. Author manuscript; available in PMC: 2019 Mar 1.

Published in final edited form as: Nat Cell Biol. 2018 Feb 23;20(3):233–242. doi: 10.1038/s41556-018-0037-z

Table 1.

Selective autophagy ligands, receptor and scaffolds in yeast and mammals.

Process	Organism	Ligand	Receptor	Scaffold
Cvt Pathway	Yeast	prApe1, Ams1	Atg19	Atg11
Aggrephagy	Yeast	Protein aggregates (Ub)	Cue5	–
Aggrephagy	Mammals	Protein aggregates (Ub)	SQSTM1/p62, NBR1, TOLLIP	WDFY3/ALFY
Pexophagy	Yeast	Peroxisomes (Pex3, PpPex14, PpPex3)	Atg36, PpAtg30	Atg11, PpAtg17
Pexophagy	Mammals	Peroxisomes (Ub)	SQSTM1/p62, NBR1	–
Mitophagy	Yeast	Mitochondria	Atg32	Atg11
Mitophagy	Mammals	Mitochondria	SQSTM1/p62, BNIP3L/Nix, OPTN, FUNDC1, PHB2	–
Reticulophagy	Yeast	Endoplasmic reticulum	Atg39, Atg40	Atg11
Reticulophagy	Mammals	Endoplasmic reticulum	RETREG1/FAM134B	–
Nucleophagy	Yeast	Nucleus, nuclear Nvj1 portions (PMN)	Atg40, Vac8 (PMN)	–
Lysophagy	Mammals	Lysosomes (Ub)	SQSTM1/p62	–
Xenophagy	Mammals	Bacteria (Ub), viruses	SQSTM1/p62, CALCOCO2/NDP52, OPTN	–
Lipophagy	Mammals	Lipid droplets	–	–
Lipophagy	Yeast	Lipid droplets	–	–
Ferritinophagy	Mammals	Ferritin	NCOA4	–
Glycophagy	Mammals	Glycogen	STBD1	–