In vivo assays showed that a ⌬eefA isogenic mutant strain normally colonized the gastrointestinal tract in single-strain tests but was significantly impaired in competition against wild-type strain LM21. Although the cecum was the compartment with the highest number of CFU, the ⌬eefA mutant also was detected in the stomach in numbers smaller than those of the wild-type strain. The expression of this potential efflux pump could not be linked to any antimicrobial drug resistance phenotype, but it conferred on the bacteria an acid tolerance response to inorganic acid. The expression of the eef promoter region, measured via a lacZ reporter construction, was slightly induced by an acidic environment and also by hyperosmolarity but not by the presence of bile salts. These results suggest that an efflux pump can confer measurable ecological benefits on K. pneumoniae in an environment with high competition potential.Klebsiella pneumoniae is an opportunistic pathogen responsible for many nosocomial infections, and most clinical strains exhibit high levels of resistance to a wide variety of structurally unrelated antibiotics. Epidemiological studies have shown that, whatever the infection site, the first stage in nosocomial infections due to K. pneumoniae consists of the colonization of the patient's gastrointestinal (GI) tract (6,16). This pathogen therefore has to sense and respond to numerous different environments in order to survive and, consequently, to persist in the GI tract of the host. The first major barrier encountered following oral consumption is stomach acidity. The bacteria then enter the small intestine, where they encounter stresses associated with volatile fatty acids, variations in pH and osmolarity, and competition with endogenous flora. Using signature-tagged mutagenesis (STM) in a murine model, we previously identified 13 genes encoding factors required for the in vivo colonization of the GI tract by K. pneumoniae LM21 (14). All of these mutants were selected for their inability to colonize the murine intestinal tract under competitive conditions. One of the identified genes potentially encoded a protein involved in a cryptic efflux pump, EefABC, previously described in Enterobacter aerogenes (18). This pump is thought to belong to the resistance-nodulation-division (RND) family and to be composed of an inner membrane protein, EefB, a periplasmic intermediate, EefA, and an outer membrane protein, EefC (18). No specific function has been attributed to this structure so far, whose expression is repressed by the H-NS repressor in the heterologous host Escherichia coli (18). In addition to the export of antimicrobials, several recent publications have highlighted the natural physiological role of efflux pumps in exporting noxious substances out of the bacterial cell, thereby allowing the bacteria to survive in hostile environments and facilitating intestinal colonization (11,13,24,30). In this report, we characterized the eef-like operon of K. pneumoniae and investigated the role of the potentially enc...