Comparison of total proteome levels and vacuolar proteome levels in the different trafficking mutants. (a) SILAC ratios from heavy-labeled vps10Δ cells and light-labeled WT cells of total proteomes are plotted on the x-axis against the SILAC ratios from enriched vacuoles. Vacuolar annotated proteins are plotted in yellow and other proteins in blue. (b) SILAC ratios from heavy-labeled gga1Δgga2Δ cells and light-labeled WT cells of total proteomes are plotted on the x-axis against the SILAC ratios from enriched vacuoles. Vacuolar annotated proteins are plotted in yellow and other proteins in blue. (c) SILAC ratios from heavy-labeled vps45Δ cells and light-labeled WT cells of total proteomes are plotted on the x-axis against the SILAC ratios from enriched vacuoles. Vacuolar annotated proteins are plotted in yellow and other proteins in blue. (d) SILAC ratios from heavy-labeled atg19Δ cells and light-labeled WT cells of total proteomes are plotted on the x-axis against the SILAC ratios from enriched vacuoles. Vacuolar annotated proteins are plotted in yellow and other proteins in blue. (e) SILAC ratios from heavy-labeled apl5Δ cells and light-labeled WT cells of total proteomes are plotted on the x-axis against the SILAC ratios from enriched vacuoles. Vacuolar annotated proteins are plotted in yellow and other proteins in blue.