Biophotonics (FSI-TBF)

Academic year 2024/2025
Supervisor: Ing. Daniel Zicha, CSc.  
Supervising institute: ÚFI all courses guaranted by this institute
Teaching language: Czech
Aims of the course unit:

The objective of the theme is the introduction of biophotonics, light microscopy techniques for biology, fiber optics and endoscopes, optical micromanipulation, and polymerization of nanostructures. The theme also includes the basics of cell biology and the application of light microscopy in studies of live cells in vitro, and example applications in neurosciences and cancer research.
Acquiring of widened ability to interdisciplinary professional activity.
Learning outcomes and competences:
 
Prerequisites:

Knowledge of elements of geometric optics.
Course contents:

Basics of biophotonics including principles of light microscopy, fluorescence, confocal microscopy, quantitative phase imaging especially in holographic microscopy, polarisation microscopy, fiber optics and endoscopes, optical micromanipulations, and photopolymerization of nanostructures. Basics of cell biology in vitro: structure and functions of the cell; isolation of cells from multicellular organisms and their maintenance in vitro; mastering the specialty of preparation of live cells for microscopy observations. Protocols of in vitro investigations of cell behavior. The role of light microscopy techniques for the study of live cells in vitro: 

Applications in neurosciences and cancer research.

Demonstrations and practical sections in the laboratory.
Teaching methods and criteria:
 
Assesment methods and criteria linked to learning outcomes:

Student assessment will take into consideration his/her work at the laboratory and will depend on his/her presentation of selected relevant scientific publication during a colloquium organized at the end.
Presence in all teaching units is recommended because of their mutual links.
Controlled participation in lessons:
 
Type of course unit:
    Lecture  13 × 1 hrs. optionally                  
    Laboratory exercise  13 × 1 hrs. compulsory                  
Course curriculum:
    Lecture

Basic principles of light microscopy for biology
Cell biology and preparation of samples for microscopy
Interferometry and holographic microscopy
Fluorescence, confocal and 2-photon microscopy
Fiber Optics, endoscopes, and applications in neurobiology
Applications in tumor and cell biology
Optical micromanipulation methods and optical tweezers
Photopolymerization of nanostructures
Polarization microscopy and imaging of extracellular matrix
    Laboratory exercise

Tissue culture and preparation of cells
Holograhic interferometry
Confocal microscopy
Literature - fundamental:
1. B. Alberts et al.: Molecular Biology of the Cell, 5th Ed. Garland Science, 2007.
2. D. Bray: Cell Movements: From Molecules to Motility. Garland Science 2000.
3. D. E. Chandler, R. W. Robertson: Bioimaging. Jones & Bartlett, Boston 2009.
4. A. R. Hibbs: Confocal Microscopy for Biologists. Springer, 2004.
Literature - recommended:
5. http://library.thinkquest.org/12413/structures.html
6. http://www.biology.arizona.edu/cell_bio/cell_bio.html
7. http://biology.about.com/od/cellbiology/a/cellbiology.htm
8. http://micro.magnet.fsu.edu/
The study programmes with the given course:
Programme Study form Branch Spec. Final classification   Course-unit credits     Obligation     Level     Year     Semester  
B-FIN-P full-time study --- no specialisation -- Cr 2 Compulsory-optional 1 3 W