Andrey Klymchenko - Selected Publications#

1) Danylchuk D.I.; Jouard, P.-H.; Klymchenko, A.S. Targeted solvatochromic fluorescent probes for imaging lipid order in organelles under oxidative and mechanical stress J. Am. Chem. Soc. 2021, 143, 2, 912.

In this work, we designed solvatochromic dyes that specifically target different cellular organelles, and showed for the first time that each organelle responds differently in terms of local polarity to oxidative and mechanical stress.

2) Melnychuk, N.; Egloff, S.; Runser, A.; Reisch, A.; Klymchenko, A.S.* Light‐harvesting nanoparticle probes for FRET‐based detection of oligonucleotides with single‐molecule sensitivity, Angew. Chem. Int. Ed. 2020, 59, 6811.

This paper shows the first example of a nanomaterial where molecular recognition (nucleic acid hybridization) can trigger on/off response of ~1000 of fluorescent dyes. It enabled detection of nucleic acids with single-molecule sensitivity using a simple fluorescence microscopy setup.

3) Bouhedda, F.; Fam, K.T.; Collot, M.;* Autour, A.; Marzi, S.; Klymchenko, A. S.;* Ryckelynck, M.* A dimerization-based fluorogenic dye-aptamer module for RNA imaging in live cells. Nature Chem. Biol. 2020, 16, 69.

In this collaborative work between my team and the team of Dr. Ryckelynck, we proposed a concept of a fluorogenic dimer as a bright light up probe for detection of nucleic acids inside live cells. This finding was patented.

4) Danylchuk, D. I.; Moon, S.; Xu, K. ; Klymchenko, A. S.* Switchable solvatochromic probes for live-cell super-resolution imaging of plasma membrane organization, Angew. Chem. Int. Ed. Engl. 2019, 58, 14920.

This work attracted strong interest in the research community and the obtained membrane probes have already been used in ~30 research labs since 2019. These probes will be commercialized soon by Cytoskeleton, Inc.

5) Melnychuk, N.; Klymchenko, A.S.* DNA-Functionalized Dye-Loaded Polymeric Nanoparticles: Ultrabright FRET Platform for Amplified Detection of Nucleic Acids, J. Am. Chem. Soc. 2018, 140, 10856.

Here, we introduced dye-loaded polymeric nanoparticles functionalized with nucleic acids for amplified detection of nucleic acids. This finding was patented.

6) Reisch, A.;* Heimburger, D.; Ernst, P.; Runser, A.; Didier, P.; Dujardin, D.; Klymchenko, A. S.* Protein-Sized Dye-Loaded Polymer Nanoparticles for Free Particle Diffusion in Cytosol Adv. Funct. Mater. 2018, 28, 1805157.

This work revealed the crucial role of particle size for the free diffusion of nanoparticles inside cytosol. It was achieved by tuning size of polymer particles down to dimensions of proteins using a specially designed charged hydrophobic polymers and our original charge-controlled nanoprecipitation approach.

7) Klymchenko, A. S.* Solvatochromic and Fluorogenic Dyes as Environment-Sensitive Probes: Design and Biological Applications, Acc. Chem Res. 2017, 50, 366.

This review describes environment-sensitive dyes as universal tools for detection of biomolecular interactions, where we made important contributions. It has been cited 483 times (Google Scholar).

8) Trofymchuk, K.; Reisch, A.; Didier, P.; Fras, F.; Gilliot, P.; Mely, Y.; Klymchenko, A. S.* Giant light-harvesting nanoantenna for single-molecule detection in ambient light. Nature Photonics 2017, 11, 657.

This article describes giant light-harvesting nanoantenna that allows for the first time optical amplification >1000-fold. It enabled unprecedented detection of single molecules at conditions equivalent to ambient sunlight. This finding was patented.

9) Reisch, A.; Klymchenko, A.S.* Fluorescent Polymer Nanoparticles Based on Dyes: Seeking Brighter Tools for Bioimaging. Small 2016, 12, 1968.

This critical review on fluorescent polymeric nanoparticles has been cited 358 times (Google Scholar).

10) Reisch, A.; Didier, P.; Richert, L.; Oncul, S.; Arntz, Y.; Mély, Y.; Klymchenko, A. S.* Collective fluorescence switching of counterion-assembled dyes in polymer nanoparticles. Nature Commun. 2014, 5, 4089.

In this work, we pioneered a concept of bulky hydrophobic counterions to enhance encapsulation and emission of ionic dyes inside polymeric nanoparticles. It enabled preparation of ultrabright polymeric nanoparticles and observe an unprecedented phenomenon of collective on/off switching of >100 dyes coupled by ultrafast energy transfer.

*Corresponding author(s) in these articles.

Author of 224 peer-reviewed articles and co-inventor of 10 patents.

Citation analysis by Web of Science (20-June-2021): cited 8,748 times, H-index is 49.

Google Scholar (20-June-2021): cited 11,192 times, H-index is 57.

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