Quantitative proteomics by SILAC identifies altered surface protein expression mediated by exocyst knockdown.

<p>(A) Volcano plot of protein abundance changes at 36h post Sec15 RNAi induction. -log₁₀ transformed SILAC ratios are plotted against -log₁₀ transformed standard deviation. Data points representing protein groups significantly altered after 36 hours are labeled; ISG65 and ISG75 paralogs in dark green, other potential surface proteins in light green, mitochondrial proteins in red, cytoplasmic proteins in blue, lysosomal proteins in yellow, others in grey. AQP1: Aquaporin1, TryS: trypanothione synthetase; PTP1 interactor: Protein-tyrosine-phosphatase1-interacting protein; PAD1: Protein associated with differentiation 1; CoA transferase: Succinyl-coA:3-ketoacid-coenzyme A transferase; GCVL-2: Dihydrolipoyl dehydrogenase. (B) Predicted cellular localisation of proteins upregulated in Sec15 RNAi cells 36h post induction as reported by GO terms or as predicted by TMHMM2 for <i>trans-</i>membrane domains and PredGPI for GPI-anchor addition C-terminal signal sequences [<a href="http://www.plospathogens.org/article/info:doi/10.1371/journal.ppat.1006063#ppat.1006063.ref089" target="_blank">89</a>, <a href="http://www.plospathogens.org/article/info:doi/10.1371/journal.ppat.1006063#ppat.1006063.ref090" target="_blank">90</a>]. Numbers of proteins in each category are in parenthesis.