Yampolsky lab

Publications

2024

New transaminase from Odontosyllis undecimdonta the first potential enzyme of the luciferin biosynthesis pathway
D. A. Dmitrieva, O. A. Belozerova, A. V. Mishin, I. V. Yampolsky, A. A. Kotlobay
Biochimie, 2024.

Improved synthesis of two quisqualic acid analogs containing hydantoin and imidazolidinone moieties
A. P. Makhin, V. S. Miturich, M. V. Vavilov, M. S. Lyakhovich, A. A. Andrianova, R. I. Zagitova, V. I. Shmygarev, A. A. Fadeeva, O. N. Yatskin, O. A. Belozerova, A. Tsatsakis, I. V. Yampolsky, Z. M. Kaskova
Chemistry of Heterocyclic Compounds, 2024, 60, 262–268.

Henlea earthworm bioluminescence comprises violet-blue BRET from tryptophan 2-carboxylate to deazaflavin cofactor
V. N. Petushkov, M. V. Vavilov, A. N. Khokhlova, R. I. Zagitova, O. A. Belozerova, A. S. Shcheglov, S. I. Kovalchuk, A. S. Tsarkova, N. S. Rodionova, I. V. Yampolsky, M. A. Dubinnyi
Biochemical and Biophysical Research Communications, 2024, 149787.

Novel BRET combination for detection of rapamycin-induced protein dimerization using luciferase from fungus Neonothopanus nambi
A. Mujawar, S. Dimri, K. A. Palkina, N. M. Markina, K. S. Sarkisyan, A. V. Balakireva, I. V. Yampolsky, A. De
Helyion, 2024, 10 (4), E25553.

A hybrid pathway for self-sustained luminescence
K. A. Palkina, T. A. Karataeva, M. A. Perfilov, L. I. Fakhranurova, N. M. Markina, L. G. Somermeyer, E. Garcia-Perez, M. Vazquez-Vilar, M. Rodriguez-Rodriguez, V. Vazquez-Vilriales, E. S. Shakhova, T. Mitiouchkina, O. A. Belozerova, S. I. Kovalchuk, A. Alekberova, A. K. Malyshevskaia, E. N. Bugaeva, E. B. Guglya, A. Balakireva, N. Sytov, A. Bezlikhotnova, D. I. Boldyreva, V. V. Babenko, F. A. Kondrashov, V. V. Choob, D. Orzaez, I. V. Yampolsky, A. S. Mishin, K. S. Sarkisyan,
Science Advances, 2024, 10 (10), eadk1992.

The living light from fungi
C. V. Stevani, C. K. Zamuner, E. L. Bastos, B. B. de Nóbrega, D. M.M. Soares, A. G. Oliveira, E. J.H. Bechara, E. S. Shakhova, K. S. Sarkisyan, I. V. Yampolsky, Z. M. Kaskova
Journal of Photochemistry and Photobiology C: Photochemistry Reviews, 2024, 58, 100654.

An improved pathway for autonomous bioluminescence imaging in eukaryotes
E.S. Shakhova, T.A. Karataeva, N.M. Markina, T. Mitiouchkina, K. A. Palkina, M. M. Perfilov, M. G. Wood, T. T. Hoang, M. P. Hall, L. I. Fakhranurova, A. E. Alekberova, A. K. Malyshevskaia, D. A. Gorbachev, E. N. Bugaeva, L. K. Pletneva, V. V. Babenko, D. I. Boldyreva, A. Y. Gorokhovatsky, A. V. Balakireva, F. Gao, V. V. Choob, L. P. Encell, K. V. Wood, I. V. Yampolsky, K. S. Sarkisyan, A. S. Mishin
Nature Methods, 2024, 21, 406–410.

2023

Triple Reporter Assay: A Non-Overlapping Luciferase Assay for the Measurement of Complex Macromolecular Regulation in Cancer Cells Using a New Mushroom Luciferase–Luciferin Pair
A. Mujawar, P. Phadte, K. A. Palkina, N. M. Markina, A. Mohammad, B. L. Thakur, K. S. Sarkisyan, A. V. Balakireva, P. Ray, I. Yamplosky, A. De
Sensors, 2023, 23 (17), 7313.

Structure elucidation of Keroplatus (Diptera:Keroplatidae) fungus gnat oxyluciferin
A. A. Kotlobay, M. A. Dubinnyi, S. I. Kovalchuk, A. P. Makhin, V. S. Miturich, M. S. Lyakhovich, D. M. Fontaine, T. L. Southworth, V. I. Shmygarev, O. N. Yatskin, B. R. Branchini, I. V. Yampolsky, Z. M. Kaskova
Biochemical and Biophysical Research Communications, 2023, 676 (8), 1-5.

Total Synthesis of Racemic Thieno[3,2-f]thiochromene Tricarboxylate, a Luciferin from Marine Polychaeta Odontosyllis undecimdonta
Y. V. Bolt, M. A. Dubinnyi, V. V. Litvinenko, A. A. Kotlobay, O. A. Belozerova, R. I. Zagitova, V. I. Shmygarev, O. N. Yatskin, E. B. Guglya, V. S. Kublitski, M. S. Baranov, I. V. Yampolsky, Z. M. Kaskova, A. S. Tsarkova
Organic Letters, 2023, 25 (26), 4892–4897.

Conjugated Dienoic Acid Peroxides as Substrates in Chaetopterus Bioluminescence System
R. I. Zagitova, K. V. Purtov, A. S. Shcheglov, K. S. Mineev, M. A. Dubinnyi, I. N. Myasnyanko, O. A. Belozerova, V. G. Pakhomova, V. N. Petushkov, N. S. Rodionova, V. A. Lushpa, E. B. Guglya, S. Kovalchuk, V. B. Kozhemyako, J. D. Mirza, A. G. Oliveira, I. V. Yampolsky, Z. M. Kaskova, A. S. Tsarkova
International Journal of Molecular Sciences, 2023, 24, 9466.

Truncation in Hispidin Synthase Orthologs from Non-Bioluminescent Fungi Does Not Lead to Hispidin Biosynthesis
K. A. Palkina, A. V. Balakireva, O. A. Belozerova, T. V. Chepurnykh, N. M. Markina, S. I. Kovalchuk, A. S. Tsarkova, A. S. Mishin, I. V. Yampolsky, K. S. Sarkisyan
International Journal of Molecular Sciences, 2023, 24, 1317.

Deazaflavin cofactor boosts earthworms Henlea bioluminescence
V. N. Petushkov, M. V. Vavilov, I. A. Ivanov, R. H. Ziganshin, N. S. Rodionova, I. V. Yampolsky, A. S. Tsarkova, M. A. Dubinnyi
Organic & Biomolecular Chemistry, 2023, 21, 415-427.

2022

Systematic Comparison of Plant Promoters in Nicotiana spp. Expression Systems
E. S. Shakhova, N. M. Markina, T. Mitiouchkina, E. N. Bugaeva, T. A. Karataeva, K. A. Palkina, L. I. Fakhranurova, I. V. Yampolsky, K. S. Sarkisyan, A. S. Mishin
International Journal of Molecular Sciences, 2022, 23, 15441.

A new albomycin-producing strain of Streptomyces globisporus subsp.
Y. V. Zakalyukina , N. A. Pavlov, D. A. Lukianov, M. V. Biryukov, V. I. Marina, O. A. Belozerova, V. N. Tashlitsky, E. B. Guglya, I. A. Osterman
Insects, 2022, 13, 1042.

Streptocinnamides A and B, Depsipeptides from Streptomyces sp. KMM 9044
T. N. Makarieva, L. A. Romanenko, K. S. Mineev, L. K. Shubina, E. B. Guglya, N. I. Kalinovskaya, N. V. Ivanchina, A. G. Guzii, O. A. Belozerova, S. I. Kovalchuk, R. S. Popov, V. A. Denisenko, V. V. Mikhailov, V. V. Babenko, E. N. Ilina, M. V. Malakhova, S. S. Terekhov, A. M. Kudzhaev, P. S. Dmitrenok, I. V. Yampolsky, V. A. Stonik
Organic Letters, 2022, 24 (27), 4892-4895.

Riboflavin as One of Possible Components of Keroplatus (Insecta: Diptera: Keroplatidae) Fungus Gnat Bioluminescence
A. A. Kotlobay, M. A. Dubinnyi, A. V. Polevoi, S. I. Kovalchuk, Z. M. Kaskova
Russian Journal of Bioorganic Chemistry, 2022, 48 (6), 714-720.

Heterogeneity of the GFP fitness landscape and data-driven protein design
L. Gonzalez Somermeyer, A. Fleiss, A. S. Mishin, N. G. Bozhanova, A. A. Igolkina, J. Meiler, M.-E. Alaball Pujol, E. V. Putintseva, K. S. Sarkisyan, F. A. Kondrashov
eLife, 2022, 11, e75842.

2021

Novel Benzothiophene-Based Fluorescent Dye Exhibiting a Large Stokes Shift
Y. V. Bolt, N. S. Baleeva  , Y. V. Nelyubina, A. A. Andrianova, Z. M. Kaskova, A.S. Tsarkova
Synlett, 2021, 32, A-D.

Luciferins Under Construction: A Review of Known Biosynthetic Pathways
A.S. Tsarkova
Frontiers in Ecology and Evolution, 2021, 9, 667829.

Unexpected Coelenterazine Degradation Products of Beroe abyssicola Photoprotein Photoinactivation
L.P. Burakova, M.S. Lyakhovich, K.S. Mineev, V.N. Petushkov, R.I. Zagitova, A.S. Tsarkova, S.I. Kovalchuk, I.V. Yampolsky, E.S. Vysotski, Z.M. Kaskova
Organic Letters, 2021, 23, 17, 6846–6849.

Therapeutic Potential of Hispidin—Fungal and Plant Polyketide
K.A. Palkina, D.A. Ipatova, E.S. Shakhova, A.V. Balakireva, N.M. Markina
Journal of Fungi, 2021, 7, 5, 323.

The Recombinant Luciferase of the Fungus Neonothopanus nambi: Obtaining and Properties
A.Y. Gorokhovatsky, T.V. Chepurnykh, A.S. Shcheglov, Y.A. Mokrushina, M.N. Baranova, S.A. Goncharuk, K.V. Purtov, V.N. Petushkov, N.S. Rodionova, I.V. Yampolsky
Doklady Biochemistry and Biophysics, 2021, 496, 52–55.

Rational Design and Mutagenesis of Fungal Luciferase from Neonothopanus nambi
K.A. Beregovaya, N.M. Myshkina, T.V. Chepurnykh, A.A. Kotlobay, K.V. Purtov, V.N. Petushkov, N.S. Rodionova, I.V. Yampolsky
Doklady Biochemistry and Biophysics, 2021, 496, 14–17.

2020

6,7-Dialcoxy-Benzothiophene Derivatives as the Basis for Synthesis of Fluorescent Sensors for Reactive Oxygen Species
I.V. Bolt, A.S. Tsarkova, N.S. Baleeva
Russian Journal of Bioorganic Chemistry, 2020, 46, 1289–1292.

α-C-Mannosyltryptophan is a structural analog of the luciferin from bioluminescent Siberian earthworm Henlea sp.
M.A. Dubinnyi, I.A. Ivanov, N.S. Rodionova, S.I. Kovalchuk, Z.M. Kaskova, V.N. Petushkov
ChemistrySelect, 2020, 5, 1-5.

Heterologous metabolic pathways: strategies for optimal expression in eukaryotic hosts
N.M. Markina, A.A. Kotlobay, A.S. Tsarkova
Acta Naturae, 2020, 12, 2, 28-39.

Palette of luciferases: natural biotools for new applications in biomedicine
A.A. Kotlobay, Z.M. Kaskova, I.V. Yampolsky
Acta Naturae, 2020, 12, 2, 15-27.

Plants with genetically encoded autoluminescence*
T. Mitiouchkina, A.S. Mishin, L.G. Somermeyer, N.M. Markina, T.V. Chepurnyh, E.B. Guglya, T.A. Karataeva, K.A. Palkina, E.S. Shakhova, L.I. Fakhranurova, S.V. Chekova, A.S. Tsarkova, Y.V. Golubev, V.V. Negrebetsky, S.A. Dolgushin, P.V. Shalaev, D. Shlykov, O.A. Melnik, V.O. Shipunova, S.M. Deyev, A.I. Bubyrev, A.S. Pushin, V.V. Choob, S.V. Dolgov, F.A. Kondrashov, I.V. Yampolsky, K.S. Sarkisyan
Nature biotechnology, 2020, 38, 944–946.
*Highlighted in Nature Plants, Nature Methods, Nature Photonics, CNN, Guardian, The Times, Science etc.

Chaetopterus variopedatus bioluminescence: a review of light emission within a species complex
J.D. Mirza, A.E. Migotto, I.V. Yampolsky, G.V. de Moraes, A.S. Tsarkova, A.G. Oliveira
Photochemistry and Photobiology, 2020, 96, 768–778.

2019

Bioluminescence chemistry of fireworm Odontosyllis*
A.A. Kotlobay, M.A. Dubinnyi, K.V. Purtov, E.B. Guglya, N.S. Rodionova, V.N. Petushkov, Y.V. Bolt, V.S. Kublitski, Z.M. Kaskova, R.H. Ziganshin, Y.V. Nelyubina, P.V. Dorovatovskii, I.E. Eliseev, B.R. Branchini, G. Bourenkov, I.A. Ivanov, Y. Oba, I.V. Yampolsky, A.S. Tsarkova
Proceedings of the National Academy of Sciences of the U.S.A., 2019, 116, 38, 18911-18916.
*Highlighted in BBRC

Chaetopterus luciferase: partial purification of the protein and cofactors required for bioluminescence
K. Purtov, A. Shcheglov, A. Tsarkova
FEBS Open Bio, 2019, 9 (Suppl. 1) p. 419, P-41-037.

Immunohistochemistry of luciferase of fungus Neonothopanus nambi
E. Shakhova, A. Gorokhovatsky, T. Chepurnykh, N. Markina, I. Yampolsky
FEBS Open Bio, 2019, 9 (Suppl. 1) p. 170, P-12-017.

Bioluminescence system of polychaete Odontosyllis: purification of luciferin and its enzymatic and non-enzymatic oxidation products
A. Kotlobay, I. Yampolsky, A. Tsarkova
FEBS Open Bio, 2019, 9 (Suppl. 1) p. 168, P-12-010.

Luciferin-luciferase system of marine polychaete Chaetopterus variopedatus
K.V. Purtov, V.N. Petushkov, N.S. Rodionova, V.G. Pakhomova, I.N. Myasnyanko, N.M. Myshkina, A.S. Tsarkova, J.I. Gitelson
Doklady Biochemistry and Biophysics, 2019, 486, 1, 209-212.

Bioluminescence: Chemical Principles and Methods. Third edition
Ed. by O. Shimomura, I.V. Yampolsky
World Scientific Publishing, 2019, Singapore, 556 pages.

Optimization of fungal luciferin synthesis
A.I. Bubyrev, A.S. Tsarkova, Z.M. Kaskova
Russian Journal of Bioorganic Chemistry, 2019, 45, 2, 183-185.

Photoinduced proton transfer of GFP-Inspired fluorescent superphotoacids: principles and design
C. Chen, L.D. Zhu, M.S. Baranov, L.T. Tang, N.S. Baleeva, A.Y. Smirnov, I.V. Yampolsky, K.M. Solntsev, C. Fang
Journal of Physical Chemistry B, 2019, 123, 17, 3804-3821.

Designing redder and brighter fluorophores by synergistic tuning of ground and excited states
C. Chen, M.S. Baranov, L. Zhu, N.S. Baleeva, A.Y. Smirnov, S.O. Zaitseva, I.V. Yampolsky, K.M. Solntsev, C. Fang
Chemical Communications, 2019, 55, 17, 2537-2540.

2018

New bioluminescence systems: luciferins, luciferases and luciferin biosynthesis pathways
I.V. Yampolsky, K.V. Purtov
FEBS Open Bio, 2018, 8 (Suppl. 1) p. 26, S.05-1.

Biosynthesis of hispidin by plant type III polyketide synthases in yeast and mammalian cell cultures
K. Palkina, N. Markina, Y. Mokrushina, T. Chepurnykh, K. Sarkisyan, I. Yampolsky
FEBS Open Bio, 2018, 8 (Suppl. 1) p. 172-173, P.07-024-W.

Localization of luciferase of fungus Neonothopanus nambi
E.S. Shakhova, T.V. Chepurnykh, N.M. Myshkina, I.V. Yampolsky
Journal of Bioenergetics and Biomembranes, 2018, 50, 6, 580-581.

Genetically encodable bioluminescent system from fungi*
A.A. Kotlobay, K.S. Sarkisyan, Y.A. Mokrushina, M. Marcet-Houben, E.O. Serebrovskaya, N.M. Markina, L.G. Somermeyer, A.Y. Gorokhovatsky, A. Vvedensky, K.V. Purtov, V.N. Petushkov, N.S. Rodionova, T.V. Chepurnyh, L.I. Fakhranurova, E.B. Guglya, R. Ziganshin, A.S. Tsarkova, Z.M. Kaskova, V. Shender, M. Abakumov, T.O. Abakumova, I.S. Povolotskaya, F.M. Eroshkin, A.G. Zaraisky, A.S. Mishin, S. V. Dolgov, T.Y. Mitiouchkina, E.P. Kopantzev, H.E. Waldenmaier, A.G. Oliveira, Y. Oba, E. Barsova, E.A. Bogdanova, T. Gabaldón, C.V. Stevani, S. Lukyanov, I.V. Smirnov, J.I. Gitelson, F.A. Kondrashov, I.V. Yampolsky
Proceedings of the National Academy of Sciences of the U.S.A., 2018, 115, 50, 12728-12732.
*Highlighted in Nature Methods

Luciferase of the Japanese syllid polychaete Odontosyllis umdecimdonta
D.T. Schultz, A.A. Kotlobay, R. Ziganshin, A. Bannikov, N.M. Markina, T.V. Chepurnyh, E.S. Shakhova, K. Palkina, S.H.D. Haddock, I.V. Yampolsky, Y. Oba.
Biochemical and Biophysical Research Communications, 2018, 502, 3, 318-323.

SypHer3s: genetically encoded fluorescent ratiometric probe with enhanced brightness and improved dynamic range
Y.G. Ermakova, V.V. Pak, Y.A. Bogdanova, A.A. Kotlobay, I.V. Yampolsky, A.G. Shokhina, A.S. Panova, R. Marygin, D.B. Staroverov, D.S. Bilan, H. Sies and V.V. Belousov.
Chemical Communications, 2018, 54, 2898-2901.

2017

Unveiling Structural Motions of a Highly Fluorescent Superphotoacid by Locking and Fluorinating the GFP Chromophore in Solution
Ch. Chen, W. Liu, M.S Baranov, N.S. Baleeva, I.V. Yampolsky, L. Zhu, Y. Wang, A. Shamir, K.M. Solntsev, Ch. Fang.
Journal of Physical Chemistry Letters, 2017, 8, 5921−5928.

Prolonged bioluminescence imaging in living cells and mice using novel pro-substrates for Renilla luciferase
M. Yuan, X. Ma, T. Jiang, Y. Gao, Y. Cui, Ch. Zhang, X. Yang, Y. Huang, L. Du, I. Yampolsky, M. Li.
Organic and Biomolecular Chemistry, 2017, 15, 10238-10244.

Hispidin-3-hydroxylase: a luciferin biosynthesis enzyme of glowing fungi
N. Markina, A. Gorokhovatsky, A. Kotlobay, K. Sarkisyan, Y. Mokrushina, I. Yampolsky.
The FEBS Journal, 2017, 284 (Suppl. 1) p. 106, P.1.1-010.

Fungal bioluminescence system: luciferin, luciferase and luciferin biosynthesis
I.V. Yampolsky.
The FEBS Journal, 2017, 284 (Suppl. 1) p. 189, P.1.3-027

New bioluminescent coelenterazine derivatives with various C-6 substitutions
T. Jiang, X. Yang, Y. Zhou, I. Yampolsky, L. Dua, M. Li.
Organic and Biomolecular Chemistry, 2017, 15, 7008-7018.

Synthetic Analogue of Fridericia Luciferin with Improved Spectral Properties
Osipova ZM.
Russian Journal of Bioorganic Chemistry, 2017, 43, 2, pp. 223–225.

Fucoxanthin production by heterokont microalgae
M. Petrushkina, E. Gusev, B. Sorokin, N. Zotko, A. Mamaeva, A. Filimonova, M. Kulikovskiy, Y. Maltsev, I. Yampolsky, E. Guglya, V. Vinokurov, Z. Namsaraev, D. Kuzmin.
Algal Research, 2017, 24A, 387–393.

Protein labeling for live cell fluorescence microscopy with a highly photostable renewable signal
N.G. Bozhanova, M.S. Baranov, N.V. Klementieva, K.S. Sarkisyan, A.S. Gavrikov, I.V. Yampolsky, E.V. Zagaynova, S. Lukyanov, K. Lukyanov, A.S. Mishin.
Chemical Science, 2017, 8, 7138–7142.

Identification of hispidin as a bioluminescent active compound and its recycling biosynthesis in the luminous fungal fruiting body
Y. Oba, Y. Suzuki, G.N.R. Martins, R.P. Carvalho, T.A. Pereira, H.E. Waldenmaier, Sh. Kanie, M. Naito, A.G. Oliveira, F.A. Dörr, E. Pinto, I.V. Yampolsky, C.V. Stevani.
Photochemical and Photobiological Science, 2017, 16, 1435-1440.

Synthesis of Panal Terpenoid Core
Baranov, M.S.; Kaskova, Z.M.; Gritсenko, R.; Postikova, S.G.; Ivashkin, P.E.; Kislukhin, A.A.; Moskvin, D.I.; Mineev, K.S.; Arseniev, A.S.; Labas, Y.A.; Yampolsky, I.V.
Synlett, 2017, 28, 583–588.

Mechanism and color modulation of fungal bioluminescence*
Z. M. Kaskova, F. A. Dörr, V. N. Petushkov, K. V. Purtov, A. S. Tsarkova, N. S. Rodionova, K. S. Mineev, E. B. Guglya, A. Kotlobay, N. S. Baleeva, M. S. Baranov, A. S. Arseniev, J. I. Gitelson, S. Lukyanov, Y. Suzuki, S. Kanie, E. Pinto, P. Di Mascio, H. E. Waldenmaier, T. A. Pereira, R. P. Carvalho, A. G. Oliveira, Y. Oba, E. L. Bastos, C. V. Stevani, I. V. Yampolsky.
Science Advances, 2017, 3, e1602847.
*Highlighted in C&EN

Progress in the Study of Bioluminescent Earthworms
N.S. Rodionova, E. Rota, A.S. Tsarkova, V.N. Petushkov.
Photochemistry and Photobiology, 2017, 93, 416–428.

2016

1001 Lights: Luciferins, Luciferases, Their Mechanisms of Action and Applications in Chemical Analysis, Biology and Medicine
Z.M. Kaskova, A.S. Tsarkova, I.V. Yampolsky.
Chemical Society Reviews, 2016, 45, 6048-6077.

Conformationally Locked GFP Chromophore Derivatives as Potential Fluorescent Sensors
N.S. Baleeva, I.V. Yampolsky, M.S. Baranov.
Russian Journal of Bioorganic Chemistry, 2016, 42 (4), 453–456.

Nambiscalarane, a novel sesterterpenoid comprising a furan ring, and other secondary metabolites from bioluminescent fungus Neonothopanus nambi
A.S. Tsarkova, M.A. Dubinnyi, M.S. Baranov, A.D. Oguienko, I.V. Yampolsky.
Mendeleev Communications, 2016, 26, 191–192.

Docking-guided identification of protein hosts for GFP chromophore-like ligands
N.V. Povarova, N.G. Bozhanova, K.S. Sarkisyan, R. Gritcenko, M.S. Baranov, I.V. Yampolsky, K. Lukyanov, A.S. Mishin.
Journal of Material Chemistry C, 2016, 4, 3036-3040.

2015

Bioinspired fluorescent dyes based on conformationally locked chromophore of fluorescent protein Kaede
N.S. Baleeva, K.A. Myannik, I.V. Yampolsky, M.S. Baranov.
European Journal of Organic Chemistry, 2015, 26, 5716–5721.

Fluorescence imaging using synthetic GFP chromophores
Ch.L. Walker, K.A. Lukyanov, I.V. Yampolsky, A.S. Mishin, A.S Bommarius, A.M. Duraj-Thatte, B. Azizi, L.M. Tolbert, K.M. Solntsev.
Current Opinions in Chemical Biology, 2015, 27, 64–74.

Novel mechanism of bioluminescence: oxidative decarboxylation of Fridericia luciferin
M.A. Dubinnyi, Z.M. Kaskova, N.S. Rodionova, M.S. Baranov, A.Y. Gorokhovatsky, A. Kotlobay, K.M. Solntsev, A.S. Tsarkova, V.N. Petushkov, I.V. Yampolsky.
Angewandte Chemie International Edition, 2015, 54, 7065 –7067.

Total synthesis of AsLn2 – a luciferin analogue from the Siberian bioluminescent earthworm Fridericia heliota
A.S. Tsarkova, M.A. Dubinnyi, M.S. Baranov, V.N. Petushkov, N.S. Rodionova, M.B. Zagudaylova, I.V. Yampolsky.
Mendeleev Communications, 2015, 25, 99-100.

Novel Peptide Chemistry in Terrestrial Animals: Natural Luciferin Analogues from the Bioluminescent Earthworm Fridericia heliota
M. A. Dubinnyi, A. S. Tsarkova, V. N. Petushkov, Z. M Kaskova, N. S. Rodionova, S. I. Kovalchuk, R. H. Ziganshin, M. S. Baranov, K. S. Mineev, I. V. Yampolsky.
Chemistry - A European Journal, 2015, 21, 3942 – 3947.

2014

Red-shifted fluorescent aminated derivatives of conformationally locked GFP chromophore
Baranov M.S., Solntsev K.M., Baleeva N.S., Mishin A.S., Lukyanov K.A., Yampolsky I.V.
Chemistry - A European Journal, 2014, 20, 41, 13234–13241.

A novel type of luciferin from Siberian luminous earthworm Fridericia heliota: structure elucidation by spectral studies and total synthesis*
Petushkov V.N., Dubinnyi M.A., Tsarkova A.S., Rodionova N.S., Baranov M.S., Kublitski V.S., Shimomura O., Yampolsky I.V.
Angewandte Chemie International Edition, 2014, 53, 22, 5566–5568.
*Highlighted in C&EN

Ring-expanding rearrangement of 2-acyl-5-arylidene-3,5-dihydro-4H-imidazol-4-ones in synthesis of flutimide analogs
Baranov M.S., Fedyakina I.T., Shchelkanov M.Y., Yampolsky I.V.
Tetrahedron, 2014, 70, 3714-3719.

AsLn2, a luciferin-related modified tripeptide from the bioluminescent earthworm Fridericia heliota
V.N. Petushkov, M.A. Dubinnyi, N.S. Rodionova, K.D. Nadezhdin, S.M. Marques, J.C.G. Esteves da Silva, O.Shimomura, I.V. Yampolsky.
Tetrahedron Letters, 2014, 55, 463-465.

CompX, a luciferin-related tyrosine derivative from the bioluminescent earthworm Fridericia heliota. Structure elucidation and total synthesis
V.N. Petushkov, A.S. Tsarkova, M.A. Dubinnyi, N.S. Rodionova, S.M. Marques, J.C.G. Esteves da Silva, O. Shimomura, I. V. Yampolsky.
Tetrahedron Letters, 2014, 55, 460-462.

2013

Structure of the red fluorescent protein from a lancelet (Branchiostoma lanceolatum): a novel GYG chromophore covalently bound to a nearby tyrosine
V.Z. Pletnev, N.V. Pletneva, K.A. Lukyanov, E.A. Souslova, A.F. Fradkov, D.M. Chudakov, T. Chepurnykh, I.V. Yampolsky, A. Wlodawer, Z. Dauter, S. Pletnev.
Acta Crystallographica Section D, 2013, D69, 1850-1860.

Chemical introduction of the green fluorescence: imaging of cysteine cathepsins by an irreversibly locked GFP fluorophore
M. Frizler, I.V. Yampolsky, M.S. Baranov, M. Stirnberga, M. Gütschow.
Organic and Biomolecular Chemistry, 2013, 11, 5913.

Synthetic approach to GFP chromophore analogs from 3-azidocinnamates. Role of methyl rotors on the chromophore photophysics
M.S. Baranov, K.M. Solntsev, K.A. Lukyanov, I.V. Yampolsky.
Chemical Communications, 2013, 49, (51), 5778-5780.

Synthesis of the chromophores of fluorescent proteins and their analogs
Baranov M.S., Lukyanov K.A., Yampolsky I.V.
Russian Journal of Bioorganic Chemistry, 2013, 3, 223-244.

An efficient synthetic approach to fluorescent oxazole-4-carboxylate derivatives
Baranov M.S., Lukyanov K.A., IvashkinP.E., Yampolsky I.V.
Synthetic Communications, 2013, 43, 17, 2337-2342.

Novel condensations of nitroacetic esters with aromatic aldehydes leading to 5-hydroxy-1,2-oxazin-6-ones
Baranov M.S., Yampolsky I.V.
Tetrahedron Letters, 2013, 54, 7, 628-629.

2012

Unusual transformations of anthranilic acid imidazolides
Baranov M.S., Yampolsky I.V.
Chemistry of Heterocyclic Compounds, 2012, 1108-1110.

Tryptophan-based chromophore in fluorescent proteins can be anionic
Sarkisyan, K.S.; Yampolsky, I.V.; Solntsev, K.M.; et al.
Scientific reports, 2012, 2, 608.

Conformationally locked chromophores as a model of excited state proton transfer in fluorescent proteins
Baranov M.S., Lukyanov K.A., Borissova A.O., Shamir J., Kosenkov D., Slipchenko L.V., Tolbert L.M., Yampolsky I.V., Solntsev K.M.
Journal of the American Chemical Society, 2012, 134, 6025-6032.

2011 and earlier

Synthesis of Biosynthetic Precursors of Chromophores of Red Fluorescent Proteins
P.E. Ivashkin, K.A. Lukyanov, I.V. Yampolsky.
Russian Journal of Bioorganic Chemistry, 2011, 37, 411–420.

A Synthetic GFP-like Chromophore Undergoes Base-Catalyzed Autoxidation into Acylimine Red Form
Ivashkin PE, Lukyanov KA, Lukyanov S, et al.
Journal of Organic Chemistry, 2011, 76, 8, 2782-2791.

Synthesis and Properties of Chromophores of Fluorescent Proteins
P.E. Ivashkin, I.V. Yampolsky, K.A. Lukyanov.
Russian Journal of Bioorganic Chemistry, 2009, 35, 6, 652–669.

Synthesis and Spectral and Chemical Properties of the Yellow Fluorescent Protein zFP538 Chromophore
Yampolsky I.V., Balashova T.A., Lukyanov K.A.
Biochemistry, 2009, 48, 33, 8077-8082.

Green fluorescent proteins are light-induced electron donors
Bogdanov A.M., Mishin A.S., Yampolsky I.V., et al.
Nature Chemical Biology, 2009, 5, 7, 459-461.

Synthesis and properties of the red chromophore of the green-to-red photoconvertible fluorescent protein Kaede and its analogs
Yampolsky I.V., Kislukhin A.A., Amatov T.T., et al.
Bioorganic Chemistry, 2008, 36, 1-3, 96-104.

The first mutant of the Aequorea victoria green fluorescent protein that forms a red chromophore
Mishin A.S., Subach F.V., Yampolsky I.V., et al.
Biochemistry, 2008, 47, 16, 4666-4673.

Structural basis for the fast maturation of Arthropoda green fluorescent protein.
Evdokimov AG, Pokross ME, Egorov NS, et al.
EMBO reports, 2006,7,10, 1006-1012.

Synthesis and properties of the chromophore of the asFP595 Chromoprotein from Anemonia sulcata
Yampolsky I.V., Remington S.J., Martynov V.I., et al.
Biochemistry, 2005, 44, 15, 5788-5793.

New class of blue animal pigments based on Frizzled and Kringle protein domains
Bulina M.E., Lukyanov K.A., Yampolsky I.V., et al.
Journal of Biological Chemistry, 2004, 279, 42, 43367-43370.

Allylboration of functionalized isoquinolines
Pastukhov F.V., Yampolsky I.V., Bubnov Y.N.
Journal of Organometallic Chemistry, 2002, 657, 1-2, 123-128.

Allylic boron and zinc derivatives in synthesis and transformations of nitrogen heterocycles
Bubnov Y.N., Klimkina E.V., Zhun' I.V., F. V. Pastukhov, I. V. Yampolsky.
Pure and Applied Chemistry, 2000, 72, 9, 1641-1644.

A convenient synthesis of 2,2-diallylated nitrogen heterocycles by allylboration of lactams
Bubnov Y.N., Pastukhov F.V., Yampolsky I.V.
European Journal of Organic Chemistry, 2000, 8, 1503-1505.