Fig. 2: Various protein quality control systems are present at aggresomes.
From: p97/VCP is required for piecemeal autophagy of aggresomes
a Confocal immunofluorescence microscopy of HeLa cells expressing TurboID-TAX1BP1 or free TurboID recovered for 18 h from Btz treatment in the presence of 100 nM Baf for the last 3 h and 50 μM biotin for the last 1 h using the indicated antibodies. Scale bars, 50 μm. Representative result from two independent experiments. b Scheme explaining the three experimental conditions used for proximitome analysis. c, d Volcano plots for HeLa cells expressing TurboID-TAX1BP1 versus free TurboID under aggrephagy conditions (c) or HeLa cells expressing TurboID-TAX1BP1 under aggrephagy versus untreated conditions (d), as depicted in b. Statistical significance was assessed using the limma package, employing a two-sided empirical Bayes moderated t-test with false discovery rate (FDR) correction via the Benjamini–Hochberg method. n = 4 biological replicates; thresholds: log2 FC > ± 1, −log10 (adj. p-value) > 1.30 (i.e., adj. p-value < 0.05). Annotation based on gene names (except for p97, p62, FIP200), specific categories of proteins indicated by colored circles. e Aggresome localization of highly enriched TAX1BP1 proximity partners was tested in HeLa cells recovered for 18 h from Btz treatment in the presence of 100 nM Baf for the last 3 h by confocal immunofluorescence microscopy using the indicated antibodies. Scale bars, 50 μm. Representative result from two independent experiments.
