Acta Protozoologica is a yearly journal that publishes current and comprehensive, experimental, and theoretical contributions across the breadth of protistology, and cell biology of Eukaryote microorganisms including: behaviour, biochemistry and molecular biology, development, ecology, genetics, parasitology, physiology, photobiology, systematics and phylogeny, and ultrastructure. It publishes original research reports, critical reviews of current research written by invited experts in the field, short communications, book reviews, and letters to the Editor.

Faunistic notices of local character, minor descriptions, or descriptions of taxa not based on new, (original) data, and purely clinical reports, fall outside the remit of Acta Protozoologica.