Category Archives: Hardware issues

Leica SPE2 40x HCX oil objective defect

The 40x oil on the Leica SPE-II CLSM showed severe chromatic aberration in Z for UV fluorescence. The objective is removed from the system and its aberration is being validated on another Leica machine in the UU campus. We probably need to repair or replace it. Our objectives are very costly and vulnerable, please handle them with care. A microcourse on how to prevent lens damage is given by dr. Waters (link). We notice a great number of scratches on the top beveled end of all lenses, please realize that these are often generated by collisions to the bottom edge of a sample holder. Please make sure lenses are lowered before rotating the turret and realize that moving the stage at some point will get the lens too close to the sample holder edge.

Centre for Cell Imaging safety instructions during the restart in the SARS-CoV-2 crisis

The CCI is re-opening for microscopy from the 19th of May 2020. We hope everybody is safe at home trying to get a work routine partly at home and for essential work in the lab.

Great initiatives to learn microscopy related (and unrelated)  courses are collected here ( and on ibiology or MOOCs, this may be the best time to upgrade knowledge on FIJI (or follow excellent bioimage analysis course by Robert Haasse), Python, R, machine learning, etc.

When you use our equipment, please use common sense to keep distance and apply to strict hygiene rules and follow the walking directions as outlined here. Book equipment on-line (we are improving the Reserve-a-Scope to better function from home). For now, please ask us to book equipment for you. Additionally, register at the building entrance for security staff to know who is in the building at any time.

We are going to implement video connections (via MS Teams to share screens or webcams) to train and assist people when problems occur, please contact us if you have smart ideas about this.

Since our environment is shared with many different people, take notice of extra precautions you must take.

  • For the microscopy spaces, check the on-line booking system and knock before entering rooms. Minimize the time to co-occupy a room or corridor. Work alone on a microscope, so co-operation (one doing microscope hardware, the other the PC) is not allowed. Likely, the share-screen approach can help provide an alternative way to work together. Workstations can be used but allow us to accommodate the maximum persons present in the offices
  • Bring Your Own box with items you need to work at the CCI. Apart from samples, these should include:
    1. Lab coat (we removed ours to prevent shared use)
    2. Gloves (if you need them to work in hood or add things, but do not use gloves to handle the equipment, they must remain clean at all times)
    3. EtOH 70% flasks as backup for the stocks we provide
  • Make sure to close the system(s) when you are done, likely you are the last to image any time of the day.
  • Take time to clean the workspace before and after your visit.
    1. Make sure surfaces are cleaned with 70% EtOH (bottles are present in the lab)
    2. Keyboards are wrapped in saran wrap, please clean them before and after use.
    3. Make sure microscope parts that people touch are cleaned with 70% EtOH wetted cloths.
        • Knobs on the scopes (focus, xy-table, condenser), remote joysticks, touch screens, etc
        • Oculars (clean the rubber rings, use the lens papers to clean the lens itself). Eyelashes frequently contact the lenses (we know because of mascara deposits), beware of this.
        • Microscopy table
        • Front end of the microscope body
        • Mouse, keyboard, on-off switch PC/monitors
  • Wash hands before and after your work, do not touch your face

Above all, stay safe and stay at home when possible, according to the government and UU guidelines.

Kindest regards,

CCI staff

Soledad appointed, Cryostate moved and supported by Judith in NG O.53

Soledad Ordoñez-Alvarez has been appointed for 2 days a week as a new staff member of the CCI. She specializes in instructing new users and adds expertise in image analyses to the CCI.

Unfortunately, Rob Bleumink had to retire. Since we miss his expertise in cryosectioning (as for countless other issues), we moved the cryostate to the Nieuw Gildestein building in room O.53 under the expert guidance of Judith Hendriks (department Dier in Wetenschap en Maatschappij She will take care of instructions and access to the cryostate. Please contact her to arrange this.

Joystick arrived for OMX V4

A newly developed joystick is installed on the OMX-V4, it allows navigating through a sample, mark and start acquisition/mosaic. It is a bit fast but with practice will help you find the best cells more efficiently.

Few new features are implemented during the last service visit (for example: laser power tuning), ask CCI staff to inform you before working on the machine. Again, be sure to keep the OTFs of April 2018 for the reconstructions.

Lens heater on NIKON A1R/STORM again failing

Unfortunately, the TOKAI hit lens heater is broken again. We are in contact with the Japanese supplier but it may take some time for it to be repaired (it needs to be sent to Japan). We have imaged live cells without the heater overnight without any problems, yet the temperature at the lens spot will be several degrees below the set temperature. Contact CCI staff if you intent to install the hairdryer for additional heating.