Fig. 1

Workflow Genome de novo Assembly. To achieve a complete as possible assembly of the N. lovaniensis genome, PacBio data were assembled using FALCON quality and completeness assessment using BUSCO. Repetitive sequences were identified and masked by RepeatModeler. In a further step, non-coding RNAs were identified using INFERNAL and proteins were predicted by an ab-initio method applying BRAKER1 including RNAseq data. Functional annotation was performed using Blast2GO pipeline. To gain an overview of Naegleria species, a genome similarity network as well as a phylogenetic tree was constructed. Additionally, Naegleria proteins were clustered using OrthoMCL