Лаборатория синтетической биологии

Довыденко Илья Сергеевич
с.н.с., к.х.н.,

телефон: (383) 363-51-35
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Базовые проекты

• «Разработка и создание искусственных систем для целей синтетической биологии» Нацпроект Наука. 0245-2019-0002 (Молодежные лаборатории) (ГЗ-0009) (2019 - 2020 гг.)
  

Гранты Российского научного фонда

• № 19-15-00217 «Многоуровневые транспортеры для эффективной доставки в клетки терапевтических нуклеиновых кислот с различным механизмом действия» (2019 - 2021 гг.)
  

Гранты Российского фонда фундаментальных исследований (РФФИ)

• № 19-44-543012 р_мол_а «Фундаментальные основы взаимодействия нуклеиновых кислот и наночастиц золота для создания диагностических систем». (2019 - 2020 гг.)

1. Noncovalent Adsorption of Single-Stranded and Double-Stranded DNA on the Surface of Gold Nanoparticles. Gorbunova E.A., Epanchintseva A.V., Pyshnyi D.V., Pyshnaya I.A.

Applied Sciences (Basel). 2023. V. 13. P. 7324. DOI: 10.3390/app13127324

1. Dataset for Spectroscopic, Structural and Dynamic Analysis of Human Fe(II)/2OG-Dependent Dioxygenase ALKBH3. Kanazhevskaya L.Y., Gorbunov A.A., Zhdanova P.V., Koval V.V. Data. 2023. V. 8. P. 57. DOI: 10.3390/data8030057
2. Analysis of Proteins and Peptides of Highly Purified CD9+ and CD63+ Horse Milk Exosomes Isolated by Affinity Chromatography. Sedykh S.E., Purvinsh L.V., Burkova E.E., Dmitrenok P.S., Ryabchikova E.I., Nevinsky G.A. Int. J. Mol. Sci. 2022. V. 23. P. 16106. 10.3390/ijms232416106
3. Chemical Modifications Influence the Number of siRNA Molecules Adsorbed on Gold Nanoparticles and the Efficiency of Downregulation of a Target Protein. Epanchintseva A.V., Poletaeva Y., Dome A.S., Dovydenko I.S., Pyshnaya I.A., Ryabchikova E.I. Nanomaterials. 2022. V. 12. P. 4450. DOI: 10.3390/nano12244450
4. Dynamics and Conformational Changes in Human NEIL2 DNA Glycosylase Analyzed by Hydrogen/Deuterium Exchange Mass Spectrometry. Zhdanova P.V., Chernonosov A.A., Zharkov D.O., Koval V.V. J. Mol. Biol. 2022. P. 167334. DOI: 1016/j.jmb.2021.167334
5. Dataset for dynamics and conformational changes in human NEIL2 protein analyzed by integrative structural biology approach. Zhdanova P.V., Ishchenko A.A., Chernonosov A.A., Zharkov D.O., Koval V.V. Data in Brief. 2022. V. 40. P. 107760. DOI: 10.1016/j.dib.2021.107760
6. obing the Dynamics of Streptococcus pyogenes Cas9 Endonuclease Bound to the sgRNA Complex Using Hydrogen-Deuterium Exchange Mass Spectrometry. Zhdanova P.V., Chernonosov A.A., Prokhorova D.V., Stepanov G.A., Kanazhevskaya L.Y., Koval V.V. Int. J. Mol. Sci. 2022. V. 23. P. 1129. DOI: 10.3390/ijms23031129
7. Structural features of DNA polymerases β and λ in complex with benzo[a]pyrene-adducted DNA cause a difference in lesion tolerance. Rechkunova N.I., Zhdanova P.V., Lebedeva N.A., Maltseva E.A., Koval V.V., Lavrik O.I. DNA Repair. 2022. V. 116. P. 103353. DOI: 10.1016/j.dnarep.2022.103353
8. Thermodynamic Swings: How Ideal Complex of Cas9-RNA/DNA Forms. Zhdanova P.V., Lomzov A.A., Prokhorova D.V., Stepanov G.A., Chernonosov A.A., Koval V.V. Int. J. Mol. Sci. 2022. V. 23. N 16. P. 8891. DOI: 10.3390/ijms23168891
9. Structure- and Content-Dependent Efficiency of Cas9-Assisted DNA Cleavage in Genome-Editing Systems. Baranova S.V., Zhdanova P.V., Lomzov A.A., Koval V.V., Chernonosov A.A. Int. J. Mol. Sci. 2022. V. 23. N 22. P. 13889. DOI: 10.3390/ijms232213889
10. New p35 (H3L) Epitope Involved in Vaccinia Virus Neutralization and Its Deimmunization. Khlusevich Y.A., Matveev A.L., Emelyanova L., Goncharova E.P., Golosova N., Pereverzev I.M., Tikunova N.V. Viruses. 2022. V. 14. P. 1224. DOI: 10.3390/v14061224
11. Analysis of peptides and small proteins in preparations of horse milk exosomes, purified on anti-CD81-Sepharose. Sedykh S.E., Purvinish L.V., Burkova E.E., Dmitrenok P.S., Vlassov V.V., Ryabchikova E.I., Nevinsky G.A. Int. Dairy Journal. 2021. V. 117. P. 104994. DOI: 10.1016/j.idairyj.2021.104994
12. Human Placenta Exosomes: Biogenesis, Isolation, Composition, and Prospects for Use in Diagnostics. Burkova E.E., Sedykh S.E., Nevinsky G.A. Int. J. Mol. Sci. 2021. V. 22. N 4. P. 2158. DOI: 10.3390/ijms22042158
13. Sea urchins proteins, enzymes, their complexes, and functioning. Nevinsky G.A., Soboleva S.E., Menzorova N.I., Burkova E.E., Seytkalieva A.V., Dmitrenok P.S. Biochemistry & Molecular Biology Journal. 2021. V. 7. N 4.16. DOI: 10.36648/2471-8084.21.7.105
14. Lipophilic conjugates for carrier-free delivery of RNA importable into human mitochondria. Dovydenko I.S., Meschaninova M.I., Heckel A.-M., Venyaminova A.G., Entelis N. Methods in Molecular Biology. 2021. V. 2277. Chapter 4. P. 1-27. DOI: 10.1007/978-1-0716-1270-5_4
15. An Influence of Modification with Phosphoryl Guanidine Combined with a 2 0 -O-Methyl or 20 -Fluoro Group on the Small-Interfering-RNA Effect. Pavlova A.S., Yakovleva K.I., Epanchintseva A.V., Kupryushkin M.S., Pyshnaya I.A., Pyshnyi D.V., Ryabchikova E.I., Dovydenko I.S. Int. J. Mol. Sci. 2021. V. 22. P. 9784. DOI: 10.3390/ijms22189784
16. A Lipid-Coated Nanoconstruct Composed of Gold Nanoparticles Noncovalently Coated with Small Interfering RNA: Preparation, Purification and Characterization. Epanchintseva A.V., Poletaeva Y., Dovydenko I.S., Chelobanov B.P., Pyshnyi D.V., Ryabchikova E.I., Pyshnaya I.A. Nanomaterials. 2021. V. 11. P. 2775 DOI: 10.3390/nano11112775
17. Effect of Fluorescent Labels on DNA Affinity for Gold Nanoparticles. Epanchintseva A.V., Gorbunova E.A., Ryabchikova E.I., Pyshnaya I.A., Pyshnyi D.V. Nanomaterials. 2021. V. 11. N 5. P. 1178. DOI: 10.3390/nano11051178
18. Human NEIL2 protein structure obtained with combination of computer modeling approaches and HDX-MS technique. Zhdanova P.V., Brier S., Chernonosov A.A., Koval V.V. Febs Open Bio. 2021. V. 11. S. 1. P. 235. DOI: 10.1002/2211-5463.13205 (тезисы конференции)
19. A structural mechanism of DNA polymerase lambda action that promotes error-free bypass of bulky modifications in DNA. Zhdanova P.V., Lomzov A.A., Rechkunova N.I., Koval V.V. Febs Open Bio. 2021. V. 11. S. 1. P. 180. DOI: 10.1002/2211-5463.13205 (тезисы конференции)
20. Structural features of Cas9 protein complex with RNA-DNA duplex based on the HDX-MS technique. Chernonosov A.A., Zhdanova P.V., Stepanov G.A., Koval V.V. Febs Open Bio. 2021. V. 11. S. 1. P. 234. DOI: 10.1002/2211-5463.13205 (тезисы конференции)
21. Study of milk exosome nucleic acids. Kuleshova A.E., Purvinsh L.V., Burkova E.E., Sedykh S.E., Nevinsky G.A. Febs Open Bio. 2021. V. 11. S. 1. P. 121. DOI: 10.1002/2211-5463.13205 (тезисы конференции)