Escherichia coli is one of the most common pathogens in urinary tract infections (UTIs), and antibiotic resistance in E. coli is becoming a serious problem in treating UTI. Efflux system overexpression is reported to contribute to E. coli resistance to several antibiotics. This study investigated the correlation of antibiotic susceptibilities with the overexpression of the efflux pump genes such as marA, yhiU, yhiV, and mdfA and with risk factors for antibiotic resistance in E. coli isolated from UTI patients. We examined the expression level of efflux pump genes using quantitative real-time reverse transcription-PCR (qRT-PCR). We also tested the in vitro susceptibilities to 12 kinds of antibiotics in 64 clinical strains of E. coli isolated from UTI patients. By multivariate analyses we revealed significant relationships between the overexpression of (i) marA and MICs of cefepime (FEP) and nalidixic acid (NAL), (ii) yhiV and MICs of minocycline (MIN), and (iii) mdfA and MICs of sitafloxacin (STX). In our investigation of the efflux pump genes, risk factors such as gender and the previous use of fluoroquinolones correlated with the overexpression of marA, and indwelling catheter use correlated with the overexpression of mdfA. In conclusion, we demonstrated that the increased expression of efflux pump genes such as marA and mdfA can lead to fluoroquinolone resistance in E. coli. These results contribute to our knowledge of the efflux system and raise the possibility of developing new agents, such as efflux pump inhibitors (EPIs), to antibiotic-resistant E. coli.There are many examples of multidrug resistance (MDR) in clinical isolates of Enterobacteriaceae, such as extended-spectrum â€-lactamase (ESBL)-producing strains (6). The overexpression of efflux pumps was reported to contribute to MDR in E. coli (3,12). Almost all Gram-negative bacteria have genes for efflux pumps belonging to the resistance nodulation division (RND) family (3), and seven homologous RND-type pumps are known in E. coli. Five of these (AcrB, AcrF, MdtB, MdtC, and YhiV) are known to expel many kinds of drugs. Most of these efflux genes are not expressed or are expressed at low levels in clinical isolates (3). The tripartite efflux pump, AcrAB-TolC complex, contains AcrA, a fusion protein; AcrB, a cytoplasmic membrane transporter protein; and TolC, an outer membrane channel (12). The overexpression of this pump often is associated with the MDR phenotype in E. coli (3,15,27,32). YhiUV is regulated by the EvgAS, the twocomponent system (20), and helps expel doxorubicin and erythromycin by cooperating with TolC (3,7,10,14,20,21). A previous report showed that a point mutation in yhiV, coding for YhiV, was associated with differences in the MDR phenotype (3). The overexpression of efflux pump genes such as marA, yhiU, yhiV, and mdfA is related to antibiotic resistance, especially fluoroquinolones (3,12). This study investigated the relationship between the overexpression of these efflux pump genes and antibiotic resistance and risk factors for urin...