title: Automatic analysis of aqueous specimens for phytoplankton structure recognition and population estimation.
abstract: An automatic microscope image acquisition, evaluation, and recognition system was developed for the analysis of Utermöhl plankton chambers in terms of taxonomic algae recognition. The system called PLASA (Plankton Structure Analysis) comprises (1) fully automatic archiving (optical fixation) of aqueous specimens as digital bright field and fluorescence images, (2) phytoplankton analysis and recognition, and (3) training facilities for new taxa. It enables characterization of aqueous specimens by their populations. The system is described in detail with emphasis on image analytical aspects. Plankton chambers are scanned by sizable grids, divers objective(s), and up to four fluorescence spectral bands. Acquisition positions are focused and digitized by a TV camera and archived on disk. The image data sets are evaluated by a large set of quantitative features. Automatic classifications for a number of organisms are developed and embedded in the program. Interactive programs for the design of training sets were additionally implemented. A long-term sampling period of 23 weeks from two ponds at two different locations each was performed to generate a reliable data set for training and testing purposes. These data were used to present this system's results for phytoplankton structure characterization. PLASA represents an automatic system, comprising all steps from specimen processing to algae identification up to species level and quantification.
authors.affiliation: Institute of Biomathematics and Biometry, GSF-National Research Center for Environment and Health, Neuherberg 85764, Germany. karsten.rodenacker@gsf.de
authors.forename: Karsten
authors.initials: K
authors.lastname: Rodenacker
authors.forename: Burkhard
authors.initials: B
authors.lastname: Hense
authors.forename: Uta
authors.initials: U
authors.lastname: Jütting
authors.forename: Peter
authors.initials: P
authors.lastname: Gais
mesh_terms: D000818:Animals; D002452:Cell Count / Q000295:instrumentation / Q000379:methods; D008853:Microscopy / Q000295:instrumentation*; D010363:Pattern Recognition, Automated; D010839:Phytoplankton / Q000648:ultrastructure*; D011153:Population; D014867:Water
chemical_list: D014867:Water