Percentage abundance of selected protein groups upon TbUsp7 and TbVdu1 RNAi derived from normalised SILAC ratios.

Values represent average percentage protein abundance relative to uninduced cells ± standard deviation. TbUsp7 and TbVdu1 RNAi samples were analysed at indicated time points in experimental duplicate and triplicate, respectively. Asterisks mark proteins not quantified in all replicates. Polypeptide features predicted using TMHMM2 for trans-membrane domains [39], signalP for N-terminal ER-targeting signal [40], PredGPI for GPI-anchor addition C-terminal signal sequence [41] and TPRpred for tetratrico peptide repeats [42]. Predictions are given as Yes, No responses or sequence positions (inclusive signal sequence) using default parameters. In most cases the topology of the protein is experimentally known or predictable based on close homology of experimentally derived information. All protein hits shown have been inspected for their genomic context and integrity. Protein groups consist of indistinguishable paralogs, sharing identical quantified peptides. For the complete quantification data see S1 Table. NA; not applicable, ND; not detected.