Figure S5.
Phenotype description and stereological quantification of chosen cells for the entire workflow. (a) Illustrations of the different Golgi phenotypes revealed by the GalNac-T2-GFP signal: control, diffuse (COPG1), fragmented (DNM1), condensed (ACTR3), and tubular (IPO8). Scale bars: control, 5 µm, rest, 10 µm. (b) Scatter plots of computed features measuring the strength for each phenotype. Each gray dot represents the feature value associated with one cell normalized respect to the mean. The x-axis displays the corresponding siRNA treatment (ACTR3 n = 183, ARHGAP44 n = 282, C1S n = 179, COPB1 n = 26, COPB2 n = 34, COPG1 n = 88, DNM1 n = 137, FAM177B n = 252,GPT n = 260, IPO8 n = 194, NT5C n = 115, XWNeg9 n = 305, PTBP1 n = 357, SRSF1 n = 115). Diffuseness, condensation, and tubularity values are normalized with respect to the control (Neg9). Fragmentation illustrates the number of fragments detected in the Golgi apparatus. Red triangles highlight each one of the selected cells for the CLEM experiment (a total of 33). (c) Stereological quantification was applied on FIB-SEM images of the corresponding cells to measure the number of cisternae (left) and the volume (right) of the Golgi apparatus. Each bar represents the value measured for one cell, grouped by siRNA treatment. Since the sample size is very small (n = 2 or n = 3 per treatment), the screen was oriented exclusively to find large effects. Knockdowns of the COP proteins (COPB1, COPB2, COPG1), revealed a disappearance of the Golgi stacks (thus, no cisternal volume can be measured) replaced by a large accumulation of small vesicles. No obvious morphological differences were found in other siRNA treatments with respect to the control cells.

Phenotype description and stereological quantification of chosen cells for the entire workflow. (a) Illustrations of the different Golgi phenotypes revealed by the GalNac-T2-GFP signal: control, diffuse (COPG1), fragmented (DNM1), condensed (ACTR3), and tubular (IPO8). Scale bars: control, 5 µm, rest, 10 µm. (b) Scatter plots of computed features measuring the strength for each phenotype. Each gray dot represents the feature value associated with one cell normalized respect to the mean. The x-axis displays the corresponding siRNA treatment (ACTR3 n = 183, ARHGAP44 n = 282, C1S n = 179, COPB1 n = 26, COPB2 n = 34, COPG1 n = 88, DNM1 n = 137, FAM177B n = 252,GPT n = 260, IPO8 n = 194, NT5C n = 115, XWNeg9 n = 305, PTBP1 n = 357, SRSF1 n = 115). Diffuseness, condensation, and tubularity values are normalized with respect to the control (Neg9). Fragmentation illustrates the number of fragments detected in the Golgi apparatus. Red triangles highlight each one of the selected cells for the CLEM experiment (a total of 33). (c) Stereological quantification was applied on FIB-SEM images of the corresponding cells to measure the number of cisternae (left) and the volume (right) of the Golgi apparatus. Each bar represents the value measured for one cell, grouped by siRNA treatment. Since the sample size is very small (n = 2 or n = 3 per treatment), the screen was oriented exclusively to find large effects. Knockdowns of the COP proteins (COPB1, COPB2, COPG1), revealed a disappearance of the Golgi stacks (thus, no cisternal volume can be measured) replaced by a large accumulation of small vesicles. No obvious morphological differences were found in other siRNA treatments with respect to the control cells.

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