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Journal of Clinical Microbiology, March 2009, p. 554-559, Vol. 47, No. 3
0095-1137/09/$08.00+0 doi:10.1128/JCM.01919-08
Copyright © 2009, American Society for Microbiology. All Rights Reserved.

Respiratory Diseases Branch, Centers for Disease Control & Prevention, Atlanta, Georgia 30333,1 Department of Pathology,2 Department of Microbiology, University of Alabama at Birmingham, Birmingham, Alabama 352943
Received 3 October 2008/ Returned for modification 25 November 2008/ Accepted 23 December 2008
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The MAb typing system was used to resolve serotype 6C isolates among CS6As recovered during the pre-pneumococcal 7-valent conjugate vaccine (PCV7) year 1999 and post-PCV7 years 2003 to 2006 from areas under continuous surveillance in Active Bacterial Core surveillance (ABCs) in the United States (10). This investigation revealed a marked decrease in the rate of serotype 6A invasive pneumococcal disease (IPD) in the post-PCV7 period that was apparently due to cross-protection mediated by the serotype 6B component included in PCV7. The investigation also revealed a small, yet significant, increase in the rate of serotype 6C IPD. Here, we describe an expedient PCR assay for resolution of serotype 6C and true serotype 6A from CS6As. We extend our recent observations (10) through testing all available CS6As recovered from expanded ABCs areas during 1999, 2006, and 2007. Our results show that the proportion of type 6C to true 6A IPD isolates continued to increase during 2006 and 2007. The incidence of IPD caused by serotype 6C remained stable during 2006 and 2007, while the incidence of serotype 6A and 6B IPD continued to decline. We also show that serotype 6C is genetically diverse, with four of six distinct clonal backgrounds shared with recently recovered serotype 6A strains.
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Serotype 6C determination. Crude DNA template from CS6As was subjected to a multiplex PCR containing primer pairs specific for cpsA (160 bp) and serogroup 6 (250 bp), as previously described (11). A third primer pair in the multiplex reaction contained the serotype 6C-specific primers 6C-fwd (CATTTTAGTGAAGTTGGCGGTGGAGTT) and 6C-rev (AGCTTCGAAGCCCATACTCTTCAATTA) for the amplification of a 727-bp wciN6C gene fragment. Crude template preparation and specific reaction conditions are posted at http://www.cdc.gov/ncidod/biotech/strep/pcr.htm. PCR products were resolved on 2.0% NuSieve agarose containing 0.5 µg/ml ethidium bromide (Fig. 1).
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FIG. 1. Serotype 6C PCR assay results, showing 15 serotype 6C-positive samples and one serogroup 6-positive sample that is 6C negative.
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Susceptibility testing.
Susceptibility testing was performed as previously described (9) using broth dilution and year 2007 Clinical and Laboratory Standards Institute cutoffs (3). Penicillin susceptibility was defined as a MIC of
0.6 µg/ml. Penicillin resistance was defined as a MIC of
2 µg/ml. All isolates were tested for susceptibilities to penicillin, erythromycin, amoxicillin, cefotaxime, ceftriaxone, cefuroxime, meropenem, chloramphenicol, tetracycline, clindamycin, linezolid, rifampin, ciprofloxacin, levofloxacin, telithromycin, quinupristin, dalfopristin, vancomycin, and trimethoprim-sulfamethoxazole.
Data analysis. Since the serologic difference between serotypes 6A and 6C has been conclusively shown to be due to distinct wciN genes within the respective cps6A and cps6C loci (13), and as described below, we found concordance between PCR and serologic 6C testing results in extensive comparisons. We refer to all CS6As that are wciN6C positive as serotype 6C throughout this report. We calculated annual incidence rates of IPD (number of cases per 100,000-person population) for 1999 using U.S. Census Bureau population estimates as denominators. Rates for 2006 and 2007 were based on race-bridged postcensus 2006 population estimates from the National Center for Health Statistics (http://www.cdc.gov/nchs/). Serotype-specific incidence rates were adjusted for cases with missing isolates, based on the distribution of serotypes for cases with available isolates. We compared serotype-specific incidence rates in 2007 to rates in 2006 and 1999 by calculating relative risks and 95% confidence intervals (CI) expressed as percent changes in rates of disease [(relative risk – 1) x 100%].
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TABLE 1. Distribution of serotype 6A, 6B, and 6C isolates within serogroup 6 and serotype-specific IPD incidence rates during 1999, 2006, and 2007a
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We developed a multiplexed PCR assay (Fig. 1) for assessing all 636 CS6A isolates recovered from 1999, 2006, and 2007 surveillance. This assay detected pneumococcal species (160-bp cpsA fragment) and serogroup 6 (250-bp wciP fragment) as described previously (11). This assay also included a 6C-specific PCR primer pair (727-bp fragment) specific to the previously described wciN6C gene (13). The isolates that were evaluated included the 332 isolates from years 1999 and 2006 that were tested by the MAb assay in our recent study (12). We also tested a total of 66 serotype 6B isolates recovered from 2005 to 2007 for the presence of the wciN6C gene, including all 51 available from 2006 to 2007.
A dramatic decrease in the incidence of serotype 6B IPD was observed between 1999 and 2007 (94% reduction [95% CI, –96 to –91%]; absolute rate reduction of 1.5 cases per 100,000) among all age groups (Table 1), coinciding with widespread PCV7 implementation, with no significant changes observed between 2006 and 2007 (16% reduction [95% CI, –49 to 41%]).
The incidence of serotype 6A IPD also declined in all age groups, with an overall decrease from 1.1 cases per 100,000 in 1999 (pre-PCV7) to 0.3 cases per 100,000 in 2007 (76% reduction [95% CI, –82 to –69%]; absolute rate reduction of 0.8 cases per 100,000) and did not change significantly from 2006 to 2007 (16% reduction [95% CI, –39 to 13%]) (Table 1).
The overall incidence of serotype 6C IPD increased significantly from 0.22 cases per 100,000 in 1999 to 0.58 cases per 100,000 in 2007 (164% increase [95% CI, 87 to 270%]) (Table 1). Even though percent increases were large for all age groups, absolute rate changes were very small (0.52 and 0.35 cases per 100,000, among children of <5 years of age and persons of
5 years of age, respectively). Between 2006 and 2007, no significant changes in the incidence of serotype 6C IPD occurred (2% increase [95% CI, –18 to 27%]).
The majority of IPD cases in the United States due to serogroup 6 during 1999 were caused by serotype 6B (55.3%), followed by serotype 6A (37.2%) (Table 1). Serotype 6C accounted for only a small percentage (7.5%) of serogroup 6 IPD cases in 1999, with no type 6C IPD isolates recovered from individuals of <5 years of age. In 2007, serotype 6C accounted for the largest proportion of serogroup 6 IPD cases overall (62.1%) and in each age group, followed by serotypes 6A (27.8%) and 6B (10.1%) (Table 1).
Absence of the 6C-specific determinant among serotype 6B isolates. The serotype 6A and 6B capsules are very similar structurally, and their respective biosynthetic loci are nearly identical at the DNA sequence level (8). Nonetheless, we found that all 66 serotype 6B isolates tested from years 2005 to 2007 in ABCs areas (including the 52 year 2006 and 2007 6B isolates in Table 1) tested negative for the presence of the wciN6C gene.
Penicillin nonsusceptibility in serotypes 6A and 6C. In 1999, 83 of 179 (46.4%) 6A isolates were penicillin nonsusceptible, compared to only 4 of 35 (11.4%) 6C isolates (Table 2). In 2006 and 2007, 79 of 140 (56.4%) 6A isolates were penicillin nonsusceptible, compared to 90 of 282 (31.9%) 6C isolates. Interestingly, the prevalence of full penicillin resistance within 6A isolates decreased from 17.3% in 1999 to 7.1% in 2006 and 2007. Full penicillin resistance within 6C was not detected during 1999, but it accounted for 8 of 282 isolates (2.8%) during 2006 and 2007.
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TABLE 2. Changing proportions of penicillin-nonsusceptiblea isolates within serotype 6A and 6C IPD isolates in 2006 and 2007 relative to those in 1999
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TABLE 3. MLST types of 42 serotype 6C ABCs isolates and observed overlap with ABCs serotype 6A isolates from 1999 to 2007
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Recent results (12) and the results presented here demonstrate that while serotype 6A IPD incidence decreased significantly in postvaccine years, there has also been a small but significant increase in serotype 6C IPD incidence. While the incidence of type 6C IPD more than doubled between 1999 and 2007, incidence during 2007 remained low. There was a stepwise annual increase in 6C IPD incidence in individuals 5 years of age or older during the period 2004 to 2006; however, incidence in children younger than 5 years of age was very low, with no clear trend apparent (12). In 1999, total 6C IPD incidence was very low and was not detectable in individuals younger than 5 years of age (Table 1). The overall incidence of serotype 6A and 6B IPD continued to decrease, although not significantly, between 2006 and 2007. It is remarkable that serotype 6C is now by far the most prevalent serogroup 6 serotype causing IPD (Table 1). This observation is primarily a testament to the efficacy of PCV7 against serotypes 6A and 6B, but it also serves as an alert to the fact that PCV7 does not protect against serotype 6C IPD (12). While penicillin-resistant serotype 6C isolates are still uncommon compared to serotype 6A isolates, we have now detected penicillin-resistant serotype 6C isolates within four of the six genetic complexes observed within the isolates of this serotype (Table 2).
Based upon current available information, it is not completely clear which of the three serogroup 6 serotypes was the ancestral serotype, and we do not wish to make implications regarding this point in this report. The observation that the wciN6C gene was not detected among 66 conventionally serotyped 6B IPD isolates recovered from 2005 to 2007 is compatible with the notion that the wciN6C-dictated structural alteration of the serotype 6B capsule does not confer a selective advantage or that this alteration could even confer a selective disadvantage. Alternatively, it is possible that the wciN6C gene replacement imposed upon the serotype 6B capsular locus would change the classically determined 6B serotype to nontypeable or to the 6A serotype. Studies are ongoing to answer these questions. It is interesting that ST1092 and an ST1092 single-locus variants were observed among three of the 6C isolates described here. Although ST1092 has been associated with multiple serotype 6B isolates (see http://www.mlst.net), these three CS6As tested positive for 6C in a previous study (1) with the MAb Hyp6AG1 (data not shown), which has been shown to recognize exclusively CS6As and not serotype 6B strains (2, 13).
As described recently (12), there was a significantly greater proportion of penicillin-resistant isolates within serotype 6A (16%) than within serotype 6C (2%) when comparing cumulative 1999, 2003, and 2006 data. These data relied heavily upon year 1999 isolates, since there were many more type 6A isolates recovered during this time (Table 1) and full penicillin resistance was overrepresented among children of <5 years of age (data not shown). We show here that intermediate and full penicillin resistance was considerably more common within serotype 6C in 2006 and 2007 than in 1999. The proportion of intermediately resistant 6C isolates increased from 11% to about 30%, while fully resistant isolates were not detectable among isolates in 1999 but were present at about 3% of isolates in 2006 and 2007 (Table 2). It was interesting to note that while intermediate penicillin resistance also increased within serotype 6A, full resistance decreased considerably (Table 2).
Based upon combined MLST and pulsed-field gel electrophoresis of chromosomal digests, we have found that ST376 (North Carolina6A-23 [see http://www.sph.emory.edu/PMEN/pmen_table2.html]), accounted for approximately 30% of CS6As, including the majority of fully penicillin-resistant isolates and the majority of erythromycin-resistant isolates present within the serotype (1, 6). There was only one instance of the genotype ST376 among the 42 serotype 6C isolates genotyped within one of six penicillin-resistant serotype 6C isolates tested (Table 3), indicating that ST376 is probably more common within serotype 6A than in 6C.
It is not surprising that the genotypes thus far encountered among serotype 6C ABCs isolates are historically associated with serotype 6A (with the exception of ST1092, which is associated with serotype 6B according to listings at http://www.mlst.net), since CS6As represent both 6A and 6C serotypes (14). It is very interesting to observe, however, that MLST types 376, 395, 473, and 1292 are shared among both current serotype 6A and 6C IPD isolates recently identified from our national surveillance (Table 1). It is generally accepted that serotype switching is a relatively rare event in nature (9). Individual switches in capsular serotype have been shown to occur through the replacement of the chromosomal capsular biosynthetic (cps) locus by means of recombinational double-crossover events between the donor and recipient at specific points flanking the corresponding loci, giving clear evidence of complete genetic replacement of entire large (>20 kb) cps loci and flanking sequences (2, 4). Previous findings (13) based upon sequence analysis of serotype 6A and 6C cps loci suggested that the 6C capsule type originated decades ago by a single recombination event in a 6A locus in which the 1.2-kb cps-internal glycosyl transferase gene (wciN6A) was replaced by a gene of unknown origin (wciN6C). The observation of four MLST types shared among contemporary 6A and 6C strains, in which the one major genetic difference between them is a different wciN gene, suggests the occurrence of at least four independent conversions of serotype 6A to 6C involving exclusively the shuttling of the wciN6C element between CS6As. These four presumed serotype switches differ from those previously reported, in that each switch may have arisen through a double-crossover event within cps locus sites flanking wciN, rather than sites flanking the intact cps loci, affecting replacement of wciN6A with the unrelated wciN6C gene.
While increases in serotype 6C IPD rates observed to date have not been large enough to suggest that this serotype will emerge as a predominant invasive serotype, there are potentially predisposing factors associated with this serotype. First, unlike the cross protection observed between serotypes 6B and 6A, previously reported data (12) and the data reported here show that PCV7 is not effective in preventing IPD caused by serotype 6C. Additionally, penicillin resistance (MIC
2 µg/ml, by 2007 CLSI standards) has been detected within four different genetic groups of serotype 6C isolates, and about 30% of 6C isolates recovered during 2006 and 2007 are nonsusceptible to penicillin (Table 2) and/or macrolides (data not shown). Decreased susceptibility to antibiotics could provide a selective advantage to one or more specific clonal types. The clonal diversity apparent within serotype 6C isolates is another potential predisposing factor (Table 3). The presence of six genetic complexes found among a limited sampling of only 42 6C isolates indicates that like serotype 6A (1, 6), this is a genetically diverse serotype. It is striking that MLST types 376, 395, 473, and 1292 and related isolates together accounted for 42 to 79% of ABCs invasive CS6As recovered in 1999, 2001, and 2002 (1). Because a relatively small subset of isolates was genotyped, it is important to note that serotype 6C could represent all 12 genetic complexes previously observed within serotype 6A IPD isolates recovered in the United States (1). On the other hand, it is also conceivable that ST1390 and complex III types found in this study exclusively in 6C isolates (Table 3) are not found within serotype 6A. The fact that the 6C serotype has been detected within strains with four genotypes shared with 6A strains that have proven invasive potential further indicates the need to closely monitor the clonal structure and epidemiology of serotype 6C pneumococci. We feel that the 6C-specific PCR assay described here reliably assists these efforts.
This work was partially funded by NIH grant R01 AI-31473 (M.H.N.).
Published ahead of print on 30 December 2008. ![]()
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