The mec gene of a number of clinical methicillin-resistant Staphylococcus aureus isolates exhibiting a variety of heterogeneous expression modes was selectively inactivated by allelic replacement mutagenesis. While the resistance level of each of the transformants was reduced, the methicillin MIC for these transformants was well above the MIC for susceptible laboratory strains of S. aureus and was similar to the methicillin MIC for many contemporary clinical isolates which did not react with the mec-specific DNA probe but which showed a low or borderline level of resistance to methicillin. A number of those strains had no detectable I8-lactamase, and for about half of the isolates that did carry plasmid-borne j8-lactamase, elimination of the plasmid caused only partial reduction of the methicillin MIC or no reduction at all. The findings suggest that many contemporary strains of staphylococci harbor a combination of at least three distinct I8-lactam resistance mechanisms: (i) the mechanism related to the acquisition of the foreign mec gene and (ii) a ,B-lactamase-dependent and (iii) a I3-lactamase-independent mechanism, each one of which can provide a certain degree of resistance against penicillinase-resistant Il-lactam antibiotics.Methicillin-resistant clinical isolates of Staphylococcus aureus (MRSA) carry a complex, as yet only poorly understood resistance mechanism. All MRSA isolates examined so far have contained the mec gene, a 2,130-bp segment of foreign DNA coding for a low-affinity penicillin-binding protein (PBP 2A) (3,19,20). Despite the ubiquitous presence of this gene, MRSA isolates show tremendous variation in the MICs for the majority of the cells, and cultures of MRSA isolates are also heterogeneous: they contain a variable number of subpopulations for which the MICs range from very low to very high. Recently, it was shown that these complex modes of phenotypic expression are strain specific and appear to be under genetic control (37). In extreme cases, the methicillin MIC for the majority of bacteria (>99.99% of cells) may be as low as 3 p.g/ml (a MIC for susceptibility is 0.5 to 1.0 p.g/ml), despite the presence of the mec gene and its gene product (PBP 2A) in every cell. Similar, moderately increased MICs (4 to 8 p.g/ml) were also detected recently in some isolates which did not carry the mec gene, whether or not they produced f-lactamase (6, 36), the overproduction of which has been proposed as one mechanism that causes a moderate (borderline) elevation of the MIC of typically penicillinase-resistant antibiotics (6, 22, 23).One purpose of this study was to determine the relative contribution(s) of these mechanisms to the MIC for some selected MRSA isolates. Of particular interest was testing of the possibility that these distinct mechanisms may coexist in single isolates. An