A simple and versatile design concept for fluorophore derivatives with intramolecular photostabilization

Intramolecular photostabilization via triple-state quenching was recently revived as a tool to impart synthetic organic fluorophores with ‘self-healing’ properties. To date, utilization of such fluorophore derivatives is rare due to their elaborate multi-step synthesis. Here we present a general strategy to covalently link a synthetic organic fluorophore simultaneously to a photostabilizer and biomolecular target via unnatural amino acids. The modular approach uses commercially available starting materials and simple chemical transformations. The resulting photostabilizer–dye conjugates are based on rhodamines, carbopyronines and cyanines with excellent photophysical properties, that is, high photostability and minimal signal fluctuations. Their versatile use is demonstrated by single-step labelling of DNA, antibodies and proteins, as well as applications in single-molecule and super-resolution fluorescence microscopy. We are convinced that the presented scaffolding strategy and the improved characteristics of the conjugates in applications will trigger the broader use of intramolecular photostabilization and help to emerge this approach as a new gold standard.

[1]  P. Tinnefeld,et al.  Mechanisms and advancement of antifading agents for fluorescence microscopy and single-molecule spectroscopy. , 2011, Physical chemistry chemical physics : PCCP.

[2]  Daniel S. Terry,et al.  The bright future of single-molecule fluorescence imaging. , 2014, Current opinion in chemical biology.

[3]  T. Ha,et al.  A dendritic single-molecule fluorescent probe that is monovalent, photostable, and minimally blinking , 2013, Nature Chemistry.

[4]  Yusdi Santoso,et al.  Sensing DNA opening in transcription using quenchable Förster resonance energy transfer. , 2010, Biochemistry.

[5]  D. Herten,et al.  Far-field nanoscopy with reversible chemical reactions. , 2011, Angewandte Chemie.

[6]  S. McKinney,et al.  Nonblinking and long-lasting single-molecule fluorescence imaging , 2006, Nature Methods.

[7]  Joshua C Vaughan,et al.  Phosphine quenching of cyanine dyes as a versatile tool for fluorescence microscopy. , 2013, Journal of the American Chemical Society.

[8]  P. Tinnefeld,et al.  Linking single-molecule blinking to chromophore structure and redox potentials. , 2012, Chemphyschem : a European journal of chemical physics and physical chemistry.

[9]  Mike Heilemann,et al.  A reducing and oxidizing system minimizes photobleaching and blinking of fluorescent dyes. , 2008, Angewandte Chemie.

[10]  P. Papazafiri,et al.  Synthesis of chroman analogues of lipoic acid and evaluation of their activity against reperfusion arrhythmias. , 2004, Bioorganic & medicinal chemistry.

[11]  Sören Doose,et al.  Fluorescence quenching by photoinduced electron transfer: a reporter for conformational dynamics of macromolecules. , 2009, Chemphyschem : a European journal of chemical physics and physical chemistry.

[12]  B. Poolman,et al.  Functional diversity of tandem substrate-binding domains in ABC transporters from pathogenic bacteria. , 2013, Structure.

[13]  P. Tinnefeld,et al.  'Self-healing' dyes: intramolecular stabilization of organic fluorophores , 2012, Nature Methods.

[14]  Martin Hessling,et al.  The large conformational changes of Hsp90 are only weakly coupled to ATP hydrolysis , 2009, Nature Structural &Molecular Biology.

[15]  Gerard Roelfes,et al.  Mechanism of intramolecular photostabilization in self-healing cyanine fluorophores. , 2013, Chemphyschem : a European journal of chemical physics and physical chemistry.

[16]  M. Levitus,et al.  Cyanine dyes in biophysical research: the photophysics of polymethine fluorescent dyes in biomolecular environments , 2010, Quarterly Reviews of Biophysics.

[17]  S. Weiss Fluorescence spectroscopy of single biomolecules. , 1999, Science.

[18]  Jürgen Wolfrum,et al.  Inter- and intramolecular fluorescence quenching of organic dyes by tryptophan. , 2003, Bioconjugate chemistry.

[19]  G. Clavier,et al.  Improved photon yield from a green dye with a reducing and oxidizing system. , 2011, Chemphyschem : a European journal of chemical physics and physical chemistry.

[20]  Jan Vogelsang,et al.  Superresolution microscopy on the basis of engineered dark states. , 2008, Journal of the American Chemical Society.

[21]  S. Blanchard,et al.  Small-molecule photostabilizing agents are modifiers of lipid bilayer properties. , 2013, Biophysical journal.

[22]  Colin Echeverría Aitken,et al.  An oxygen scavenging system for improvement of dye stability in single-molecule fluorescence experiments. , 2008, Biophysical journal.

[23]  Jan Vogelsang,et al.  Single-molecule photophysics of oxazines on DNA and its application in a FRET switch , 2009, Photochemical & photobiological sciences : Official journal of the European Photochemistry Association and the European Society for Photobiology.

[24]  Jan Vogelsang,et al.  On the mechanism of Trolox as antiblinking and antibleaching reagent. , 2009, Journal of the American Chemical Society.

[25]  B. Poolman,et al.  Conformational dynamics in substrate-binding domains influences transport in the ABC importer GlnPQ , 2014, Nature Structural &Molecular Biology.

[26]  Jan Vogelsang,et al.  Controlling the fluorescence of ordinary oxazine dyes for single-molecule switching and superresolution microscopy , 2009, Proceedings of the National Academy of Sciences.

[27]  Jens Oelerich,et al.  The Power of Two: Covalent Coupling of Photostabilizers for Fluorescence Applications. , 2014, The journal of physical chemistry letters.

[28]  Christian Eggeling,et al.  Strategies to improve photostabilities in ultrasensitive fluorescence spectroscopy. , 2007, The journal of physical chemistry. A.

[29]  Nam Ki Lee,et al.  Fluorescence-aided molecule sorting: Analysis of structure and interactions by alternating-laser excitation of single molecules , 2004, Proceedings of the National Academy of Sciences of the United States of America.

[30]  Stefan W. Hell,et al.  Single-molecule STED microscopy with photostable organic fluorophores. , 2010, Small.

[31]  S. Hell,et al.  Breaking the diffraction resolution limit by stimulated emission: stimulated-emission-depletion fluorescence microscopy. , 1994, Optics letters.

[32]  Taekjip Ha,et al.  Photophysics of fluorescent probes for single-molecule biophysics and super-resolution imaging. , 2012, Annual review of physical chemistry.

[33]  C. Eggeling,et al.  Pathways to optical STED microscopy , 2014 .

[34]  P. Schultz,et al.  Microfluidic device for single-molecule experiments with enhanced photostability. , 2009, Journal of the American Chemical Society.

[35]  W. Webb,et al.  Mechanisms of quenching of Alexa fluorophores by natural amino acids. , 2010, Journal of the American Chemical Society.

[36]  Daniel S. Terry,et al.  Enhanced photostability of cyanine fluorophores across the visible spectrum , 2012, Nature Methods.

[37]  Jens Oelerich,et al.  Corrigendum: A simple and versatile design concept for fluorophore derivatives with intramolecular photostabilization , 2017, Nature Communications.

[38]  Peter G Schultz,et al.  Adding new chemistries to the genetic code. , 2010, Annual review of biochemistry.

[39]  Christian Eggeling,et al.  Red-emitting rhodamine dyes for fluorescence microscopy and nanoscopy. , 2010, Chemistry.

[40]  Mike Heilemann,et al.  Single‐molecule super‐resolution imaging by tryptophan‐quenching‐induced photoswitching of phalloidin‐fluorophore conjugates , 2014, Microscopy research and technique.

[41]  Shimon Weiss,et al.  Photobleaching pathways in single-molecule FRET experiments. , 2007, Journal of the American Chemical Society.

[42]  M. Sauer,et al.  A close look at fluorescence quenching of organic dyes by tryptophan. , 2005, Chemphyschem : a European journal of chemical physics and physical chemistry.

[43]  S. Hell Far-Field Optical Nanoscopy , 2007, Science.

[44]  W. Lüttke,et al.  Laser dyes III: Concepts to increase the photostability of laser dyes☆ , 1983 .

[45]  S. Jockusch,et al.  Ultra-stable organic fluorophores for single-molecule research. , 2014, Chemical Society reviews.

[46]  Jan Vogelsang,et al.  Make them blink: probes for super-resolution microscopy. , 2010, Chemphyschem : a European journal of chemical physics and physical chemistry.

[47]  S. Blanchard Reply to "'Self-healing' dyes: intramolecular stabilization of organic fluorophores" , 2012, Nature Methods.

[48]  Jason E Hein,et al.  Copper-catalyzed azide-alkyne cycloaddition (CuAAC) and beyond: new reactivity of copper(I) acetylides. , 2010, Chemical Society reviews.

[49]  James B. Munro,et al.  Mitigating unwanted photophysical processes for improved single-molecule fluorescence imaging. , 2009, Biophysical journal.

[50]  Jonathan A Javitch,et al.  Cyanine fluorophore derivatives with enhanced photostability , 2011, Nature Methods.

[51]  Bodo Liphardt,et al.  Laser dyes with intramolecular triplet quenching , 1981 .

[52]  Wolfram Summerer,et al.  Single-molecule redox blinking of perylene diimide derivatives in water. , 2010, Journal of the American Chemical Society.