Commentary 161Introduction Autophagy is a stress-induced catabolic process involving the lysosome (or, in yeast, the analogous vacuole), which is conserved in all eukaryotes (Esclatine et al., 2009; Klionsky, 2005). According to the different pathways by which cargo is delivered to the lysosome or vacuole, autophagy is divided into three main types: chaperone-mediated autophagy (CMA), microautophagy and macroautophagy (Klionsky, 2005). CMA is a process that has been characterized in higher eukaryotes but not in yeast. In CMA, a chaperone protein binds first to its cytosolic target substrate and then to a receptor on the lysosomal membrane where the unfolding of the protein occurs. The unfolded cytosolic target protein is subsequently translocated directly into the lysosome for its degradation (Massey et al., 2004). Microautophagy translocates cytoplasmic materials into the lysosome or vacuole for degradation by either direct invagination, protrusion, or septation of the lysosomal or vacuolar membrane (Wang and Klionsky, 2004). Macroautophagy is characterized by the formation of a cytosolic double-membrane vesicle, the autophagosome. During macroautophagy, cytoplasmic proteins, organelles or other materials are surrounded by phagophores, which expand and close to form autophagosomes. These autophagosomes fuse with lysosomes (or vacuoles) to form autolysosomes, in which the cytoplasmic cargos are degraded by resident hydrolases. The resulting degradation products are then transported back into the cytosol through the activity of membrane permeases for reuse (Fig. 1). In the yeast Saccharomyces cerevisiae, microautophagy engulfs cytosolic materials through an autophagic tube, which then scissions within the vacuole to release the contents into a vesicle within the vacuolar lumen for degradation (Uttenweiler and Mayer, 2008); microautophagy-like processes, such as one type of selective peroxisome degradation, are slightly different and involve targeted sequestration of the cargo (Dunn et al., 2005). The process and mechanism of microautophagy in mammalian cells are still not clear (Cuervo, 2004). Among the three main forms of autophagy, macroautophagy is the most widely studied and best characterized process. In this review, we will thus focus on macroautophagy, hereafter referred to as autophagy.Although autophagy is generally considered to be nonspecific, there are many examples of selective autophagy, including mitophagy (for mitochondria), ribophagy (for ribosomes), pexophagy (for peroxisomes) and reticulophagy (for the endoplasmic reticulum, ER) (He and Klionsky, 2009). By contrast, the yeast cytoplasm-to-vacuole targeting (Cvt) pathway is a biosynthetic pathway used to transport the vacuolar hydrolases -mannosidase and aminopeptidase I (Ape1) from the cytosol to the vacuole under normal growth conditions. As the Cvt pathway shares the core autophagy machinery, which is composed of 17 autophagy-related (Atg) proteins found in all autophagy pathways, it is also defined as a type of selective autophagy (Inoue...