Atg36 is required for pexophagy. Validation of Pex11–GFP as a marker for pexophagy in WT, atg1Δ, and atg36Δ cells by (A) microscopy and (B) western blot including pex14Δ cells. The fluorescence assay shows that like HcRed–PTS1, Pex11–GFP accumulates in the vacuole in starvation medium (A), which corresponds to the accumulation of GFP on a western blot (B). (B) Cells were grown 18 h in oleate medium and switched to glucose medium lacking nitrogen (SD-N) for the times indicated. GFP* indicates the relatively protease-resistant degradation product indicative of vacuolar breakdown. (C) Pexophagy assay by fluorescence of GFP–PTS1 expressed from the CTA1 promoter in WT, atg36Δ, atg1Δ, and pep4-3, prb1-1122 strains. Cells were grown as above for Pex11–GFP pexophagy assay and imaged after 22 h in SD-N medium. Multiple fluorescent images were acquired in Z-axis and flattened into a single image. Bright-field image is a single plane. (D) FM4-64 labelling of cells grown as in (C). The three central images of a Z-stack were flattened into a single plane. Bright-field image is a single plane. Bar, 5 μm. (E) Pexophagy as assayed by Pex11–GFP western blot of cells grown for up to 3 days in glucose, oleate or glycerol medium. Samples of WT cells (left panel) and atg36Δ cells (right panel) were taken from the cultures after 24, 48 and 72 h.