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Draft:Mikhail Kudryashev

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  • Comment: He has certainly made a good start to his career. However, he needs a significantly stronger publication record and major awards to indicate that his peers find him notable. Too soon, it will be 5 years or so before he meets the academic notability criteria. Ldm1954 (talk) 13:41, 25 August 2024 (UTC)


Mikhail Kudryashev
Prof. Dr.
Born
Moscow, Russia
EducationPhD, Professor
Alma materSiberian Federal University (Diploma), University of Heidelberg (PhD)
Scientific career
FieldsCryo-EM, Biophysics, Membrane protein, Structural Biology, Computational Biology
InstitutionsMax Delbrück Center for Molecular Medicine in the Helmholtz Association, Charité
Websitewww.mdc-berlin.de/kudryashev#t-profil

Misha (Mikhail) Kudryashev (Russian - Михаил Александрович Кудряшев, born in the former USSR in Moscow), is a scientist, biophysisist and a structural biologist. Currently is a Group Leader at the Max Delbruck Center for Molecular Medicine and a Professor at Charité – Universitätsmedizin, Berlin.

Early life and education

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Misha was born in the 1980s in Moscow in a family of Soviet chemistry scientists (Nadezhda Kudryasheva and Aleksandr Kudryashev), who were graduating from Moscow State University. At the age of four, his family moved to Krasnoyarsk for their academic career. His childhood in Krasnoyarsk was filled with basketball, chess, being part of a computer science club and taking care of his younger sister Galina Kudryasheva.

After finishing high school №41 (Currently Gymnasium №13.[1]) in Akademgorodok, Misha enrolled at Siberian Federal University's (former Krasnoyarsk State University) Faculty of Physics, Department of Biophysics. He graduated with honors in 2005.

Career

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From 2005 to 2009, Misha worked on his PhD thesis at the University of Heidelberg, within the Parasitology Unit at the Center for Infectious Diseases in the laboratory of Professor Friedrich Frischknecht,[2] the research group investigates the mechanisms by which malaria parasites navigate from mosquitoes to human hosts. Misha Kudryashev developed image analysis tools for malaria drug screening[3] and visualized the architecture of parasites using cryo-electron microscopy[4][5] in collaboration with the department of Professor Wolfgang Baumeister.

From 2009 to 2015, Dr. Kudryashev was a Postdoctoral Researcher at the Biozentrum of the University of Basel, in the laboratories of Professors Henning Stahlberg[6] and Marek Basler and studied bacterial secretion systems[7][8].

In 2015, Dr. Kudryashev won the prestigious Sofia Kovalevskaya Award from the Alexander von Humboldt Foundation[9]. Subsequently, he established his own research group at the Max Planck Institute of Biophysics and the Buchmann Institute for Molecular Life Sciences at Goethe University in Frankfurt am Main focussing on structure and function of ion channels [10][11] and other membrane proteins, such as a malaria merozoite surface protein MSP1[12]

Since 2021, Dr. Kudryashev leads the "In situ Structural Biology" lab at Berlin's Max Delbrück Center for Molecular Medicine within the Helmholtz Society, continuing his investigations into the structure and activation of ion channels. In 2022, in recognition of his expertise, he was appointed as a W2 Professor at Charité – Universitätsmedizin, Berlin[13]. Kudryashev and his team work in the field of structural biology using cryo electron microscopy and computer science. The Kudryashev team developed TomoBEAR[14], a versatile pipeline for cryo-electron tomographic data processing and preliminary subtomogram averaging (StA), based on the best practices. The Kudryashev group applies the methods on a wide range of membrane protein systems[15].

Research[16]

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The Kudryashev research group aims at understanding the mechanisms of membrane proteins and their complexes using cryo-electron microscopy[17]. They focus on understanding how these proteins undergo structural changes in response to external stimuli, particularly in ion channels, which play crucial roles in cell signaling and multiple types of disease. The Kudryashev group utilize two cryo-EM methods: single-particle cryo electron microscopy[18], which involves purifying proteins and imaging them in 2D to determine 3D structures, and cryo-electron tomography[19][20], which allows for 3D imaging of various biological entities without purification. Their work has uncovered insights into protein functionality, such as the activation of the serotonin receptor 5-HT3 and the structure of malaria parasite protein MSP1.

However, extracting protein structures from cryo-electron tomograms poses significant challenges due to their size and resolution limitations. To overcome this, Kudryashev's team develops tools leveraging high-performance computing and neural networks to streamline structural determination processes[21]. This approach not only enhances efficiency but also allows researchers to focus on addressing scientific questions and achieving higher resolutions. Ultimately this in situ structural biology approach enables understandings structure and function of biomolecules in fine details inside cells.

Awards

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Mikhail Kudryashev received several prestigious academic awards:

Selected publications[23]

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  • Kudryashev, Mikhail; Wang, Ray Yu-Ruei; Brackmann, Maximilian; Scherer, Sebastian; Maier, Timm; Baker, David; DiMaio, Frank; Stahlberg, Henning; Egelman, Edward H.; Basler, Marek (26 February 2015). "Structure of the Type VI Secretion System Contractile Sheath". Cell. 160 (5): 952–962. doi:10.1016/j.cell.2015.01.037. ISSN 0092-8674. PMC 4359589. PMID 25723169.
  • Zhang, Yingyi; Dijkman, Patricia M.; Zou, Rongfeng; Zandl-Lang, Martina; Sanchez, Ricardo M.; Eckhardt-Strelau, Luise; Köfeler, Harald; Vogel, Horst; Yuan, Shuguang; Kudryashev, Mikhail (16 February 2021). "Asymmetric opening of the homopentameric 5-HT3A serotonin receptor in lipid bilayers". Nature Communications. 12 (1): 1074. doi:10.1038/s41467-021-21016-7. ISSN 2041-1723. PMC 7887223. PMID 33594077.
  • Sanchez, Ricardo M.; Zhang, Yingyi; Chen, Wenbo; Dietrich, Lea; Kudryashev, Mikhail (24 July 2020). "Subnanometer-resolution structure determination in situ by hybrid subtomogram averaging - single particle cryo-EM". Nature Communications. 11 (1): 3709. Bibcode:2020NatCo..11.3709S. doi:10.1038/s41467-020-17466-0. ISSN 2041-1723. PMC 7381653. PMID 32709843.
  • Dijkman, Patricia M.; Marzluf, Tanja; Zhang, Yingyi; Chang, Shih-Ying Scott; Helm, Dominic; Lanzer, Michael; Bujard, Hermann; Kudryashev, Mikhail (2 June 2021). "Structure of the merozoite surface protein 1 from Plasmodium falciparum". Science Advances. 7 (23): eabg0465. Bibcode:2021SciA....7..465D. doi:10.1126/sciadv.abg0465. ISSN 2375-2548. PMC 11210306. PMID 34078606.
  • Introini B, Chu  W, Chu X, Zhang Y, Alves AC, Eckhardt-Strelau E, Golusik S, Tol M, Vogel H, Yuan S, Kudryashev M, Structure of Tetrameric Forms of the Serotonin-gated 5-HT3A Receptor Ion Channel,  EMBO Journal,  2024, 43: 4451 - 4471, doi: 10.1038/s44318-024-00191-5PMID: 39232129

Full list of publications can be found on Google Scholar[23].

References

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  1. ^ "Школа - Главная страница". krs-gimnazy13.gosuslugi.ru. Retrieved 8 August 2024.
  2. ^ "Universitätsklinikum Heidelberg: Frischknecht Lab". www.klinikum.uni-heidelberg.de. Retrieved 20 May 2024.
  3. ^ Hegge, Stephan; Kudryashev, Mikhail; Smith, Ashley; Frischknecht, Friedrich (June 2009). "Automated classification of Plasmodium sporozoite movement patterns reveals a shift towards productive motility during salivary gland infection". Biotechnology Journal. 4 (6): 903–913. doi:10.1002/biot.200900007. ISSN 1860-6768. PMID 19455538.
  4. ^ Kudryashev, Mikhail; Lepper, Simone; Stanway, Rebecca; Bohn, Stefan; Baumeister, Wolfgang; Cyrklaff, Marek; Frischknecht, Friedrich (March 2010). "Positioning of large organelles by a membrane- associated cytoskeleton in Plasmodium sporozoites". Cellular Microbiology. 12 (3): 362–371. doi:10.1111/j.1462-5822.2009.01399.x. PMID 19863555.
  5. ^ Kudryashev, Mikhail; Münter, Sylvia; Lemgruber, Leandro; Montagna, Georgina; Stahlberg, Henning; Matuschewski, Kai; Meissner, Markus; Cyrklaff, Marek; Frischknecht, Friedrich (November 2012). "Structural basis for chirality and directional motility of Plasmodium sporozoites: Chirality of Plasmodium sporozoites". Cellular Microbiology. 14 (11): 1757–1768. doi:10.1111/j.1462-5822.2012.01836.x. PMC 4116596. PMID 22776715.
  6. ^ "Alumni | LBEM". www.lbem.ch. Retrieved 8 June 2024.
  7. ^ Kudryashev, Mikhail; Wang, Ray Yu-Ruei; Brackmann, Maximilian; Scherer, Sebastian; Maier, Timm; Baker, David; DiMaio, Frank; Stahlberg, Henning; Egelman, Edward H.; Basler, Marek (February 2015). "Structure of the Type VI Secretion System Contractile Sheath". Cell. 160 (5): 952–962. doi:10.1016/j.cell.2015.01.037. PMC 4359589. PMID 25723169.
  8. ^ Kudryashev, Mikhail; Stenta, Marco; Schmelz, Stefan; Amstutz, Marlise; Wiesand, Ulrich; Castaño-Díez, Daniel; Degiacomi, Matteo T; Münnich, Stefan; Bleck, Christopher KE; Kowal, Julia; Diepold, Andreas; Heinz, Dirk W; Dal Peraro, Matteo; Cornelis, Guy R; Stahlberg, Henning (30 July 2013). "In situ structural analysis of the Yersinia enterocolitica injectisome". eLife. 2: e00792. doi:10.7554/eLife.00792. ISSN 2050-084X. PMC 3728920. PMID 23908767.
  9. ^ a b "Sofja Kovalevskaja Award Winners 2015". www.humboldt-foundation.de. Retrieved 21 May 2024.
  10. ^ Zhang, Yingyi; Dijkman, Patricia M.; Zou, Rongfeng; Zandl-Lang, Martina; Sanchez, Ricardo M.; Eckhardt-Strelau, Luise; Köfeler, Harald; Vogel, Horst; Yuan, Shuguang; Kudryashev, Mikhail (16 February 2021). "Asymmetric opening of the homopentameric 5-HT3A serotonin receptor in lipid bilayers". Nature Communications. 12 (1): 1074. doi:10.1038/s41467-021-21016-7. ISSN 2041-1723. PMC 7887223. PMID 33594077.
  11. ^ Kudryashev, Mikhail; Castaño-Díez, Daniel; Deluz, Cédric; Hassaine, Gherici; Grasso, Luigino; Graf-Meyer, Alexandra; Vogel, Horst; Stahlberg, Henning (January 2016). "The Structure of the Mouse Serotonin 5-HT 3 Receptor in Lipid Vesicles". Structure. 24 (1): 165–170. doi:10.1016/j.str.2015.11.004. PMID 26724993.
  12. ^ Dijkman, Patricia M.; Marzluf, Tanja; Zhang, Yingyi; Chang, Shih-Ying Scott; Helm, Dominic; Lanzer, Michael; Bujard, Hermann; Kudryashev, Mikhail (4 June 2021). "Structure of the merozoite surface protein 1 from Plasmodium falciparum". Science Advances. 7 (23). Bibcode:2021SciA....7..465D. doi:10.1126/sciadv.abg0465. ISSN 2375-2548. PMC 11210306. PMID 34078606.
  13. ^ "Mikhail Kudryashev takes up a W2-Professorship". www.mdc-berlin.de. 1 August 2024. Retrieved 8 August 2024.
  14. ^ Balyschew, Nikita; Yushkevich, Artsemi; Mikirtumov, Vasilii; Sanchez, Ricardo M.; Sprink, Thiemo; Kudryashev, Misha (August 2023), "Streamlined Structure Determination by Cryo-Electron Tomography and Subtomogram Averaging using TomoBEAR", Nature Communications, 14 (1): 6543, doi:10.1101/2023.01.10.523437, PMC 10582028, PMID 37848413, retrieved 20 May 2024
  15. ^ Kravcenko, Uljana; Ruwolt, Max; Kroll, Jana; Yushkevich, Artsemi; Zenkner, Martina; Ruta, Julia; Lotfy, Rowaa; Wanker, Erich E.; Rosenmund, Christian (13 April 2024), Molecular architecture of synaptic vesicles, doi:10.1101/2024.04.11.588828, retrieved 8 August 2024
  16. ^ "Kudryashev Lab". www.mdc-berlin.de. 26 January 2024. Retrieved 20 May 2024.
  17. ^ "Misha Kudryashev". scholar.google.com. Retrieved 8 August 2024.
  18. ^ Doerr, Allison (January 2016). "Single-particle cryo-electron microscopy". Nature Methods. 13 (1): 23. doi:10.1038/nmeth.3700. ISSN 1548-7105. PMID 27110631.
  19. ^ Turk, Martin; Baumeister, Wolfgang (October 2020). "The promise and the challenges of cryo-electron tomography". FEBS Letters. 594 (20): 3243–3261. doi:10.1002/1873-3468.13948. ISSN 1873-3468. PMID 33020915.
  20. ^ Leigh, Kendra E.; Navarro, Paula P.; Scaramuzza, Stefano; Chen, Wenbo; Zhang, Yingyi; Castaño-Díez, Daniel; Kudryashev, Misha (2019). "Subtomogram averaging from cryo-electron tomograms". Three-Dimensional Electron Microscopy. Methods in Cell Biology. Vol. 152. pp. 217–259. doi:10.1016/bs.mcb.2019.04.003. ISBN 978-0-12-817018-2. ISSN 0091-679X. PMID 31326022.
  21. ^ Balyschew, Nikita; Yushkevich, Artsemi; Mikirtumov, Vasilii; Sanchez, Ricardo M.; Sprink, Thiemo; Kudryashev, Mikhail (17 October 2023). "Streamlined structure determination by cryo-electron tomography and subtomogram averaging using TomoBEAR". Nature Communications. 14 (1): 6543. Bibcode:2023NatCo..14.6543B. doi:10.1038/s41467-023-42085-w. ISSN 2041-1723. PMC 10582028. PMID 37848413.
  22. ^ "DFG - GEPRIS - In situ Strukturbiologie von Membranproteinkomplexen". gepris-extern.dfg.de. Retrieved 19 November 2024.
  23. ^ a b "Misha Kudryashev". scholar.google.com. Retrieved 24 May 2024.
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