Eudiplozoon nipponicum is a parasitic worm of class Monogenea,
subclass Polyopisthocotylea. Blood-sucking species of this
class, predominantly fish ectoparasites, have been studied
mainly in the context of morphological and phylogenetical
characteristics. This diploma thesis is focused on a
bioinformatic analysis and evalution of sequencing data gained
in the frame of running grant project. The mitochondrial genome
of this parasite was assembled from these sequencing data, and
subsequently annotated. All the mitochondrial genes
characteristic for the parasitic flatworms were identified and
subsequently used in the phylogenetic analysis. The evolution
relationships of both Platyhelminthes and Monogeneans are still
not clear. The results of our phylogenetic analysis suggest the
paraphyletic relationship of the Monogenea class, which is in
the conflict with the current classification based on both
morphological and molecular data.