Publications

Click-Functionalized Cyanine Fluorogenic Dimers for Improved Detection of GPCRs: Application to Imaging of ApelinR in Living Cells

Océane Florès, Yann Berthomé, Lucille Weiss, Sarah Griesbaum-Dubourg, Stéphanie Riché, Patrick Wagner, Christel Valencia, Pascal Villa, Andrey S. Klymchenko, Julie Karpenko, Dominique Bonnet

Chemistry – A European Journal 2025, DOI: 10.1002/chem.202500379

Flow Cytometry Analysis of Perturbations in the Bacterial Cell Envelope Enabled by Monitoring Generalized Polarization of the Solvatochromic Peptide UNR-1

Lucille Weiss, Dominique Bonnet, Dmytro Dziuba, Julie Karpenko

Anal. Chem. 2025, 97 (1), 622–628

Fluorescent Antimicrobial Peptides Based on Nile Red: Effect of Conjugation Site and Chemistry on Wash-Free Staining of Bacteria

Lucille Weiss, Antoine Mirloup, Léa Blondé, Hanna Manko, Jean Peluso, Dominique Bonnet, Dmytro Dziuba, Julie Karpenko

Bioconjugate Chem. 2024, 35 (11), 1779–1787

Rational Design of Cyanine-Based Fluorogenic Dimers to Reduce Nonspecific Interactions with Albumin and Lipid Bilayers: Application to Highly Sensitive Imaging of GPCRs in Living Cells

Yann Berthomé, Julie Gerber, Fabien Hanser, Stéphanie Riché, Nicolas Humbert, Christel Valencia, Pascal Villa, Julie Karpenko, Océane Florès, Dominique Bonnet

Bioconjugate Chem. 2024, 35 (8), 1182–1189

Alared: Solvatochromic and Fluorogenic Red Amino Acid for Ratiometric Live‐cell Imaging of Bioactive Peptides

Antoine Mirloup, Yann Berthomé, Stéphanie Riché, Patrick Wagner, Fabien Hanser, Arthur Laurent, Xavier Iturrioz, Catherine Llorens-Cortes, Julie Karpenko,* Dominique Bonnet*

Chem. Eur. J. 2024, 30, e202401296

Catalyst-free thia-Diels-Alder click reaction for the labeling of peptides for imaging applications

Timothé Maujean, Patrice Marchand, Patrick Wagner, Stéphanie Riché, Frédéric Boisson, Nicolas Girard, Julie Karpenko, Dominique Bonnet, Mihaela Gulea

Phosphorus, Sulfur, Silicon Relat. 2023, 198, 532-535

Rapid and Highly Selective Fluorescent Labeling of Peptides via a Thia-Diels-Alder Cycloaddition: Application to Apelin

Timothé Maujean, Patrick Wagner, Christel Valencia, Stéphanie Riché, Xavier Iturrioz, Pascal Villa, Nicolas Girard, Julie Karpenko, Mihaela Gulea, Dominique Bonnet

Bioconjugate Chem. 2023, 34, 162-168

Nile Red-Based GPCR Ligands as Ultrasensitive Probes of the Local Lipid Microenvironment of the Receptor

Fabien Hanser, Claire Marsol, Christel Valencia, Pascal Villa, Andrey S. Klymchenko, Dominique Bonnet, Julie Karpenko

ACS Chem. Biol. 2021, 16, 4, 651–660

Near-Infrared Fluorogenic Dimer Enables Background-Free Imaging of Endogenous GPCR in Living Mice

Lucie Esteoulle, François Daubeuf, Mayeul Collot,* Stéphanie Riché, Thierry Durroux, David Brasse, Patrice Marchand, Iuliia A. Karpenko,* Andrey S. Klymchenko* and Dominique Bonnet*

Chemical Science 2020, 11, 6824-6829

[11C]PF-3274167 as a PET radiotracer of oxytocin receptors: radiosynthesis and evaluation in rat brain

Benjamin Vidal, Iuliia A. Karpenko, François Liger, Sylvain Fieux, Caroline Bouillot, Thierry Billard, Marcel Hibert, Luc Zimmer 

Nuclear Medicine and Biology 2017, 55, 1–6

Before 2016

Push-pull dioxaborine as fluorescent molecular rotor: far-red fluorogenic probe for ligand-receptor interactions

Iuliia A. Karpenko, Yosuke Niko, Viktor P. Yakubovskyi, Andriy O. Gerasov, Dominique Bonnet, Yuriy P. Kovtun, Andrey S. Klymchenko

J. Mater. Chem. C 2016, 4, 3002 – 3009

Dual emissive analogue of deoxyuridine as a sensitive hydration-reporting probe for discriminating mismatched from matched DNA and DNA/DNA from DNA/RNA duplexes

Nicolas P. F. Barthes, Krishna Gavvala, Dmytro Dziuba, Dominique Bonhomme, Iuliia A. Karpenko, Anne Sophie Dabert-Gay, Delphine Debayle, Alexander P. Demchenko, Rachid Benhida, Benoît Y. Michel, Yves Mély, Alain Burger

J. Mater. Chem. C 2016, 4, 3010 – 3017

Convenient access to fluorescent probes by chemoselective acylation of hydrazinopeptides: Application to the synthesis of the first far-red ligand for Apelin receptor imaging

Jean-François Margathe, Xavier Iturrioz, Pierre Regenass, Iuliia A. Karpenko, Nicolas Humbert, Hugues de Rocquigny, Marcel Hibert, Catherine Llorens-Cortes, Dominique Bonnet

Chem. Eur. J 2016, 22 (4), 1399 – 1405

Imaging and manipulating proteins in live cells through covalent labeling

Lin Xue, Iuliia A. Karpenko, Julien Hiblot and Kai Johnsson

Nature Chem. Biol. 2015, 11, 917–923

Squaraine as bright, stable and environment-sensitive far-red label for receptor-specific cellular imaging

Iuliia A. Karpenko, Andrey S Klymchenko, Sophie Gioria, Remy Kreder, Ievgen Shulov, Pascal Villa, Yves Mely, Marcel Hibert, Dominique Bonnet

Chem. Commun. 2015, 51, 2960-2963

Fluorogenic squaraine dimers with polarity-sensitive folding as bright far-red probes for background-free bioimaging

Iuliia A. Karpenko, Mayeul Collot, Ludovic Richert, Christel Valencia, Pascal Villa, Yves Mély, Marcel Hibert, Dominique Bonnet, Andrey S Klymchenko

JACS 2015, 137 (1), 405–412

Selective Non-Peptidic Fluorescent Ligands for Oxytocin Receptor: Design, Synthesis and Application to Time-Resolved FRET Binding Assay

Iuliia A. Karpenko, Jean-François Margathe,Thiéric Rodriguez, Elsa Pflimlin, Elodie Dupuis, Marcel Hibert, Thierry Durroux, and Dominique Bonnet

J. Med. Chem. 2015, 58 (5), 2547–2552

Development of environmentally sensitive fluorescent and dual emissive deoxyuridine analogues

N. P. F. Barthes, I. A. Karpenko, D. Dziuba, M. Spadafora, J. Auffret, A. P. Demchenko, Y. Mély, R. Benhida, B. Y. Michel, A. Burger

RSC Adv. 2015, 5, 33536–33545

Red Fluorescent Turn-On Ligands for Imaging and Quantifying G Protein-Coupled Receptors in Living Cells

Iuliia A Karpenko, Rémy Kreder, Christel Valencia, Pascal Villa, Christiane Mendre, Bernard Mouillac, Yves Mély, Marcel Hibert, Dominique Bonnet, Andrey S Klymchenko

ChemBioChem 2014, 15, 359–363 

Rational design of a solvatochromic fluorescent uracil analog with two-band ratiometric response based on 3-hydroxychromone

Dmytro Dziuba, Iuliia A Karpenko, Nicolas P F Barthes, Benoît Y Michel, Andrey S Klymchenko, Rachid Benhida, Alexander P Demchenko, Yves Mély, Alain Burger

Chem. Eur. J. 2014, 20, 1998–2009

Synthesis of Calixarene-Based Ketocyanine Fluorophores

Yuriy I. Matvieiev, Iuliia Karpenko, Andrii V. Kulinich, Aleksey B. Ryabitskii, Vasyl G. Pivovarenko, Svitlana V. Shishkina, Oleg V. Shishkin, Vitaly I. Kalchenko

Tetrahedron Letters, 2011, 52, 3922–3925

Fluorogenic dimer compound, useful as a probe for detection of endogenous receptors 

Karpenko J.; Collot M.; Klymchenko A.; Bonnet D. 

PCT/EP2021/062626, WO 2021/228939

Chemoselective Acylation of Hydrazinopeptides To Access Fluorescent Probes For Time-Resolved FRET Assay on GPCRs

Sridévi M. Ramanoudjame, Lucie Esteoulle, Stéphanie Riché, Jean-François Margathe, Thierry Durroux, Iuliia A. Karpenko, Dominique Bonnet

Methods in Molecular Biology 2019, 1947, 137-147