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Using ImageJ for processing fluorescence and reflectance image sequences of plant leaves

Administrative Information


University of Karlsruhe / Botanical Institute / EU Project Stressimaging

Presentation Information

Full / Half Time Slot: Half Time Slot (25 min)

Contact / Speaker Name

Sándor Lenk

Presentation Title

Using ImageJ for processing fluorescence and reflectance image sequences of plant leaves

Participant Requirements

This presentation is planned for the beginners track, and it requires only a basic knowledge of ImageJ from the visitors. Presentation is planned to focus on stack processing methods (including macros) using in a case study of time lapse multi-colour fluorescence imaging of plant leaves.

Bibliography of Speaker

L. Chaerle#, S. Lenk#, D. Hagenbeek, C. Buschmann and D. Van Der Straeten: Multi-color fluorescence imaging for early detection of the hypersensitive reaction to tobacco mosaic virus. Journal of Plant Physiology (in press)

S. Lenk and C. Buschmann: Distribution of UV-shielding of the epidermis of sun and shade leaves of the beech (Fagus sylvatica L.) as monitored by multi-colour fluorescence imaging. Journal of Plant Physiology (in press)

H.K. Lichtenthaler, G. Langsdorf, S. Lenk and C. Buschmann: Chlorophyll fluorescenceimaging of photosynthetic activity with the Karlsruhe fluorescence imaging system. Photosynthetica (2005) 43(3), 355-369.


This document is a case study of semi-automatized image processing with ImageJ. The Karlsruhe multi-colour fluorescence imaging system is a non-destructive tool of early detection of plant stress. Different types of fluorescence and reflectance images are captured in parallel with this system. The images are sorted, timed, and labeled; montages are created before image analysis. Furthermore images were corrected for leaf movement and for the slightly different imaging field of the two cameras included in this setup. Using this approach we successfully revealed pre-visual symptoms of virus infection differing both in timing and in appearance depending on the imaging method.

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