BioOptics - Light Microscopy

"Learn to live with Uncertainty"

The BioOptics facility is dedicated to providing state-of-the art light microscopy equipment to MFPL researchers.The facility has been centralized in rooms of the VBC5-building. Currently, the following microscopes are available: two laser scanning confocals, a STED super-resolution microscope, two spinning disk units, a live-imaging station equipped for TIRF with full environmental control and microfluidics, two epifluorescence deconvolution microscopes and two high-content imaging stations. The facility management provides professional training and assists in experimental planning, technical setup, troubleshooting and image analysis.


Our Laser Capture Microdissection (LMD) and Laser Ablation Instrument moved to MFPL's Histology facility

(February 20th 2019). After 10 years of residence within the Biooptics facility the Leica LMD unit found a new home in the Histology facility of MFPL ( For any further information please do contact Irmgard Fischer (irmgard.fischer [AT] [DOT] at).

The new DELTAVISION "ULTRA" deconvolution microscopy system installed and ready for use

(November 20th 2018). The new deconvolution widefield fluorescence microscopy system release from GE -"Deltavision Ultra"- has been installed after thorough testing and is now ready for training and usage. It is a refurbished, technically upgraded version of our existing Deltavision microscope. The major new technical features include a new acquisition software (Acquire Ultra), a hardware autofocus, a fast and sensitive sCMOS camera, a 60 x silicone objective, a new stage to hold slides, dishes AND multi-well plates. Finally we have invested in a fully environmentrally controlled setup for live imaging approaches.

New Zeiss "Celldiscoverer 7" high content microscopy system installed and open for use

(July 25th 2018). Our new high-content system "Celldiscoverer" has been installed, successfully tested and is now available for usage. It represents an “all-in-a-box” configured system, dedicated for long-term and high-content imaging. The major new technical features include automatic detection of sample containers and measurement of specimen-specific physical parameters (RI, bottom composition and thickness). The latter are used to adjust auto-corrected objectives to allow optical optimization for the respective setup. An intricate focus detection hierarchy allows the user to programme easy to very complex imaging routines.

Location and Rooms

VBC5 - Structural and Computational Biology Dept., Level E1

Architectural plan

  • Office: room 1.618 (tel. ext. 61672)
  • Microscopes 1: room 1.223 (tel. ext. 61678)
  • Microscopes 2: room 1.320 (tel. ext. 61677)
  • Microscopes 3: room 1.318 (tel. ext. 61679)
  • Microscopes 4: room 1.723 (CIBIV; tel.ext. 61675)
  • Tissue Culture: room 1.219(tel.ext. 52247)
  • Image Processing workstations: MFPL main building, 6th floor, room 6.508.


E-mail: lightmicroscopy [AT] [DOT] at
Mobile numbers:
Josef Gotzmann: +43-664-8001635200
Thomas Peterbauer: +43-664-60277-52878

Available Equipment (room #)

Complementary Equipment

  • Two image processing workstations (room 6.508, MFPL main building) providing stand-alone microscope software (Olympus cellSens, ZEN 2012, Visiview) and professional software packages for deconvolution and 3/4D image processing (SVI Huygens, softWoRx suite)
  • HIVE acquisition server for remote saving of images (access instructions)
  • Zeiss Stereomicroscope Stemi2000 (transmitted/incident light; room 1.320)
  • Leica Stereomicroscope S6E (transmitted/incident light; room 1.318)
  • BSL2 Tissue Culture Hood (room 1.219)
  • BSL1 Tissue Culture (room 1.219, hood, microscope, incubator, freezer & fridge)


Potential trainees must

  • provide an organized experimental strategy to discuss with the facility staff
  • already have own samples for a specialized training session


  1. Fill in the "Light Microscopy Training Application" form here and send it via lightmicroscopy [AT] [DOT] at to organize a meeting with the facility staff. We then discuss most forward strategies and find the proper microscope(s) to be trained on.*
  2. Attend the "Introductory Lecture Biooptics" including laser safety instructions.**
  3. Organize a training unit with the facility staff  – training units will be split into "how to do" and "optimize my sample" sessions (on separate days).
  4. Fill in and sign the “Training Confirmation” form on usage of microscopes/user fee regulations (trainee and group leader) and bring it to your training session.
  5. Before you attend the sessions, please download our "General Administrative Rules" and read them thoroughly!

*Optional: facility personnel evaluates potential applicability with user specific samples, if selection of the proper microscope system remains unclear.

**1.) and 2.) may be switched.

Lectures always take place in the seminar rooms in VBC5, level E1 (Structural Biology Dept.). Lecture Dates are announced regularly. To register, login to the MFPL Intranet ⇒ "Booking System" ⇒ ”Lecture and Training Registration".

User Fee Strategy

MFPL users can access current prices via the intranet ("Booking System" ⇒ "Facility Infos"). External users in any case need to contact the head of facility, Josef Gotzmann, to get informed on conditions to use MFPL's Biooptics instrumentation.

In House Microscopes

Five microscope systems (one in each floor + teaching microscope) in the MFPL main building have been upgraded to state-of-the-art technology. They are fully motorized, host high-end CCD cameras and are fully equipped for fluorescence/brightfield imaging. Irmgard Fischer is the responsible person for these microscopes: she helps in training and troubleshooting and maintenance/service.

Irmgard Fischer; Facility Technician; Rooms 4.621/5.506; Tel. ext. 52866;

mobile:0660/7681381; Irmgard.fischer [AT] [DOT] at




Joachim Garbrecht, Harald Hornegger, Sebastien Herbert, Tanja Kaufmann, Josef Gotzmann, Kareem Elsayad and Dea Slade: "Simultaneous dual-channel imaging to quantify interdependent protein recruitment to laser- induced DNA damage sites." Nucleus (2018), 9(1), pp.474-491.

Gabriele Zaffagnini, Adriana Savova, Alberto Danieli, Julia Romanov, Shirley Tremel, Michael Ebner, Thomas Peterbauer, Martin Sztacho, Riccardo Trapannone, Abul K Tarafder, Carsten Sachse and Sascha Martens : "Phasing out the bad-How SQSTM1/p62 sequesters ubiquitinated proteins for degradation by autophagy." Autophagy (2018), 14(7), pp.1280-1282.

Gabriele Zaffagnini, Adriana Savova, Alberto Danieli, Julia Romanov, Shirley Tremel, Michael Ebner, Thomas Peterbauer, Martin Sztacho, Riccardo Trapannone, Abul K Tarafder, Carsten Sachse and Sascha Martens : "p62 filaments capture and present ubiquinated cargos for autophagy ." EMBO Journal (2018), 37(5), e98308.


Tanja Kaufmann, Irina Grishkovskaya, Anton A. Polyansky, Sebastian Kostrhon, Eva Kukolj, Karin M. Olek, Sebastien Herbert, Etienne Beltzung, Karl Mechtler, Thomas Peterbauer, Josef Gotzmann, Lijuan Zhang, Markus Hartl, Bojan Zagrovic, Kareem Elsayad, Kristina Djinovic-Carugo and Dea Slade: "A novel non-canonical PIP-box mediates PARG interaction with PCNA." Nucleic Acids Research (2017), 45(16), pp.9741–9759,

Facility Head


Josef Gotzmann Facility Manager
josef.gotzmann [AT] [DOT] at
Tel. +43-1-4277-61672



Thomas Peterbauer Technician
thomas.peterbauer [AT] [DOT] at
Tel. +43-1-4277-61676