The Třeboň department of the Institute of Botany of the Academy of Science of the Czech Republic focuses primarily on basic research in the fields of plant ecology and taxonomy, ecology, and the physiology of algae and cyanobacteria, but also participates in applied research projects. Integral parts of the scientific departments are also two culture collections. The collection of wetland plants with more than 400 species is one of the largest of its kind in Europe. It serves as a gene bank of rare and endangered plants and is accessible to the public. The other collection is the culture collection of algae and cyanobacteria (CCALA). It maintains strains for usage in both basic and applied research, but also in education. The collection contains over 700 strains, which are provided on request to anyone in the Czech Republic and abroad.
The Třeboň department also includes a scientific library specialised mainly in literature on plant ecology and phycology, which is open to the public. It also possesses a collection of approx. 14,000 phycological reprints. Besides the library, an analytical laboratory is available at the department. It is equipped for chemical analyses of surface-, ground- and waste-waters, soils and sediments.