Prague node

Advanced Light And Electron Microscopy


The Czech Advanced Light and Electron Microscopy Multi Modal Multi Sited Node in Prague offers a wide range of state-of-the-art light and electron microscopy equipment and techniques. The Node is also active in organizing training and courses focused on theoretical and practical aspects of basic and advanced microscopy techniques. Light microscopy instrumentation includes microscopy systems that range from routine fluorescence microscopes, confocal microscopes up to high-end super-resolution microscopy systems. In the area of electron microscopy, the Node provides expertise and cutting edge equipment for a broad range of biological sample preparation and ultrastructural imaging techniques, including cryo techniques, electron tomography, and electron energy filtering.

Specialties and expertise of the Node


The Advanced Light Microscopy (ALM) core facility at IMG CAS is focused on cutting-edge microscopy techniques particularly on time-gated STED microscopy. It provides strong support in image analysis and processing, more specifically in image reconstruction and deconvolution, image registration, volume reconstruction, image segmentation, tracking, colocalization analysis, analysis of photokinetic experiments, 3D visualization and mathematical modeling and simulations of biological processes. The Electron Microscopy (EM) core facility at IMG CAS has a long expertise in the development and optimization of sample preparation techniques for electron microscopy, e.g. development of a new system for simultaneous immunolabeling of multiple molecular targets, a special technique for combination of 3D pre-embedding immunolabeling and 2D on-section immunolabeling, a statistical tool for evaluation of clustering and colocalization of immunolabeling in EM. The Imaging core facility at BIOCEV focuses on fluorescence super-resolution imaging, functional imaging, two-photon imaging and scanning electron microscopy. The strength in image analysis is especially in fluorescence lifetime imaging data analysis and in spatio-temporal correlation techniques, for which unique data analysis modules were developed. Image analysis and stereology is an area of expertise of the IPHYS BioImaging Facility. It provides development of new methods and SW modules (in ImageJ, Amira or Ellipse SW environment) in the field of image processing and analysis, stereology and spatial statistics.

Offered Technologies:

  • Deconvolution widefield microscopy
  • Laser scanning confocal microscopy (LSCM)
  • Electron microscopy
  • Multiphoton microscopy systems
  • Total internal reflection fluorescence microscopy (TIRF)
  • Correlative light electron microscopy (CLEM)
  • Stimulated emission depletion microscopy (STED)
  • Stochastic optical reconstruction microscopy (STORM)
  • Photo activated localization microscopy (PALM)
  • Fluorescence-lifetime imaging microscopy (FLIM)
  • Fluorescence resonance energy transfer (FRET)
  • Fluorescence recovery after photobleaching (FRAP)
  • micro-PET/CT

Additional services offered by the Node

  • Instruments
  • Technical assistance to run instrument
  • Methodological setup (e.g. design of study protocol and standard operation procedures)
  • Training in infarstructure use
  • Probe preparation
  • Animal facilities
  • Wet lab space
  • Server Space
  • Data processing and analysis
  • Training workstations
  • Training seminar room
  • Housing facilities
  • Biobanking, biological material storage and processing

Instrument highlights


Leica TCS SP8 STED 3X microscope is state-of-the-art 3D time gated STED confocal imaging platform offering resolution up to 50nm in lateral and 130nm in axial direction. In EM, special features of the instruments are availability of the instruments for sample preparation by cryofixation and the microscope equipment allowing for electron tomography, cryomicroscopy and electron energy filtering.

Contact details


Pavel Hozák
Head of the IMG Microscopy Centre & Unit Biology of the Cell Nucleus & Assigned organizer of the Node



Aleš Benda
Head of the facility of Prague node, optical (fluorescence) microscopy