Active macrolide efflux is a major mechanism of macrolide resistance in Streptococcus pneumoniae in many parts of the world, especially North America. In Canada, this active macrolide efflux in S. pneumoniae is predominantly due to acquisition of the mef(E) gene. In the present study, we assessed the mef(E) gene sequence as well as mef(E) expression in variety of low-and high-level macrolide-resistant, clindamycinsusceptible (M-phenotype) S. pneumoniae isolates (erythromycin MICs, 1 to 32 g/ml; clindamycin MICs, <0.25 g/ml). Southern blot hybridization with mef(E) probe and EcoRI digestion and relative real-time reverse transcription-PCR were performed to study the mef(E) gene copy number and expression. Induction of mef(E) expression was analyzed by Etest susceptibility testing pre-and postincubation with subinhibitory concentrations of erythromycin, clarithromycin, azithromycin, telithromycin, and clindamycin. The macrolide efflux gene, mef(E), was shown to be a single-copy gene in all 23 clinical S. pneumoniae isolates tested, and expression post-macrolide induction increased 4-, 6-, 20-, and 200-fold in isolates with increasing macrolide resistance (erythromycin MICs 2, 4, 8, and 32 g/ml, respectively). Sequencing analysis of the macrolide efflux genetic assembly (mega) revealed that mef(E) had a 16-bp deletion 153 bp upstream of the putative start codon in all 23 isolates. A 119-bp intergenic region between mef(E) and mel was sequenced, and a 99-bp deletion was found in 11 of the 23 M-phenotype S. pneumoniae isolates compared to the published mega sequence. However, the mef(E) gene was fully conserved among both high-and low-level macrolide-resistant isolates. In conclusion, increased expression of mef(E) is associated with higher levels of macrolide resistance in macrolide-resistant S. pneumoniae.Active macrolide efflux is a major mechanism of macrolide resistance in Streptococcus pneumoniae in many parts of the world, especially North America (23,24,27). It confers low-level resistance (MIC, 1 to 16 g/ml) to 14-and 15-member macrolides but not to 16-member macrolides, lincosamides, and streptogramin B and is phenotypically referred to as M-type resistance, in contrast to the macrolide-lincosamide-streptogramin B phenotype, which confers constitutive high-level resistance (MIC, Ն256 g/ml) to 14-, 15-, and 16-member macrolides, licosamides, and streptogramin B (23, 24). This active macrolide efflux in S. pneumoniae is due to acquisition of the mef(A) gene, originally described in Streptococcus pyogenes and then identified as the mef(E) gene in S. pneumoniae (3, 24). The two genes, originally grouped into one mef(A) class based on their high (90%) sequence homology (21), are considered as separate entities because it has been shown that a number of marked differences exist between them (11, 12). For instance, the genetic elements carrying mef(A) or mef(E) have been studied by Santagati et al., Gay and Stephens, and Del Grosso et al. and were shown not only to be quite different but also to behave quite diffe...