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Antimicrobial Agents and Chemotherapy, November 2002, p. 3540-3548, Vol. 46, No. 11
0066-4804/02/$04.00+0 DOI: 10.1128/AAC.46.11.3540-3548.2002
Copyright © 2002, American Society for Microbiology. All Rights Reserved.
Institute of Medical Microbiology and Immunology, University of Bonn, D-53105 Bonn, Germany
Received 10 May 2002/ Accepted 16 August 2002
| ABSTRACT |
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mutS, to a stepwise vancomycin selection procedure. Vancomycin resistance evolved much more quickly in the mutator background than in the wild type (5 versus 19 passages, respectively). In addition, a higher resistance level could be reached (MIC, 32 versus 4 µg/ml, respectively). The susceptibility to other antibiotics with the exception of teicoplanin remained unchanged. Concomitantly with increasing vancomycin resistance, a loss of phage typeability and differences in growth behavior as well as an improved ability to regrow at high vancomycin concentrations were observed. In conclusion, an elevated mutation rate in S. aureus led to the rapid development of vancomycin resistance, indicating that a high mutation frequency could be one of the factors that favor the emergence of vancomycin resistance in S. aureus. | INTRODUCTION |
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4 µg/ml in Mueller-Hinton (MH) medium are considered susceptible whereas strains for which the MIC is >16 µg/ml are considered resistant to vancomycin. For most clinical isolates that have been reported so far, MICs of vancomycin are 8 µg/ml, and thus these isolates are considered intermediately resistant. Nevertheless, these strains are of clinical importance since treatment failure has been reported elsewhere (24, 35, 43). Many strains display a heterogeneous phenotype, i.e., although the overall MICs for them are
4 µg/ml, subpopulations resistant to higher vancomycin concentrations are present at a frequency of at least 10-6 (24). Higher MICs up to 100 µg/ml have been obtained for strains that were selected by stepwise passage on vancomycin agar in the laboratory (7, 13, 40). The low-level resistance of clinical S. aureus isolates is not associated with one of the van gene clusters which mediate the high-level resistance in enterococci (21, 46). Up to now, the mechanism leading to vancomycin resistance in staphylococci has not been fully understood. The thorough characterization of the clinical isolates as well as of laboratory mutants revealed numerous changes which affect the S. aureus cell wall structure or cell wall metabolism and lead to an increased number of false binding sites for vancomycin (9, 12, 13, 21, 22, 39, 40, 42). However, not every vancomycin-resistant S. aureus strain is characterized by the same features (9). This observation leads to the hypothesis that multiple mutations may give rise to diverse changes which then together mediate vancomycin resistance (23, 39, 42). The restriction of the emergence of vancomycin-intermediately resistant S. aureus (VISA) to only one epidemic strain in Germany (5, 17), the identical clonal origin of the Japanese isolates Mu3 and Mu50 (23), and the close relationship of the American VISA isolates (36), as well as the fact that vancomycin resistance does not evolve in every strain subjected to vancomycin selection (22, 33), suggest the presence of factors in the chromosomal background of some strains that favor development of vancomycin resistance.
The mutation frequency of bacteria is essentially controlled by the DNA repair systems. The dam-directed mismatch repair system which is encoded by mutH, mutL, mutS, and uvrD in Escherichia coli (26) is one of the most important systems. It plays a central role in repairing base mismatch insertions and deletions which arise during replication, as well as in controlling uptake of foreign DNA (30). When mutS has been inactivated, the respective clone displays a high mutation frequency due to its inability to repair mismatches.
We hypothesized that an elevated mutation frequency as, for example, found in mutator strains could favor the development of vancomycin resistance in S. aureus and therefore subjected an S. aureus mutator strain defective in mutS to stepwise selection in the presence of increasing concentrations of vancomycin. The results reported here demonstrate that vancomycin resistance developed much faster in a mutator background than in the wild type; in addition, a fourfold-higher MIC could be reached for the mutator strain than for the wild-type control. Hereby, the importance of a high mutation frequency in the development of vancomycin resistance is confirmed.
| MATERIALS AND METHODS |
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mutS and its vancomycin-resistant mutants were cultured in the presence of chloramphenicol unless indicated otherwise.
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Identification of mutS in S. aureus. S. aureus mutS was identified by comparing MutS of Bacillus subtilis with the sequences available from two of the ongoing S. aureus sequencing projects (University of Oklahoma's Advanced Center for Genome Technology, Norman, and The Institute for Genomic Research, Rockville, Md.) by using Blast and FASTA software (2). Fragments encoding proteins with high homology to the N-terminal, C-terminal, and central parts of B. subtilis MutS were identified. Primers MutS-1 and MutS-4 (Table 2) were constructed encompassing the hypothetical 5' and 3' ends of S. aureus mutS. The complete DNA sequence was determined from strain S. aureus NCTC8325 by sequencing of the PCR product with primers MutS-1, MutS-2, MutS-3, MutS-4, and MutS-6 (Sequiserve, Vaterstetten, Germany) (Table 2).
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mutS, producing strain RN4220
mutSmutS+.
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Isolation of vancomycin-resistant mutants.
For the selection of vancomycin-resistant mutants, the parent strains S. aureus RN4220 and RN4220
mutS were subjected to a stepwise selection in the presence of vancomycin (40). Strains were plated on agar plates which contained vancomycin at a higher concentration (1 µg/ml) than the MIC in BHI medium (0.5 µg/ml). Subclones that were able to grow on these plates were picked and subsequently cultured in BHI liquid medium containing the same drug concentration as present in the agar plate. Aliquots of this culture were again plated onto BHI agar with a vancomycin concentration that was 1 to 4 µg/ml higher than that of the liquid culture. This procedure was repeated until no further clones could be isolated that were able to grow on agar plates as well as in liquid culture containing higher vancomycin concentrations. To exclude the possibility that the selection of vancomycin-resistant mutants was affected by the presence of chloramphenicol in the medium of the mutator strain, the experiment was repeated with a slightly different setup. S. aureus RN4220 and RN4220
mutS as well as the reconstituted strain S. aureus RN4220
mutSmutS+ were subjected to a step selection procedure in the presence of vancomycin only for S. aureus RN4220 and RN4220
mutS and of vancomycin-erythromycin for RN4220
mutSmutS+. This experiment was possible since earlier attempts to remove the knockout mutation by growth in the absence of chloramphenicol, which allows excision of the plasmid by homologous recombination, had failed completely. Additionally, the chloramphenicol resistance of selected colonies was checked regularly by picking colonies on agar containing chloramphenicol. Besides, the step selection procedure was performed in liquid medium only and a sufficiently high inoculum (1 ml) was employed.
PFGE, phage typing, and antibiotic susceptibility testing. Chromosomal DNA was purified and digested with SmaI as described previously (19). Pulsed-field gel electrophoresis (PFGE) was performed on the CHEF DRIII System (Bio-Rad Laboratories, Munich, Germany) employing 1% pulsed-field certified agarose (Bio-Rad), 6 V/cm, a field angle of 120°, and switch times of 5 to 15 s for 7 h and 15 to 60 s for a further 19 h. A chromosomal DNA digest of S. aureus NCTC8325 served as mass standard.
Phage typing was performed with the international set for phage typing at routine test dilution and 100x routine test dilution according to the standard rules agreed on by the International Union of Microbiological Societies Subcommittee on Phage Typing of Staphylococci.
Determinations of the MICs of vancomycin and teicoplanin were performed by microdilution in BHI medium and cation-adjusted MH broth with an inoculum concentration of 5 x 106 CFU/ml, and growth was read after 16, 24, and 72 h of incubation at 37°C. Antibiotic susceptibility testing for cefazolin, chloramphenicol, ciprofloxacin, erythromycin, fosfomycin, fusidic acid, gentamicin, imipenem, methicillin, netilmicin, oxacillin, penicillin, tetracycline, and vancomycin was performed by disk diffusion tests on MH agar plates. For population analysis, strains were grown to an OD600 of 1.0 in BHI. One hundred microliters of the culture and serial dilutions were plated onto BHI agar plates containing vancomycin in increasing concentrations. After 48 h of growth at 37°C, colonies were counted. The detection limit was 1 CFU/100 µl.
Time-to-regrowth assay.
For each strain 250 ml of BHI in a 500-ml culture flask was inoculated with 2.5 ml of an overnight culture. When the cultures had reached an OD600 of 0.4, vancomycin was added to a final concentration of 30 µg/ml for the strains S. aureus RN4220, RN4220-V6, and RN4220-V10 as well as for S. aureus RN4220
mutS and RN4220
mutS-VC10. For S. aureus RN4220
mutS-VC20, -VC30, and -VC40, final concentrations of 40, 50, and 60 µg/ml, respectively, were chosen. Samples were collected at various times and used for the determination of OD600 and the concentration of vancomycin in the supernatant. Additionally, an aliquot of 100 µl of each sample was serially diluted and plated onto Columbia agar in order to monitor viability of the cells.
For the vancomycin bioassay, a culture of Micrococcus luteus ATCC 4698 was grown to an OD600 of 0.3 and used to inoculate 1,000 ml of 0.6% Luria-Bertani agar at 45°C. Thin agar plates with seven wells per plate were prepared. Culture samples were centrifuged, and the supernatant was pasteurized at 80°C for 10 min. From each sample, three 50-µl aliquots were pipetted into the wells. As standards, 23 vancomycin concentrations ranging from 1 to 60 µg/ml in BHI were used. Additionally, one well per plate was filled with BHI containing 20 µg of vancomycin/ml in order to adjust for plate thickness. After overnight incubation at 37°C the diameters of the inhibition zones were read. The doubling time was calculated as the time needed for doubling the OD during the exponential growth phase.
Nucleotide sequence accession number. The sequence of mutS has been submitted to the EMBL database (accession no. AJ296342).
| RESULTS AND DISCUSSION |
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mutS.
To construct a mutator strain, we disrupted mutS in S. aureus RN4220, a restriction-negative derivative of S. aureus NCTC8325, by a single-crossover event with a plasmid that carried an internal fragment of mutS (Fig. 1). To assess whether the mutS-knockout strain was characterized by a mutator phenotype, we had to obtain an estimation of its mutation frequency. Therefore, the rate at which the specific strain generated rifampin-resistant mutants was determined. Rifampin resistance arises from single point mutations in rpoB (3); however, it should be noted that silent mutations and mutations leading to low-level resistance cannot be detected by the method employed, and thus, the method underestimates rather than overestimates the mutation frequency of a given strain and identifies only strong mutator strains.
The mutS-knockout mutant S. aureus RN4220
mutS showed a 50-fold-higher frequency of spontaneous rifampin-resistant mutants than did the parent strain, S. aureus RN4220, which confirmed the expected mutator phenotype (50 versus 1 rifampin-resistant mutant per 109 plated bacteria, respectively). RN4220
mutS was complemented with pRB573mutS+, which carries an intact copy of mutS and its putative promoter sequence, resulting in strain RN4220
mutSmutS+. RN4220
mutSmutS+ formed rifampin-resistant mutants at a frequency comparable to that of strain RN4220 (1.3 rifampin-resistant mutants per 109 plated bacteria).
Isolation of vancomycin-resistant mutants.
We subjected S. aureus RN4220 and its isogenic mutS-knockout mutant RN4220
mutS to a stepwise vancomycin selection procedure. The MICs of vancomycin for both strains in BHI before the procedure were 0.5 µg/ml. The experiment was performed twice, and in the second experiment the reconstituted strain RN4220
mutSmutS+ was included and RN4220
mutS was grown in the absence of chloramphenicol in order to exclude any effects of the antibiotic on the selection. In both experiments the mutS-knockout mutant yielded clones that were able to grow on agar plates containing a maximum concentration of 40 µg of vancomycin/ml. However, this applied to only two of a total of three lineages. It must be kept in mind that mutation is a random process. If one of the mutations that occurs at low vancomycin concentrations is incompatible with resistance to high vancomycin concentrations, this could result in a premature ending of the development of resistance. As to the controls, five of six lineages originating from the wild-type S. aureus RN4220 and the reconstituted strain grew on agar plates containing a maximum of 10 µg of vancomycin/ml, and only one descendant of S. aureus RN4220 produced colonies that grew on 20 µg of vancomycin/ml. In addition, the number of passages needed to select a clone resistant to 10 µg of vancomycin/ml was lower with RN4220
mutS than with strain RN4220 or the reconstituted strain (a minimum of 5 versus 19 passages in the first experiment). During the selection process, intermediate step mutants of RN4220 and the mutS-knockout mutant were isolated for further characterization and were designated S. aureus RN4220-V6 and S. aureus RN4220-V10 as well as RN4220
mutS-VC10, -VC20, -VC30, and -VC40, corresponding to their growth on BHI agar containing 6, 10, 20, 30, and 40 µg of vancomycin/ml. The resistance levels of the strains were confirmed by microdilution in BHI and cation-adjusted MH broth and population analyses (Table 3). Figure 2 shows that the parent strains RN4220 and RN4220
mutS displayed the features of strains fully susceptible to vancomycin, indicating the absence of resistant subpopulations. In contrast, the vancomycin-resistant mutants were characterized by subpopulations that exhibited higher resistance to vancomycin than did the majority of the cells, which is typical for vancomycin resistance in S. aureus (23) and was especially pronounced in S. aureus RN4220-V10, which, since it was characterized by a MIC of 4 µg/ml in MH medium, represents a heterogenously resistant VISA strain. It has been recently shown that many clinical VISA isolates are agr negative. This applies also to S. aureus RN4220 (36) and could facilitate the acquisition of vancomycin resistance in this strain. In conclusion, these results underline the fact that the higher resistance achieved in the mutator strain RN4220
mutS is due to the inactivation of mutS and thus due to a higher mutation rate.
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mutS-VC20, -VC30, and -VC40 and RN4220-V10 displayed slow growth in liquid culture medium, and the generation times increased with the level of vancomycin resistance (Table 3). On Columbia agar plates, alterations of the colony morphology could be observed. While the parent strains showed growth characteristics typical for S. aureus, an increasing number of small, white colonies without or with reduced beta-hemolysis was observed with S. aureus strains RN4220
mutS-VC20, -VC30, and -VC40. The size of the colonies was not stable; both colony types formed small and big colonies upon inoculation of a new agar plate. When exposed to high vancomycin concentrations in the time-to-regrowth assay, all strains displayed a decreased growth rate and an increase in small colonies on the control agar plates. The slow growth of S. aureus RN4220
mutS-VC20, -VC30, and -VC40 became even more marked: e.g., RN4220
mutS-VC20 had a generation time of 4 h, whereas RN4220
mutS-VC40 doubled within 9 h when growing exponentially. Slow growth and small colony morphology have been reported elsewhere for clinical VISA isolates as well as for the earliest laboratory strains (7, 13, 31, 35, 41, 42), but it is not clear whether the small colony phenotype contributes to the vancomycin resistance. However, since Tenover et al. found for the Michigan VISA strain that the MICs of vancomycin were the same for the small and the normal colony types (45), the emergence of small colonies may just be an epiphenomenon accompanying the development of vancomycin resistance.
PFGE and phage typing.
The parent strains and their vancomycin-resistant descendants were subjected to PFGE and phage typing. While no changes in the PFGE profiles could be observed, the strains differed considerably concerning their phage pattern. Both parent strains were typeable by all or almost all phages employed; however, the number of positive reactions decreased concomitantly with the increase in vancomycin resistance, and the most resistant isolate, S. aureus RN4220
mutS-VC40, was nontypeable by any of the phages employed (Table 4).
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Antibiotic susceptibility testing.
All strains were subjected to antibiotic susceptibility testing by disk diffusion tests. The parent strains S. aureus RN4220 and RN4220
mutS were fully susceptible to all antibiotics tested. Except for vancomycin and teicoplanin, the resistant descendants of both strains retained their susceptibility to all antibiotics tested including oxacillin and methicillin. Most clinical VISA isolates and laboratory mutants described so far are methicillin resistant. Though vancomycin resistance is rather easily achieved in MRSA strains when they are subjected to high vancomycin concentrations (33), methicillin resistance is not a prerequisite to the development of vancomycin resistance in S. aureus (7, 13). Even though VISA strains have been described which remained teicoplanin susceptible despite their vancomycin resistance (group B glycopeptide-intermediate S. aureus strains according to the work of Boyle-Vavra et al. [9]), in most clinical VISA strains resistance to teicoplanin increased in parallel with vancomycin resistance (46), as was seen for our strains (MICs shown in Table 3). S. aureus NCTC8325 as well as its descendant RN4220 carries a partial deletion in rsbU and thus is unable to activate
B, which leads to a strongly decreased
B activity (18). Bischoff and Berger-Bächi found a positive correlation between a high
B activity, which is easily visible by the bright orange color of the colonies, and teicoplanin resistance in step selection mutants, whereas the effect of the elevated
B activity was marginal on vancomycin resistance (6). A higher resistance to teicoplanin, which was accompanied by the formation of brightly orange colonies, was also perceived in the second experiment (data not shown).
Time-to-regrowth assay. It has been demonstrated elsewhere that vancomycin-resistant strains are characterized by their ability to quickly decrease the vancomycin concentration in liquid culture medium and to resume growth only when the concentration has dropped below 7 µg/ml (12, 40). In order to compare the isolates with other VISA strains, their ability to regrow in BHI medium containing high vancomycin concentrations was examined (12, 40). Therefore, concentrations were applied that were at least 20 µg/ml higher than those of the agar plates which had been employed for selection of the respective isolates. The parent strains as well as S. aureus RN4220-V6 were not able to resume growth under these conditions. Here, the OD600 dropped gradually to values of about 0.1, and no further growth was observed although the culture was continued for 7 to 10 days. The numbers of CFU were monitored for 96 h, and they dropped from 108 to 103 after 24 h, remained stable at this level for another 48 h, and decreased to 101 to 102 after 96 h.
All other vancomycin-resistant mutants were able to regrow at the chosen vancomycin concentrations (Fig. 3). The OD600 values of RN4220
mutS-VC30 oscillated between 1 and 2 over a period of 60 h, accompanied by oscillations in the vancomycin concentrations, and only then started to rise to >2.0 (data not shown). This phenomenon might be due to appearance and disappearance of variants, and thus the final strain may be different from the original strain. The other strains showed different growth patterns. After an initial duplication of the OD values, the OD600 remained stable or even decreased over 16 to 24 h before exponential growth was resumed (Fig. 3). Following an initial, immediate drop, the vancomycin concentrations fell continuously during this time, until values of 12 to 15 µg/ml were reached. Growth was resumed significantly earlier (8 h) and at the highest vancomycin concentration (22 µg/ml) by RN4220
mutS-VC40 (Fig. 3).
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mutS-VC40, were able to regrow at vancomycin concentrations much higher than described before may indicate a new mechanism involved in vancomycin resistance in this strain.
When growth was resumed in the presence of vancomycin, the resistant strains RN4220
mutS-VC20, -VC30, and -VC40 formed clumps which persisted during the growth phase and dissolved only after several hours of stationary phase. Clumpy growth in the presence of vancomycin has been described previously (31), and the growth behavior could indicate a mechanism involved in the vancomycin resistance in these strains, such as accumulation of secreted cell wall material that traps free vancomycin as observed before (40). To examine whether the increase in OD originated from an increase in the viable count, the numbers of CFU were monitored for the first 96 h. In fact, with increasing OD600, an adequate rise in the number of CFU was observed, which implies that the increase in OD600 resulted from cell division rather than from accumulation of cell wall material (data not shown).
Elevated mutation frequency and development of vancomycin resistance. So far, nothing is known about the role of mutator strains in S. aureus pathogenicity. However, it is conceivable that a defective mismatch repair system resulting in the rapid acquisition of adaptive mutations as well as alleviating the uptake of foreign DNA could be of major importance to the genotypic variety in S. aureus. One of the strongest mutator phenotypes is generated by a defective mismatch repair system, especially by inactivation of mutS, which is responsible for the repair of base mismatches and frameshift mutations generated during replication. Mutator strains defective in mismatch repair have been found previously to occur frequently among pathogenic bacteria such as enterohemolytic E. coli O157:H7 and Salmonella enterica serovar Typhimurium (29). While bacterial strains with an elevated mutation rate have a growth disadvantage when grown without selective pressure (16), the situation may be different under strong selective pressure, e.g., in the presence of antibiotics (34). Here, a high mutation rate resulting in the rapid acquisition of adaptive mutations may be of advantage, and the mutator alleles may be selected along with the favorable mutations (44). Mutator strains may thus be present at an elevated frequency in patients multiply treated with antibiotics and despite an intermediate virulence level of the mutator strains (34). In fact, in patients with cystic fibrosis, mutator strains account for 20% of the isolated Pseudomonas aeruginosa strains (32). Patients in intensive care units, who often are critically ill, are frequently treated with diverse antibiotics and, at the same time, are particularly prone to nosocomial infections with MRSA strains. Therefore, it seems conceivable that mutator clones are also present in MRSA isolates at a high frequency, and their disposition to generate vancomycin-resistant clones (33) might be due to an elevated mutation frequency. This hypothesis is underlined by the fact that recently the first clinical VISA isolate, the Japanese strain Mu50, has also been shown to be a mutator strain since it carries a frameshift in mutS (4).
In our experiments, vancomycin resistance evolved much faster in a mutator background than in the wild type (a few days versus several weeks). Moreover, the level of resistance that could be obtained was about four times higher than in the wild type, allowing growth in the presence of 40 µg of vancomycin/ml. The MICs for clinical VISA isolates were much lower (mainly 4 to 8 µg/ml) than those for the strains reported here. However, it should be noted that the clinical isolates are not exposed to such high vancomycin concentrations in vivo, due to the toxicity of vancomycin for the patient. However, in many clinical VISA isolates vancomycin resistance according to the definition of the NCCLS could be achieved when the strains were subjected to high vancomycin concentrations (13, 31, 40). In addition, the time needed for a VISA strain to emerge in a nonmutator background is longer than the time usually employed for vancomycin therapy, whereas VISA evolved in a mutator background within a few days.
It has been reported elsewhere that the vancomycin resistance level decreases when the strains are cultured in the absence of vancomycin (8, 47). The rapid reversion of the vancomycin resistance has been suggested previously to be due to stepwise mutations (8), a fact that is also consistent with the presence of an elevated mutation rate.
It was recently shown that a mutator phenotype favors the emergence of staphylococcal small colony variants (F. Schaaff, G. Bierbaum, N. Baumert, P. Bartmann, and H.-G. Sahl, submitted for publication). The facts presented here could indicate that strains from which small colony variants and VISA emerge may have one feature in common, i.e., an elevated mutation frequency, in particular since both occur mainly in patients undergoing multiple antibiotic treatment.
In conclusion, we are able to show that vancomycin resistance emerges much more quickly in a mutator than in a nonmutator background. Here, the duration of antibiotic treatment allows the development of vancomycin resistance in vivo. The vancomycin-resistant strains described here share some features of vancomycin resistance reported before, indicating that an elevated mutation frequency could be one of the factors in the chromosomal background of S. aureus that favor emergence of vancomycin resistance.
| ACKNOWLEDGMENTS |
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We thank Keiichi Hiramatsu for kindly providing strain Mu50, Reinhold Brückner for making pRB573 available, Armgard Viehbahn for expert technical assistance with phage typing, and Hans-Georg Sahl and Peter Bartmann for continuous support and helpful discussions.
| FOOTNOTES |
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B activity in Staphylococcus aureus. Antimicrob. Agents Chemother. 45:1714-1720.
B activity depends on RsbU in Staphylococcus aureus. J. Bacteriol. 183:1843-1852.
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