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Core Facility Cryo-Electron Microscopy and Tomography

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Head of Core Facility
Researcher ID
Phone: +420 54949 3893
E-mail:
Office:

Main Activity

Modern electron microscopy in structural biology on the cellular and molecular level is performed by cryo-electron microscopy and cryo-electron tomography. Cryo-electron tomography (cryo-ET) is the only method to address pleiomorphic structures like cells and organelles in a close to native state, while cryo-electron microscopy (cryo-EM) is applied to study single particles, primarily larger macromolecular complexes, which have been isolated and purified by biochemical methods. Both methodologies provide information on the cellular and molecular level and are therefore ideal for in-depth structural-functional analysis in combination with state of the art biochemical characterisation. The main activities of the Core Facility will be centred on application of cryo-EM and cryo-ET, implementations of the required image processing capabilities, and explorations of suitable cryo-preparation techniques.

Unique Features

The main objective of the Core Facility is to establish a world-class facility for cryo-electron microscopy accessible also for external users. The centre will provide access to EM instrumentation set up for high-throughput image acquisition for single particle analysis as well as for the acquisition of cellular cryo-electron tomograms. Moreover, it will provide assistance to external users/collaborators in image processing (e.g. 3-D reconstruction, denoising, pattern recognition, segmentation, visualization). External user projects will be selected by peer review on the basis of scientific merit, technical suitability and feasibility. The centre will also offer training enabling non-specialists to develop the necessary skills. The high-end instrumentation and the team of experienced researchers will ensure expert services, user training and the cost-effective use of resources.

Key Equipment (Core Facility fully operational from 2014)

  • TEM microscope FEI Titan Krios equipped with a direct detector and an energy filter with a 4k CCD camera

  • TEM microscope FEI Tecnai F20 equipped with a 4k CCD camera and two side-entry cryo-holders

  • SEM/FIB microscope FEI Versa3D equipped with a Quorum cryo stage and transfer station

  • Vitrification robot and a manual plunger

  • Carbon coater and plasma cleaner

The Core Facility is part of Czech National Affiliated Centre of INSTRUCT. 

All CEITEC core facilities are available to external users (academia and companies). Czech and international researchers from universities and research institutes interested in accessing core facilities can benefit from support of research infrastructure CIISB, funded by the Ministry of Education, Youth and Sports of the Czech Republic. International researchers can also benefit from support of Project iNext.

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list / cards

Name and position

E-mail

Phone

Jiří Nováček, Ph.D.
Head of Core Facility
+420 54949 3893
Miroslav Peterek
Specialist
+420 54949 7578
Tanvir Shaikh
Researcher
+420 54949 7577
Miroslav Jurásek
PhD student
+420 54949 2524
Lukáš Sukeník
PhD student
+420 54949 2524
Michal Babiak
Specialist
+420 54949 3431

SELECTED PUBLICATIONS

2017

  • FIALA, T; LUDVIKOVA, L; HEGER, D; SVEC, J; SLANINA, T; VETRAKOVA, L; BABIAK, M; NECAS, M; KULHANEK, P; KLAN, P; SINDELAR, V, 2017:Bambusuril as a One-Electron Donor for Photoinduced Electron Transfer to Methyl Viologen in Mixed Crystals. JOURNAL OF THE AMERICAN CHEMICAL SOCIETY 139 (7), p. 2597 - 2603.
  • HLAVACEK, A; PETEREK, M; FARKA, Z; MICKERT, MJ; PRECHTL, L; KNOPP, D; GORRIS, HH, 2017:Rapid single-step upconversion-linked immunosorbent assay for diclofenac. MICROCHIMICA ACTA 184 (10), p. 4159 - 4165.
  • HUTER, P; ARENZ, S; BOCK, LV; GRAF, M; FRISTER, JO; HEUER, A; PEIL, L; STAROSTA, AL; WOHLGEMUTH, I; PESKE, F; NOVACEK, J; BERNINGHAUSEN, O; GRUBMULLER, H; TENSON, T; BECKMANN, R; RODNINA, MV; VAIANA, AC; WILSON, DN, 2017:Structural Basis for Polyproline-Mediated Ribosome Stalling and Rescue by the Translation Elongation Factor EF-P. MOLECULAR CELL 68 (3), p. 515 - +.
  • CHAMRADOVA, I; VOJTOVA, L; CASTKOVA, K; DIVIS, P; PETEREK, M; JANCAR, J, 2017:The effect of hydroxyapatite particle size on viscoelastic properties and calcium release from a thermosensitive triblock copolymer. COLLOID POLYM SCI 295 (1), p. 107 - 115.
  • JURASEK, M; VACHA, R, 2017:Self-assembled clusters of patchy rod-like molecules. SOFT MATTER 13 (41), p. 7492 - 7497.
  • PEKARIK, V; PESKOVA, M; GURAN, R; NOVACEK, J; HEGER, Z; TRIPSIANES, K; KUMAR, J; ADAM, V, 2017:Visualization of stable ferritin complexes with palladium, rhodium and iridium nanoparticles detected by their catalytic activity in native polyacrylamide gels. DALTON TRANSACTIONS 46 (40), p. 13690 - 13694.
  • SKUBNIK, K; NOVACEK, J; FUZIK, T; PRIDAL, A; PAXTON, RJ; PLEVKA, P, 2017:Structure of deformed wing virus, a major honey bee pathogen. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA 114 (12), p. 3210 - 3215.
  • STYSKALIK, A; BABIAK, M; MACHAC, P; RELICHOVA, B; PINKAS, J, 2017:New Adamantane-like Silicophosphate Cage and Its Reactivity toward Tris(pentafluorophenyl)borane. INORGANIC CHEMISTRY 56 (17), p. 10699 - 10705.

2016

  • AMARO, M; SACHL, R; AYDOGAN, G; MIKHALYOV, I; VACHA, R; HOF, M, 2016:The role of ganglioside GM1 and sphingomyelin in the oligomerisation of beta-amyloid at physiological conditions: a single molecule study. FEBS JOURNAL 283 , p. 71 - 71.
  • AMARO, M; SACHL, R; AYDOGAN, G; MIKHALYOV, II; VACHA, R; HOF, M, 2016:GM(1) Ganglioside Inhibits beta-Amyloid Oligomerization Induced by Sphingomyelin. ANGEWANDTE CHEMIE-INTERNATIONAL EDITION 55 (32), p. 9411 - 9415.
  • CUNDERLOVA, V; HLAVACEK, A; HORNAKOVA, V; PETEREK, M; NEMECEK, D; HAMPL, A; EYER, L; SKLADAL, P, 2016:Catalytic nanocrystalline coordination polymers as an efficient peroxidase mimic for labeling and optical immunoassays. MICROCHIMICA ACTA 183 (2), p. 651 - 658.
  • GRAF M; ARENZ S; HUTER P; DÖNHÖFER A; NOVÁČEK J; WILSON DN, 2016:Cryo-EM structure of the spinach chloroplast ribosome reveals the location of plastid-specific ribosomal proteins and extensions. NUCLEIC ACIDS RESEARCH , p. [Epub ahead of print] - .
  • KUBICEK, K; KREJCIKOVA, M; BRAZDA, P; SMIRAKOVA, E; NOVACEK, J; CRAMER, P; STEFL, R, 2016:What are the key aspects of interaction between RNA polymerase II C-terminal domain phosphorylated on tyrosine-1 and the elongation factors. FEBS JOURNAL 283 , p. 21 - 21.
  • MULLAPUDI E; NOVÁČEK J; PÁLKOVÁ L; KULICH P; LINDBERG AM; VAN KUPPEVELD FJ; PLEVKA P, 2016:Structure and genome release mechanism of human cardiovirus Saffold virus-3. JOURNAL OF VIROLOGY , p. [Epub ahead of print] - .
  • MULLAPUDI, E; NOVACEK, J; PALKOVA, L; KULICH, P; LINDBERG, AM; VAN KUPPEVELD, FJM; PLEVKA, P, 2016:Structure and Genome Release Mechanism of the Human Cardiovirus Saffold Virus 3. JOURNAL OF VIROLOGY 90 (17), p. 7628 - 7639.
  • NOVÁČEK J; ŠIBOROVÁ M; BENEŠÍK M; PANTŮČEK R; DOŠKAŘ J; PLEVKA P, 2016:Structure and genome release of Twort-like Myoviridae phage with a double-layered baseplate. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA 113 (33), p. 9351 - 6.
  • RUBIO-MARRERO, EN; VINCELLI, G; JEFFRIES, CM; SHAIKH, TR; PAKOS, IS; RANAIVOSON, FM; VON DAAKE, S; DEMELER, B; DE JACO, A; PERKINS, G; ELLISMAN, MH; TREWHELLA, J; COMOLETTI, D, 2016:Structural Characterization of the Extracellular Domain of CASPR2 and Insights into Its Association with the Novel Ligand Contactin1. JOURNAL OF BIOLOGICAL CHEMISTRY 291 (11), p. 5788 - 5802.
  • SHASMAL, M; DEY, S; SHAIKH, TR; BHAKTA, S; SENGUPTA, J, 2016:E. coli metabolic protein aldehyde-alcohol dehydrogenase-E binds to the ribosome: a unique moonlighting action revealed. SCIENTIFIC REPORTS 6

PROJECTS

  • iNEXT - Infrastructure for NMR, EM and X-ray crystallography for translational research (653706), H2020 - Excellent science - Research Infrastructures, 2015 - 2019
  • CIISB4HEALTH - Česká infrastruktura pro integrativní strukturní biologii pro lidské zdraví (CZ.02.1.01/0.0/0.0/16_013/0001776), MEYS, 2017 - 2021
  • CIISB - Czech Infrastructure for Integrative Structural Biology (LM2015043), MEYS, 2016 - 2019
  • RIAT-CZ (ATCZ40), Interreg CZ-AT, 2016 - 2018
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Equipment Research group / CF Profile card
SEM/FIB microscope FEI Versa3D equipped with a Quorum cryo stage and transfer station SEM/FIB microscope FEI Versa3D equipped with a Quorum cryo stage and transfer station
CF: Core Facility Cryo-Electron Microscopy and Tomography
Transmission electron microscope 200 kV Transmission electron microscope 200 kV
CF: Core Facility Cryo-Electron Microscopy and Tomography
Transmission electron microscope 300 kV Transmission electron microscope 300 kV
CF: Core Facility Cryo-Electron Microscopy and Tomography
Vitrification robot Vitrification robot
CF: Core Facility Cryo-Electron Microscopy and Tomography
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