Additional file 9 of FT-GPI, a highly sensitive and accurate predictor of GPI-anchored proteins, reveals the composition and evolution of the GPI proteome in Plasmodium species

Additional file 9: Table S9. Composition of the GPI-proteome of 46 Haemosporida isolates according to FT-GPI PLA030 parameter set. Proteomes were analysed using FT-GPI software. OrthoMCL annotation (cog_id) and synteny available at PlasmoDB were used to assess the presence of genes in the different isolates. Analysis was based on protein presenting more than 210 amino acids. Colour coding was used to determine OrthoMCL group encoding orthologs. The table refers to the number of paralogs found in each genome. Lines merging information from the different orthoMCL groups are marked as summary in column G. The left part of the table displays the number of orthologs present in PlasmoDB, FT-GPI detection with the 31 combinations of FT-GPI parameters and specific detection of PLA001 and PLA030. GPI-AP provided gene names of the 33 GPI-AP candidates validated in the present study. Four were new GPI-AP compared with P. falciparum 3D7 and P. vivax Sal-1 GPI-proteome (Fig. 4). SRA detection as GPI-AP was species specific. The sum of validated GPI-AP is given at the top of the table as well as the sum not-validated putative GPI-AP (from line 121 to 177). Some orthologs with size below 210 aa were introduced in the analysis and are in italics. P. falciparum 3D7 and P. vivax Sal-1 columns are in bold. The right part of the table provides information about mean, median and standard deviation of the size of protein sequences in recorded per line. * indicates the duplicated OrthoMCL IDs encompassing genes from different loci.