1
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Korotkova D, Borisyuk A, Guihur A, Bardyn M, Kuttler F, Reymond L, Schuhmacher M, Amen T. Fluorescent fatty acid conjugates for live cell imaging of peroxisomes. Nat Commun 2024; 15:4314. [PMID: 38773129 PMCID: PMC11109271 DOI: 10.1038/s41467-024-48679-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/25/2023] [Accepted: 05/09/2024] [Indexed: 05/23/2024] Open
Abstract
Peroxisomes are eukaryotic organelles that are essential for multiple metabolic pathways, including fatty acid oxidation, degradation of amino acids, and biosynthesis of ether lipids. Consequently, peroxisome dysfunction leads to pediatric-onset neurodegenerative conditions, including Peroxisome Biogenesis Disorders (PBD). Due to the dynamic, tissue-specific, and context-dependent nature of their biogenesis and function, live cell imaging of peroxisomes is essential for studying peroxisome regulation, as well as for the diagnosis of PBD-linked abnormalities. However, the peroxisomal imaging toolkit is lacking in many respects, with no reporters for substrate import, nor cell-permeable probes that could stain dysfunctional peroxisomes. Here we report that the BODIPY-C12 fluorescent fatty acid probe stains functional and dysfunctional peroxisomes in live mammalian cells. We then go on to improve BODIPY-C12, generating peroxisome-specific reagents, PeroxiSPY650 and PeroxiSPY555. These probes combine high peroxisome specificity, bright fluorescence in the red and far-red spectrum, and fast non-cytotoxic staining, making them ideal tools for live cell, whole organism, or tissue imaging of peroxisomes. Finally, we demonstrate that PeroxiSPY enables diagnosis of peroxisome abnormalities in the PBD CRISPR/Cas9 cell models and patient-derived cell lines.
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Affiliation(s)
- Daria Korotkova
- Global Health Institute, Faculty of Life Sciences, Ecole Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland
| | - Anya Borisyuk
- Global Health Institute, Faculty of Life Sciences, Ecole Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland
| | - Anthony Guihur
- Department of Plant Molecular Biology, Faculty of Biology and Medicine, University of Lausanne, Lausanne, Switzerland
| | - Manon Bardyn
- Biomolecular Screening Facility, Ecole Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland
| | - Fabien Kuttler
- Biomolecular Screening Facility, Ecole Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland
| | - Luc Reymond
- Biomolecular Screening Facility, Ecole Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland
| | - Milena Schuhmacher
- Institute of Bioengineering, Faculty of Life Sciences, Ecole Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland
| | - Triana Amen
- Global Health Institute, Faculty of Life Sciences, Ecole Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland.
- School of Biological Sciences, University of Southampton, Southampton, UK.
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2
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Remmel M, Matthias J, Lincoln R, Keller-Findeisen J, Butkevich AN, Bossi ML, Hell SW. Photoactivatable Xanthone (PaX) Dyes Enable Quantitative, Dual Color, and Live-Cell MINFLUX Nanoscopy. SMALL METHODS 2024:e2301497. [PMID: 38497095 DOI: 10.1002/smtd.202301497] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/28/2023] [Revised: 02/06/2024] [Indexed: 03/19/2024]
Abstract
The single-molecule localization concept MINFLUX has triggered a reevaluation of the features of fluorophores for attaining nanometer-scale resolution. MINFLUX nanoscopy benefits from temporally controlled fluorescence ("on"/"off") photoswitching. Combined with an irreversible switching behavior, the localization process is expected to turn highly efficient and quantitative data analysis simple. The potential in the recently reported photoactivable xanthone (PaX) dyes is recognized to extend the list of molecular switches used for MINFLUX with 561 nm excitation beyond the fluorescent protein mMaple. The MINFLUX localization success rates of PaX560 , PaX+560, and mMaple are quantitatively compared by analyzing the effective labeling efficiency of endogenously tagged nuclear pore complexes. The PaX dyes prove to be superior to mMaple and on par with the best reversible molecular switches routinely used in single-molecule localization microscopy. Moreover, the rationally designed PaX595 is introduced for complementing PaX560 in dual color 561 nm MINFLUX imaging based on spectral classification and the deterministic, irreversible, and additive-independent nature of PaX photoactivation is showcased in fast live-cell MINFLUX imaging. The PaX dyes meet the demands of MINFLUX for a robust readout of each label position and fill the void of reliable fluorophores dedicated to 561 nm MINFLUX imaging.
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Affiliation(s)
- Michael Remmel
- Department of Optical Nanoscopy, Max Planck Institute for Medical Research, 69120, Heidelberg, Germany
| | - Jessica Matthias
- Department of Optical Nanoscopy, Max Planck Institute for Medical Research, 69120, Heidelberg, Germany
| | - Richard Lincoln
- Department of Optical Nanoscopy, Max Planck Institute for Medical Research, 69120, Heidelberg, Germany
| | - Jan Keller-Findeisen
- Department of NanoBiophotonics, Max Planck Institute for Multidisciplinary Sciences, 37077, Göttingen, Germany
| | - Alexey N Butkevich
- Department of Optical Nanoscopy, Max Planck Institute for Medical Research, 69120, Heidelberg, Germany
- Department of NanoBiophotonics, Max Planck Institute for Multidisciplinary Sciences, 37077, Göttingen, Germany
| | - Mariano L Bossi
- Department of Optical Nanoscopy, Max Planck Institute for Medical Research, 69120, Heidelberg, Germany
- Department of NanoBiophotonics, Max Planck Institute for Multidisciplinary Sciences, 37077, Göttingen, Germany
| | - Stefan W Hell
- Department of Optical Nanoscopy, Max Planck Institute for Medical Research, 69120, Heidelberg, Germany
- Department of NanoBiophotonics, Max Planck Institute for Multidisciplinary Sciences, 37077, Göttingen, Germany
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3
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Wang Z, Zhou Y, Hao Y, Zhao Z, Gao A, Ma H, Zhang P, Shen Q, Xu R, Xu Y, Dang D, Meng L. One Stone, Two Birds: High-Brightness Aggregation-Induced Emission Photosensitizers for Super-Resolution Imaging and Photodynamic Therapy. NANO LETTERS 2024; 24:3005-3013. [PMID: 38416810 DOI: 10.1021/acs.nanolett.3c04099] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 03/01/2024]
Abstract
Most aggregation-induced emission (AIE) luminogens exhibit high brightness, excellent photostability, and good biocompatibility, but these AIE-active agents, which kill two birds with one stone to result in applications in both stimulated emission depletion (STED) super-resolution imaging and photodynamic therapy (PDT), have not been reported yet but are urgently needed. To meet the requirements of STED nanoscopy and PDT, D-A-π-A-D type DTPABT-HP is designed by tuning conjugated π spacers. It exhibits red-shifted emission, high PLQY of 32.04%, and impressive 1O2 generation (9.24 fold compared to RB) in nanoparticles (NPs). Then, DTPABT-HP NPs are applied in cell imaging via STED nanoscopy, especially visualizing the dynamic changes of lysosomes in the PDT process at ultrahigh resolution. After that, in vivo PDT was also conducted by DTPABT-HP NPs, resulting in significantly inhibited tumor growth, with an inhibition rate of 86%. The work here is beneficial to the design of multifunctional agents and the deep understanding of their phototheranostic mechanism in biological research.
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Affiliation(s)
- Zhi Wang
- School of Chemistry, Engineering Research Center of Energy Storage Materials and Devices, Ministry of Education, Xi'an Jiao Tong University, Xi'an 710049, P. R. China
| | - Yu Zhou
- School of Chemistry, Engineering Research Center of Energy Storage Materials and Devices, Ministry of Education, Xi'an Jiao Tong University, Xi'an 710049, P. R. China
- Instrumental Analysis Center, Xi'an Jiao Tong University, Xi'an 710049, P. R. China
| | - Ying Hao
- Instrumental Analysis Center, Xi'an Jiao Tong University, Xi'an 710049, P. R. China
| | - Zhiqin Zhao
- School of Chemistry, Engineering Research Center of Energy Storage Materials and Devices, Ministry of Education, Xi'an Jiao Tong University, Xi'an 710049, P. R. China
| | - Anran Gao
- School of Chemistry, Engineering Research Center of Energy Storage Materials and Devices, Ministry of Education, Xi'an Jiao Tong University, Xi'an 710049, P. R. China
| | - Huili Ma
- Key Laboratory of Flexible Electronics (KLOFE) & Institute of Advanced Materials (IAM), Nanjing Tech University (NanjingTech), 30 South Puzhu Road, Nanjing 211816, P. R. China
| | - Peijuan Zhang
- School of Chemistry, Engineering Research Center of Energy Storage Materials and Devices, Ministry of Education, Xi'an Jiao Tong University, Xi'an 710049, P. R. China
| | - Qifei Shen
- School of Chemistry, Engineering Research Center of Energy Storage Materials and Devices, Ministry of Education, Xi'an Jiao Tong University, Xi'an 710049, P. R. China
| | - Ruohan Xu
- School of Chemistry, Engineering Research Center of Energy Storage Materials and Devices, Ministry of Education, Xi'an Jiao Tong University, Xi'an 710049, P. R. China
| | - Yanzi Xu
- School of Chemistry, Engineering Research Center of Energy Storage Materials and Devices, Ministry of Education, Xi'an Jiao Tong University, Xi'an 710049, P. R. China
| | - Dongfeng Dang
- School of Chemistry, Engineering Research Center of Energy Storage Materials and Devices, Ministry of Education, Xi'an Jiao Tong University, Xi'an 710049, P. R. China
| | - Lingjie Meng
- School of Chemistry, Engineering Research Center of Energy Storage Materials and Devices, Ministry of Education, Xi'an Jiao Tong University, Xi'an 710049, P. R. China
- Instrumental Analysis Center, Xi'an Jiao Tong University, Xi'an 710049, P. R. China
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4
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Wei H, Xie M, Chen M, Jiang Q, Wang T, Xing P. Shedding light on cellular dynamics: the progress in developing photoactivated fluorophores. Analyst 2024; 149:689-699. [PMID: 38180167 DOI: 10.1039/d3an01994b] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2024]
Abstract
Photoactivated fluorophores (PAFs) are highly effective imaging tools that exhibit a removal of caging groups upon light excitation, resulting in the restoration of their bright fluorescence. This unique property allows for precise control over the spatiotemporal aspects of small molecule substances, making them indispensable for studying protein labeling and small molecule signaling within live cells. In this comprehensive review, we explore the historical background of this field and emphasize recent advancements based on various reaction mechanisms. Additionally, we discuss the structures and applications of the PAFs. We firmly believe that the development of more novel PAFs will provide powerful tools to dynamically investigate cells and expand the applications of these techniques into new domains.
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Affiliation(s)
- Huihui Wei
- Key Laboratory of Natural Medicine and Immuno-Engineering, Henan University, Kaifeng 475004, China.
| | - Mingli Xie
- Key Laboratory of Natural Medicine and Immuno-Engineering, Henan University, Kaifeng 475004, China.
| | - Min Chen
- Key Laboratory of Natural Medicine and Immuno-Engineering, Henan University, Kaifeng 475004, China.
| | - Qinhong Jiang
- Key Laboratory of Natural Medicine and Immuno-Engineering, Henan University, Kaifeng 475004, China.
| | - Tenghui Wang
- Key Laboratory of Natural Medicine and Immuno-Engineering, Henan University, Kaifeng 475004, China.
| | - Panfei Xing
- Key Laboratory of Natural Medicine and Immuno-Engineering, Henan University, Kaifeng 475004, China.
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5
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Torii K, Benson S, Hori Y, Vendrell M, Kikuchi K. No-wash fluorogenic labeling of proteins for reversible photoswitching in live cells. Chem Sci 2024; 15:1393-1401. [PMID: 38274070 PMCID: PMC10806661 DOI: 10.1039/d3sc04953a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/20/2023] [Accepted: 12/16/2023] [Indexed: 01/27/2024] Open
Abstract
Photoswitchable fluorescent molecules (PSFMs) are positioned as valuable tools for biomolecule localization tracking and super-resolution imaging technologies due to their unique ability to reversibly control fluorescence intensity upon light irradiation. Despite the high demand for PSFMs that are suitable for live-cell imaging, no general method has been reported that enables reversible fluorescence control on proteins of interest in living cells. Herein, we have established a platform to realize reversible fluorescence switching in living cells by adapting a protein labeling system. We have developed a new PSFM, named HTL-Trp-BODIPY-FF, which exhibits strong fluorogenicity upon recognition of Halo-tag protein and reversible fluorescence photoswitching in living cells. This is the first example of a PSFM that can be applicable to a general-purpose Halo-tag protein labeling system for no-wash live-cell imaging.
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Affiliation(s)
- Kenji Torii
- Graduate School of Engineering, Osaka University Suita Osaka 565-0871 Japan
| | - Sam Benson
- Centre for Inflammation Research, The University of Edinburgh Edinburgh EH16 4UU UK
- IRR Chemistry Hub, Institute for Regeneration and Repair, The University of Edinburgh Edinburgh EH16 4UU UK
| | - Yuichiro Hori
- Faculty of Science, Kyushu University Fukuoka Fukuoka 819-0395 Japan
| | - Marc Vendrell
- Centre for Inflammation Research, The University of Edinburgh Edinburgh EH16 4UU UK
- IRR Chemistry Hub, Institute for Regeneration and Repair, The University of Edinburgh Edinburgh EH16 4UU UK
| | - Kazuya Kikuchi
- Graduate School of Engineering, Osaka University Suita Osaka 565-0871 Japan
- Immunology Frontier Research Center, Osaka University Suita Osaka 565-0871 Japan
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6
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Jeong S, Kim J, Koh D, Lee JC. Simultaneously enhancing the resolution and signal-to-background ratio in STED optical nanoscopy via differential depletion. OPTICS EXPRESS 2023; 31:37549-37563. [PMID: 38017882 DOI: 10.1364/oe.505430] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/08/2023] [Accepted: 10/08/2023] [Indexed: 11/30/2023]
Abstract
STED (stimulated emission depletion) far-field optical nanoscopy achieves resolution beyond the diffraction limit by depleting fluorescence at the periphery of excitation with a donut-shaped depletion laser. What is traded off with the superior resolution of STED nanoscopy is the unwanted elevation of structured background noise which hampers the quality of STED images. Here, we alleviate the background noise problem by adopting the differential stimulated emission depletion (diffSTED) approach. In diffSTED nanoscopy, signals obtained with different depletion strengths are compared and properly subtracted to remove two major background noise sources in STED nanoscopy. We show via simulations that by using diffSTED nanoscopy, background noise is significantly decreased, and the image contrast is improved. In addition, we show by simulation and analytical calculation that diffSTED improves resolution simultaneously. We assess the effect of different parameters, such as the STED beam intensity, depletion intensity ratio of two STED beams, and the subtraction factor, on the signal-to-background ratio (SBR) and the resolution of diffSTED nanoscopy. We introduce a logical algorithm to determine the optimal subtraction factor and the depletion intensity ratio. DiffSTED nanoscopy is a versatile technique that can be readily applied to any STED system without requiring any hardware modifications. We predict the wide applicability of diffSTED for its enhanced resolution, improved SBR, and easiness of implementation.
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7
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Samanta S, Lai K, Wu F, Liu Y, Cai S, Yang X, Qu J, Yang Z. Xanthene, cyanine, oxazine and BODIPY: the four pillars of the fluorophore empire for super-resolution bioimaging. Chem Soc Rev 2023; 52:7197-7261. [PMID: 37743716 DOI: 10.1039/d2cs00905f] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 09/26/2023]
Abstract
In the realm of biological research, the invention of super-resolution microscopy (SRM) has enabled the visualization of ultrafine sub-cellular structures and their functions in live cells at the nano-scale level, beyond the diffraction limit, which has opened up a new window for advanced biomedical studies to unravel the complex unknown details of physiological disorders at the sub-cellular level with unprecedented resolution and clarity. However, most of the SRM techniques are highly reliant on the personalized special photophysical features of the fluorophores. In recent times, there has been an unprecedented surge in the development of robust new fluorophore systems with personalized features for various super-resolution imaging techniques. To date, xanthene, cyanine, oxazine and BODIPY cores have been authoritatively utilized as the basic fluorophore units in most of the small-molecule-based organic fluorescent probe designing strategies for SRM owing to their excellent photophysical characteristics and easy synthetic acquiescence. Since the future of next-generation SRM studies will be decided by the availability of advanced fluorescent probes and these four fluorescent building blocks will play an important role in progressive new fluorophore design, there is an urgent need to review the recent advancements in designing fluorophores for different SRM methods based on these fluorescent dye cores. This review article not only includes a comprehensive discussion about the recent developments in designing fluorescent probes for various SRM techniques based on these four important fluorophore building blocks with special emphasis on their effective integration into live cell super-resolution bio-imaging applications but also critically evaluates the background of each of the fluorescent dye cores to highlight their merits and demerits towards developing newer fluorescent probes for SRM.
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Affiliation(s)
- Soham Samanta
- Center for Biomedical Optics and Photonics & Key Laboratory of Optoelectronic Devices and Systems of Ministry of Education and Guangdong Province, College of Physics and Optoelectronic Engineering, Shenzhen University, Shenzhen 518060, China.
| | - Kaitao Lai
- Center for Biomedical Optics and Photonics & Key Laboratory of Optoelectronic Devices and Systems of Ministry of Education and Guangdong Province, College of Physics and Optoelectronic Engineering, Shenzhen University, Shenzhen 518060, China.
| | - Feihu Wu
- Center for Biomedical Optics and Photonics & Key Laboratory of Optoelectronic Devices and Systems of Ministry of Education and Guangdong Province, College of Physics and Optoelectronic Engineering, Shenzhen University, Shenzhen 518060, China.
| | - Yingchao Liu
- Center for Biomedical Optics and Photonics & Key Laboratory of Optoelectronic Devices and Systems of Ministry of Education and Guangdong Province, College of Physics and Optoelectronic Engineering, Shenzhen University, Shenzhen 518060, China.
| | - Songtao Cai
- Center for Biomedical Optics and Photonics & Key Laboratory of Optoelectronic Devices and Systems of Ministry of Education and Guangdong Province, College of Physics and Optoelectronic Engineering, Shenzhen University, Shenzhen 518060, China.
| | - Xusan Yang
- Institute of Physics, Chinese Academy of Sciences, Beijing, 100190, China
| | - Junle Qu
- Center for Biomedical Optics and Photonics & Key Laboratory of Optoelectronic Devices and Systems of Ministry of Education and Guangdong Province, College of Physics and Optoelectronic Engineering, Shenzhen University, Shenzhen 518060, China.
| | - Zhigang Yang
- Center for Biomedical Optics and Photonics & Key Laboratory of Optoelectronic Devices and Systems of Ministry of Education and Guangdong Province, College of Physics and Optoelectronic Engineering, Shenzhen University, Shenzhen 518060, China.
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8
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Aktalay A, Khan TA, Bossi ML, Belov VN, Hell SW. Photoactivatable Carbo- and Silicon-Rhodamines and Their Application in MINFLUX Nanoscopy. Angew Chem Int Ed Engl 2023; 62:e202302781. [PMID: 37555720 DOI: 10.1002/anie.202302781] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/23/2023] [Revised: 08/05/2023] [Accepted: 08/08/2023] [Indexed: 08/10/2023]
Abstract
New photoactivatable fluorescent dyes (rhodamine, carbo- and silicon-rhodamines [SiR]) with emission ranging from green to far red have been prepared, and their photophysical properties studied. The photocleavable 2-nitrobenzyloxycarbonyl unit with an alpha-carboxyl group as a branching point and additional functionality was attached to a polycyclic and lipophilic fluorescent dye. The photoactivatable probes having the HaloTagTM amine (O2) ligand bound with a dye core were obtained and applied for live-cell staining in stable cell lines incorporating Vimentin (VIM) or Nuclear Pore Complex Protein NUP96 fused with the HaloTag. The probes were applied in 2D (VIM, NUP96) and 3D (VIM) MINFLUX nanoscopy, as well as in superresolution fluorescence microscopy with single fluorophore activation (VIM, live-cell labeling). Images of VIM and NUPs labeled with different dyes were acquired and their apparent dimensions and shapes assessed on a lower single-digit nanometer scale. Applicability and performance of the photoactivatable dye derivatives were evaluated in terms of photoactivation rate, labeling and detection efficiency, number of detected photons per molecule and other parameters related to MINFLUX nanoscopy.
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Affiliation(s)
- Ayse Aktalay
- Department of Optical Nanoscopy, Max Planck Institute for Medical Research (MPI-MR), Jahnstraße 29, 69120, Heidelberg, Germany
| | - Taukeer A Khan
- Department of NanoBiophotonics, Max Planck Institute for Multidisciplinary Sciences (MPI-NAT), Am Fassberg 11, 37077, Göttingen, Germany
| | - Mariano L Bossi
- Department of Optical Nanoscopy, Max Planck Institute for Medical Research (MPI-MR), Jahnstraße 29, 69120, Heidelberg, Germany
| | - Vladimir N Belov
- Department of NanoBiophotonics, Max Planck Institute for Multidisciplinary Sciences (MPI-NAT), Am Fassberg 11, 37077, Göttingen, Germany
| | - Stefan W Hell
- Department of Optical Nanoscopy, Max Planck Institute for Medical Research (MPI-MR), Jahnstraße 29, 69120, Heidelberg, Germany
- Department of NanoBiophotonics, Max Planck Institute for Multidisciplinary Sciences (MPI-NAT), Am Fassberg 11, 37077, Göttingen, Germany
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9
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Burgers TCQ, Vlijm R. Fluorescence-based super-resolution-microscopy strategies for chromatin studies. Chromosoma 2023:10.1007/s00412-023-00792-9. [PMID: 37000292 PMCID: PMC10356683 DOI: 10.1007/s00412-023-00792-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/23/2022] [Revised: 02/28/2023] [Accepted: 03/16/2023] [Indexed: 04/01/2023]
Abstract
Super-resolution microscopy (SRM) is a prime tool to study chromatin organisation at near biomolecular resolution in the native cellular environment. With fluorescent labels DNA, chromatin-associated proteins and specific epigenetic states can be identified with high molecular specificity. The aim of this review is to introduce the field of diffraction-unlimited SRM to enable an informed selection of the most suitable SRM method for a specific chromatin-related research question. We will explain both diffraction-unlimited approaches (coordinate-targeted and stochastic-localisation-based) and list their characteristic spatio-temporal resolutions, live-cell compatibility, image-processing, and ability for multi-colour imaging. As the increase in resolution, compared to, e.g. confocal microscopy, leads to a central role of the sample quality, important considerations for sample preparation and concrete examples of labelling strategies applicable to chromatin research are discussed. To illustrate how SRM-based methods can significantly improve our understanding of chromatin functioning, and to serve as an inspiring starting point for future work, we conclude with examples of recent applications of SRM in chromatin research.
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Affiliation(s)
- Thomas C Q Burgers
- Molecular Biophysics, Zernike Institute for Advanced Materials, Rijksuniversiteit Groningen, Groningen, the Netherlands
| | - Rifka Vlijm
- Molecular Biophysics, Zernike Institute for Advanced Materials, Rijksuniversiteit Groningen, Groningen, the Netherlands.
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10
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Kikuchi K, Adair LD, Lin J, New EJ, Kaur A. Photochemical Mechanisms of Fluorophores Employed in Single-Molecule Localization Microscopy. Angew Chem Int Ed Engl 2023; 62:e202204745. [PMID: 36177530 PMCID: PMC10100239 DOI: 10.1002/anie.202204745] [Citation(s) in RCA: 8] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/31/2022] [Indexed: 02/02/2023]
Abstract
Decoding cellular processes requires visualization of the spatial distribution and dynamic interactions of biomolecules. It is therefore not surprising that innovations in imaging technologies have facilitated advances in biomedical research. The advent of super-resolution imaging technologies has empowered biomedical researchers with the ability to answer long-standing questions about cellular processes at an entirely new level. Fluorescent probes greatly enhance the specificity and resolution of super-resolution imaging experiments. Here, we introduce key super-resolution imaging technologies, with a brief discussion on single-molecule localization microscopy (SMLM). We evaluate the chemistry and photochemical mechanisms of fluorescent probes employed in SMLM. This Review provides guidance on the identification and adoption of fluorescent probes in single molecule localization microscopy to inspire the design of next-generation fluorescent probes amenable to single-molecule imaging.
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Affiliation(s)
- Kai Kikuchi
- Medicinal Chemistry, Monash Institute of Pharmaceutical Sciences, Monash University, 381 Royal Parade, Parkville, Melbourne, VIC 305, Australia.,School of Medical Sciences, Faculty of Medicine and Health, The University of Sydney, Sydney, NSW 2006, Australia.,The University of Sydney Nano Institute, The University of Sydney, Sydney, NSW 2006, Australia
| | - Liam D Adair
- The University of Sydney Nano Institute, The University of Sydney, Sydney, NSW 2006, Australia.,School of Chemistry, The University of Sydney, Sydney, NSW 2006, Australia.,Australian Research Council Centre of Excellence for Innovations in Peptide and Protein Science, The University of Sydney, Sydney, NSW 2006, Australia
| | - Jiarun Lin
- The University of Sydney Nano Institute, The University of Sydney, Sydney, NSW 2006, Australia.,School of Chemistry, The University of Sydney, Sydney, NSW 2006, Australia
| | - Elizabeth J New
- The University of Sydney Nano Institute, The University of Sydney, Sydney, NSW 2006, Australia.,School of Chemistry, The University of Sydney, Sydney, NSW 2006, Australia.,Australian Research Council Centre of Excellence for Innovations in Peptide and Protein Science, The University of Sydney, Sydney, NSW 2006, Australia
| | - Amandeep Kaur
- Medicinal Chemistry, Monash Institute of Pharmaceutical Sciences, Monash University, 381 Royal Parade, Parkville, Melbourne, VIC 305, Australia.,School of Medical Sciences, Faculty of Medicine and Health, The University of Sydney, Sydney, NSW 2006, Australia.,The University of Sydney Nano Institute, The University of Sydney, Sydney, NSW 2006, Australia
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11
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Xu X, Jia S, Xi P. Raster-scanning Donut simplifies MINFLUX and provides alternative implement on other scanning-based microscopes. LIGHT, SCIENCE & APPLICATIONS 2022; 11:293. [PMID: 36216797 PMCID: PMC9550861 DOI: 10.1038/s41377-022-00983-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Indexed: 06/16/2023]
Abstract
A donut excitation moves around a single molecule with a zigzag configuration lattice by lattice. Such a method implemented in scanning fluorescence microscopy simplifies the conventional MINFLUX process. Consisting of hollow zero-intensity excitation, single-pixel detection, time-correlated single photon counting, and drift stabilization, the system achieves localization precision and resolution very close to conventional MINFLUX theoretically and experimentally. An averaged high-SNR reference, and pixel-registered intensity from a single molecule is essential to reconstruct localization in maximum likelihood estimation. With performance reaching nearly conventional MINFLUX's, the proposed raster-scanning MINFLUX can inspire researchers expertized in STED or confocal setup to quickly transform to MINFLUX and develop for further exploring on bio-specimens or optical applications.
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Affiliation(s)
- Xinzhu Xu
- Department of Biomedical Engineering, College of Future Technology, Peking University, Beijing, 100871, China
- Wallace H. Coulter Department of Biomedical Engineering, Georgia Institute of Technology and Emory University, Atlanta, Georgia, 30332, USA
- UTS-SUStech Joint Research Centre for Bio-medical Materials & Devices, Department of Biomedical Engineering, College of Engineering, Southern University of Science and Technology, Shenzhen, Guangdong, 518055, China
| | - Shu Jia
- Wallace H. Coulter Department of Biomedical Engineering, Georgia Institute of Technology and Emory University, Atlanta, Georgia, 30332, USA
| | - Peng Xi
- Department of Biomedical Engineering, College of Future Technology, Peking University, Beijing, 100871, China.
- UTS-SUStech Joint Research Centre for Bio-medical Materials & Devices, Department of Biomedical Engineering, College of Engineering, Southern University of Science and Technology, Shenzhen, Guangdong, 518055, China.
- National Biomedical Imaging Center, Peking University, Beijing, 100871, China.
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12
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Fernandez A, Kielland N, Makda A, Carragher NO, González-García MC, Espinar-Barranco L, González-Vera JA, Orte A, Lavilla R, Vendrell M. A multicomponent reaction platform towards multimodal near-infrared BODIPY dyes for STED and fluorescence lifetime imaging. RSC Chem Biol 2022; 3:1251-1259. [PMID: 36320886 PMCID: PMC9533399 DOI: 10.1039/d2cb00168c] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/18/2022] [Accepted: 08/25/2022] [Indexed: 11/07/2023] Open
Abstract
We report a platform combining multicomponent reaction synthesis and automated cell-based screening to develop biocompatible NIR-BODIPY fluorophores. From a library of over 60 fluorophores, we optimised compound NIRBD-62c as a multimodal probe with suitable properties for STED super-resolution and fluorescence lifetime imaging. Furthermore, we employed NIRBD-62c for imaging trafficking inside cells and to examine how pharmacological inhibitors can alter the vesicular traffic between intracellular compartments and the plasma membrane.
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Affiliation(s)
- Antonio Fernandez
- Centre for Inflammation Research, The University of Edinburgh Edinburgh UK
- Dpt Organic Chemistry, Faculty of Chemistry, University of Murcia Spain
| | - Nicola Kielland
- Centre for Inflammation Research, The University of Edinburgh Edinburgh UK
- Laboratory of Medicinal Chemistry, Faculty of Pharmacy and Institute of Biomedicine (IBUB), University of Barcelona Spain
| | - Ashraff Makda
- Institute of Genetics and Cancer, The University of Edinburgh Edinburgh UK
| | - Neil O Carragher
- Institute of Genetics and Cancer, The University of Edinburgh Edinburgh UK
| | | | | | - Juan A González-Vera
- Nanoscopy-UGR Laboratory, Facultad de Farmacia, Universidad de Granada Granada Spain
| | - Angel Orte
- Nanoscopy-UGR Laboratory, Facultad de Farmacia, Universidad de Granada Granada Spain
| | - Rodolfo Lavilla
- Laboratory of Medicinal Chemistry, Faculty of Pharmacy and Institute of Biomedicine (IBUB), University of Barcelona Spain
| | - Marc Vendrell
- Centre for Inflammation Research, The University of Edinburgh Edinburgh UK
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13
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Lincoln R, Bossi ML, Remmel M, D'Este E, Butkevich AN, Hell SW. A general design of caging-group-free photoactivatable fluorophores for live-cell nanoscopy. Nat Chem 2022; 14:1013-1020. [PMID: 35864152 PMCID: PMC9417988 DOI: 10.1038/s41557-022-00995-0] [Citation(s) in RCA: 23] [Impact Index Per Article: 11.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/01/2021] [Accepted: 06/09/2022] [Indexed: 11/17/2022]
Abstract
The controlled switching of fluorophores between non-fluorescent and fluorescent states is central to every super-resolution fluorescence microscopy (nanoscopy) technique, and the exploration of radically new switching mechanisms remains critical to boosting the performance of established, as well as emerging super-resolution methods. Photoactivatable dyes offer substantial improvements to many of these techniques, but often rely on photolabile protecting groups that limit their applications. Here we describe a general method to transform 3,6-diaminoxanthones into caging-group-free photoactivatable fluorophores. These photoactivatable xanthones (PaX) assemble rapidly and cleanly into highly fluorescent, photo- and chemically stable pyronine dyes upon irradiation with light. The strategy is extendable to carbon- and silicon-bridged xanthone analogues, yielding a family of photoactivatable labels spanning much of the visible spectrum. Our results demonstrate the versatility and utility of PaX dyes in fixed and live-cell labelling for conventional microscopy, as well as the coordinate-stochastic and deterministic nanoscopies STED, PALM and MINFLUX. ![]()
The design of photoactivatable fluorophores—which are required for some super-resolution fluorescence microscopy methods—usually relies on light-sensitive protecting groups imparting lipophilicity and generating reactive by-products. Now, it has been shown that by exploiting a unique intramolecular photocyclization, bright and highly photostable fluorophores can be rapidly generated in situ from appropriately substituted 1-alkenyl-3,6-diaminoxanthone precursors.
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Affiliation(s)
- Richard Lincoln
- Department of Optical Nanoscopy, Max Planck Institute for Medical Research, Heidelberg, Germany
| | - Mariano L Bossi
- Department of NanoBiophotonics, Max Planck Institute for Multidisciplinary Sciences, Göttingen, Germany
| | - Michael Remmel
- Department of Optical Nanoscopy, Max Planck Institute for Medical Research, Heidelberg, Germany
| | - Elisa D'Este
- Optical Microscopy Facility, Max Planck Institute for Medical Research, Heidelberg, Germany
| | - Alexey N Butkevich
- Department of Optical Nanoscopy, Max Planck Institute for Medical Research, Heidelberg, Germany.
| | - Stefan W Hell
- Department of Optical Nanoscopy, Max Planck Institute for Medical Research, Heidelberg, Germany. .,Department of NanoBiophotonics, Max Planck Institute for Multidisciplinary Sciences, Göttingen, Germany.
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14
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Iakovlev IA, Deviatov AY, Lvov Y, Fakhrullina G, Fakhrullin RF, Mazurenko VV. Probing Diffusive Dynamics of Natural Tubule Nanoclays with Machine Learning. ACS NANO 2022; 16:5867-5873. [PMID: 35349265 DOI: 10.1021/acsnano.1c11025] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/14/2023]
Abstract
Reproducibility of the experimental results and object of study itself is one of the basic principles in science. But what if the object characterized by technologically important properties is natural and cannot be artificially reproduced one-to-one in the laboratory? The situation becomes even more complicated when we are interested in exploring stochastic properties of a natural system and only a limited set of noisy experimental data is available. In this paper we address these problems by exploring diffusive motion of some natural clays, halloysite and sepiolite, in a liquid environment. By using a combination of dark-field microscopy and machine learning algorithms, a quantitative theoretical characterization of the nanotubes' rotational diffusive dynamics is performed. Scanning the experimental video with the gradient boosting tree method, we can trace time dependence of the diffusion coefficient and probe different regimes of nonequilibrium rotational dynamics that are due to contacts with surfaces and other experimental imperfections. The method we propose is of general nature and can be applied to explore diffusive dynamics of various biological systems in real time.
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Affiliation(s)
- Ilia A Iakovlev
- Theoretical Physics and Applied Mathematics Department, Ural Federal University, Mira Street 19, Ekaterinburg 620002, Russia
| | - Alexander Y Deviatov
- Theoretical Physics and Applied Mathematics Department, Ural Federal University, Mira Street 19, Ekaterinburg 620002, Russia
| | - Yuri Lvov
- Institute for Micromanufacturing, Louisiana Tech University, Ruston, Louisiana 71272, United States
| | - Gölnur Fakhrullina
- Institute of Fundamental Medicine and Biology, Kazan Federal University, Kreml uramı 18, Kazan Republic of Tatarstan, Russian Federation, 420008
| | - Rawil F Fakhrullin
- Institute of Fundamental Medicine and Biology, Kazan Federal University, Kreml uramı 18, Kazan Republic of Tatarstan, Russian Federation, 420008
| | - Vladimir V Mazurenko
- Theoretical Physics and Applied Mathematics Department, Ural Federal University, Mira Street 19, Ekaterinburg 620002, Russia
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15
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Wang N, Hao Y, Feng X, Zhu H, Zhang D, Wang T, Cui X. Silicon-substituted rhodamines for stimulated emission depletion fluorescence nanoscopy. CHINESE CHEM LETT 2022. [DOI: 10.1016/j.cclet.2021.06.075] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
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16
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Shojaei H, Bossi ML, Belov VN, Hell SW. Bis-Rhodamines Bridged with a Diazoketone Linker: Synthesis, Structure, and Photolysis. J Org Chem 2021; 87:56-65. [PMID: 34919387 PMCID: PMC8749961 DOI: 10.1021/acs.joc.1c01721] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/04/2022]
Abstract
![]()
Two fluorophores
bound with a short photoreactive bridge are fascinating
structures and remained unexplored. To investigate the synthesis and
photolysis of such dyes, we linked two rhodamine dyes via a diazoketone
bridge (−COCN2−) attached to position 5′
or 6′ of the pendant phenyl rings. For that, the mixture of
5′- or 6′-bromo derivatives of the parent dye was prepared,
transformed into 1,2-diarylacetylenes, hydrated to 1,2-diarylethanones,
and converted to diazoketones Ar1COCN2Ar2. The high performance liquid chromatography (HPLC) separation
gave four individual regioisomers of Ar1COCN2Ar2. Photolysis of the model compound—C6H5COCN2C6H5—in
aqueous acetonitrile at pH 7.3 and under irradiation with 365 nm light
provided diphenylacetic acid amide (Wolff rearrangement). However,
under the same conditions, Ar1COCN2Ar2 gave mainly α-diketones Ar1COCOAr2.
The migration ability of the very bulky dye residues was low, and
the Wolff rearrangement did not occur. We observed only moderate fluorescence
increase, which may be explained by the insufficient quenching ability
of diazoketone bridge (−COCN2−) and its transformation
into another (weaker) quencher, 1,2-diarylethane-1,2-dione.
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Affiliation(s)
- Heydar Shojaei
- Department of NanoBiophotonics, Max Planck Institute for Biophysical Chemistry (MPIBPC), 37077 Göttingen, Germany
| | - Mariano L Bossi
- Department of Optical Nanoscopy, Max Planck Institute for Medical Research, 69120 Heidelberg, Germany
| | - Vladimir N Belov
- Department of NanoBiophotonics, Max Planck Institute for Biophysical Chemistry (MPIBPC), 37077 Göttingen, Germany
| | - Stefan W Hell
- Department of NanoBiophotonics, Max Planck Institute for Biophysical Chemistry (MPIBPC), 37077 Göttingen, Germany.,Department of Optical Nanoscopy, Max Planck Institute for Medical Research, 69120 Heidelberg, Germany
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17
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Barrantes FJ. Fluorescence sensors for imaging membrane lipid domains and cholesterol. CURRENT TOPICS IN MEMBRANES 2021; 88:257-314. [PMID: 34862029 DOI: 10.1016/bs.ctm.2021.09.004] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
Abstract
Lipid membrane domains are supramolecular lateral heterogeneities of biological membranes. Of nanoscopic dimensions, they constitute specialized hubs used by the cell as transient signaling platforms for a great variety of biologically important mechanisms. Their property to form and dissolve in the bulk lipid bilayer endow them with the ability to engage in highly dynamic processes, and temporarily recruit subpopulations of membrane proteins in reduced nanometric compartments that can coalesce to form larger mesoscale assemblies. Cholesterol is an essential component of these lipid domains; its unique molecular structure is suitable for interacting intricately with crevices and cavities of transmembrane protein surfaces through its rough β face while "talking" to fatty acid acyl chains of glycerophospholipids and sphingolipids via its smooth α face. Progress in the field of membrane domains has been closely associated with innovative improvements in fluorescence microscopy and new fluorescence sensors. These advances enabled the exploration of the biophysical properties of lipids and their supramolecular platforms. Here I review the rationale behind the use of biosensors over the last few decades and their contributions towards elucidation of the in-plane and transbilayer topography of cholesterol-enriched lipid domains and their molecular constituents. The challenges introduced by super-resolution optical microscopy are discussed, as well as possible scenarios for future developments in the field, including virtual ("no staining") staining.
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Affiliation(s)
- Francisco J Barrantes
- Biomedical Research Institute (BIOMED), Catholic University of Argentina (UCA)-National Scientific and Technical Research Council (CONICET), Buenos Aires, Argentina.
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18
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Butkevich AN, Weber M, Cereceda Delgado AR, Ostersehlt LM, D'Este E, Hell SW. Photoactivatable Fluorescent Dyes with Hydrophilic Caging Groups and Their Use in Multicolor Nanoscopy. J Am Chem Soc 2021; 143:18388-18393. [PMID: 34714070 PMCID: PMC8587603 DOI: 10.1021/jacs.1c09999] [Citation(s) in RCA: 15] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Abstract
We propose a series of fluorescent dyes with hydrophilic carbamate caging groups that undergo rapid photoactivation under UV (≤400 nm) irradiation but do not undergo spurious two-photon activation with high-intensity (visible or infrared) light of about twice the wavelength. The caged fluorescent dyes and labels derived therefrom display high water solubility and convert upon photoactivation into validated super-resolution and live-cell-compatible fluorophores. In combination with popular fluorescent markers, multiple (up to six)-color images can be obtained with stimulated emission depletion nanoscopy. Moreover, individual fluorophores can be localized with precision <3 nm (standard deviation) using MINSTED and MINFLUX techniques.
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Affiliation(s)
- Alexey N Butkevich
- Department of Optical Nanoscopy, Max Planck Institute for Medical Research, Jahnstrasse 29, 69120 Heidelberg, Germany
| | - Michael Weber
- Department of NanoBiophotonics, Max Planck Institute for Biophysical Chemistry, Am Fassberg 11, 37077 Göttingen, Germany
| | - Angel R Cereceda Delgado
- Department of Optical Nanoscopy, Max Planck Institute for Medical Research, Jahnstrasse 29, 69120 Heidelberg, Germany.,Department of NanoBiophotonics, Max Planck Institute for Biophysical Chemistry, Am Fassberg 11, 37077 Göttingen, Germany
| | - Lynn M Ostersehlt
- Department of NanoBiophotonics, Max Planck Institute for Biophysical Chemistry, Am Fassberg 11, 37077 Göttingen, Germany
| | - Elisa D'Este
- Optical Microscopy Facility, Max Planck Institute for Medical Research, Jahnstrasse 29, 69120 Heidelberg, Germany
| | - Stefan W Hell
- Department of Optical Nanoscopy, Max Planck Institute for Medical Research, Jahnstrasse 29, 69120 Heidelberg, Germany.,Department of NanoBiophotonics, Max Planck Institute for Biophysical Chemistry, Am Fassberg 11, 37077 Göttingen, Germany
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19
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Weber M, Leutenegger M, Stoldt S, Jakobs S, Mihaila TS, Butkevich AN, Hell SW. MINSTED fluorescence localization and nanoscopy. NATURE PHOTONICS 2021; 15:361-366. [PMID: 33953795 PMCID: PMC7610723 DOI: 10.1038/s41566-021-00774-2] [Citation(s) in RCA: 51] [Impact Index Per Article: 17.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/30/2020] [Accepted: 02/01/2021] [Indexed: 05/24/2023]
Abstract
We introduce MINSTED, a fluorophore localization and super-resolution microscopy concept based on stimulated emission depletion (STED) that provides spatial precision and resolution down to the molecular scale. In MINSTED, the intensity minimum of the STED doughnut, and hence the point of minimal STED, serves as a movable reference coordinate for fluorophore localization. As the STED rate, the background and the required number of fluorescence detections are low compared with most other STED microscopy and localization methods, MINSTED entails substantially less fluorophore bleaching. In our implementation, 200-1,000 detections per fluorophore provide a localization precision of 1-3nm in standard deviation, which in conjunction with independent single fluorophore switching translates to a -100-fold improvement in far-field microscopy resolution over the diffraction limit. The performance of MINSTED nanoscopy is demonstrated by imaging the distribution of Mic60 proteins in the mitochondrial inner membrane of human cells.
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Affiliation(s)
- Michael Weber
- Department of NanoBiophotonics, Max Planck Institute for Biophysical Chemistry, Göttingen, Germany
| | - Marcel Leutenegger
- Department of NanoBiophotonics, Max Planck Institute for Biophysical Chemistry, Göttingen, Germany
| | - Stefan Stoldt
- Department of NanoBiophotonics, Max Planck Institute for Biophysical Chemistry, Göttingen, Germany
- Clinic of Neurology, University Medical Center Göttingen, Göttingen, Germany
| | - Stefan Jakobs
- Department of NanoBiophotonics, Max Planck Institute for Biophysical Chemistry, Göttingen, Germany
- Clinic of Neurology, University Medical Center Göttingen, Göttingen, Germany
| | - Tiberiu S Mihaila
- Department of NanoBiophotonics, Max Planck Institute for Biophysical Chemistry, Göttingen, Germany
| | - Alexey N Butkevich
- Clinic of Neurology, University Medical Center Göttingen, Göttingen, Germany
| | - Stefan W Hell
- Department of NanoBiophotonics, Max Planck Institute for Biophysical Chemistry, Göttingen, Germany
- Department of Optical Nanoscopy, Max Planck Institute for Medical Research, Heidelberg, Germany
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20
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Patalag LJ, Ahadi S, Lashchuk O, Jones PG, Ebbinghaus S, Werz DB. GlycoBODIPYs: Sugars Serving as a Natural Stock for Water‐soluble Fluorescent Probes of Complex Chiral Morphology. Angew Chem Int Ed Engl 2021. [DOI: 10.1002/ange.202016764] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Affiliation(s)
- Lukas J. Patalag
- TU Braunschweig Institute of Organic Chemistry Hagenring 30 38106 Braunschweig Germany
| | - Somayeh Ahadi
- TU Braunschweig Institute of Organic Chemistry Hagenring 30 38106 Braunschweig Germany
| | - Olesia Lashchuk
- TU Braunschweig Institute of Physical and Theoretical Chemistry, and Braunschweig Integrated Centre of Systems Biology Rebenring 56 38106 Braunschweig Germany
| | - Peter G. Jones
- TU Braunschweig Institute of Inorganic and Analytical Chemistry Hagenring 30 38106 Braunschweig Germany
| | - Simon Ebbinghaus
- TU Braunschweig Institute of Physical and Theoretical Chemistry, and Braunschweig Integrated Centre of Systems Biology Rebenring 56 38106 Braunschweig Germany
| | - Daniel B. Werz
- TU Braunschweig Institute of Organic Chemistry Hagenring 30 38106 Braunschweig Germany
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21
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Patalag LJ, Ahadi S, Lashchuk O, Jones PG, Ebbinghaus S, Werz DB. GlycoBODIPYs: Sugars Serving as a Natural Stock for Water-soluble Fluorescent Probes of Complex Chiral Morphology. Angew Chem Int Ed Engl 2021; 60:8766-8771. [PMID: 33492705 PMCID: PMC8048574 DOI: 10.1002/anie.202016764] [Citation(s) in RCA: 15] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/17/2020] [Revised: 01/11/2021] [Indexed: 12/31/2022]
Abstract
A range of unprocessed, reducing sugar substrates (mono-, di-, and trisaccharides) is shown to take part in a straightforward four-step synthetic route to water-soluble, uncharged BODIPY derivatives with unimpaired chiral integrity and high fluorescence efficiency. A wide compatibility with several postfunctionalizations is demonstrated, thus suggesting a universal utility of the multifunctional glycoconjugates, which we call GlycoBODIPYs. Knoevenagel condensations are able to promote a red-shift in the spectra, thereby furnishing strongly fluorescent red and far-red glycoconjugates of high hydrophilicity. The synthetic outcome was studied by X-ray crystallography and by comprehensive photophysical investigations in several solvent systems. Furthermore, cell experiments illustrate efficient cell uptake and demonstrate differential cell targeting as a function of the integrated chiral information.
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Affiliation(s)
- Lukas J. Patalag
- TU BraunschweigInstitute of Organic ChemistryHagenring 3038106BraunschweigGermany
| | - Somayeh Ahadi
- TU BraunschweigInstitute of Organic ChemistryHagenring 3038106BraunschweigGermany
| | - Olesia Lashchuk
- TU BraunschweigInstitute of Physical and Theoretical Chemistry, and Braunschweig Integrated Centre of Systems BiologyRebenring 5638106BraunschweigGermany
| | - Peter G. Jones
- TU BraunschweigInstitute of Inorganic and Analytical ChemistryHagenring 3038106BraunschweigGermany
| | - Simon Ebbinghaus
- TU BraunschweigInstitute of Physical and Theoretical Chemistry, and Braunschweig Integrated Centre of Systems BiologyRebenring 5638106BraunschweigGermany
| | - Daniel B. Werz
- TU BraunschweigInstitute of Organic ChemistryHagenring 3038106BraunschweigGermany
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22
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Weber M, Khan TA, Patalag LJ, Bossi M, Leutenegger M, Belov VN, Hell SW. Photoactivatable Fluorophore for Stimulated Emission Depletion (STED) Microscopy and Bioconjugation Technique for Hydrophobic Labels. Chemistry 2021; 27:451-458. [PMID: 33095954 PMCID: PMC7839434 DOI: 10.1002/chem.202004645] [Citation(s) in RCA: 22] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/21/2020] [Indexed: 02/01/2023]
Abstract
The use of photoactivatable dyes in STED microscopy has so far been limited by two-photon activation through the STED beam and by the fact that photoactivatable dyes are poorly solvable in water. Herein, we report ONB-2SiR, a fluorophore that can be both photoactivated in the UV and specifically de-excited by STED at 775 nm. Likewise, we introduce a conjugation and purification protocol to effectively label primary and secondary antibodies with moderately water-soluble dyes. Greatly reducing dye aggregation, our technique provides a defined and tunable degree of labeling, and improves the imaging performance of dye conjugates in general.
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Affiliation(s)
- Michael Weber
- Department of NanoBiophotonicsMax Planck Institute for Biophysical ChemistryAm Faßberg 1137077GöttingenGermany
| | - Taukeer A. Khan
- Department of NanoBiophotonicsMax Planck Institute for Biophysical ChemistryAm Faßberg 1137077GöttingenGermany
| | - Lukas J. Patalag
- Department of NanoBiophotonicsMax Planck Institute for Biophysical ChemistryAm Faßberg 1137077GöttingenGermany
- present address: Stratingh Institute for ChemistryZernike Institute for Advanced MaterialsUniversity of GroningenNijenborgh 49747AGGroningenThe Netherlands
| | - Mariano Bossi
- Department of Optical NanoscopyMax Planck Institute for Medical ResearchJahnstraße 2969120HeidelbergGermany
| | - Marcel Leutenegger
- Department of NanoBiophotonicsMax Planck Institute for Biophysical ChemistryAm Faßberg 1137077GöttingenGermany
| | - Vladimir N. Belov
- Department of NanoBiophotonicsMax Planck Institute for Biophysical ChemistryAm Faßberg 1137077GöttingenGermany
| | - Stefan W. Hell
- Department of NanoBiophotonicsMax Planck Institute for Biophysical ChemistryAm Faßberg 1137077GöttingenGermany
- Department of Optical NanoscopyMax Planck Institute for Medical ResearchJahnstraße 2969120HeidelbergGermany
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23
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Xu Y, Xu R, Wang Z, Zhou Y, Shen Q, Ji W, Dang D, Meng L, Tang BZ. Recent advances in luminescent materials for super-resolution imaging via stimulated emission depletion nanoscopy. Chem Soc Rev 2021; 50:667-690. [DOI: 10.1039/d0cs00676a] [Citation(s) in RCA: 50] [Impact Index Per Article: 16.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Abstract
Recent progress on STED fluorophores for super-resolution imaging and also their characteristics are outlined here, thus providing some guidelines to select proper probes and even develop new materials for super-resolution imaging via STED nanoscopy.
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Affiliation(s)
- Yanzi Xu
- School of Chemistry
- Xi'an Key Laboratory of Sustainable Energy Material Chemistry
- MOE Key Laboratory for Non-equilibrium Synthesis and Modulation of Condensed Matter
- Xi'an Jiao Tong University
- Xi'an 710049
| | - Ruohan Xu
- School of Chemistry
- Xi'an Key Laboratory of Sustainable Energy Material Chemistry
- MOE Key Laboratory for Non-equilibrium Synthesis and Modulation of Condensed Matter
- Xi'an Jiao Tong University
- Xi'an 710049
| | - Zhi Wang
- School of Chemistry
- Xi'an Key Laboratory of Sustainable Energy Material Chemistry
- MOE Key Laboratory for Non-equilibrium Synthesis and Modulation of Condensed Matter
- Xi'an Jiao Tong University
- Xi'an 710049
| | - Yu Zhou
- Instrumental Analysis Center
- Xi'an Jiao Tong University
- Xi'an
- P. R. China
| | - Qifei Shen
- School of Chemistry
- Xi'an Key Laboratory of Sustainable Energy Material Chemistry
- MOE Key Laboratory for Non-equilibrium Synthesis and Modulation of Condensed Matter
- Xi'an Jiao Tong University
- Xi'an 710049
| | - Wenchen Ji
- Department of Orthopedics
- the First Affiliated Hospital of Xi’an Jiaotong University
- P. R. China
| | - Dongfeng Dang
- School of Chemistry
- Xi'an Key Laboratory of Sustainable Energy Material Chemistry
- MOE Key Laboratory for Non-equilibrium Synthesis and Modulation of Condensed Matter
- Xi'an Jiao Tong University
- Xi'an 710049
| | - Lingjie Meng
- School of Chemistry
- Xi'an Key Laboratory of Sustainable Energy Material Chemistry
- MOE Key Laboratory for Non-equilibrium Synthesis and Modulation of Condensed Matter
- Xi'an Jiao Tong University
- Xi'an 710049
| | - Ben Zhong Tang
- Department of Chemistry
- The Hong Kong University of Science and Technology
- Clear Water Bay
- Kowloon
- P. R. China
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