Peer-reviewed research papers:

27. Shemesh O.A.*, Linghu C.*, Piatkevich K.D.*, Goodwin D., Celiker O.T., Gritton H.J., Romano M.F., Gao R., Yu C.-C., Tseng H.-A., Bensussen S., Narayan S., C.-T. Yang C.-T., Freifeld L., Siciliano C.A., Gupta I., Wang J., Pak N., Yoon Y.-G., Ullmann J.F.P., Guner-Ataman B., Noamany H., Sheinkopf Z.R., Park W.M., Asano S., Keating A.E., Trimmer J.S., Reimer J., Tolias A., Bear M.F., Tye K.M., Han X., Ahrens M.B., Boyden E.S. Precision calcium imaging of dense neural populations via a cell body-targeted calcium indicator. Neuron, 2020 107 (3), 470-486. e11 (*equal contribution).

 

26. Fan L.Z., Kheifets S., Böhm U.L., Wu H., Piatkevich K.D., Xie M.E., Parot V., Ha Y., Evans K.E., Boyden E.S., Takesian A.E., Cohen A.E. All-optical electrophysiology reveals the role of lateral inhibition in sensory processing in cortical layer 1. Cell 2020, 180 (3), 521-535.

25. Subach O.M., Sotskov V.P., Plusnin V.V., Gruzdeva A.M., Barykina N.V., Ivashkina O.I., Anokhin K.V., Nikolaeva A.Y., Korzhenevskiy D.A., Vlaskina A.V., Lazarenko V.A., Boyko K.M., Rakitina T.V., Varizhuk A.M., Pozmogova G.E., Podgorny O.V., Piatkevich K.D., Boyden E.S., Subach F.V. Novel Genetically Encoded Bright Positive Calcium Indicator NCaMP7 Based on the mNeonGreen Fluorescent Protein. Int. J. Mol. Sci., 2020 21 (5), 1644.

 

24. Piatkevich K.D.*, Bensussen S.*, Tseng H.*, Shroff S.N., Lopez-Huerta V.G., Park D., Jung E.E., Shemesh O.A., Straub C., Gritton H.J., Romano M.F., Costa E., Sabatini B.L., Fu Z., Boyden E.S., Han X. Population imaging of neural activity in awake behaving mice. Nature, 2019 574 (7778), 413-417 (*equal contribution).

 

23. Subach O.M, Barykina N.V., Anokhin K.V., Piatkevich K.D., Subach F.V. Near-Infrared Genetically Encoded Positive Calcium Indicator Based on GAF-FP Bacterial Phytochrome. Int. J. Mol. Sci. 2019, 20(14), 3488.

22. Subach O.M., Kunitsyna T.A., Mineyeva O.A., Lazutkin A.A., Bezryadnov D.V., Barykina N.V., Piatkevich K.D., Ermakova Y.G., Bilan D.S., Belousov V.V., Anokhin K.V., Enikolopov G.N., Subach F.V. Slowly reducible genetically encoded green fluorescent indicator for in vivo and ex vivo visualization of hydrogen peroxide. Int. J. Mol. Sci. 2019, 20(13), 3138.

21. Qian Y.*, Piatkevich K.D.*, McLarney B.*, Abdelfattah A.S., Mehta S., Gottschalk S., Molina R.S., Zhang W., Drobizhev M., Hughes T.E., Zhang J., Schreiter E.R., Shoham S., Razansky D., Boyden E.S., Campbell R.E. A Genetically-Encoded Near-Infrared Fluorescent Calcium Ion Indicator. Nature Methods, 2019. 16 (2), 171 (*equal contribution).

20. Barykina N.V., Doronin D.A., Subach O.M., Sotskov V.P., Plusnin V.V., Ivleva O.A., Gruzdeva A.M., Kunitsyna T.A., Ivashkina O.I., Lazutkin A.A., Malyshev A.Y., Smirnov I.V., Varizhuk A.M., Pozmogova G.E., Piatkevich K.D., Anokhin K.V., Enikolopov G.N., Subach F.V. NTnC-like genetically encoded calcium indicator with a positive and enhanced response and fast kinetics. Scientific Reports, 8 (1), 15233.

19. Piatkevich K.D.*, Jung E.E.*, Straub C., Linghu C., Park D., Suk H.J., Hochbaum D.R., Goodwin D., Pnevmatikakis E., Pak N., Kawashima T., Yang C.-T., Rhoades J.L., Shemesh O., Asano S., Yoon Y.-G., Freifeld L., Saulnier J., Riegler C., Engert F., Hughes T., Drobizhev M., Szabo B., Ahrens M.B., Flavell S.W., Sabatini B.L., Boyden E.S. Robotic multidimensional directed evolution of proteins: development and application to fluorescent voltage reporters. Nature Chemical Biology, 2018. 14 (4), 352. (*equal contribution).

18. Doronin D., Barykina N., Subach O., Isaakova E., Varizhuk A., Pozmogova G., Piatkevich K., Anokhin K., Enikolopov G., Subach F. Genetically encoded calcium indicator with NTnC-like design and enhanced fluorescence contrast. BMC Biotechnology, 2018. 18 (1), 10.

17. Shemesh O.A., Tanese D., Zampini V., Linghu C., Piatkevich K., Ronzitti E., Papagiakoumou E., Boyden E.S., Emiliani V. Temporally precise single-cell resolution optogenetics. Nature Neuroscience. 2017. 20(12), 1796-1806.

16. Piatkevich K.D., Suk H.J., Suhasa B.K., Yoshida F., DeGennaro E.M., Drobizhev M., Hughes T.E., Desimone R., Boyden E.S., Verkhusha V.V. Near-infrared fluorescence proteins engineered from bacterial phytochromes in neuroimaging. Biophys. J. 2017. 113(10), 2299-2309.

15. Barykina N.V., Subach O.M., Piatkevich K.D., Jung E.E., Malyshev A.Y., Smirnov I.V., Bogorodskiy A.O., Borshchevskiy V.I., Varizhuk A.M., Pozmogova G.E., Boyden E.S., Anokhin K.V., Enikolopov G.N., Subach F.V. Green fluorescent genetically encoded calcium indicator based on calmodulin/M13-peptide from fungi. PLoS One. 2017; 12(8):e0183757.

14. Rowlands C.J., Park D., Bruns O.T., Piatkevich K.D., Fukumura D., Jain R.K., Bawendi M.G., Boyden E.S., So P.T.C. Wide-field three-photon excitation in biological samples. Light: Science & Applications. 2017, 6, e16255;

13. Barykina N.V., Subach O.M., Doronin D.A., Sotskov V.P., Roshchina M.A., Kunitsyna T.A., Malyshev A.Y., Smirnov I.V., Azieva A.M., Sokolov I.S., Piatkevich K.D., Burtsev M.S., Varizhuk A.M., Pozmogova G.E., Anokhin K.V., Subach F.V., Enikolopov G.N. A new design for a green calcium indicator with a smaller size and a reduced number of calcium-binding sites. Scientific Reports. 2016, 6:34447.

12. Konold P.E., Yoon E., Lee J., Allen S.L., Chapagain P.P., Gerstman B.S., Regmi C.K., Piatkevich K.D., Verkhusha V.V., Joo T., Jimenez R. Fluorescence from multiple chromophore hydrogen-bonding states in the far-red protein TagRFP675. J. Phys. Chem. Lett. 2016. 7, 3046-3051

11. Tillberg P.W., Chen F., Piatkevich K.D., Zhao Y., Yu C.C., English B.P., Gao L., Martorell A., Suk H.J., Yoshida F., DeGennaro E.M., Roossien D.H., Gong G., Seneviratne U., Tannenbaum S.R., Desimone R., Cai D., Boyden E.S. Protein-retention expansion microscopy of cells and tissues labeled using standard fluorescent proteins and antibodies. Nature Biotechnology. 2016. 34 (9), 987-992.

10. Randino C., Gelabert R., Moreno M., Lluch J.M., Piatkevich K.D. Molecular modeling of the pH influence in the geometry and the absorbance spectrum of near-infrared TagRFP675 fluorescent protein. Phys Chem Chem Phys. 2015. 17:29363.

9. Piatkevich K.D., English B.P., Malashkevich V.N., Xiao H., Almo S.C., Singer R.H., Verkhusha V.V. Photoswitchable red fluorescent protein with a large Stokes shift. Chem Biol. 2014. 21:1402.

8. Piatkevich K.D., Subach F.V., Verkhusha V.V. Far-red light photoactivatable near-infrared fluorescent proteins engineered from a bacterial phytochrome. Nature Communications. 2013. 4: 2153.

7. Piatkevich K.D., Malashkevich V.N., Morozova K.S., Nemkovich N.A., Almo S.C., Verkhusha V.V. An extended Stokes shift in fluorescent proteins: chromophore-protein interactions in the near-infrared TagRFP675 variant. Scientific Reports. 2013. 3:1847.

6. Filonov G.S., Piatkevich K.D., Ting L.M., Zhang J., Kim K., Verkhusha V.V. Bright and stable near-infrared fluorescent protein for in vivo imaging. Nature Biotechnology. 2011 29: 757-61.

5. Morozova K.S., Piatkevich K.D., Gould T.J., Zhang J., Bewersdorf J. and Verkhusha V.V. Far-red fluorescent protein excitable with red lasers for flow cytometry and superresolution STED nanoscopy. Biophys. J. 2010. 99: 13-15.

4. Piatkevich K.D., Malashkevich V.N., Almo S.C., Verkhusha V.V. Engineering ESPT pathways based on structural analysis of LSSmKate red fluorescent proteins with large Stokes shift. J Am Chem Soc. 2010. 132: 10762-10770.  

3. Subach O.M., Malashkevich V.N., Zencheck W.D., Morozova K.S., Piatkevich K.D., Almo S.C., and Verkhusha V.V. Structural characterization of acylimine-containing blue and red chromophores in mTagBFP and TagRFP fluorescent proteins. Chem. Biol. (Cell press). 2010. 17: 333-341.

2. Piatkevich K.D.*, Hulit J.*, Subach O.M., Wu B., Abdulla A., Segall J.E., Verkhusha V.V. Monomeric red fluorescent proteins with a large Stokes shift. Proc Natl Acad Sci USA. 2010. 107: 5369-5374 (*equal contribution).

1. Subach F.V., Subach O.M., Gundorov I.S., Morozova K.S., Piatkevich K.D., Cuervo A.M., Verkhusha V.V. Monomeric fluorescent timers that change color from blue to red report on cellular trafficking. Nature Chemical Biology. 2009. 5, 118-126.

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