Automatic Image-Based Method for Quantitative Analysis of Photosynthetic Cell Cultures

  • Alzbeta VlachynskaEmail author
  • Jan Cerveny
  • Vratislav Cmiel
  • Tomas Turecek
Conference paper
Part of the Lecture Notes in Computer Science book series (LNCS, volume 9648)


This work deals with an automatic quantitative analysis of photosynthetic cell cultures. It uses images captured by a confocal fluorescent microscope for automatic determination the number of cells in sample containing complex 3D structure of cell clusters. Experiments were performed on the confocal microscope Leica TCS SP8 X. The cell nuclei were stained by SYBR® Green fluorescent DNA binding marker. In the first step we used combination of adaptive thresholding to found out areas where nuclei were located. Proposed segmentation steps allowed reduction of noise and artefacts. Z-axis position was obtained as a location of peak from intensity profile. Finally model of scene can be created by emplacement of spheres with adequate diameter to found 3D coordinates. Number of cells per volumetric unit were determined in structurally different culture samples of cell cultures Chenopodium rubrum (Cr) and Solanum lycopersicum (To). The results were verified by manual counting.


Automated cell counting Image segmentation Plant cell Suspension cultures 3D reconstruction Visualization 



This work was supported by the Internal Grant Agency at TBU in Zlín, project No. IGA/CebiaTech/2016/007 and by the Ministry of Education, Youth and Sports of CR within the National Sustainability Program I (NPU I), grant number LO1415 (J.C.).


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Copyright information

© Springer International Publishing Switzerland 2016

Authors and Affiliations

  • Alzbeta Vlachynska
    • 1
    Email author
  • Jan Cerveny
    • 2
  • Vratislav Cmiel
    • 3
  • Tomas Turecek
    • 1
  1. 1.Tomas Bata University in ZlinZlinCzech Republic
  2. 2.Global Change Research Institute CASBrnoCzech Republic
  3. 3.Brno University of TechnologyBrnoCzech Republic

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