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Newsletter Summer 2022

Focus on technologies

Vertical-stage microscope: Where plants feel well

Author: K. Malínská

Noninvasive in vivo imaging of living organisms, that is the trend in microscopy today. One of the most significant challenges in plant in vivo microscopy is the orientation of the sample. Most microscopes mount the specimen horizontally, while plants grow vertically. For this reason, the Imaging Facility of the Institute of Experimental Botany Czech Academy of Sciences (IFIEB) has installed a customized solution of a confocal microscope optimized for plant research.

Previously, when inspecting the root with a typical microscope, root attempted to bend downwards, but it was constrained by a slide. The plant was therefore permanently gravi-stimulated. This influenced the obtained data by possible unwanted artefacts and made some experiments on growing roots completely impossible. In 2019, inspired by IST Vienna, local representatives of the Zeiss company have turned their Zeiss LSM 880 with Airyscan detector on its side at a 90 degree angle to optimize it for plant research in the IFIEB. In this setup, vertical sample mounting preserves the natural direction of plant growth and enables long-term imaging on plants aquired with confocal or Airyscan resolution. In addition, the gravity vector can be fine-tuned by a rotary stage insert, which allows the application of the desired gravi-stimulus.

A long-term vertical-stage imaging opened up new challenges that needed to be addressed, including how to compensate for root growth outside of field of view. After initial tile scanning, root growth is now compensated by microscope stage movement, allowing time-lapse imaging in a single frame. In addition, plant leaves can be illuminated to preserve their photosynthetic activity. These two capabilities were introduced in IFIEB last year and they are still being improved. And who are our users? Our system is currently used to study processes of signal transduction and hormonal regulations during seed germination, root protophloem development or the impact of artificial plant root illumination.

The technologies and expertise can be accessed via the Czech or Euro-BioImaging portal. For more news about IFIEB follow us on @IEB_Imaging or http://www.ueb.cas.cz/en/if/about.

Plant-optimized Zeiss LSM880 with Airyscan detector enabling vertical sample mounting and root tracking. Growing plant in coverglass chamber is illuminated during long-term experiment (left) and the root fluorescence is imaged (right).

Past & upcoming events

Czech‐BioImaging Annual Scientific Conference

conference hall

The annual Czech-BioImaging scientific conference titled Imaging Principles of Life 2022 will be held in Hustopeče this autumn. The 2-day event starts on 4 October after lunch and concludes the following day around 3 p.m.

The lectures will present over 20 research results achieved by the CzBI users in the fields of medical and biological imaging. Acquisition of these scientific results was either supported, took place or both at the Czech-BioImaging facilities. The conference participants may also view other interesting user contributions presented during the Poster session. Special space in the conference programme will also be allocated for presentations from industrial partners to present current technology novelties, including a corporate exhibition.

Two distinguished international guest speakers also accepted the invitation to the conference. On Tuesday 4/10/2022, the Head of the Centre for Cellular imaging, University of Gothenburg and President of the Core Technologies for Life Sciences, Julia Fernandez-Rodriguez, will present her lecture titled “The Centre for Cellular Imaging – a Research Infrastructure for Correlated Multimodal Imaging”. Claus Lamm, Professor of Biological Psychology and the Head of the Social, Cognitive and Affective Neuroscience Unit at the Faculty of Psychology of the University of Vienna, will deliver his lecture “Novel multi-method neuroimaging approaches to unravel the complexities of the human social brain” on Wednesday 5/10/2022.

Last but not least, social program and networking are considered an integral part of the Czech-BioImaging conference because they provide an important space to connect users from different laboratories and fields of imaging. The planned dinner coupled with wine tasting may be a unique opportunity for the participants to build up their professional relationships with the Czech-BioImaging service labs employees.

Find more at https://www.czech-bioimaging.cz/conference


UPCOMING Educational activities
(summer - autumn)


Methodical pipeline for light microscopy of small animal models

Course | August 30 - 31, 2022 | Institute of Physiology CAS, Prague

Multi-modal light microscopy imaging in plant research

Course | September 22, 2022 | Institute of Experimental Botany CAS, Prague

Single molecule microscopy and manipulation

Course | October 10 - 14, 2022 | UK, BIOCEV, Vestec

Microscopy methods in biomedicine

Course | October 17 - 21, 2022 | Institute of Molecular Genetics CAS, Prague

Experimental Biophotonics

Course | October 2022 | FSI VUT, Technická 2, Brno

Virtual Reality tools in biology data analysis

Course | November 3, 2022 | Institute of Physiology CAS, Prague

FLIM not only for biologists

Practical course | November 14 - 16, 2022 | UK, BIOCEV, Vestec

Transmission Electron Microscopy in Life Sciences

Course | November 21 - 25, 2022 | Institute of Molecular Genetics CAS, Prague

Super-resolution microscopy methods in biology

Course | Autumn 2022 | CEITEC MU, Brno

Neuroimaging: Mapping the function and structure of brain

Course | Autumn 2022 | CEITEC MU, Brno

Processing of biological images: Focus on lightsheet data

Course | Autumn 2022 | CEITEC MU, Brno


Upcoming international congresses

16th international congress of histochemistry and cytochemistry

logo ichc 2022

When: 28 – 31 August 2022
Where: Prague

The Society for Histochemistry invite you to Prague in August 2022. The 16th International Congress of Histochemistry and Cytochemistry 2022 brings the worldwide histochemists together to exchange information, closely cooperate and contribute to scientific progress.

16th Multinational Congress on Microscopy


When: 4 - 9 September 2022
Where: Brno

Join us at the 16th Multinational Congress on Microscopy and become a part of the unique microscopy ecosystem in Brno. The aim of the 16th MCM is to bring together leading academic scientists, researchers, students and the commercial sphere to exchange and share experiences and research results on all aspects of microscopy.

Useful links

Czech-bioimaging Scientific Conference 2022

Czech-bioimaging – pro veřejnost

Czech-bioimaging – technologies

Euro-BioImaging website

Velké výzkumné infrastruktury

The National Infrastructure for Biological and Medical Imaging, Czech-BioImaging, is supported by the Ministry of Education, Youth and Sports of the Czech Republic (project No. LM2018129) and by European Regional Development Fund (project No. CZ.02.1.01/0.0/0.0/18_046/0016045).