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J. Biol. Chem., Vol. 278, Issue 34, 31529-31535, August 22, 2003
Correlation between Alterations of the Penicillin-binding Protein 2 and Modifications of the Peptidoglycan Structure in Neisseria meningitidis with Reduced Susceptibility to Penicillin G*![]() ¶![]() ![]() ![]() ||||
From the
Received for publication, May 2, 2003 , and in revised form, June 10, 2003.
Reduced susceptibility to penicillin G in Neisseria meningitidis is directly correlated with alterations in the penA gene, which encodes the penicillin-binding protein 2 (PBP2). Using purified PBP2s from different backgrounds, we confirmed that the reduced susceptibility to penicillin G is associated with a decreased affinity of altered PBP2s for penicillin G. Infrared spectroscopy analysis using isogenic penicillin-susceptible strains and strains with reduced susceptibility to penicillin G suggested that the meningococcal cell wall is also modified in a penA-dependent manner. Moreover, reverse-phase high pressure liquid chromatography and mass spectrometry analysis of these meningococcal strains confirmed the modifications of peptidoglycan components and showed an increase in the peaks corresponding to pentapeptide-containing muropeptides. These results suggest that the D,D-transpeptidase and/or D,D-carboxypeptidase activities of PBP2 are modified by the changes in penA gene.
Neisseria meningitidis is an exclusive human bacterium that usually infects the nasopharynx. It occasionally provokes invasive infections such as septicemia, meningitis, and arthritis. Meningococcal infections are still a major public health concern due to periodic epidemics of meningitis in Africa and local outbreaks in developed countries. This concern is heightened by the increasing prevalence of meningococcal strains with reduced susceptibility to penicillin G (PenI),1 one of the major antibiotics used for the treatment of meningococcal infections.
Penicillin G binds to penicillin-binding proteins (PBPs). SDS-PAGE analysis
showed that N. meningitidis contains three PBPs
(1,
2), PBP1 encoded by
ponA, PBP2 encoded by penA, and PBP3 encoded by
pbp3. Two other putative PBPs have also been identified from the
complete genomic sequences of a serogroup B strain
(3) and a serogroup A strain
(4) of N.
meningitidis. Meningococcal strains that are highly resistant to
penicillin G (MIC > 1 µg/ml) due to the production of a plasmid-encoded
Because penicillin binds covalently to PBP2, the alterations around the active site-encoding domain probably reduce the affinity of PBP2 for penicillin G, thus accounting for the PenI phenotype. However, the effects of penA alterations on the enzymatic activity of PBP2 (particularly the transpeptidation reaction involved in peptidoglycan biosynthesis) and the involvement of such modifications in the PenI phenotype have not been addressed. The lack of information concerning the structure of the N. meningitidis peptidoglycan has hindered this analysis. We recently solved this structure using reverse-phase high pressure liquid chromatography (HPLC) and mass spectrometry (57). The aim of this study was to characterize meningococcal strains with reduced susceptibility to penicillin G and to study the functional consequences of PBP2 alterations. In particular, we analyzed the modifications in the peptidoglycan structure in well defined isogenic strains that only differed by the penA gene.
Bacterial Strains and Growth ConditionsThe meningococcal strains used in this study are listed in Table I. N. meningitidis was grown for 18 h on GCB medium (Difco) containing Kellogg supplements (20). E. coli TG1 was used as a host for cloning experiments, and E. coli BL21(DE3) pLysS was used as an expression system (21). E. coli cultures were grown in Luria-Bertani medium supplemented with 40 µg/ml kanamycin and 15 µg/ml chloramphenicol when necessary. Antibiotic susceptibility testing by the Etest method and serological typing were performed as previously described (19, 22, 23). N. meningitidis strain LNP8013 was transformed with either the entire penA gene or the 3' end of the penA gene amplified from PenI strains with oligonucleotides 99-14/99-23 and AA-18/99-23 (Table II), respectively, as previously described (19). Transformants were selected on GCB medium containing various concentrations of penicillin G.
Penicillin Binding AssaysTotal meningococcal membrane extracts were prepared as previously described (24). The crude membranes (30 µg of protein) were incubated for 30 min at 37 °C in the presence of increasing concentrations of [3H]benzylpenicillin (20 Ci/mmol, 1 mCi/ml, Amersham Biosciences). The reactions were stopped by adding 5 µl of unlabeled penicillin G (2.5 mg/ml) for 20 min at room temperature. The binding affinity of penicillin G to purified PBP2s was assayed by competition experiments with [3H]benzylpenicillin. The purified PBP2s (2 µg of protein) were first incubated with increasing concentrations of penicillin G, then with saturating concentrations of [3H]benzylpenicillin and processed as described above. After SDS-PAGE analysis, the gels were fixed for 30 min in 40% ethanol and 10% acetic acid, washed for 10 min with water, and placed in Amplify (Amersham Biosciences) for 30 min. The gels were dried and used to expose Hyperfilm-MP (Amersham Biosciences) at 80 °C. The signals were quantified using the ImageQuant program (Molecular Dynamics). Infrared SpectroscopyCells that had been grown for 18 h were harvested by centrifugation and resuspended in distilled water. The optical densities of the suspensions were adjusted to yield optimal infrared spectra. A 35-µl aliquot of cells and a 20-µl aliquot of purified peptidoglycan preparations were transferred to a ZnSe optical plate (sample holder), vacuum-dried, and then used directly for Fouriertransform infrared spectroscopy. Each sample was measured in five independent assays. All spectra were recorded between wave numbers 4000 and 500 cm1 with an IFS 28/B Fourier-transform infrared spectrometer (Bruker, Karlsruhe, Germany). The OPUS software, version 3.02 (Bruker), was used to process the data. Determination of Peptidoglycan StructurePeptidoglycan preparations, reverse-phase HPLC analysis, desalting of muropeptides, and mass spectrometry were performed as previously described (57). Briefly, peptidoglycans were isolated by an adapted version of the method developed for E. coli (25) with boiling sodium dodecyl sulfate, digested with muramidase from Streptomyces globisporus, and reduced with sodium borohydride. Muropeptides were separated and desalted by HPLC on a Hypersil ODS column (ThermoHypersil-Keystone) and submitted to mass spectrometry analysis. All matrix-assisted laser desorption ionization mass spectrometry and post source decay experiments were carried out on a Voyager DE STR instrument (Applied Biosystems Inc., Framingham, MA) as previously described (57). Molecular TypingStrains were typed by multilocus DNA fingerprinting using five genes (pilA, pilD, crgA, regF, and iga) as previously described (2628). Polymorphisms of the penA and ponA genes were analyzed by RFLP as previously described (19). The ponA gene was amplified by PCR using oligonucleotides AA-6 and AA-7 (Table II). Amplicons were then digested with HpaII and analyzed on polyacrylamide gels. The nucleotide sequences of the penA gene were analyzed as previously described (19). Purification of Recombinant PBP2spenA' codes for a water-soluble form of PBP2 lacking the N-terminal transmembrane domain. penA' from strains with different penA alleles (LNP8013, LNP16519, LNP17041, LNP16454, LNP17723, and LNP18425) was PCR-amplified with oligonucleotides AA-4 (with 5' BsaI adaptor) and AA-2 (with 5' XhoI adaptor) (Table II). These resulting fragments were digested with BsaI and XhoI and ligated into the NcoI and XhoI sites of pET28b (Novagen) to create genes encoding PBP2s with six C-terminal histidine residues (His6-tagged PBP2s) expressed under the control of the T7 bacteriophage promoter. These recombinant plasmids were expressed in E. coli BL21(DE3) pLysS, and protein purification was performed using a nickel nitrilotriacetic acid-agarose column (Qiagen) as previously described (29). The fractions containing PBP2 were pooled, dialyzed against phosphate-buffered saline, adjusted to 20% glycerol (v/v), and stored at 20 °C.
Construction of penA-lacZ Transcriptional FusionsThe entire
penA coding sequence from strain LNP8013 (penA1 allele) was
amplified with oligonucleotides 99-1 and 99-2
(Table II) and cloned into
pGEM-T Easy (Promega) to obtain the recombinant plasmid pAA3. A 400-bp
fragment located immediately downstream from the penA gene on the
meningococcal chromosome was amplified with oligonucleotides AA-13 (with a
5' NdeI adaptor) and AA-14 (with a 5' SacI
adaptor) (Table II). The
resulting fragment was cloned between the NdeI and SacI
sites located downstream from the penA gene in pAA3. A promotorless
lacZ gene (30) was
introduced into the SpeI site located downstream from the
penA gene. The aph-3' gene, encoding kanamycin
resistance (31), was amplified
with oligonucleotides KM-6 and KM-7 (Table
II) and inserted into the blunt-ended HindIII site at the
end of the lacZ gene. This recombinant plasmid, named pAA8, harbors
the penA-lacZ-aph-3' operon
(Fig. 1A) and was used
to transform meningococcal PenS strain LNP8013 (penA1) and
PenI strains LNP16969 (penA21) and LNP16635
(penA11) (Table I).
Upon transformation, the recombinant plasmid pAA8 is not maintained, and
double recombination occurs. PCR and RFLP analysis were used to select
transformants in which lacZ and aph-3' genes had been
integrated correctly but in which the original penA allele in the
chromosome had been preserved in each strain.
Characterization of Meningococcal StrainsWe first selected a subset of well defined meningococcal clinical isolates including ten PenI strains and one PenS strain (Table I). We determined the serogroup, serotype, and serosubtype of each strain. The MICs of penicillin G, amoxicillin, and cefotaxime were determined by the Etest method. The multilocus DNA fingerprinting approach using five genes (pilA, pilD, crgA, regF, and iga) showed that strains belonged to different genetic lineages (Table I). RFLP analysis showed that the penA allele of all PenI strains differed from that of the strain LNP8013 (PenS) (Table I). Because alterations of both PBP2 and PBP1 are associated with an increased level of penicillin resistance in N. gonorrhoeae (12), we also used RFLP to analyze the ponA polymorphism in 66 PenS and PenI meningococcal strains. Several restriction enzymes were tested, and only digestion with HpaII gave four highly related ponA alleles, but no association was observed between ponA alleles and PenS/PenI phenotypes (Table I and data not shown). It has previously been shown that the disappearance of PstI site in the ponA gene is correlated with penicillin resistance in gonococci (12). However, this polymorphism was not found in any of our meningococcal strains (data not shown). We next transformed PCR-amplified penA alleles from eight PenI strains into the PenS strain LNP8013 to generate a set of isogenic meningococcal variants that differed only by penA alleles. All the transformants (TR) acquired the penA allele from the donor strain and showed reduced susceptibility to penicillin G, with an MIC greater than 0.125 µg/ml (Table I).
Effects of penA Alterations on Its Own ExpressionWe studied
the expression of different penA alleles by analyzing the expression
of penA-lacZ transcriptional fusions. The penA coding
sequence from strain LNP8013 was cloned upstream from a promoterless
lacZ gene. The resulting recombinant plasmid, pAA8, also harbored the
aph-3' gene, encoding resistance to kanamycin and the region of
the meningococcal chromosome located immediately downstream from the
penA gene (Fig.
1A). Transformation and allelic replacement into the
PenS strain, LNP8013, and two PenI strains, LNP16969 and
LNP16635, allowed us to construct strains expressing lacZ under the
control of the promoter region of the chromosomal penA1, penA21, and
penA11 genes, respectively (Table
I). The Effects of penA Alterations on Binding of Penicillin to PBP2We found that 10 times less [3H]benzylpenicillin bound to PBP2s from all PenI strains than to PBP2 from the PenS strain in crude membranes (PBP2s from PenI and PenS strains were saturated by 0.5 and 0.05 µg/ml [3H]benzylpenicillin, respectively) (Fig. 2). There was no apparent difference in the amount of [3H]benzylpenicillin bound to the other PBPs (PBP1 and PBP3) between the two types of strains, even in strains with higher MICs (saturation at 0.5 and 0.05 µg/ml [3H]benzylpenicillin for PBP1 and PBP3, respectively). In transformants, the acquisition of altered penA genes and reduced susceptibility to penicillin G were accompanied by changes in the binding of [3H]benzylpenicillin to PBP2s as in the donor strains but not to PBP1 and PBP3 (Fig. 2).
We next studied the binding of penicillin G to purified PBP2s from PenS and PenI strains. penA alleles lacking the transmembrane-coding region (penA') were amplified and cloned into pET28b (Novagen), creating genes coding for water-soluble forms of PBP2s with six C-terminal histidine residues. His6-tagged PBP2s were overproduced and purified to greater than 95% purity (data not shown). We then determined the binding affinity of the purified PBP2s for penicillin G in competition experiments with [3H]benzylpenicillin. We tested purified PBP2s from one PenS (S-PBP2) and five PenI (R-PBP2s) strains with different penicillin G MICs. The binding was scored by determining the concentration of non-radioactive penicillin G that inhibited the binding of saturating concentrations of [3H]benzypenicillin by 50% (inhibition concentration 50, IC50). R-PBP2s bound less penicillin G than S-PBP2. The IC50 values and the penicillin G MICs of the corresponding PenI transformants matched closely. However, no strict correlation was found between the IC50 values and the penicillin G MICs of the corresponding clinical PenI strains (Fig. 3). These data strongly suggest that alterations in the penA genes resulted in PBP2s with decreased affinity for penicillin G. However, the decreased affinity of PBP2s for penicillin G cannot solely explain the different penicillin G MICs of the clinical PenI isolates.
Effects of penA Alterations on the Structure of Meningococcal
PBP2We sequenced the region of the penA gene that encodes
the transpeptidase domain of PBP2 of a large collection of PenI
clinical isolates obtained in France, England, and Spain as previously
described (19). The deduced
amino acid sequences of PBP2 (amino acids 298581) were aligned, and
meningococcal PenI strains showed 8.514.4% divergence (data
not shown). Eight positions were modified in almost all PenI
strains (Fig. 4). These altered
positions were located around the conserved KTG motif. The corresponding
residues in PBP2x from Streptococcus pneumoniae are part of the
structure that forms the active site
(33), particularly the
Association between Bacterial Cell Wall Alterations and PBP2 ModificationsFourier-transform infrared spectroscopy can be used to analyze bacterial cell walls and peptidoglycans. Infrared spectroscopy has been used to tentatively assign bacterial molecules according to their vibrational features (34). Spectra for the intact PenS strain (LNP8013) and its isogenic PenI derivatives (TR 16454, TR TH-41) were recorded and compared between wave numbers 4000 and 500 cm1. Variations in peptidoglycan structure can be detected by comparing infrared absorption in the wave number regions corresponding to amides and sugar rings bands. Significant differences were found between amide and carbohydrate absorption bands of the PenS and isogenic PenI strains (Fig. 5). We calculated the heterogeneity index of absorption at several wave numbers and used it to construct a dendrogram. This showed that the isogenic PenI derivatives clustered together and separately from the PenS parental strain (Fig. 5). Identical results were obtained when we compared purified peptidoglycan preparations from these strains (data not shown). These data suggest that penA alterations affect the meningococcal cell wall and possibly the peptidoglycan.
Peptidoglycan Structure in Meningococcal StrainsWe recently described the structure of the peptidoglycan of N. meningitidis, which consists of disaccharide subunits of N-acetylglucosamine and N-acetylmuramic acid carrying a pentapeptide (L-Ala-D-Glu-meso-diaminopimelate-D-Ala-D-Ala) (57). To determine the nature of the peptidoglycan structural modifications that could be induced by penA alterations, we compared the muropeptide composition of the PenS strain LNP8013 and its isogenic PenI derivatives (Table I). We analyzed purified peptidoglycan preparations digested with muramidase by HPLC and mass spectrometry. We determined the structures of 28 different muropeptides species (57) (Fig. 6 and Table III). Although no new peaks were detected, differences in the amplitudes of preexisting peaks were observed between the PenS strain and its seven isogenic PenI derivatives. These mostly involved an increase in pentapeptide-containing muropeptides (Fig. 6 and Table III). The amplitude of peak 5, which corresponds to the disaccharide pentapeptide N-acetylglucosamine-N-acetylmuramic acid-L-Ala-D-Glu-meso-diaminopimelate-D-Ala-D-Ala, was significantly higher in all the isogenic PenI strains than in LNP8013. The amplitudes of peak 9, which corresponds to the tetra-penta dimer and peak 18, which contains its di-O-acetylated derivative, were also higher in the isogenic PenI strains. A minor decrease in the amplitude of peak 2 (tetra monomer) was observed in the isogenic PenI strains. The same accumulation of muropeptides carrying pentapeptide chains in peptidoglycan was also observed when the parent clinical PenI isolates were compared with strain LNP8013 (57). Our results suggest that the peptidoglycans from PenS and the isogenic PenI strains differ. These changes were transformable using penA gene from a donor PenI strain to a recipient PenS strain and are, hence, directly linked to penA alterations.
Susceptibility to -lactams antibiotics can be mediated by three major
mechanisms, (i) decreased binding of antibiotics to PBPs, (ii) antibiotic
inactivation by -lactamase, and (iii) reduced membrane permeability. In
N. meningitidis, the first mechanism is usually incriminated.
SDS-PAGE analysis revealed the presence of three PBPs in this bacterium, but
other PBPs may also exist, as suggested from the in silico analysis
of the genome of two completely sequenced meningococcal strains
(3,
4). We have previously reported
that penA alterations are directly linked to the PenI
phenotype (19). Moreover in
this study, we showed that the polymorphism in the ponA gene,
encoding PBP1, is not associated with the PenI phenotype. Our
results confirm that alterations of the penA gene, encoding PBP2,
decrease the binding affinity of PBP2 for penicillin G. However, this
decreased affinity for penicillin G may not be the only mechanism accounting
for the increased MIC of this antibiotic, as the binding of penicillin G to
purified PBP2s from different clinical PenI strains was not
directly correlated with penicillin G MIC levels
(Fig. 3). Penicillin G binds
covalently to the active site of PBPs
(35), therefore, we expected
that the ability of altered PBP2s to bind penicillin would be affected because
alterations of PBP2s are usually located near to the active site of the
transpeptidase moiety of PBP2. Moreover, the eight residues modified in most
PenI isolates were in the region of the meningococcal PBP2 that is
homologous to the active site of PBP2x from S. pneumoniae
(33) and seem to play a major
role in the decreased affinity of PBP2 for penicillin G.
Because PBPs are involved in the late stages of peptidoglycan biosynthesis,
their alterations associated with
It has been suggested that the degree of cross-linking differs between
PenS and PenI strains of N. gonorrhoeae
(49,
50), which is closely related
to N. meningitidis. However, isogenic derivatives were not used in
this work, and HPLC peaks were not characterized
(51). We have shown
(57) that the reduced
susceptibility to penicillin G of meningococcal PenI clinical
isolates was associated with changes in peptidoglycan structure (accumulation
of pentapeptides). Here, we studied the peptidoglycan structure of several
meningococcal isogenic PenI strains obtained by transformation of
the parental susceptible strain with PCR-amplified altered penA
genes. We did not observe any new peak in the HPLC profiles. However, relative
changes in the amplitudes of preexisting peaks were observed. As previously
observed in clinical PenI isolates
(57), our data indicated an
increase in muropeptides with pentapeptide chains. As we compared isogenic
strains, these modifications in peptidoglycan structure are directly linked to
the alterations in penA gene, and changes in another locus cannot be
involved, suggesting that the modified PBP2 in PenI transformants
may have an altered D,D-transpeptidase activity.
However, the increase in muropeptides carrying pentapeptide chains may reflect
a decrease in D,D-carboxypeptidase activity on newly
synthesized peptidoglycan chains. This in turn suggests that the meningococcal
PBP2 rather has D,D-carboxypeptidase activity. Most of
the modifications affecting PBP2s from PenI strains were located
within a region that is homologous to the active site of PBP2x from S.
pneumoniae (Fig. 4). In
fact, these modified sites line the active-site pocket and, therefore, are
most likely to affect the enzymatic activity of PBP2
(D,D-transpeptidase and/or
D,D-carboxypeptidase). Recently, similar alterations in
PBP3 of H. influenzae have been shown to be associated with
Genomic analysis of the complete sequence of two strains of N. meningitidis (3, 4) revealed putative genes encoding D,D-carboxypeptidase and endopeptidase. Meningococcal PBP2 has been shown to interact with the lytic transglycosylase MltA (55). Furthermore, the E. coli homolog of meningococcal PBP2, PBP3, can form a complex with the lytic transglycosylase Slt70 and the low molecular weight PBP7/8 (56). Thus, the reduced D,D-carboxypeptidase activity observed in the isogenic PenI strains could be an indirect effect. The ability of altered meningococcal PBP2s to engage in protein-protein interactions with the putative D,D-carboxypeptidase would be affected, leading to the observed phenotype in PenI strains. However, this hypothesis is less likely as the amino acid modifications are all predicted to be located in the active-site pocket of meningococcal PBP2, although it is possible that they change its overall three-dimensional structure. The construction of mutants in these genes may help us to understand the effect of penA alterations on the structure of the N. meningitidis peptidoglycan.
* This work was supported by the Pasteur Institute and by European Commission Grant QLK2-CT-2001-01436. The costs of publication of this article were defrayed in part by the payment of page charges. This article must therefore be hereby marked "advertisement" in accordance with 18 U.S.C. Section 1734 solely to indicate this fact.
¶ Recipient of a postdoctoral fellowship from the Fundação para
a Ciência e a Tecnologia, Portugal (SFRH/BPD/1567/2000). |||| To whom correspondence should be addressed. Tel.: 33-1-45688438; Fax: 33-1-45688338; E-mail: mktaha{at}pasteur.fr.
1 The abbreviations used are: PenI, reduced susceptibility to
penicillin; PenS, penicillin-susceptible; PBP, penicillin-binding
protein; HPLC, high pressure liquid chromatography; MIC, minimum inhibitory
concentration; RFLP, restriction fragment length polymorphism; TR,
transformant; S-PBP2, susceptible-PBP2; R-PBP2, resistant-PBP2;
IC50, inhibition concentration 50.
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