications.
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Affiliation(s)
- Lydia A. Perkins
- School of MedicineUniversity of PittsburghPittsburghPennsylvaniaUSA
| | - Marcel P. Bruchez
- The Department of Biological SciencesCarnegie MellonPittsburghPennsylvaniaUSA
- Department of ChemistryCarnegie MellonPittsburghPennsylvaniaUSA
- Molecular and Biosensor Imaging CenterCarnegie MellonPittsburghPennsylvaniaUSA
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26
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Macias-Contreras M, He H, Little KN, Lee JP, Campbell RP, Royzen M, Zhu L. SNAP/CLIP-Tags and Strain-Promoted Azide–Alkyne Cycloaddition (SPAAC)/Inverse Electron Demand Diels–Alder (IEDDA) for Intracellular Orthogonal/Bioorthogonal Labeling. Bioconjug Chem 2020; 31:1370-1381. [DOI: 10.1021/acs.bioconjchem.0c00107] [Citation(s) in RCA: 16] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Affiliation(s)
- Miguel Macias-Contreras
- Department of Chemistry and Biochemistry, Florida State University, Tallahassee, Florida 32306-4390, United States
| | - Huan He
- Translational Science Laboratory, College of Medicine, Florida State University, Tallahassee, Florida 32306-4300, United States
- Institute of Molecular Biophysics, Florida State University, Tallahassee, Florida 32306-4380, United States
| | - Kevin N. Little
- Department of Chemistry and Biochemistry, Florida State University, Tallahassee, Florida 32306-4390, United States
| | - Justin P. Lee
- Department of Chemistry and Biochemistry, Florida State University, Tallahassee, Florida 32306-4390, United States
| | - Ryan P. Campbell
- Institute of Molecular Biophysics, Florida State University, Tallahassee, Florida 32306-4380, United States
| | - Maksim Royzen
- Department of Chemistry, University at Albany, 1400 Washington Avenue, Albany, New York 12222, United States
| | - Lei Zhu
- Department of Chemistry and Biochemistry, Florida State University, Tallahassee, Florida 32306-4390, United States
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27
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Gao J, Hori Y, Nishiura M, Bordy M, Hasserodt J, Kikuchi K. Engineered Protein-tag for Rapid Live-cell Fluorogenic Visualization of Proteins by Anionic Probes. CHEM LETT 2020. [DOI: 10.1246/cl.190875] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/01/2023]
Affiliation(s)
- Jingchi Gao
- Division of Advanced Science and Biotechnology, Graduate School of Engineering, Osaka University, Suita, Osaka 565-0871, Japan
| | - Yuichiro Hori
- Division of Advanced Science and Biotechnology, Graduate School of Engineering, Osaka University, Suita, Osaka 565-0871, Japan
- WPI-Immunology Frontier Research Center, Osaka University, Suita, Osaka 565-0871, Japan
| | - Miyako Nishiura
- Division of Advanced Science and Biotechnology, Graduate School of Engineering, Osaka University, Suita, Osaka 565-0871, Japan
| | - Mathieu Bordy
- Laboratoie de Chimie, ENS de Lyon, 46 allée d'Italie, Lyon Cedex 07, France 69364
| | - Jens Hasserodt
- Laboratoie de Chimie, ENS de Lyon, 46 allée d'Italie, Lyon Cedex 07, France 69364
| | - Kazuya Kikuchi
- Division of Advanced Science and Biotechnology, Graduate School of Engineering, Osaka University, Suita, Osaka 565-0871, Japan
- WPI-Immunology Frontier Research Center, Osaka University, Suita, Osaka 565-0871, Japan
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28
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Santos EM, Berbasova T, Wang W, Salmani RE, Sheng W, Vasileiou C, Geiger JH, Borhan B. Engineering of a Red Fluorogenic Protein/Merocyanine Complex for Live-Cell Imaging. Chembiochem 2020; 21:723-729. [PMID: 31482666 PMCID: PMC7379159 DOI: 10.1002/cbic.201900428] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/06/2019] [Indexed: 12/25/2022]
Abstract
A reengineered human cellular retinol binding protein II (hCRBPII), a 15-kDa protein belonging to the intracellular lipid binding protein (iLBP) family, generates a highly fluorescent red pigment through the covalent linkage of a merocyanine aldehyde to an active site lysine residue. The complex exhibits "turn-on" fluorescence, due to a weakly fluorescent aldehyde that "lights up" with subsequent formation of a strongly fluorescent merocyanine dye within the binding pocket of the protein. Cellular penetration of merocyanine is rapid, and fluorophore maturation is nearly instantaneous. The hCRBPII/merocyanine complex displays high quantum yield, low cytotoxicity, specificity in labeling organelles, and compatibility in both cancer cell lines and yeast cells. The hCRBPII/merocyanine tag is brighter than most common red fluorescent proteins.
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Affiliation(s)
- Elizabeth M. Santos
- Department of Chemistry, Michigan State University, 578 S. Shaw Ln., East Lansing, MI 48824 USA
| | - Tetyana Berbasova
- Department of Chemistry, Michigan State University, 578 S. Shaw Ln., East Lansing, MI 48824 USA
| | - Wenjing Wang
- Department of Chemistry, Michigan State University, 578 S. Shaw Ln., East Lansing, MI 48824 USA
| | | | - Wei Sheng
- Department of Chemistry, Michigan State University, 578 S. Shaw Ln., East Lansing, MI 48824 USA
| | - Chrysoula Vasileiou
- Department of Chemistry, Michigan State University, 578 S. Shaw Ln., East Lansing, MI 48824 USA
| | - James H. Geiger
- Department of Chemistry, Michigan State University, 578 S. Shaw Ln., East Lansing, MI 48824 USA
| | - Babak Borhan
- Department of Chemistry, Michigan State University, 578 S. Shaw Ln., East Lansing, MI 48824 USA
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29
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One-step site-specific antibody fragment auto-conjugation using SNAP-tag technology. Nat Protoc 2019; 14:3101-3125. [DOI: 10.1038/s41596-019-0214-y] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/12/2018] [Accepted: 06/07/2019] [Indexed: 12/13/2022]
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30
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Zheng Q, Ayala AX, Chung I, Weigel AV, Ranjan A, Falco N, Grimm JB, Tkachuk AN, Wu C, Lippincott-Schwartz J, Singer RH, Lavis LD. Rational Design of Fluorogenic and Spontaneously Blinking Labels for Super-Resolution Imaging. ACS CENTRAL SCIENCE 2019; 5:1602-1613. [PMID: 31572787 PMCID: PMC6764213 DOI: 10.1021/acscentsci.9b00676] [Citation(s) in RCA: 127] [Impact Index Per Article: 25.4] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/09/2019] [Indexed: 05/24/2023]
Abstract
Rhodamine dyes exist in equilibrium between a fluorescent zwitterion and a nonfluorescent lactone. Tuning this equilibrium toward the nonfluorescent lactone form can improve cell-permeability and allow creation of "fluorogenic" compounds-ligands that shift to the fluorescent zwitterion upon binding a biomolecular target. An archetype fluorogenic dye is the far-red tetramethyl-Si-rhodamine (SiR), which has been used to create exceptionally useful labels for advanced microscopy. Here, we develop a quantitative framework for the development of new fluorogenic dyes, determining that the lactone-zwitterion equilibrium constant (K L-Z) is sufficient to predict fluorogenicity. This rubric emerged from our analysis of known fluorophores and yielded new fluorescent and fluorogenic labels with improved performance in cellular imaging experiments. We then designed a novel fluorophore-Janelia Fluor 526 (JF526)-with SiR-like properties but shorter fluorescence excitation and emission wavelengths. JF526 is a versatile scaffold for fluorogenic probes including ligands for self-labeling tags, stains for endogenous structures, and spontaneously blinking labels for super-resolution immunofluorescence. JF526 constitutes a new label for advanced microscopy experiments, and our quantitative framework will enable the rational design of other fluorogenic probes for bioimaging.
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Affiliation(s)
- Qinsi Zheng
- Janelia Research Campus, Howard Hughes
Medical Institute, Ashburn, Virginia 20147, United
States
| | - Anthony X. Ayala
- Janelia Research Campus, Howard Hughes
Medical Institute, Ashburn, Virginia 20147, United
States
| | - Inhee Chung
- Janelia Research Campus, Howard Hughes
Medical Institute, Ashburn, Virginia 20147, United
States
| | - Aubrey V. Weigel
- Janelia Research Campus, Howard Hughes
Medical Institute, Ashburn, Virginia 20147, United
States
| | - Anand Ranjan
- Department of Biology and Department of Molecular
Biology and Genetics, Johns Hopkins University, Baltimore,
Maryland 21218, United States
| | - Natalie Falco
- Janelia Research Campus, Howard Hughes
Medical Institute, Ashburn, Virginia 20147, United
States
| | - Jonathan B. Grimm
- Janelia Research Campus, Howard Hughes
Medical Institute, Ashburn, Virginia 20147, United
States
| | - Ariana N. Tkachuk
- Janelia Research Campus, Howard Hughes
Medical Institute, Ashburn, Virginia 20147, United
States
| | - Carl Wu
- Department of Biology and Department of Molecular
Biology and Genetics, Johns Hopkins University, Baltimore,
Maryland 21218, United States
| | | | - Robert H. Singer
- Janelia Research Campus, Howard Hughes
Medical Institute, Ashburn, Virginia 20147, United
States
- Department of Anatomy and Structural Biology,
Albert Einstein College of Medicine, Bronx, New York 10461,
United States
| | - Luke D. Lavis
- Janelia Research Campus, Howard Hughes
Medical Institute, Ashburn, Virginia 20147, United
States
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31
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Vakuliuk O, Jun YW, Vygranenko K, Clermont G, Reo YJ, Blanchard‐Desce M, Ahn KH, Gryko DT. Modified Isoindolediones as Bright Fluorescent Probes for Cell and Tissue Imaging. Chemistry 2019; 25:13354-13362. [DOI: 10.1002/chem.201902534] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/03/2019] [Revised: 07/18/2019] [Indexed: 12/17/2022]
Affiliation(s)
- Olena Vakuliuk
- Institute of Organic Chemistry Polish Academy of Sciences Kasprzaka 44/52 01-224 Warsaw Poland
| | - Yong Woong Jun
- Department of Chemistry POSTECH 77 Cheongam-Ro Nam-Gu Pohang, Gyungbuk 37673 Korea
| | - Kateryna Vygranenko
- Institute of Organic Chemistry Polish Academy of Sciences Kasprzaka 44/52 01-224 Warsaw Poland
| | | | - Ye Jin Reo
- Department of Chemistry POSTECH 77 Cheongam-Ro Nam-Gu Pohang, Gyungbuk 37673 Korea
| | | | - Kyo Han Ahn
- Department of Chemistry POSTECH 77 Cheongam-Ro Nam-Gu Pohang, Gyungbuk 37673 Korea
| | - Daniel T. Gryko
- Institute of Organic Chemistry Polish Academy of Sciences Kasprzaka 44/52 01-224 Warsaw Poland
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32
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Jia HR, Zhu YX, Xu KF, Pan GY, Liu X, Qiao Y, Wu FG. Efficient cell surface labelling of live zebrafish embryos: wash-free fluorescence imaging for cellular dynamics tracking and nanotoxicity evaluation. Chem Sci 2019; 10:4062-4068. [PMID: 31015947 PMCID: PMC6461115 DOI: 10.1039/c8sc04884c] [Citation(s) in RCA: 54] [Impact Index Per Article: 10.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/01/2018] [Accepted: 02/23/2019] [Indexed: 12/18/2022] Open
Abstract
Imaging the dynamics and behaviors of plasma membranes is at the leading edge of life science research. We report here the development of a universal red-fluorescent probe Chol-PEG-Cy5 for wash-free plasma membrane labelling both in vitro and in vivo. In aqueous solutions, the fluorescence of Chol-PEG-Cy5 is significantly quenched due to the intermolecular resonance energy transfer (RET) between neighbouring Cy5 moieties; however, upon membrane anchoring, the probes undergo lateral diffusion in lipid bilayers, resulting in weakened RET and turn-on fluorescence emission. We demonstrate that Chol-PEG-Cy5 enables rapid, stable and high-quality in vitro cell surface imaging in a variety of mammalian cells. Additionally, with the assistance of three-dimensional (3D) image reconstruction, we achieve for the first time the whole-mount in situ fluorescence imaging of the epidermal cell surfaces of live zebrafish embryos, which cannot be realized by conventional plasma membrane probes due to the presence of the surface-covering mucus barrier. This novel technique encourages us to track the cellular dynamics of the epidermis during embryonic development with 3D visualization. Moreover, we also develop a new method to evaluate the epidermal toxicity of nanomaterials (e.g., gold nanoparticles and graphene oxide nanosheets) toward zebrafish embryos using this fluorescent probe.
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Affiliation(s)
- Hao-Ran Jia
- State Key Laboratory of Bioelectronics , School of Biological Science and Medical Engineering , Southeast University , Nanjing , 210096 , P. R. China .
| | - Ya-Xuan Zhu
- State Key Laboratory of Bioelectronics , School of Biological Science and Medical Engineering , Southeast University , Nanjing , 210096 , P. R. China .
| | - Ke-Fei Xu
- State Key Laboratory of Bioelectronics , School of Biological Science and Medical Engineering , Southeast University , Nanjing , 210096 , P. R. China .
| | - Guang-Yu Pan
- State Key Laboratory of Bioelectronics , School of Biological Science and Medical Engineering , Southeast University , Nanjing , 210096 , P. R. China .
| | - Xiaoyang Liu
- State Key Laboratory of Bioelectronics , School of Biological Science and Medical Engineering , Southeast University , Nanjing , 210096 , P. R. China .
| | - Ying Qiao
- State Key Laboratory of Bioelectronics , School of Biological Science and Medical Engineering , Southeast University , Nanjing , 210096 , P. R. China .
| | - Fu-Gen Wu
- State Key Laboratory of Bioelectronics , School of Biological Science and Medical Engineering , Southeast University , Nanjing , 210096 , P. R. China .
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33
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Dan K, Veetil AT, Chakraborty K, Krishnan Y. DNA nanodevices map enzymatic activity in organelles. NATURE NANOTECHNOLOGY 2019; 14:252-259. [PMID: 30742135 PMCID: PMC6859052 DOI: 10.1038/s41565-019-0365-6] [Citation(s) in RCA: 63] [Impact Index Per Article: 12.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/15/2017] [Accepted: 12/18/2018] [Indexed: 05/18/2023]
Abstract
Cellular reporters of enzyme activity are based on either fluorescent proteins or small molecules. Such reporters provide information corresponding to wherever inside cells the enzyme is maximally active and preclude minor populations present in subcellular compartments. Here we describe a chemical imaging strategy to selectively interrogate minor, subcellular pools of enzymatic activity. This new technology confines the detection chemistry to a designated organelle, enabling imaging of enzymatic cleavage exclusively within the organelle. We have thus quantitatively mapped disulfide reduction exclusively in endosomes in Caenorhabditis elegans and identified that exchange is mediated by minor populations of the enzymes PDI-3 and TRX-1 resident in endosomes. Impeding intra-endosomal disulfide reduction by knocking down TRX-1 protects nematodes from infection by Corynebacterium diphtheriae, revealing the importance of this minor pool of endosomal TRX-1. TRX-1 also mediates endosomal disulfide reduction in human cells. A range of enzymatic cleavage reactions in organelles are amenable to analysis by this new reporter strategy.
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Affiliation(s)
- Krishna Dan
- Department of Chemistry, University of Chicago, Chicago, IL, USA
- Grossman Institute of Neuroscience, Quantitative Biology and Human Behaviour, University of Chicago, Chicago, IL, USA
| | - Aneesh T Veetil
- Department of Chemistry, University of Chicago, Chicago, IL, USA
- Grossman Institute of Neuroscience, Quantitative Biology and Human Behaviour, University of Chicago, Chicago, IL, USA
| | - Kasturi Chakraborty
- Department of Chemistry, University of Chicago, Chicago, IL, USA
- Grossman Institute of Neuroscience, Quantitative Biology and Human Behaviour, University of Chicago, Chicago, IL, USA
| | - Yamuna Krishnan
- Department of Chemistry, University of Chicago, Chicago, IL, USA.
- Grossman Institute of Neuroscience, Quantitative Biology and Human Behaviour, University of Chicago, Chicago, IL, USA.
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34
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Sundukova M, Prifti E, Bucci A, Kirillova K, Serrao J, Reymond L, Umebayashi M, Hovius R, Riezman H, Johnsson K, Heppenstall PA. A Chemogenetic Approach for the Optical Monitoring of Voltage in Neurons. Angew Chem Int Ed Engl 2019; 58:2341-2344. [PMID: 30569539 PMCID: PMC6391943 DOI: 10.1002/anie.201812967] [Citation(s) in RCA: 32] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/12/2018] [Revised: 12/16/2018] [Indexed: 01/11/2023]
Abstract
Optical monitoring of neuronal voltage using fluorescent indicators is a powerful approach for the interrogation of the cellular and molecular logic of the nervous system. Herein, a semisynthetic tethered voltage indicator (STeVI1) based upon nile red is described that displays voltage sensitivity when genetically targeted to neuronal membranes. This environmentally sensitive probe allows for wash-free imaging and faithfully detects supra- and sub-threshold activity in neurons.
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Affiliation(s)
- Mayya Sundukova
- Molecular Medicine Partnership Unit (MMPU)69117HeidelbergGermany
- Epigenetics and Neurobiology UnitEMBL Romevia Ramarini 32MonterotondoItaly
| | - Efthymia Prifti
- Molecular Medicine Partnership Unit (MMPU)69117HeidelbergGermany
- Epigenetics and Neurobiology UnitEMBL Romevia Ramarini 32MonterotondoItaly
| | - Annalisa Bucci
- Molecular Medicine Partnership Unit (MMPU)69117HeidelbergGermany
- Epigenetics and Neurobiology UnitEMBL Romevia Ramarini 32MonterotondoItaly
| | - Kseniia Kirillova
- Molecular Medicine Partnership Unit (MMPU)69117HeidelbergGermany
- Epigenetics and Neurobiology UnitEMBL Romevia Ramarini 32MonterotondoItaly
| | - Joana Serrao
- Molecular Medicine Partnership Unit (MMPU)69117HeidelbergGermany
- Epigenetics and Neurobiology UnitEMBL Romevia Ramarini 32MonterotondoItaly
| | - Luc Reymond
- Ecole Polytechnique Federale de LausanneISICNational Centre for Competence in Research (NCCR) in Chemical Biology1015LausanneSwitzerland
| | - Miwa Umebayashi
- University of GenevaDepartment of Biochemistry, National Centre for Competence in Research (NCCR) in Chemical Biology1211GenevaSwitzerland
| | - Ruud Hovius
- Ecole Polytechnique Federale de LausanneISICNational Centre for Competence in Research (NCCR) in Chemical Biology1015LausanneSwitzerland
| | - Howard Riezman
- University of GenevaDepartment of Biochemistry, National Centre for Competence in Research (NCCR) in Chemical Biology1211GenevaSwitzerland
| | - Kai Johnsson
- Department of Chemical BiologyMax Planck Institute for Medical Research69120HeidelbergGermany
- Ecole Polytechnique Federale de LausanneISICNational Centre for Competence in Research (NCCR) in Chemical Biology1015LausanneSwitzerland
| | - Paul A. Heppenstall
- Molecular Medicine Partnership Unit (MMPU)69117HeidelbergGermany
- Epigenetics and Neurobiology UnitEMBL Romevia Ramarini 32MonterotondoItaly
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35
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Jung KH, Fares M, Grainger LS, Wolstenholme CH, Hou A, Liu Y, Zhang X. A SNAP-tag fluorogenic probe mimicking the chromophore of the red fluorescent protein Kaede. Org Biomol Chem 2019; 17:1906-1915. [PMID: 30265264 DOI: 10.1039/c8ob01483c] [Citation(s) in RCA: 16] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
Self-labelling protein tags with fluorogenic probes serve as great fluorescence imaging tools to understand key questions of protein dynamics and functions in living cells. In the present study, we report a SNAP-tag fluorogenic probe 4c mimicking the chromophore of the red fluorescent protein Kaede. The molecular rotor properties of 4c were utilized as a fluorogenic probe for SNAP-tag, such that conjugation with SNAPf protein leads to inhibition of twisted intramolecular charge transfer, triggering fluorogenecity. Upon conjugation with SNAPf, 4c exhibited approximately a 90-fold enhancement in fluorescence intensity with fast labelling kinetics (k2 = 15 000 M-1 s-1). Biochemical and spectroscopic studies confirmed that fluorescence requires formation of folded SNAPf·4c covalent conjugate between Cys 145 and 4c. Confocal microscopy and flow cytometry showed that 4c is capable of detecting SNAPf proteins or SNAPf fused with a protein of interest in living cells. This work provides a framework to develop the large family of FP chromophores into fluorogenic probes for self-labelling protein tags.
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Affiliation(s)
- Kwan Ho Jung
- Department of Chemistry, The Pennsylvania State University, University Park, Pennsylvania 16802, USA.
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36
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Sundukova M, Prifti E, Bucci A, Kirillova K, Serrao J, Reymond L, Umebayashi M, Hovius R, Riezman H, Johnsson K, Heppenstall PA. A Chemogenetic Approach for the Optical Monitoring of Voltage in Neurons. Angew Chem Int Ed Engl 2019. [DOI: 10.1002/ange.201812967] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Affiliation(s)
- Mayya Sundukova
- Molecular Medicine Partnership Unit (MMPU); 69117 Heidelberg Germany
- Epigenetics and Neurobiology Unit; EMBL Rome; via Ramarini 32 Monterotondo Italy
| | - Efthymia Prifti
- Molecular Medicine Partnership Unit (MMPU); 69117 Heidelberg Germany
- Epigenetics and Neurobiology Unit; EMBL Rome; via Ramarini 32 Monterotondo Italy
| | - Annalisa Bucci
- Molecular Medicine Partnership Unit (MMPU); 69117 Heidelberg Germany
- Epigenetics and Neurobiology Unit; EMBL Rome; via Ramarini 32 Monterotondo Italy
| | - Kseniia Kirillova
- Molecular Medicine Partnership Unit (MMPU); 69117 Heidelberg Germany
- Epigenetics and Neurobiology Unit; EMBL Rome; via Ramarini 32 Monterotondo Italy
| | - Joana Serrao
- Molecular Medicine Partnership Unit (MMPU); 69117 Heidelberg Germany
- Epigenetics and Neurobiology Unit; EMBL Rome; via Ramarini 32 Monterotondo Italy
| | - Luc Reymond
- Ecole Polytechnique Federale de Lausanne; ISIC; National Centre for Competence in Research (NCCR) in Chemical Biology; 1015 Lausanne Switzerland
| | - Miwa Umebayashi
- University of Geneva; Department of Biochemistry, National Centre for Competence in Research (NCCR) in Chemical Biology; 1211 Geneva Switzerland
| | - Ruud Hovius
- Ecole Polytechnique Federale de Lausanne; ISIC; National Centre for Competence in Research (NCCR) in Chemical Biology; 1015 Lausanne Switzerland
| | - Howard Riezman
- University of Geneva; Department of Biochemistry, National Centre for Competence in Research (NCCR) in Chemical Biology; 1211 Geneva Switzerland
| | - Kai Johnsson
- Department of Chemical Biology; Max Planck Institute for Medical Research; 69120 Heidelberg Germany
- Ecole Polytechnique Federale de Lausanne; ISIC; National Centre for Competence in Research (NCCR) in Chemical Biology; 1015 Lausanne Switzerland
| | - Paul A. Heppenstall
- Molecular Medicine Partnership Unit (MMPU); 69117 Heidelberg Germany
- Epigenetics and Neurobiology Unit; EMBL Rome; via Ramarini 32 Monterotondo Italy
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37
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Goujon A, Straková K, Sakai N, Matile S. Streptavidin interfacing as a general strategy to localize fluorescent membrane tension probes in cells. Chem Sci 2019; 10:310-319. [PMID: 30713639 PMCID: PMC6333237 DOI: 10.1039/c8sc03620a] [Citation(s) in RCA: 16] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/14/2018] [Accepted: 10/09/2018] [Indexed: 12/12/2022] Open
Abstract
To image the mechanical properties of biological membranes, twisted push-pull mechanophores that respond to membrane tension by planarization in the ground state have been introduced recently. For their application in biological systems, these so-called fluorescent flippers will have to be localized to specific environments of cellular membranes. In this report, we explore streptavidin as a versatile connector between biotinylated flipper probes and biotinylated targets. Fluorescence spectroscopy and microscopy with LUVs and GUVs reveal the specific conditions needed for desthiobiotin-loaded streptavidin to deliver biotinylated flippers selectively to biotinylated membranes. Selectivity for biotinylated plasma membranes is also observed in HeLa cells, confirming the compatibility of this strategy with biological systems. Streptavidin interfacing does not affect the mechanosensitivity of the flipper probes, red shift in the excitation maximum and fluorescence lifetime increase with membrane order and tension, as demonstrated, inter alia, using FLIM.
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Affiliation(s)
- Antoine Goujon
- School of Chemistry and Biochemistry , National Centre of Competence in Research (NCCR) Chemical Biology , University of Geneva , Geneva , Switzerland . ; http://www.unige.ch/sciences/chiorg/matile/
| | - Karolína Straková
- School of Chemistry and Biochemistry , National Centre of Competence in Research (NCCR) Chemical Biology , University of Geneva , Geneva , Switzerland . ; http://www.unige.ch/sciences/chiorg/matile/
| | - Naomi Sakai
- School of Chemistry and Biochemistry , National Centre of Competence in Research (NCCR) Chemical Biology , University of Geneva , Geneva , Switzerland . ; http://www.unige.ch/sciences/chiorg/matile/
| | - Stefan Matile
- School of Chemistry and Biochemistry , National Centre of Competence in Research (NCCR) Chemical Biology , University of Geneva , Geneva , Switzerland . ; http://www.unige.ch/sciences/chiorg/matile/
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Colom A, Derivery E, Soleimanpour S, Tomba C, Molin MD, Sakai N, González-Gaitán M, Matile S, Roux A. A fluorescent membrane tension probe. Nat Chem 2018; 10:1118-1125. [PMID: 30150727 PMCID: PMC6197433 DOI: 10.1038/s41557-018-0127-3] [Citation(s) in RCA: 288] [Impact Index Per Article: 48.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/22/2017] [Accepted: 07/25/2018] [Indexed: 12/24/2022]
Abstract
Cells and organelles are delimited by lipid bilayers in which high deformability is essential to many cell processes, including motility, endocytosis and cell division. Membrane tension is therefore a major regulator of the cell processes that remodel membranes, albeit one that is very hard to measure in vivo. Here we show that a planarizable push-pull fluorescent probe called FliptR (fluorescent lipid tension reporter) can monitor changes in membrane tension by changing its fluorescence lifetime as a function of the twist between its fluorescent groups. The fluorescence lifetime depends linearly on membrane tension within cells, enabling an easy quantification of membrane tension by fluorescence lifetime imaging microscopy. We further show, using model membranes, that this linear dependency between lifetime of the probe and membrane tension relies on a membrane-tension-dependent lipid phase separation. We also provide calibration curves that enable accurate measurement of membrane tension using fluorescence lifetime imaging microscopy.
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Affiliation(s)
- Adai Colom
- Biochemistry Department, University of Geneva, Geneva, Switzerland
- Swiss National Centre for Competence in Research Programme Chemical Biology, Geneva, Switzerland
- School of Chemistry and Biochemistry, University of Geneva, Geneva, Switzerland
| | - Emmanuel Derivery
- Biochemistry Department, University of Geneva, Geneva, Switzerland
- Swiss National Centre for Competence in Research Programme Chemical Biology, Geneva, Switzerland
- School of Chemistry and Biochemistry, University of Geneva, Geneva, Switzerland
- MRC Laboratory of Molecular Biology, Cambridge Biomedical Campus, Cambridge, UK
| | - Saeideh Soleimanpour
- Swiss National Centre for Competence in Research Programme Chemical Biology, Geneva, Switzerland
- School of Chemistry and Biochemistry, University of Geneva, Geneva, Switzerland
| | - Caterina Tomba
- Biochemistry Department, University of Geneva, Geneva, Switzerland
- School of Chemistry and Biochemistry, University of Geneva, Geneva, Switzerland
| | - Marta Dal Molin
- Swiss National Centre for Competence in Research Programme Chemical Biology, Geneva, Switzerland
- School of Chemistry and Biochemistry, University of Geneva, Geneva, Switzerland
| | - Naomi Sakai
- Swiss National Centre for Competence in Research Programme Chemical Biology, Geneva, Switzerland
- School of Chemistry and Biochemistry, University of Geneva, Geneva, Switzerland
| | - Marcos González-Gaitán
- Biochemistry Department, University of Geneva, Geneva, Switzerland
- Swiss National Centre for Competence in Research Programme Chemical Biology, Geneva, Switzerland
- School of Chemistry and Biochemistry, University of Geneva, Geneva, Switzerland
| | - Stefan Matile
- Swiss National Centre for Competence in Research Programme Chemical Biology, Geneva, Switzerland
- School of Chemistry and Biochemistry, University of Geneva, Geneva, Switzerland
| | - Aurélien Roux
- Biochemistry Department, University of Geneva, Geneva, Switzerland.
- Swiss National Centre for Competence in Research Programme Chemical Biology, Geneva, Switzerland.
- School of Chemistry and Biochemistry, University of Geneva, Geneva, Switzerland.
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39
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Jaykumar AB, Caceres PS, Ortiz PA. Single-molecule labeling for studying trafficking of renal transporters. Am J Physiol Renal Physiol 2018; 315:F1243-F1249. [PMID: 30043625 DOI: 10.1152/ajprenal.00082.2017] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022] Open
Abstract
The ability to detect and track single molecules presents the advantage of visualizing the complex behavior of transmembrane proteins with a time and space resolution that would otherwise be lost with traditional labeling and biochemical techniques. Development of new imaging probes has provided a robust method to study their trafficking and surface dynamics. This mini-review focuses on the current technology available for single-molecule labeling of transmembrane proteins, their advantages, and limitations. We also discuss the application of these techniques to the study of renal transporter trafficking in light of recent research.
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Affiliation(s)
- Ankita Bachhawat Jaykumar
- Hypertension and Vascular Research Division, Department of Internal Medicine, Henry Ford Hospital , Detroit, Michigan.,Department of Physiology, Wayne State University School of Medicine , Detroit, Michigan
| | - Paulo S Caceres
- Hypertension and Vascular Research Division, Department of Internal Medicine, Henry Ford Hospital , Detroit, Michigan
| | - Pablo A Ortiz
- Hypertension and Vascular Research Division, Department of Internal Medicine, Henry Ford Hospital , Detroit, Michigan.,Department of Physiology, Wayne State University School of Medicine , Detroit, Michigan
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40
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Li C, Mourton A, Plamont MA, Rodrigues V, Aujard I, Volovitch M, Le Saux T, Perez F, Vriz S, Jullien L, Joliot A, Gautier A. Fluorogenic Probing of Membrane Protein Trafficking. Bioconjug Chem 2018; 29:1823-1828. [PMID: 29791141 DOI: 10.1021/acs.bioconjchem.8b00180] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Methods to differentially label cell-surface and intracellular membrane proteins are indispensable for understanding their function and the regulation of their trafficking. We present an efficient strategy for the rapid and selective fluorescent labeling of membrane proteins based on the chemical-genetic fluorescent marker FAST (fluorescence-activating and absorption-shifting tag). Cell-surface FAST-tagged proteins could be selectively and rapidly labeled using fluorogenic membrane-impermeant 4-hydroxybenzylidene rhodanine (HBR) analogs. This approach allows the study of protein trafficking at the plasma membrane with various fluorometric techniques, and opens exciting prospects for the high-throughput screening of small molecules able to restore disease-related trafficking defects.
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Affiliation(s)
- Chenge Li
- PASTEUR, Département de Chimie, École Normale Supérieure , PSL University, Sorbonne Université, CNRS , 75005 Paris , France
| | - Aurélien Mourton
- Center for Interdisciplinary Research in Biology (CIRB), Collège de France , CNRS, INSERM, PSL Research University , 75231 Paris , France
- PSL Research University , 75006 Paris , France
| | - Marie-Aude Plamont
- PASTEUR, Département de Chimie, École Normale Supérieure , PSL University, Sorbonne Université, CNRS , 75005 Paris , France
| | - Vanessa Rodrigues
- PASTEUR, Département de Chimie, École Normale Supérieure , PSL University, Sorbonne Université, CNRS , 75005 Paris , France
| | - Isabelle Aujard
- PASTEUR, Département de Chimie, École Normale Supérieure , PSL University, Sorbonne Université, CNRS , 75005 Paris , France
| | - Michel Volovitch
- Center for Interdisciplinary Research in Biology (CIRB), Collège de France , CNRS, INSERM, PSL Research University , 75231 Paris , France
- École Normale Supérieure, Department of Biology , PSL Research University , 75005 Paris , France
| | - Thomas Le Saux
- PASTEUR, Département de Chimie, École Normale Supérieure , PSL University, Sorbonne Université, CNRS , 75005 Paris , France
| | - Franck Perez
- Institut Curie, PSL Research University, CNRS UMR144 , 26 rue d'Ulm , 75248 Paris Cedex 05, France
| | - Sophie Vriz
- Center for Interdisciplinary Research in Biology (CIRB), Collège de France , CNRS, INSERM, PSL Research University , 75231 Paris , France
- Université Paris Diderot, Sorbonne Paris Cité , Biology Department , 75205 Paris Cedex 13, France
| | - Ludovic Jullien
- PASTEUR, Département de Chimie, École Normale Supérieure , PSL University, Sorbonne Université, CNRS , 75005 Paris , France
| | - Alain Joliot
- Center for Interdisciplinary Research in Biology (CIRB), Collège de France , CNRS, INSERM, PSL Research University , 75231 Paris , France
| | - Arnaud Gautier
- PASTEUR, Département de Chimie, École Normale Supérieure , PSL University, Sorbonne Université, CNRS , 75005 Paris , France
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41
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Strakova K, Soleimanpour S, Diez-Castellnou M, Sakai N, Matile S. Ganglioside-Selective Mechanosensitive Fluorescent Membrane Probes. Helv Chim Acta 2018. [DOI: 10.1002/hlca.201800019] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Affiliation(s)
- Karolina Strakova
- Department of Organic Chemistry; University of Geneva; Quai Ernest Ansermet 30 CH-1211 Geneva 4 Switzerland
| | - Saeideh Soleimanpour
- Department of Organic Chemistry; University of Geneva; Quai Ernest Ansermet 30 CH-1211 Geneva 4 Switzerland
| | - Marta Diez-Castellnou
- Department of Organic Chemistry; University of Geneva; Quai Ernest Ansermet 30 CH-1211 Geneva 4 Switzerland
| | - Naomi Sakai
- Department of Organic Chemistry; University of Geneva; Quai Ernest Ansermet 30 CH-1211 Geneva 4 Switzerland
| | - Stefan Matile
- Department of Organic Chemistry; University of Geneva; Quai Ernest Ansermet 30 CH-1211 Geneva 4 Switzerland
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42
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Biotin conjugated organic molecules and proteins for cancer therapy: A review. Eur J Med Chem 2018; 145:206-223. [PMID: 29324341 DOI: 10.1016/j.ejmech.2018.01.001] [Citation(s) in RCA: 75] [Impact Index Per Article: 12.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/29/2017] [Revised: 12/04/2017] [Accepted: 01/01/2018] [Indexed: 01/09/2023]
Abstract
The main transporter for biotin is sodium dependent multivitamin transporter (SMVT), which is overexpressed in various aggressive cancer cell lines such as ovarian (OV 2008, ID8), leukemia (L1210FR), mastocytoma (P815), colon (Colo-26), breast (4T1, JC, MMT06056), renal (RENCA, RD0995), and lung (M109) cancer cell lines. Furthermore, its overexpression was found higher to that of folate receptor. Therefore, biotin demand in the rapidly growing tumors is higher than normal tissues. Several biotin conjugated organic molecules has been reported here for selective delivery of the drug in cancer cell. Biotin conjugated molecules are showing higher fold of cytotoxicity in biotin positive cancer cell lines than the normal cell. Nanoparticles and polymer surface modified drugs and biotin mediated cancer theranostic strategy was highlighted in this review. The cytotoxicity and selectivity of the drug in cancer cells has enhanced after biotin conjugation.
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43
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Altering Residue 134 Confers an Increased Substrate Range of Alkylated Nucleosides to the E. coli OGT Protein. Molecules 2017; 22:molecules22111948. [PMID: 29137116 PMCID: PMC6150290 DOI: 10.3390/molecules22111948] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/16/2017] [Revised: 11/01/2017] [Accepted: 11/08/2017] [Indexed: 01/20/2023] Open
Abstract
O6-Alkylguanine-DNA alkyltransferases (AGTs) are proteins responsible for the removal of mutagenic alkyl adducts at the O6-atom of guanine and O4-atom of thymine. In the current study we set out to understand the role of the Ser134 residue in the Escherichia coli AGT variant OGT on substrate discrimination. The S134P mutation in OGT increased the ability of the protein to repair both O6-adducts of guanine and O4-adducts of thymine. However, the S134P variant was unable, like wild-type OGT, to repair an interstrand cross-link (ICL) bridging two O6-atoms of guanine in a DNA duplex. When compared to the human AGT protein (hAGT), the S134P OGT variant displayed reduced activity towards O6-alkylation but a much broader substrate range for O4-alkylation damage reversal. The role of residue 134 in OGT is similar to its function in the human homolog, where Pro140 is crucial in conferring on hAGT the capability to repair large adducts at the O6-position of guanine. Finally, a method to generate a covalent conjugate between hAGT and a model nucleoside using a single-stranded oligonucleotide substrate is demonstrated.
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44
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Hong YR, Lam CH, Tan KT. Fluorogenic Protein Labeling Probes to Study the Morphological Interplay between PreLamin and Mature Lamin. Bioconjug Chem 2017; 28:2895-2902. [DOI: 10.1021/acs.bioconjchem.7b00611] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Yi-Ru Hong
- Department of Chemistry and ‡Frontier Research Center on Fundamental and Applied
Sciences of Matters, National Tsing Hua University, 101 Sec.
2, Kuang Fu Rd, Hsinchu 30013, Taiwan (ROC)
| | - Chak Hin Lam
- Department of Chemistry and ‡Frontier Research Center on Fundamental and Applied
Sciences of Matters, National Tsing Hua University, 101 Sec.
2, Kuang Fu Rd, Hsinchu 30013, Taiwan (ROC)
| | - Kui-Thong Tan
- Department of Chemistry and ‡Frontier Research Center on Fundamental and Applied
Sciences of Matters, National Tsing Hua University, 101 Sec.
2, Kuang Fu Rd, Hsinchu 30013, Taiwan (ROC)
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45
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Leng S, Qiao QL, Gao Y, Miao L, Deng WG, Xu ZC. SNAP-tag fluorogenic probes for wash free protein labeling. CHINESE CHEM LETT 2017. [DOI: 10.1016/j.cclet.2017.03.034] [Citation(s) in RCA: 29] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
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46
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Wang HY, Sun J, Xia LY, Li YH, Chen Z, Wu FG. Permeabilization-Tolerant Plasma Membrane Imaging Reagent Based on Amine-Rich Glycol Chitosan Derivatives. ACS Biomater Sci Eng 2017; 3:2570-2578. [DOI: 10.1021/acsbiomaterials.7b00448] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Hong-Yin Wang
- State
Key Laboratory of Bioelectronics, School of Biological Science and
Medical Engineering, Southeast University, 2 Sipailou Road, Nanjing 210096, P. R. China
| | - Jie Sun
- State
Key Laboratory of Bioelectronics, School of Biological Science and
Medical Engineering, Southeast University, 2 Sipailou Road, Nanjing 210096, P. R. China
| | - Liu-Yuan Xia
- State
Key Laboratory of Bioelectronics, School of Biological Science and
Medical Engineering, Southeast University, 2 Sipailou Road, Nanjing 210096, P. R. China
| | - Yan-Hong Li
- State
Key Laboratory of Bioelectronics, School of Biological Science and
Medical Engineering, Southeast University, 2 Sipailou Road, Nanjing 210096, P. R. China
| | - Zhan Chen
- Department
of Chemistry, University of Michigan, 930 North University Avenue, Ann Arbor, Michigan 48109, United States
| | - Fu-Gen Wu
- State
Key Laboratory of Bioelectronics, School of Biological Science and
Medical Engineering, Southeast University, 2 Sipailou Road, Nanjing 210096, P. R. China
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47
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Development of an ON/OFF switchable fluorescent probe targeting His tag fused proteins in living cells. Bioorg Med Chem Lett 2017. [DOI: 10.1016/j.bmcl.2017.05.087] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
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48
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Wichner SM, Mann VR, Powers AS, Segal MA, Mir M, Bandaria J, DeWitt MA, Darzacq X, Yildiz A, Cohen BE. Covalent Protein Labeling and Improved Single-Molecule Optical Properties of Aqueous CdSe/CdS Quantum Dots. ACS NANO 2017; 11:6773-6781. [PMID: 28618223 PMCID: PMC5891212 DOI: 10.1021/acsnano.7b01470] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/20/2023]
Abstract
Semiconductor quantum dots (QDs) have proven to be superior probes for single-molecule imaging compared to organic or genetically encoded fluorophores, but they are limited by difficulties in protein targeting, their larger size, and on-off blinking. Here, we report compact aqueous CdSe/CdS QDs with significantly improved bioconjugation efficiency and superior single-molecule optical properties. We have synthesized covalent protein labeling ligands (i.e., SNAP tags) that are optimized for nanoparticle use, and QDs functionalized with these ligands label SNAP-tagged proteins ∼10-fold more efficiently than existing SNAP ligands. Single-molecule analysis of these QDs shows 99% of time spent in the fluorescent on-state, ∼4-fold higher quantum efficiency than standard CdSe/ZnS QDs, and 350 million photons detected before photobleaching. Bright signals of these QDs enable us to track the stepping movement of a kinesin motor in vitro, and the improved labeling efficiency enables tracking of single kinesins in live cells.
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Affiliation(s)
- Sara M. Wichner
- Department of Chemistry, University of California at Berkeley, Berkeley CA 94720 USA
| | - Victor R. Mann
- Department of Chemistry, University of California at Berkeley, Berkeley CA 94720 USA
- Molecular Foundry, Lawrence Berkeley National Laboratory, Berkeley CA 94720 USA
| | - Alexander S. Powers
- Molecular Foundry, Lawrence Berkeley National Laboratory, Berkeley CA 94720 USA
| | - Maya A. Segal
- Department of Chemistry, University of California at Berkeley, Berkeley CA 94720 USA
| | - Mustafa Mir
- Department of Molecular and Cellular Biology, University of California at Berkeley, Berkeley CA 94720 USA
| | - Jigar Bandaria
- Department of Physics, University of California at Berkeley, Berkeley CA 94720 USA
| | - Mark A. DeWitt
- Biophysics Graduate Group, University of California at Berkeley, Berkeley CA 94720 USA
| | - Xavier Darzacq
- Department of Molecular and Cellular Biology, University of California at Berkeley, Berkeley CA 94720 USA
| | - Ahmet Yildiz
- Department of Molecular and Cellular Biology, University of California at Berkeley, Berkeley CA 94720 USA
- Department of Physics, University of California at Berkeley, Berkeley CA 94720 USA
- Biophysics Graduate Group, University of California at Berkeley, Berkeley CA 94720 USA
- Corresponding authors: ,
| | - Bruce E. Cohen
- Molecular Foundry, Lawrence Berkeley National Laboratory, Berkeley CA 94720 USA
- Corresponding authors: ,
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49
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Li C, Tebo AG, Gautier A. Fluorogenic Labeling Strategies for Biological Imaging. Int J Mol Sci 2017; 18:ijms18071473. [PMID: 28698494 PMCID: PMC5535964 DOI: 10.3390/ijms18071473] [Citation(s) in RCA: 47] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/21/2017] [Revised: 07/03/2017] [Accepted: 07/06/2017] [Indexed: 12/27/2022] Open
Abstract
The spatiotemporal fluorescence imaging of biological processes requires effective tools to label intracellular biomolecules in living systems. This review presents a brief overview of recent labeling strategies that permits one to make protein and RNA strongly fluorescent using synthetic fluorogenic probes. Genetically encoded tags selectively binding the exogenously applied molecules ensure high labeling selectivity, while high imaging contrast is achieved using fluorogenic chromophores that are fluorescent only when bound to their cognate tag, and are otherwise dark. Beyond avoiding the need for removal of unbound synthetic dyes, these approaches allow the development of sophisticated imaging assays, and open exciting prospects for advanced imaging, particularly for multiplexed imaging and super-resolution microscopy.
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Affiliation(s)
- Chenge Li
- École Normale Supérieure, PSL Research University, UPMC Univ Paris 06, CNRS, Département de Chimie, PASTEUR, 24 rue Lhomond, 75005 Paris, France.
- Sorbonne Universités, UPMC Univ Paris 06, ENS, CNRS, PASTEUR, 75005 Paris, France.
| | - Alison G Tebo
- École Normale Supérieure, PSL Research University, UPMC Univ Paris 06, CNRS, Département de Chimie, PASTEUR, 24 rue Lhomond, 75005 Paris, France.
- Sorbonne Universités, UPMC Univ Paris 06, ENS, CNRS, PASTEUR, 75005 Paris, France.
| | - Arnaud Gautier
- École Normale Supérieure, PSL Research University, UPMC Univ Paris 06, CNRS, Département de Chimie, PASTEUR, 24 rue Lhomond, 75005 Paris, France.
- Sorbonne Universités, UPMC Univ Paris 06, ENS, CNRS, PASTEUR, 75005 Paris, France.
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50
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Braner M, Wieneke R, Tampé R. Nanomolar affinity protein trans-splicing monitored in real-time by fluorophore–quencher pairs. Chem Commun (Camb) 2017; 53:545-548. [DOI: 10.1039/c6cc08862g] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
We combined high-affinity protein trans-splicing with fluorophore/quencher pairs for online detection of covalent N-terminal ‘traceless’ protein labeling at nanomolar concentrations under physiological conditions in cellular environment.
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Affiliation(s)
- M. Braner
- Institute of Biochemistry, Biocenter
- Goethe University Frankfurt
- 60438 Frankfurt a.M
- Germany
| | - R. Wieneke
- Institute of Biochemistry, Biocenter
- Goethe University Frankfurt
- 60438 Frankfurt a.M
- Germany
| | - R. Tampé
- Institute of Biochemistry, Biocenter
- Goethe University Frankfurt
- 60438 Frankfurt a.M
- Germany
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