The vacuolar-type ATPase (V-ATPase) is a proton pump composed of two sectors, the cytoplasmic V 1 sector that catalyzes ATP hydrolysis and the transmembrane V o sector responsible for proton translocation. The transmembrane V o complex directs the complex to different membranes, but also has been proposed to have roles independent of the V 1 sector. However, the roles of the V 1 sector have not been well characterized. In the nematode Caenorhabditis elegans there are two V 1 B-subunit genes; one of them, vha-12, is on the X chromosome, whereas spe-5 is on an autosome. vha-12 is broadly expressed in adults, and homozygotes for a weak allele in vha-12 are viable but are uncoordinated due to decreased neurotransmission. Analysis of a null mutation demonstrates that vha-12 is not required for oogenesis or spermatogenesis in the adult germ line, but it is required maternally for early embryonic development. Zygotic expression begins during embryonic morphogenesis, and homozygous null mutants arrest at the twofold stage. These mutant embryos exhibit a defect in the clearance of apoptotic cell corpses in vha-12 null mutants. These observations indicate that the V 1 sector, in addition to the V o sector, is required in exocytic and endocytic pathways. The differential expression and localization of specialized V 1 sector subunits suggest that the proton pump could be adopted for different purposes (Toei et al. 2010). For example, in mammals different B isoforms of the V 1 sector are localized to either the cell surface or internal membranes. The B1 isoform is localized to the surface of specialized kidney, inner ear, and vas deferens epithelial cells where it pumps protons into the extracellular space, whereas the B2 subunit is typically associated with endosomes and pumps protons into the lumen of organelles (Brown et al. 2009). Consistent with the epithelial localization of B1 subunits, mutations in the B1 surface isoform are linked to renal tubule acidosis and deafness in humans Vargas-Poussou et al. 2006;.However, a rigid B-subunit specialization does not seem to be common in all animals. The mouse genome also encodes two B subunits. But unlike humans, mutation of the apical B1 subunit in mice does not result in deafness or kidney dysfunction (Dou et al. 2003;Finberg et al. 2005). The B2 subunit, normally localized to endosomes, can partially compensate for the loss of B1 subunits (P aunescu et al. 2007),