Datasets and Supplementary

SSU Tree: Original fasta and aligned and trimmed fasta (mafft linsi, trimAl -gt 0.5)ML_Analyses:all_taxa_gene_trees - all genes of all taxa, original fastas and aligned and trimmed fastas (mafft linsi, trimAl --gappyout or BMGE -BLOSUM30), and single-gene trees of each (iqtree -m LG+G -bb 1000). all_telonemids - folders of 192, 233 and 262 genes, trimmed by trimAl or BMGE, with all species. Includes scafos concatenation and species presence files. three_telonemids - folders of 192, 233 and 262 genes, trimmed by trimAl or BMGE, with all species but Telonemia sp. DSEL18. Includes scafos concatenation and species presence files. one_telonemid - folders of 192, 233 and 262 genes, trimmed by trimAl or BMGE, with excluding all telonemids but Arpakorses idiomastiga. Includes scafos concatenation and species presence files. no_telonemids - folders of 192, 233 and 262 genes, trimmed by trimAl or BMGE, excluding all telonemids. Includes scafos concatenation and species presence files. step_wise_removal - Starting concatenation file of 233 genes trimmed with BMGE from all species, and step-wise removal of fast or heterotachously evolving sites made by Phylofisher tools fast_site_remover.py and heterotachy.py with default settings. Bayesian_Analysis: 233 genes trimmed with BMGE, subsetted to 81 species, including scafos concatenation and species presence files. Table_S1_data_sources: Sources of taxa used in this study. Table_S2_ML_tree_comparisons: Overview of various clades recovered from ML analyses of different gene sampling, telonemia sampling and trimming schemes (Fig 2A, Fig S4-S7). Table_S3_datasets_overlap: comparison of gene overlap from this dataset and those of Tice et al. 2021, Lax et al. 2018 and Tikhonenkov et al. 2022rm_crap.pl : script used to trim regions of proteins that do not align to BLASTP hits<br><br>