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Antimicrobial Agents and Chemotherapy, December 2002, p. 3823-3828, Vol. 46, No. 12
0066-4804/02/$04.00+0 DOI: 10.1128/AAC.46.12.3823-3828.2002
Copyright © 2002, American Society for Microbiology. All Rights Reserved.
U.S. Food and Drug Administration Center for Veterinary Medicine, Laurel, Maryland 20708,1 Department of Nutrition and Food Science, University of Maryland, College Park, Maryland 207422
Received 27 February 2002/ Returned for modification 1 July 2002/ Accepted 29 August 2002
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Infections caused by multidrug-resistant enterococci are usually treated with the glycopeptide vancomycin. However, as the use of vancomycin has steadily increased, so, consequently, has the incidence of vancomycin-resistant enterococci (21). Recent reports suggest that almost one-quarter of enterococci isolated from patients in intensive care units in the United States are vancomycin resistant (11, 12). Quinupristin-dalfopristin (Synercid), a semisynthetic mixture of the compounds streptogramins A and B, was recently approved for use for the treatment of vancomycin-resistant enterococci in both the United States and Europe (18, 19). Virginiamycin, another mixture of the compounds streptogramins A and B, has been used as a growth promoter in animal production for over two decades. The use of antimicrobials in the animal production environment has the potential of selecting for resistant zoonotic bacterial pathogens, and it has been speculated that the extensive use of virginiamycin in animal husbandry may have contributed to the emergence of quinupristin-dalfopristin resistance among human gram-positive pathogens (5, 6; L. B. Jensen, L. B., A. M. Hammerum, F. M. Aerestrup, A. E. van den Bogaard, and E. E. Stobberingh, Letter, Antimicrob. Agents Chemother. 42:3330-3331, 1998). Consequently, the use of virginiamycin has been banned in the European Union since July 1999 (1). However, despite the 1998 ban of virginiamycin in Denmark, a recent report showed a 22.5% prevalence of virginiamycin-resistant E. faecium isolates from pigs in 2000 (1). Although there is no clear explanation for this, it has been suggested that the presence of resistance to other antimicrobial agents such as erythromycin, tetracycline, and streptomycin may coselect for virginiamycin resistance (1).
Resistance to streptogramins was first reported in staphylococci in 1980 (4). Only resistance to the A component is required; however, resistance to both the A component and the B component may result in higher MICs (4). To date a number of genes that confer streptogramin A resistance in both staphylococci and E. faecium have been reported (2, 4, 18, 22, 23; K. V. Singh, B. M. Jonas, G. M. Weinstock, and B. M. Murray, Abstr. 41st Intersci. Conf. Antimicrob. Agents Chemother., p. 103, 2001). E. faecalis is intrinsically resistant to streptogramin antibiotics, although the mechanism(s) underlying this resistance has yet to be fully described (13; Singh et al., 41st ICAAC). However, preliminary data suggest that an efflux pump, designated ABC23, may play a role in conferring quinupristin-dalfopristin resistance in E. faecalis (Singh et al., 41st ICAAC). The amino acid sequence of the ABC23 efflux pump appears to show high degrees of similarity (41 to 64%) to those of the ABC proteins of Lactococcus lactis; Bacillus subtilis; Streptococcus pneumoniae; Msr(C) of E. faecium; and Vga(A), Vga(B), and Msr(A) of Staphylococcus aureus (Singh et al., 41st ICAAC). To date, none of the streptogramin resistance genes found in staphylococci or E. faecium have been identified in E. faecalis.
The aim of the present study was to determine if any of the known staphylococci or E. faecium streptogramin resistance genes are present in E. faecalis isolated from retail poultry samples.
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Antimicrobial susceptibilities of enterococci. The MICs of antimicrobials for enterococci were determined with the Sensititre Automated Antimicrobial Susceptibility system (Trek Diagnostic Systems, Westlake, Ohio) and were interpreted according to National Committee for Clinical Laboratory Standards (NCCLS) guidelines for broth microdilution methods (10). Escherichia coli ATCC 25922, S. aureus ATCC 29213, Pseudomonas aeruginosa ATCC 27853, and E. faecalis ATCC 29212 were used as quality control microorganisms.
DNA extraction, PCR studies, and DNA sequencing. Total bacterial DNA was extracted by the guanidium thiocyanate method described previously (16) for use as the template for PCR. Known streptogramin resistance genes as well as the macrolide resistance genes ermA, ermB, and ermC were amplified by PCR by using the oligonucleotide primers, PCR conditions, and control strains described previously (18, 20). The PCRs were performed with the AmpliTaq Gold PCR system (Perkin-Elmer, Norwalk, Conn.).
As the vat(E) primers amplified a 512-bp internal region of the vat(E) allele representing 80% of the coding region, the primers described by Soltani et al. (19) were used to amplify the 3' end of the vat(E) allele. For amplification of the 5' end of the vat(E) allele, we used the PCR primers and conditions described previously (17). The amplification gave overlapping PCR products which spanned the entire vat(E) gene and extended into both the upstream and downstream regions flanking the vat(E) gene. The DNA sequence of each overlapping amplicon was determined in both directions (SeqWright, Houston, Tex.) and compared to that of vat(E-1) (GenBank accession no. AF242872) with the BLAST program of the National Center for Biotechnology Information (3).
Recently, Jensen et al. (L. B. Jensen, A. M. Hammerum, and F. M. Aarestrup, Letter, Antimicrob. Agents Chemother. 44:2231-2232, 2000) described the linkage of vat(E)-ermB on a transposon-like element residing on a plasmid in E. faecium. We also examined the possibility of vat(E)-ermB gene linkage in E. faecalis using the PCR primers and conditions described previously (Jensen et al., Letter, Antimicrob. Agents Chemother. 44:2231-2232, 2000).
PFGE. Pulsed-field gel electrophoresis (PFGE) was performed after digestion of the DNA with SmaI as described previously (16). To analyze the PFGE results to determine the relatedness of the E. faecium isolates, we used the interpretive criteria described elsewhere (21). The PFGE fingerprints were compared by computer-assisted analysis (BioNumerics; Applied Maths, Austin, Tex.).
Conjugation of streptogramin resistance determinants. The frequencies of transfer of the streptogramin resistance determinants from E. faecalis to E. faecalis and from E. faecalis to E. faecium were examined by the filter mating method (14). The recipient strains used for the conjugation studies were E. faecalis CVM3463 (quinupristin-dalfopristin MIC, 8 µg/ml; gentamicin MIC, 1,028 µg/ml) and E. faecium GE-1 (quinupristin-dalfopristin MIC, <1 µg/ml; rifampin MIC, 100 µg/ml; fusidic acid MIC, 50 µg/ml). Transconjugants were selected on blood agar base supplemented with 5% defibrinated sheep blood containing either 16 µg of quinupristin-dalfopristin per ml and 500 µg of gentamicin per ml for the selection of E. faecalis transconjugants or 8 µg of quinupristin-dalfopristin per ml, 50 µg of rifampin per ml, and 25 µg of fusidic acid per ml for the selection of E. faecium transconjugants. Following incubation at 37°C for 48 h, 10 transconjugants were selected from each mating, and the transconjugants were subjected to susceptibility testing and analyzed for the presence of plasmids.
Plasmid analysis. Plasmid extraction was done by the alkaline lysis method described previously (14) to detect plasmids and to determine the number of plasmids in each strain and the transconjugants. Two strains of E. coli, strains V517 (8) and 39R861 (22), harboring plasmids of known sizes were used as plasmid size markers. Purified plasmid preparations were electrophoresed through 0.8% agarose gels at 90 V for 2 h with 1x TBE (Tris-borate-EDTA) electrophoresis buffer. The plasmids were visualized under UV light following ethidium bromide staining.
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View this table: [in a new window] |
TABLE 1. Antimicrobial susceptibility profiles, PCR data, and PFGE grouping of the 16 E. faecalis isolates recovered from retail meatsa
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Even though ermB and vat(E) reside in the same isolate in two chicken sample E. faecalis isolates that were PCR positive for vat(E) and ermB (isolates CVM 3972 and CVM 3973), we were unable to show vat(E)-ermB linkage on a transposon-like element, as described by Jensen et al. (Letter, Antimicrob. Agents Chemother. 44:2231-2232, 2000), in these two isolates. These findings indicate that vat(E) and ermB may not be close to each other on the plasmids found in these two isolates.
DNA sequencing confirmed the presence of vat(E) PCR products; however, interestingly, several variations between the vat(E) DNA sequences indicating allelic variation were detected. The vat(E) sequences of the two turkey sample E. faecalis isolates varied from the original vat(E-1) sequence originally described (GenBank accession no. AF242872). Strain CVM 3476 had a single vat(E) mutation, A43
G (Ile15
Val). In contrast, turkey sample E. faecalis strain CVM 3477 possessed five point mutations resulting in four amino acid substitutions and one silent mutation. These changes were G40
T (Ala14
Ser), A46
C (Lys16
Gln), G51
T (Glu17
Asp), T56
A (Val19
Asp), and G273
T (Ser89
Ser). Less sequence divergence was observed between the vat(E) genes from chicken sample E. faecalis isolates. The vat(E) sequences of two of the chicken sample E. faecalis isolates were identical to the vat(E-1) sequence originally described; however, the sequence of vat(E) from E. faecalis CVM 3478 varied by a single base, resulting in a single amino acid change, A43
G (Ile15
Val). This was the same base change seen with turkey sample E. faecalis isolate CVM 3476. All the amino acid changes are outlined in Fig. 1.
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FIG. 1. Variations in vat(E) alleles of streptogramin A acetyltransferase found in chicken and turkey sample isolates.
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Plasmid analysis. Analysis of the five E. faecalis isolates positive for vat(E) by PCR confirmed the presence of either three to four plasmids ranging in size from ca. 5 to ca. 70 kb. Turkey sample isolates CVM 3476 and CVM 3477 and chicken sample isolate CVM 3478 each had three plasmids that appeared to be of the same size, ca. 70, 15, and 5 kb, respectively. The remaining two chicken sample E. faecalis isolates (isolates CVM 3972 and CVM 3973) appeared to have the same plasmid profile outlined above; in addition, they also carried a ca. 7-kb plasmid.
Conjugation studies. Conjugation studies demonstrated that all five vat(E)-positive E. faecalis isolates were able to transfer the vat(E) streptogramin resistance determinant to both E. faecalis and E. faecium recipient strains. Conjugation frequencies for the transfer of vat(E) varied from 1 x 10-2 to 8 x 10-3 per recipient for both E. faecalis and E. faecium recipients.
Ten transconjugants per mating were selected and subjected to plasmid analysis and antimicrobial susceptibility testing. PCR analysis confirmed the presence of the vat(E) genes in the transconjugants. The plasmid profiles among the transconjugants varied, the ca. 70-kb plasmid was present in all transconjugants examined; however, the full complement of plasmids identified in donor strains was never observed in any of the transconjugants analyzed (data not shown). In each case, the MICs of quinupristin-dalfopristin, erythromycin, tetracycline, and streptomycin were the same for the transconjugants and the original parent strain.
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To our knowledge the present study is the first to report the presence of the streptogramin resistance gene vat(E) in E. faecalis. This is surprising since one might expect that a species already intrinsically resistant to an antibiotic class would not acquire additional resistance determinants against that class of antibiotics. In the present study, besides vat(E), no other streptogramin resistance determinants were identified in E. faecalis. The fact that no other streptogramin resistance determinants were identified is an important observation, as reports from Europe have identified vat(D) and vgb, in addition to vat(E), in E. faecium (19; Jensen et al., Letter, Antimicrob. Agents Chemother. 42:3330-3331, 1998). As the present study evaluated only 16 E. faecalis isolates, the ability to detect other possible resistance determinants was limited.
In addition, the three vat(E)-positive chicken sample E. faecalis isolates also harbored the ermB gene; however, the turkey sample vat(E)-positive E. faecalis isolate tested negative for ermB by PCR. Of the vat(E)-negative E. faecalis turkey isolates, 85% were positive for ermB by PCR. Jensen et al. (Letter, Antimicrob. Agents Chemother. 44:2231-2232, 2000) previously demonstrated that vat(E) and ermB are linked on the same plasmid in 70% of E. faecium poultry isolates from Denmark. However, in the present study we did not find linkage of vat(E)-ermB as part of a possible transposon-like element. Despite this, the fact that both vat(E) and ermB are present in the same strain, and in some cases on the same plasmid, may help to explain the acquisition of vat(E) by E. faecalis as a result of selective pressure from macrolide use in poultry.
Examination of the vat(E) DNA sequences obtained from E. faecalis isolates of chicken origin revealed that two of the vat(E) sequences were identical to that of vat(E-1); however, the sequence of strain CVM 3478 showed a single base change from that of the vat(E-1) allele originally described. In contrast, much more variation was observed between the vat(E) sequences of the two turkey sample E. faecalis isolates, which exhibited 3% sequence divergence, resulting in 93% amino acid identity. However, in one chicken sample isolate (CVM 3478) and one turkey sample isolate (CVM 3476), vat(E) showed the same base change, resulting in the same amino acid substitution (Ile15
Val). The MICs for these two isolates were almost identical (only differences in the MICs of erythromycin were seen), and the plasmid profiles of the two isolates were identical. We could therefore predict either that these two isolates are clones or that they share common plasmids. However, these two isolates were distinguishable by PFGE, indicating that perhaps they may have only acquired vat(E) from a common reservoir. The DNA sequence data obtained from this study suggest that the vat(E) genes in the chicken and turkey sample isolates may not, in all cases, have originated from the same source. There appears to be greater homology among the chicken E. faecalis vat(E) sequences, whereas heterogeneity may exist between the turkey E. faecalis vat(E) sequences. To confirm this hypothesis, a larger number of isolates would need to be studied.
Eight allelic variations of vat(E) from E. faecium, designated vat(E-1) through vat(E-8), have been deposited in GenBank (17, 19). However, the vat(E) allelic variations observed from E. faecalis isolates in this study have not previously been observed in E. faecium. It is of interest that the substitutions found in the vat(E) alleles, including those described in the present study, are all focused around a very small region of the vat(E) allele, namely, between base positions 34 and 57 (amino acids 11 to 19). How these amino acid substitutions affect the activity of the Vat(E) protein is not known at present, as the three-dimensional crystal structure of the Vat(E) protein has not been determined. However, we suspect that this small region (amino acids 11 to 19) does not play an important role in streptogramin binding either directly or indirectly, as amino acid variations in this region do not seem to have any effect on the level of resistance to quinupristin-dalfopristin.
PFGE analysis showed that the two vat(E)-positive turkey sample isolates were indistinguishable from each other. Similarly, two vat(E)-positive chicken sample E. faecalis isolates were assigned to PFGE group J and one vat(E)-positive chicken sample isolate was assigned to PFGE group I. These results suggest that the vat(E) genes are not confined to a single clone in E. faecalis, as determined by PFGE.
It was interesting that the two vat(E)-positive turkey sample E. faecalis isolates belonged to the same PFGE group; however, there was 3% DNA sequence divergence in the vat(E)-coding region, suggesting that a clone of E. faecalis may have acquired vat(E) from different sources.
Conjugation studies demonstrated that the vat(E) gene could be transferred not only from an E. faecalis donor to an E. faecalis recipient but also from an E. faecalis donor to a streptogramin-susceptible E. faecium recipient. This implicates E. faecalis as a reservoir for vat(E) genes that can be transferred to E. faecalis or E. faecium. This is not surprising, as previous studies have shown that plasmids and transposons readily move between enterococcal species (15, 16). Susceptibility to quinupristin-dalfopristin, erythromycin, tetracycline, and streptomycin was detected following the transfer of the 70-kb plasmid. This is based on the observation that not all transconjugants received the full complement of plasmids that were contained within the donor strain; however, each transconjugant received the 70-kb plasmid. Although the linkage of vat(E) and ermB as part of a possible transposon-like element has recently been reported (Jensen et al., Letter, Antimicrob. Agents Chemother. 44:2231-2232, 2000), we could not establish a vat(E)-ermB linkage. It is possible that vat(E) may have appeared in E. faecalis by virtue of gene linkage on the same plasmid as the resistance determinants for either erythromycin, tetracycline, or streptomycin resistance. Thus, the vat(E) gene may have been coselected by the use of either macrolides, tetracyclines, or the aminoglycosides in the poultry production environment. It is therefore feasible that an organism such as E. faecalis that is intrinsically resistant to a given antimicrobial may, under certain conditions, harbor resistance genes as a consequence of coselection. This notion is supported by reports from Denmark, which showed that in 1998, 55.6% of E. faecium isolates recovered from pigs were resistant to virginiamycin. Following the 1998 ban on the use of virginiamycin in feeds, this prevalence decreased to 8.0% in 1999 and then increased again to 22.5% in 2000. Although it was unclear why resistance to virginiamycin increased in 2000, the investigators suggested that the increase was due to the emergence of isolates that were simultaneously resistant to erythromycin, kanamycin, penicillin, streptomycin, and tetracycline (1). This may explain to some degree the appearance of vat(E) in our isolates of E. faecalis. All five E. faecalis isolates that were vat(E) positive by PCR showed reduced susceptibilities to erythromycin, streptomycin, and tetracycline. It is plausible that the use of these antibiotics, either singly or in combination, may have coselected for the appearance and maintenance of vat(E) in a population of E. faecalis isolates.
In conclusion, we have detected vat(E) in E. faecalis, a species intrinsically resistant to quinupristin-dalfopristin, probably by virtue of efflux mechanisms, and found that this gene could readily be transferred to other E. faecalis and E. faecium isolates. The recovery of vat(E)-containing E. faecalis isolates from retail chickens and turkey samples (42 and 22% of samples, respectively) indicates a reservoir of streptogramin resistance genes that can potentially be transferred to human gram-positive pathogens via consumption of contaminated food. Even though the study cohort comprised a small number of randomly selected isolates, the presence of vat(E) in approximately 30% of the E. faecalis isolates suggests that the prevalence of vat(E) in the larger environment is significant. Until we fully understand the mechanisms of streptogramin resistance in enterococci and quantify the risk of gene transfer from nonhuman isolates to human isolates, the occurrence of streptogramin resistance genes in enterococci of animal origin remains a potential public health hazard.
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