Fig. 2

Concatenated nuclear phylogenetic analysis indicates EU17/18 represent a deep-branching euglenozoan. Assemblies of EU17/18 and EU2 were searched for a set of marker proteins based on a previously published study including 20 nucleus-encoded proteins [39] for phylogenetic analysis. The final alignment contained 62 taxa and 10,366 amino acid positions. EU17/18 and EU2 had 82% and 90% missing data, respectively. The maximum likelihood tree was estimated under two models, LG + C60 + F + Γ (C60) and LG4X, with standard bootstrapping (BS) and ultrafast bootstrapping (UFB). The tree topology shown is from the C60 analysis. Support values for < 50% BS and < 75% UFB are denoted by a dash (-), whereas an asterisk (*) marks a topology that does not exist in a particular analysis. Fully supported nodes are shown as black circles