Virulent mycobacteria cause arrest of phagosome maturation as a part of their survival strategy in hosts. This process is mediated through multiple virulence factors, whose molecular nature remains elusive. Using Mycobacterium marinum as a model, we performed a genome-wide screen to identify mutants whose ability to inhibit phagosome maturation was impaired, and we succeeded in isolating a comprehensive set of mutants that were not able to occupy an early endosome-like phagosomal compartment in mammalian macrophages. Categorizing and ordering the multiple mutations according to their gene families demonstrated that the genes modulating the cell envelope are the principal factors in arresting phagosome maturation. In particular, we identified a novel gene, pmiA, which is capable of influencing the constitution of the cell envelope lipids, thereby leading to the phagosome maturation block. The pmiA mutant was not able to resist phagosome maturation and was severely attenuated in mice. Complementing the mutant with the wild-type gene restored the attenuated virulence to wild-type levels in mice.Mycobacterium tuberculosis, the causative agent of tuberculosis, claims the lives of over 1.7 million people per year. An estimated one-third of the world's population is infected with the tuberculosis bacillus (43). The predilection of virulent mycobacteria to dwell in a hostile environment (macrophages) is considered central for effective pathogenesis. The mycobacteria persist inside macrophages by occupying an early endosome-like phagosomal compartment and avoiding the default pathway of phagosome maturation (PM) (3). Phagosomes containing mycobacteria do not have pH values below pH 6.2 and are characterized by the absence of lysosome-associated membrane protein and lysosomal hydrolases, reduced levels of ATPase, and retention of the early endosomal markers Rab5 and TACO or mouse coronin (12,30,40). Phagosomal factors that mediate the killing of mycobacteria at different stages have been described previously (2).Although several host cell mechanisms involved in the inhibition of PM have been proposed, an explanation for how mycobacteria establish a safe haven for themselves in the hostile environment in macrophages remains elusive. Possible roles for mycobacterial urease (17) and lipoarabinomannan in impeding phagosome acidification have been postulated (37). Mycobacterial protein kinase G was shown to prevent transfer of mycobacteria to lysosomes (41). Mycobacterial phosphoinositol mannosides that are similar to the mammalian phosphoinositol lipids enhance fusion of phagosomes containing mycobacteria with early endosomes (39). In addition, Vergne and colleagues identified a secreted mycobacterial lipid phosphatase (SapM) that hydrolyzes phosphoinositol-3-phosphate, leading to inhibition of PM (38). Pathogenic mycobacteria induce disruption of the actin filament network regulated by p38 mitogen-activated protein kinases, but the effector molecules have not been elucidated (2, 18). The close apposition of the mycobacterial...