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Journal of Clinical Microbiology, May 2005, p. 2125-2132, Vol. 43, No. 5
0095-1137/05/$08.00+0 doi:10.1128/JCM.43.5.2125-2132.2005
Copyright © 2005, American Society for Microbiology. All Rights Reserved.
University Hospital of North Norway (UNN) and Department of Microbiology and Virology, Institute of Medical Biology, Faculty of Medicine, University of Tromsø, Tromsø,1 Division of Infectious Disease Control, Norwegian Institute of Public Health,2 Institute of Oral Biology, University of Oslo, Oslo, Norway3
Received 21 August 2004/ Returned for modification 6 December 2004/ Accepted 7 January 2005
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There are three well-characterized mechanisms of macrolide resistance in S. pneumoniae (23, 36, 46, 53). (i) Target site modification is mediated by methylases encoded by erythromycin ribosome methylation (erm) genes. Methylation of adenine at position 2058 of the peptidyl transferase loop of 23S rRNA prevents binding of 14-, 15-, and 16-member ring macrolides, lincosamides, and streptogramin B, thus leading to resistance to all these compounds (MLSB-type resistance). Expression of MLSB-type resistance can be either constitutive (cMLS) or inducible (iMLS). The erm(B) gene is the most common erm gene in S. pneumoniae, but erm(A) has been reported in rare cases (48). (ii) The active efflux mechanism encoded by macrolide efflux (mef) genes is more specific and causes so-called M-type resistance only to 14-and 15-member ring macrolides. (iii) Ribosomal mutations in the 23S rRNA gene or the ribosomal protein L4 or L22 have been shown to cause macrolide resistance in S. pneumoniae (4, 51, 52).
The aims of this study were to examine the true prevalence of macrolide resistance in Norwegian clinical isolates of S. pneumoniae and to determine their resistance phenotypes and genotypes. We also performed serotyping and multilocus sequence typing (MLST) to investigate the clonal relationship among MRSP strains (10).
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1 µg/ml) among 2,200 clinical isolates of S. pneumoniae collected by Norwegian clinical microbiology laboratories during four different periods from 1993 to 2002. The isolates were either invasive isolates from blood cultures (n = 998) or noninvasive isolates from respiratory tract specimens (n = 1,202). Table 1 gives the study periods in relation to national population coverage, number of isolates, and distribution of invasive versus noninvasive isolates. Briefly, the 494 strains collected in 1993 to 1994 and 1997 were from three and five laboratories covering 15.3% and 27.9% of the population in Norway, respectively (22). The remaining 1,706 strains were collected in 2001 and 2002, as part of the NORM surveillance program, and included all 24 Norwegian laboratories. The surveillance strategy is based on local sampling and antimicrobial susceptibility testing by Etest (AB Biodisk, Solna, Sweden). |
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TABLE 1. Sample periods, population coverage, number of strains, and prevalence of macrolide resistance among 2,200 invasive and noninvasive S. pneumoniae isolates collected in Norway, 1993 to 2002
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-hemolysis on Mueller-Hinton agar plates supplemented with 5% (vol/vol) sheep blood (Difco Laboratories, Detroit, MI). The strains were further tested for optochin susceptibility (AB Biodisk, Solna, Sweden), agglutination in the Pneumo-Kit slidex test (bioMérieux, Marcy l'Étoile, France), and bile solubility (Sigma-Aldrich Chemie, Gmbh, Steinheim, Germany). A total of 64 strains phenotypically identified as S. pneumoniae and with reduced susceptibility to erythromycin were selected for further investigations (38). Antimicrobial susceptibility testing. Strains were examined by Etest on Mueller-Hinton agar supplemented with 5% sheep blood according to the recommendation of the manufacturer. The antimicrobials tested were erythromycin, azithromycin, clindamycin, tetracycline, penicillin G, ciprofloxacin, chloramphenicol, and trimethoprim-sulfamethoxazole. Defibrinated horse blood was used for trimethoprim-sulfamethoxazole. S. pneumoniae ATCC 49619 was included for quality control in each run. Susceptibility results were categorized according to NCCLS breakpoints (27). Interpretive criteria for ciprofloxacin are not given by the NCCLS. Thus, we used the breakpoints for ciprofloxacin obtained from the Swedish Reference Group for Antibiotics (47).
Macrolide resistance phenotypes. The double-disk method with erythromycin and clindamycin disks (AB Biodisk, Solna, Sweden), as well as MIC data, was used for determination of macrolide resistance phenotypes as previously described (42). Blunting of the clindamycin inhibition zone near the erythromycin disk indicated iMLSB, and resistance to both erythromycin and clindamycin indicated cMLSB. Susceptibility to clindamycin with no blunting indicated the M resistance phenotype (M type) (42).
Detection of macrolide resistance determinants. The isolates were examined by PCR for the macrolide resistance genes erm(A), erm(B), and mef(A) as previously described (45, 50, 52), except for the forward erm(B) primer, which was redesigned (5'-GTA CTC AAC CAA ATA ATA AAA CAA-3'). S. pyogenes 200A [erm(A)], S. pneumoniae K-96 [erm(B)], and S. pneumoniae NT896 [mef(A)], kindly provided by Jari Jalava, National Institute of Public Health, Turku, Finland, were used as positive controls. A single strain with no detectable acquired macrolide resistance gene was examined by partial pyrosequencing of 23S rRNA and genes encoding ribosomal proteins L4 and L22 at the National Institute of Public Health in Turku (37).
Serotyping. All the strains were serotyped using Neufeld's Quellung reaction with serum obtained from Statens Serum Institut, Denmark. Nontypeable isolates that were optochin susceptible and bile soluble were considered presumptive pneumococci.
MLST. MLST was performed according to the work of Enright et al. (10). Briefly, internal fragments of the seven housekeeping genes aroE, gdh, gki, recP, spi, xpt, and ddl were amplified by PCR and sequenced on each strand using the ABI Prism BigDye cycle sequencing kit (Perkin-Elmer Applied Biosystems). Sequencing reaction products were electrophoresed on an ABI Prism 377 automated DNA sequencer (Applied Biosystems). Sequences were analyzed using the Sequence Navigator DNA and Protein Sequence Comparison software (Applied Biosystems). Alleles were assigned by comparing the sequence at each locus to all known alleles at that locus, and the combination of seven alleles (the allelic profile) determined the sequence type (ST). Allele and ST assignments were made through the S. pneumoniae MLST website at http://www.mlst.net. Strains were clustered using the program for tree building provided by the MLST database.
Clone complex designation. An isolate was assigned to a clone complex if it had the allelic profile of the reference isolate of the clone or differed from the reference strain at one (single-locus variant [SLV]) or two (double-locus variant [DLV]) loci. Thus, to be included in a clone complex, strains must have at least five out of seven alleles identical to the reference isolate and preferably the same serotype (13).
Statistical analysis.
The
2 test was used for statistical analysis. P < 0.05 was considered statistically significant.
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Resistance phenotypes and genotypes.
Results for resistance phenotypes and genotypes are presented in Table 2. The most common macrolide resistance phenotype was the M type, comprising 36/60 (60%) of the resistant isolates. Twenty-two strains (37%) harbored cMLSB-type resistance. A single isolate expressed an iMLSB phenotype. One strain (01-41) displayed a weak cMLSB phenotype with high-level resistance to erythromycin and azithromycin (MIC,
256 µg/ml) and intermediate susceptibility to clindamycin (MIC, 2 µg/ml). The M-type S. pneumoniae isolates all carried the mef(A) gene. The difference in the prevalence of mef among invasive strains in 2001 (5/11; 45%) and 2002 (18/22; 82%) (data not shown) was statistically significant (P = 0.034). All MLSB-type strains harbored the erm(B) gene, except for the weak-cMLSB-phenotype strain 01-41, which was negative for all macrolide resistance genes. Pyrosequence analysis of this strain has revealed that two out of four 23S rRNA alleles had an A-to-G mutation at position 2058. This mutation mediates reduced susceptibility to macrolides (M. Haanperä, personal communication). No strains carried the erm(A) gene. No isolates were found to carry more than one macrolide resistance gene.
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TABLE 2. Distribution of macrolide resistance phenotypes, genotypes, and MIC ranges for erythromycin, clindamycin, and azithromycin among invasive and noninvasive S. pneumoniae isolates
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2 µg/ml). Tetracycline resistance was detected in 26 (43%) isolates. Resistance to trimethoprim-sulfamethoxazole and chloramphenicol was detected in 16 (27%) and 6 (10%) isolates, respectively. All strains were intermediately susceptible to ciprofloxacin. |
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TABLE 3. Distribution of different coresistances within the respective resistance genotypes and serotypes among 60 macrolide-resistant S. pneumoniae isolates
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MLST results in relation to previously described allelic profiles, pandemic clones, serotypes, and antimicrobial resistance patterns. The clonal relationships among the 60 MRSP strains were defined by MLST. A total of 29 different STs were identified (Table 4 and Fig. 1). Forty-two strains (70%) displayed previously described allelic profiles, and 38 of these were identical to (n = 33) or variants of (5 SLVs or DLVs) seven pandemic clones: ST9 (and its SLV ST15; England14-9) (n = 24) (19), ST273 (Greece6B-22) (n = 5) (49), ST315 (Poland6B-20) (n = 2) (29), ST177 (Portugal19F-21) (n = 1) (40), ST90 (and its SLV ST95; Spain6B-2) (n = 2) (26), ST63 (Sweden15A-25) (n = 1) (39), and ST226 (represented by its SLV ST469; Hungary19A-6) (n = 3) (25). The remaining four strains with previously described allelic profiles belonged to ST230 (n = 2) (30), ST344 (n = 1), and ST490 (n = 1). A total of 18 strains revealed new allele combinations and were assigned to STs not previously included in the database. Eleven of these strains displayed 10 unique STs, while seven strains displayed allelic profiles that were SLVs or DLVs of previously reported pandemic clones: ST1161 (SLV of ST9; England14-9), ST1165 (SLV of ST90; Spain6B-2), ST1166 (SLV of ST242; Taiwan23F-15) (44), ST1167 and ST1171 (SLV and DLV, respectively, of ST177; Portugal19F-21) (40), ST1170 (SLV of ST236; Taiwan19F-14) (44), and ST1168 (DLV of ST315; Poland6B-20). Thus, a total of 45/60 (75%) erythromycin-resistant clinical isolates of S. pneumoniae in Norway were clonally related to pandemic resistant clones. The strains harboring allelic profiles identical to international pandemic clones displayed the serotypes and antimicrobial resistance profiles previously reported. Five of the strains that were SLVs or DLVs of pandemic clones showed a serotype or resistance pattern divergent from the original description of the corresponding pandemic clone (Table 5).
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TABLE 4. Distribution of STs among 60 strains of S. pneumoniae from Norway in relation to serotype, macrolide resistance determinants, sample site, and globally disseminated clones
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FIG. 1. MLST-based dendrogram of the genetic relationships among 60 macrolide-resistant isolates of S. pneumoniae from Norway. Genetic distances between STs are indicated.
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TABLE 5. New STs of S. pneumoniae isolates from Norway related to pandemic clonesa
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TABLE 6. Characteristics of 11 S. pneumoniae isolates with new STs, not related to known pandemic clones
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3 strains. Strains in the first clone complex, comprising ST9 and its two SLVs, ST15 and ST1161, belonged to serotype 14, were mef(A) positive, and displayed no coresistance except for the single ST15 isolate, which was resistant to trimethoprim-sulfamethoxazole and chloramphenicol. This clone complex comprised 25/60 (42%) of the macrolide-resistant S. pneumoniae isolates in Norway and was dominant among the invasive isolates (21/33 [64%]). The clone was isolated in 15 laboratories covering all parts of the country. It first appeared in a noninvasive specimen in 1997. The second most prevalent clone in this study was ST273 (Greece6B-22) (49). This so-called "Mediterranean clone" was detected among invasive (n = 2) and noninvasive (n = 3) isolates, and all five isolates harbored the erm(B) gene. Two of the isolates expressed resistance to tetracycline, and another two were resistant to trimethoprim-sulfamethoxazole. The fifth strain was resistant to tetracycline, trimethoprim-sulfamethoxazole, and chloramphenicol. All five isolates were susceptible to penicillin and belonged to serotype 6B. This clone was first detected in 1993 in a noninvasive (throat) specimen from a patient in North Norway. The five strains were collected from five laboratories, covering different geographical regions of Norway, in 1993, 1997, 2001, and 2002. Finally, two clone complexes were represented by three strains: ST90, ST95, and ST1165 belong to the Spain6B-2 clone, and ST469 (n = 3) belongs to Hungary19A-6. |
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The overall prevalence of macrolide resistance was 2.7%. This is comparable to the figures reported for The Netherlands (5.2%), Sweden (4.7%), Denmark (4.1%), and the Czech Republic (2.0%) to the European Antimicrobial Resistance Surveillance System (12). In contrast, Belgium, France, Italy, and Spain reported resistance rates of >35% (15). Some studies have shown a direct association between the outpatient consumption of antibacterial agents and the prevalence of antimicrobial resistance in streptococci. MRSP is considered a marker of resistance to commonly used antibiotics in the treatment of respiratory tract infections (20, 32, 41). The prevalence of MRSP was recently shown to be directly associated with antibiotic selection pressure on a national level in 16 industrialized countries from 1994 to 2000 (1). Macrolide usage varied from 1.0 defined daily dose (DDD)/1,000 inhabitants per day in Sweden to 6.0 DDDs/1,000 inhabitants/day in France. The macrolide usage in Norway was 1.82 DDDs/1,000 inhabitants/day in 2002 (28), an increase of 32% from 1.4 DDDs/1,000 inhabitants/day in 1996. Thus, our relatively low prevalence of MRSP is in accordance with our national human consumption of macrolides.
The M type was the most common phenotype of macrolide resistance in Norwegian S. pneumoniae. This was due mainly to the mef-carrying ST9 (England14-9) clone, representing a majority of invasive isolates. The MLSB phenotype was most common among noninvasive isolates. These observations are consistent with the results of studies in other European countries, where MLSB- and M-type isolates predominate among noninvasive and invasive strains, respectively (3, 8, 24, 35). This distribution of different resistance phenotypes may be a clonal phenomenon, as observed in this study. In contrast, M-type strains have predominated in North America and Canada in invasive as well as noninvasive isolates (9, 18, 21).
Coresistance to other commonly used antibiotics was more frequent among noninvasive than invasive isolates and dominated in MLSB strains compared to the more susceptible M-type isolates. These observations can be explained by the predominant invasive ST9 clone, which was susceptible to all other antimicrobial agents tested. Tetracycline resistance was the most prevalent coresistance phenotype, and it was seen mainly in MLSB strains. This observation illustrates the genetic linkage between tet(M) and erm(B) resistance genes on the conjugative transposon Tn1545, originally described by Courvalin and Carlier (7) and by Clewell et al. (6). The chloramphenicol resistance determinant cat pC194 may also be genetically linked to Tn1545 according to Seral et al. (43). Penicillin resistance was observed primarily in noninvasive tetracycline-resistant strains with MLSB-type macrolide resistance.
MLST has proved useful for epidemiological and evolutionary studies of S. pneumoniae and other bacterial pathogens (11, 14, 54). We found that 75% of Norwegian MRSP isolates were indistinguishable from or related to pandemic resistant clones. The MLST data were supported by the results from serotyping and analysis of antimicrobial susceptibility patterns. The findings suggest that import of resistant strains may be the most important factor in the emergence of MRSP in Norway. In addition, four strains were assigned to three previously described STs that are not linked to pandemic clones: ST230 has been identified in Denmark and Italy, ST344 in Australia, and ST490 in Bulgaria, Finland, Greece, Greenland, Poland, and Sweden. The remaining 11 strains (18%) displayed 10 unique STs and were considered sporadic "Norwegian" strains. It should be noted that this interpretation is based on the S. pneumoniae MLST database, which still has a limited number of strains and is dominated by resistant lineages.
The most prevalent MRSP strain in Norway was the invasive serotype-14 clone defined as ST9 by MLST. This clone has been reported as one of the major global pneumococcal clones by the Pneumococcal Molecular Epidemiological Network and is often referred to as England14-9 (26). The ST9 clone has been identified as an important cause of meningitis throughout the United Kingdom (19) and is recognized as a cause of invasive disease in several other countries (http://www.mlst.net). Dissemination of invasive ST9 isolates has also been reported for Canada, Scotland, and, most recently, Greece (2, 17, 18). The mechanisms behind the impressive global spread of England14-9 remain unknown. The lack of information on the epidemiology of macrolide-susceptible ST9 precludes any speculations concerning the impact of the mef resistance determinant and/or linked genetic traits in the evolution of this invasive clone. The observed susceptibility to other commonly used antibiotics combined with the low macrolide consumption in Norway suggest that mechanisms other than antibiotic selection may play a part in the spread of the England14-9 clone in our country.
The MLST data also demonstrated the presence of several multidrug-resistant international S. pneumoniae clones such as Spain6B-2, also known as "the Icelandic" clone, and the recently recognized penicillin-susceptible multiresistant Greece6B-22 clone (49). This clone has already been described in three Mediterranean countries: Greece, Italy, and Israel. The other pandemic clones were represented with three or fewer strains in our study. ST469 (SLV of ST226; Hungary19A-6) was represented by two invasive isolates and one noninvasive mef(A)-positive isolate. The three isolates all belonged to serotype 6B and were susceptible to all other antimicrobials tested. ST226 has been reported earlier as a serotype-19A, multidrug-resistant clone containing erm(B) in Hungary. However, in the MLST database we found a recently submitted ST226 serotype-6B strain. No data on antibiotic resistance were accessible for this strain. ST230 was recently described as a novel, multiple-drug-resistant, serotype-24F lineage causing meningitis. It is genetically related to a penicillin-resistant serotype-14 lineage and is endowed with genetic traits shared with isolates of different serotypes (30). We found two serotype-19F mef-positive noninvasive ST230 isolates. One of these showed reduced susceptibility to penicillin. Moreover, the ST1165 (SLV of ST90; Spain6B-2) isolate belonged to serotype 3. These observations support the notions that capsular switching occurs regularly and that MLST is useful to identify clones emerging with different serotypes. The Norwegian MRSP isolates related to international clones were also shown to express coresistance to other commonly used antibiotics, thus supporting the role of antibiotic selection in the spread of these clones. The relatively low consumption of antibiotics by humans in Norway may contribute to the limited success of these clones in our country.
We detected 11 strains with 10 novel STs and consider them sporadic "Norwegian" MRSP strains, although the number of strains in the MLST database is still rather small. Interestingly, 9 out of these 11 strains were resistant to tetracycline, and several of them expressed reduced susceptibility to penicillin and trimethoprim-sulfamethoxazole. Seven of the tetracycline-resistant strains were shown to harbor the erm(B) gene, thus indicating the presence of Tn1545. If these isolates are considered nonimported, our observations suggest the presence of a Tn1545 reservoir that might be recruited within the S. pneumoniae population during antibiotic therapy. The molecular basis for tetracycline-induced conjugative transfer of Tn1545-Tn916-like elements has been elucidated (5). Norway has relatively high usage of tetracyclines (28), comprising 18% of total human systemic antibiotic consumption in 2002. Thus, cotransfer and coselection during tetracycline exposure may be involved in the emergence of sporadic Norwegian MLSB-type MRSP. It would be of interest to examine the reservoir and prevalence of Tn1545 elements within the human pharyngeal flora in Norway to investigate this hypothesis further.
In conclusion, we observed a low prevalence of macrolide resistance among invasive and noninvasive S. pneumoniae isolates in Norway. The majority (75%) of MRSP strains were genetically indistinguishable from or related to well-known pandemic antimicrobial-resistant clones, suggesting that the emergence of MRSP in Norway is largely due to imported strains from high-prevalence countries. The mef-positive England14-9 clone contributed significantly to the prevalence of MRSP. The mechanisms responsible for the spread of this invasive MRSP clone susceptible to other commonly used antimicrobial agents remains to be elucidated. The unique STs of MRSP strains considered sporadic "Norwegian" isolates were dominated by tetracycline-resistant MLSB strains. This may indicate a reservoir of Tn1545-related elements within the human pharyngeal flora in Norway, which is currently being examined.
Contributing members of the Norwegian Macrolide Study Group are Signe H. Ringertz and Bitten Rasmussen (Aker University Hospital), Martin Steinbakk and Siri Haug (Akershus University Hospital), Fredrik Müller and Miriam Sundberg (Bærum Hospital), Hjørdis Iveland and Ann Elise Johansen (Central Hospital of Buskerud), Liisa Mortensen and Karstein Korsvik (Central Hospital of Nordland), Arne Mehl and Eldbjørg Berg (Central Hospital of Nord-Trøndelag, Levanger), Gerd Skjervold and Lise Haaland (Central Hospital of Nord-Trøndelag, Namsos), Ingunn Haavemoen and Kari Ødegaard (Central Hospital of Oppland, Lillehammer), Linda Schildman and Lene Bjøntegård (Central Hospital of Hedmark, Elverum), Eivind Ragnhildstveit and Eva Madsen (Central Hospital of Østfold), Elisebet Haarr and Tone Roa (Central Hospital of Rogaland), Reidar Hjetland and Berit Ose (Central Hospital of Sogn og Fjordane), Sølvi Noraas and Torill S. Larsen (Central Hospital of Vest-Agder), Rolf Schøyen and Astrid Lia (Central Hospital of Vestfold), Liv J. Sønsteby and Pirrko-L. Kellokumpu (Central Hospital of Hordaland, Haugesund), Einar Vik and Margreet B. Sandhaug (County Hospital of Møre og Romsdal, Molde), Reidar Hide and Fillip Angeles (County Hospital of Møre og Romsdal, Ålesund), Asbjørn Digranes and Hilde Bekkeheien (Haukeland Hospital), Mette Walberg and Magli Bøvre (National Hospital, University of Oslo), Yngvar Tveten and Inger Johanne Lunde (Telelab A/S, Skien), Gaute Syversen and Thea Bergheim (Ullevål University Hospital), Gunnar S. Simonsen and Siv-H. Barkhald (University Hospital of North Norway), Trond Jacobsen and Mariann Hulsund (University Hospital of Trondheim), and Wibeke Aasnæs and Anne K. Andersen (Laboratory of Clinical Medicine, Oslo).
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