Fig. 1.

The mito-QC Counter: a macroinstruction for FIJI to assess mitophagy with the mito-QC reporter. (A) Schematic workflow of the mito-QC Counter macro to quantify mitophagy and autophagy assays. (B) Representative widefield fluorescence images showing how the 4 main steps in the mito-QC Counter are implemented to quantify mitophagy. Mitophagy was induced in SH-SY5Y cells treated with 1 mM DFP for 24 h. Scale bar = 10 μm. The pixel intensity graph below depicts how the red dots are quantified based on the intensity profile for the line from A to B. The red discontinued line in STEP4 indicates the mean of red intensity threshold (+0 stdDev), while asterisks indicate peaks of positive mitolysosomes above the red channel threshold. (For interpretation of the references to colour in this figure legend, the reader is referred to the web version of this article).