In its host erythrocyte, the malaria parasite Plasmodium falciparum resides within a parasitophorous vacuole, the membrane of which forms a barrier between the host cell cytosol and the parasite surface. The vacuole is a unique compartment because it contains specific proteins that are believed to be involved in cell biological functions essential for parasite survival. As a prerequisite for the characterization of the vacuolar proteome, we have developed an experimental approach that allows the selective biotinylation of soluble vacuolar proteins. This approach utilizes nonpermeant biotin derivatives that can be introduced into infected erythrocytes after selective permeabilization of the erythrocyte membrane with the pore-forming protein streptolysin O. The derivatives gain access to the vacuolar lumen but not to the parasite cytosol, thus providing supportive evidence for the existence of nonselective pores within the vacuolar membrane that have been postulated based on electrophysiological studies. Soluble vacuolar proteins that are biotin-labeled can be isolated by affinity chromatography using streptavidin-agarose.Plasmodium falciparum, the causative agent of the most severe form of malaria, invades human erythrocytes, where this unicellular parasite develops within the so-called parasitophorous vacuole (PV). 1 The parasitophorous vacuolar membrane (PVM) is formed during the process of invasion, and it contains lipids from the erythrocyte plasma membrane (1, 2) and, presumably, parasite-derived proteins and lipids (3). This membrane presents a barrier between parasite and host cell cytosol, although electrophysiological studies in Plasmodiuminfected erythrocytes suggest the existence of nonselective pores within the PVM that allow passive bidirectional diffusion of small molecules (4,5). With respect to biogenesis and protein contents, the PV differs significantly from endocytic vacuoles (6), with the most apparent difference being the almost cytosolic pH of the vacuole (7,8). In recent years, many observations have indicated a number of cell biologically relevant processes within the vacuole that are important for parasite survival.In the course of the infection, several parasite proteins are exported into the erythrocyte, and some of these proteins, such as the members of the PfEMP1 family, are key molecules involved in the pathogenesis of malaria (9). For at least some exported proteins, the PV is a transit compartment from which they are transported into the host cell cytosol (10 -12). Translocation across the vacuolar membrane must be a selective process because other proteins are retained within the PV (13,14). Recently, it has been suggested that proteins destined for the parasite apicoplast, a unique plastid-like intracellular organelle of apicomplexan parasites, also may be trafficked via the PV (15). Thus, the PV must contain a machinery involved in protein sorting. Upon completion of parasite development and multiplication, merozoites, the invasive stages, are released from the infected cell. Re...