Laboratory of Bioenergetics

юрина Nadezhda P. Yurina
Professor, Dr.Sci. (Biology)
Head of Laboratory
INBI, build.1, room 351
Телефон +7 (495) 958-10-70


The interest of the Laboratory is focused on studying structure, functions and regulation of yeast mitochondria, as well as on elucidation of their role in general cellular metabolism and apoptosis and on mechanisms of photoprotection and thermostability of cyanobacterial photosystems.


The main achievements:

1. A concept was advanced on models of yeast energy metabolism and the “economic feasibility” of energy metabolism under growth limitations. Specific features of energization of yeast mitochondria have been revealed. For the first time established that yeast mitochondria isolated from obligate aerobes possess full-functional respiratory chain with all three point of energy conservation, the finely regulated system for Ca2+ for transport and the ATP-dependent K+-channel of “animal type” (inhibited by ATP). They are have lost Ca2+-dependent cyclosporine-sensitive nonspecific permeability transition (pore). Graded oxidative stress was found to induce fragmentation of mitochondria and apoptosis, the fragmentation of mitochondria can be prevented and reversed (shown for the first time) by mitochondria-targeted antioxidants.

2. A unique osmo-, salt- and pH-tolerant strain of Yarrowia lipolytica was isolated and used for the first examination of the Na+-coupled yeast phosphate transport system and its regulation.

3. Topography of the active center of dicarboxylate transporter of rat liver mitochondria was studied by using derivatives of malonic acid. A hypothesis was put forward explaining the mechanism of transporter functioning. A dicarboxylate transporter of the plasma membrane of Saccharomyces cerevisiae yeast was revealed in the first time.

4. We investigated the changes caused by the reorganization of photosynthetic apparatus during transition from state 2 to state 1. It was shown that two processes affect the PSII activity during changes of light conditions: (1) reversible inactivation of PSII, which is associated with the reduction of electron carriers on PSII acceptor side in the dark, and (2) PSII activation under low light related to the increase in the functional absorption cross-section at 590 nm.

5. The pathways of energy dissipation of the excessively absorbed energy in cyanobacteria in comparison with that in higher plants were studied. It was shown that long wavelength chlorophylls affect weakly energy equilibration within the heterogeneous PSI antenna, but they significantly delay energy trapping by P700.

6. The role of High light-inducing HliA/HliB stress proteins of cyanobacteria ( the evolutionary ancestor of plant light-harvesting proteins) in the photoprotection of photosynthetic apparatus was studied. The association of HliA/HliB proteins not only with PS1 trimers, but also with PS1 monomers is shown, which suggests a universal role of these proteins in the protection of the photosynthetic apparatus from excess light.

7. Mechanisms of thermostability of cyanobacterial photosystems. Our data suggest differences in the arrangement of α-helices in monomers and trimers of PSI. The α-helices in monomers are more susceptible to temperature elevation than the respective α-helices in trimers. Therefore we propose that oligomerization is one of strategies to increase thermostability of  PSI complexes. The trimerization of PSI monomers may induce structural changes that shield some parts of the PSI monomers which are sensitive to denaturation, thereby increasing the thermostability of PSI trimers.


Selected publications:

1.Tikhonova T.V., Slutsky A., Antipov A.N., Boyko K.M., Polyakov K.M.,. Sorokin D.Y., R.A. Zvyagilskaya, Popov V.O. (2006) Molecular and catalytic properties of a novel cytochrome c nitrite reductase from nitrate-reducing haloalkaliphilic sulfur-oxidizing bacterium Thioalkalivibrio nitratireducens. Biochim. Biophys. Acta., 1764(4):715-723.

2. K. M. Boyko,  K.M. Polyakov, T.V. Tikhonova, A. Slutsky, A.N. Antipov, R.A. Zvyagilskaya, G.P. Bourenkov, A.N. Popov, V.S. Lamzin, Popov VO. (2006) Crystallization and preliminary X-ray analysis of cytochrome c nitrite reductase from Thioalkalivibrio nitratireducens. Acta Crystallograph Sect F Struct Biol Cryst Commun., 62(3):215-217.

3. Polyakov K.M., Boyko K.M., Tikhonova T.V., Slutsky A., Antipov A.N., Zvyagilskaya R.A., Popov A.N., Bourenkov G.P., Lamzin V.S., Popov V.O. (2009) High-Resolution Structural Analysis of a Novel Octaheme Cytochrome c Nitrite Reductase from the Haloalkaliphilic Bacterium Thioalkalivibrio nitratireducens. J. Mol Biol., 389(5):846-62.

4. Kovaleva M.V., Sukhanova  E. I., Trendeleva T. A., Zyl’kova  M.V., Ural’skaya L.A., Popova K.M., Saris N.-E., Zvyagilskaya R.A. (2009) Induction of a non-specific permeability transition in mitochondria from Yarrowia lipolytica and Dipodascus (Endomyces) magnusii yeasts. J. Biomembr. Bioeng. 41(3):239-249.

5. Skulachev V.P., Antonenko Yu.N., Cherepanov D.A., Chernyak B.V., Khailova L.S., Korshunova  G.A., Lyamzaev K.G., Roginsky V.A., Rokitskaya T. I., Severin F.F., Severina I.I., Simonyan R.A., Skulachev M.V.,. Sumbatian N.V, Sukhanova E.I., Tashlitsky V.N., Trendeleva T.A., Vyssokikh M.Yu., Zvyagilskaya R.A. (2010) Prevention of cardiolipin oxidation and fatty acid cycling as two antioxidant mechanisms of cationic derivatives of plastoquinone (SkQs) (review). Biochim. Biophys. Acta, 1797 (6-7):878-889.

6. Aliverdieva D., Mamaev D., Snezhkova L., Sholtz C. (2012) Evaluation of molecularity of rate-limiting step of pore formation by antimicrobial peptides studied using mitochondria as a biosensor. Toxicol. in Vitro, 26: 939-949.

7. Trendeleva T., Sukhanova E., Ural’skaya L., Saris N.-E., Zvyagilskaya R. (2011) Mitochondria from Dipodascus (Endomyces) magnusii and Yarrowia lipolytica yeasts did not undergo a Ca2+-dependent permeability transition even under anaerobic conditions  J. Bienerg. Biomembr. 43 (6): 623-631.

8. Trendeleva T., Sukhanova E., Ural’skaya L., Saris N.-E., Zvyagilskaya R. (2011) Effect of prooxidants on yeast mitochondria  J. Bienerg. Biomembr. 43 (6): 633-644.

9. Chernyak B.V., Antonenko Yu. N.,  Domnina L.V., Ivanova O.Yu., Lyamzaev K.G., Pustovidko A.V., Rokitskaya T.I., Severina I.I., Simonyan R.A., Trendeleva T.A., Zvyagilskaya R.A. (2013) Novel penetrating cations for targeting mitochondria. Curr. Parm. Design., 19, 2795-2806.

10. Litvinchuk A.V., Sokolov S. S., Rogov A. G., Markova O.G., Knorre D.A., Severin F.F. (2013) Mitochondrially-encoded protein Var1 promotes the loss of respiratory function in yeast Saccharomyces cerevisiae under stressful conditions. Eur. J. Cell Biol., 92(4-5):169-174.

11. Severina I.I., Severin F.F., Korshunova G.A., Sumbatyan N.V., Ilyasova T.M., Simonyan R.A., Rogov A.G., Trendeleva T.A., Zvyagilskaya R.A., Dugina V.B., Domnina L.V., Fetisova E.K., Lyamzaev K.G., Vyssokikh M.Y., Chernyak B.V., Skulachev M.V., Skulachev V.P., Sadovnichii VA. (2013) In search of novel highly active mitochondria-targeted antioxidants: thymoquinone and its cationic derivatives. FEBS Lett., 587(13):2018-2024.

12. Trendeleva T.A., Sukhanova E.I., Rogov A.G., Zvyagilskaya R.A., Seveina I.I., Ilyasova T.M., Cherepanov D.A., Skulachev V.P. (2013) Role of charge screening and delocalization for lipophilic cation permeability of model and mitochondrial membranes. Mitochondrion. 13(5):500-506. doi: 10.1016/j.mito.2012.10.006.

13. Pustovidko A.V., Rokitskaya T.I., Severina I.I., Simonyan R.A., Trendeleva T.A., Lyamzaev K.G., Antonenko Y.N., Rogov A.G., Zvyagilskaya R.A., Skulachev V.P., Chernyak B.V. (2013) Derivatives of the cationic plant alkaloids berberine and palmatine amplify protonophorous activity of fatty acids in model membranes and mitochondria. Mitochondrion. 13(5):520-525. doi: 10.1016/j.mito.2012.09.006.

14. Khailova L.S., Silachev D.N., Rokitskaya T.I.. Avetisyan A.V., Lyamsaev K.G., Severina I.I., Ilyasova T.M., Gulyaev M.V., Dedukhova V.I., Trendeleva T.A., Plotnikov E.Y., Zvyagilskaya R.A., Chernyak B.V., Zorov D.B., Antonenko Y.N., Skulachev V.P. (2014) A short-chain alkyl derivative of Rhodamine 19 acts as a mild uncoupler of mitochondria and as a neuroprotector. Biochim. Biophys. Acta  (Bioenerg.). 1837:1739–1747. doi: 10.1016/j.bbabio.2014.07.006.

15. Schlodder E., Shubin V.V., El-Mohsnawy E., Röegner M., Karapetyan N.V. Steady-state and transient polarized absorption spectroscopy of photosytem I complexes from the cyanobacteria Arthrospiraplatensis and Thermosynechococcuselongatus. — Biochimica et Biophysica Acta — Bioenergetics, 2007, 1767:732-741 (DOI: 10.1016/j.bbabio.2007.01.013)

16. Rakhimberdieva M.G., Vavilin D.V., Vermaas W.F.J., Elanskaya I.V., Karapetyan N.V. Phycobilin/chlorophyll excitation equilibration upon carotenoid-induced non-photochemical quenching in phycobilisomes of the cyanobacterium Synechocystis sp. PCC 6803. — Biochimica et Biophysica Acta — Bioenergetics, 2007, 1767:757-765 (DOI: 10.1016/j.bbabio.2006.12.007)

17. Polyakov K.M., Boyko K.M., Tikhonova T.V., Slutsky A., Antipov A.N., Zvyagilskaya R.A., Popov A.N., Bourenkov G.P., Lamzin V.S., Popov V.O. High-resolution structural analysis of a novel octaheme cytochrome c nitrite reductase from the haloalkaliphilic bacterium Thioalkalivibrio nitratireducens. — Journal of Molecular Biology, 2009, 389(5):846-862 (DOI: 10.1016/j.jmb.2009.04.037)

18. Schlodder E., Hussels M., Cetin M., Karapetyan N.V., Brecht M. Fluorescence of the various red antenna states in photosytem I complexes from cyanobacteria is affected differently by the redox state of P700. — Biochimica et Biophysica Acta — Bioenergetics, 2011, 1807:1423-1431 (DOI: 10.1016/j.bbabio.2011.11.012)

19. Brecht M., Hussels M., Schlodder E., Karapetyan N.V. Red antenna states of photosystem I trimers from Arthrospira platensis revealed by single-molecule spectroscopy. — Biochimica et Biophysica Acta — Bioenergetics, 2012, 1817:445-452 (DOI: 10.1016/j.bbabio.2011.11.012)

20. Trendeleva T.A., Sukhanova E.I., Rogov A.G., Zvyagilskaya R.A., Seveina I.I., Ilyasova T.M., Cherepanov D.A., Skulachev V.P. Role of charge screening and delocalization for lipophilic cation permeability of model and mitochondrial membranes. — Mitochondrion, 2013, 13(5):500-506 (DOI: 10.1016/j.mito.2012.10.006)

21. Chankova S.G., Mitrovska Z., Miteva D., Oleskina Y.P., Yurina N.P. Heat shock protein HSP70B as a marker for genotype resistance to environmental stress in Chlorella species from contrasting habitats. — GENE, 2013, 516:184-189 (DOI: 10.1016/j.gene.2012.11.052)

22. Chankova S.G., Dimova E.G., Mitrovska Z., Miteva D., Mokerova D.V., Yonova P.A., Yurina. N.P. Antioxidant and HSP70B responses in Chlamydomonas reinhardtii genotypes with different resistance to oxidative stress. — Ecotoxicology and Environmental Safety, 2014, 101:131-137 (DOI: 10.1016/j.ecoenv.2013.11.015)

23. Schlodder E., Lendzian F., Meyer J., Cetin M., Brecht M., Renger T., Karapetyan N.V. Long-wavelength limit of photochemical energy conversion in Photosystem I. — Journal of the American Chemical Society, 2014, 136(10):3904-3918 (DOI: 10.1021/ja412375j)

24. Konrad A., Trost A.-L., Scandary S., Hussels M., Karapetyan N.V., Schlodder E., Brecht M. Manipulating the excitation transfer in Photosystem I by a Fabry-Perot metal resonator with optical subwavelength dimensions. — Physical Chemistry Chemical Physics, 2014, 16(13):6175-6181 (DOI: 10.1039/c3cp55195d)

25. Kuzminov F.I., Bolychevtseva Yu.V., Elanskaya I.V., Karapetyan N.V. Effect of APCD and APCF subunits depletion on phycobilisome fluorescence of the cyanobacterium Synechocystis PCC 6803. — Journal of Photochemistry and Photobiology B, 2014, 133:153-160 (DOI: 10.1016/j.jphotobiol.2014.03.012)

26. Kompanetz V., Shubin V., Terekhova I., Kotova E., Kozlovsky V., Novoderezhkin V., Chekalin S., Karapetyan N., Razjivin A. Red chlorophyll excitation dynamics in Arthrospira platensis photosystem I trimeric complexes as studied by femtosecond transient absorption spectroscopy. — FEBS Letters, 2014, 588(18):3441-3444 (DOI: 10.1016/j.febslet.2014.07.038)