Volume 29, Issue 5 p. 1285-1296
Free Access

Penicillin tolerance genes of Streptococcus pneumoniae: the ABC-type manganese permease complex Psa

Rodger Novak

Rodger Novak

Department of Infectious Diseases, St Jude Children's Research Hospital, 332 N. Lauderdale St., Memphis, TN 38105, USA.

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Johann S. Braun

Johann S. Braun

Department of Infectious Diseases, St Jude Children's Research Hospital, 332 N. Lauderdale St., Memphis, TN 38105, USA.

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Emmanuelle Charpentier

Emmanuelle Charpentier

Department of Infectious Diseases, St Jude Children's Research Hospital, 332 N. Lauderdale St., Memphis, TN 38105, USA.

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Elaine Tuomanen

Elaine Tuomanen

Department of Infectious Diseases, St Jude Children's Research Hospital, 332 N. Lauderdale St., Memphis, TN 38105, USA.

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First published: 01 May 2002
Citations: 20
Elaine Tuomanen E-mail [email protected]; Tel. (901) 495 3486; Fax (901) 495 3099.

Abstract

Downregulation of the major autolysin in Streptococcus pneumoniae leads to penicillin tolerance, a feature that is characterized by the ability to survive but not grow in the presence of antibiotic. Screening a library of mutants in pneumococcal surface proteins for the ability to survive 10 × minimum inhibitory concentration (MIC) of penicillin revealed over 10 candidate tolerance genes. One such mutant contained an insertion in the known gene psaA, which is part of the psa locus. This locus encodes an ABC-type Mn permease complex. Sequence analysis of adjacent DNA extended the known genetic organization of the locus to include two new open reading frames (ORFs), psaB, which encodes an ATP-binding protein, and psaC, which encodes a hydrophobic transmembrane protein. Mutagenesis of psaB, psaC, psaA and downstream psaD resulted in penicillin tolerance. Defective adhesion and reduced transformation efficiency, as reported previously for a psaA mutant, were phenotypes shared by psaB, psaC and psaD knockout mutants. Western blot analysis demonstrated that the set of mutants expressed RecA, but none of them showed translation of the autolysin gene, which is located downstream of recA. The addition of manganese (Mn) failed to correct the abnormal physiology. These results suggest that this ABC-type Mn permease complex has a pleiotropic effect on pneumococcal physiology including adherence and autolysis. These are the first genes suggested as being involved in triggering autolysin. The results raise the possibility that loss of function of PsaA, by vaccine-induced antibody for instance, may promote penicillin tolerance.

Introduction

Antibiotic tolerance, a phenomenon distinct from antibiotic resistance, was first described in 1970 in pneumococci (Tomasz et al., 1970). Autolysis resulting from activation of the N-acetylmuramoyl-L-alanine-amidase (amidase) is characteristic of most pneumococci. The action of this murein hydrolase is restricted to pneumococcal cell walls. Antibiotic-tolerant pneumococcal strains stop growing in the presence of conventional concentrations of antibiotics, but do not go on to die rapidly. Tolerance arises if either the pneumococcal autolysin, which lyses the cell wall, is not triggered or the autolysin itself is not present. To understand the triggering of autolysin activity further, we sought proteins capable of downregulating autolytic activity. Screening a library of loss of function mutants in pneumococcal surface proteins (Pearce et al., 1993) for the ability to survive 10 × minimum inhibitory concentration (MIC) of penicillin revealed more than 10 candidate tolerance genes. One of the isolated mutants contained an insertion in the known gene psaA (Russell et al., 1990; Sampson et al., 1994; Berry and Paton, 1996).

Sequence analysis has demonstrated that the lipoprotein PsaA (Russell et al., 1990) is similar to a family of 13 solute binding proteins, including FimA in S. parasanguis FW213 (Fenno et al., 1989), SsaB in S. sanguis 12 (Ganeshkumar et al., 1991), ScaA in S. gordonii PK488 (Andersen et al., 1993) and AdcA in S. pneumoniae (Dintilhac and Claverys, 1997). PsaA belongs to a class of binding proteins that are components of an ABC-type membrane transport system. These systems have been described as being involved in the uptake of peptides (Alloing et al., 1994), oligopeptides (Jenkinson et al., 1996) and multiple sugars (Russell et al., 1992). This class of binding proteins, designated LraI (Jenkinson, 1994), contains an N-terminal LxxC motif, which is a signal sequence cleavage site as well as a covalent attachment site for palmatic acid of the bacterial membrane (Gilson et al., 1988; Hayashi and Wu, 1992; Jenkinson, 1992). Further investigations have clarified that these putative lipoproteins are extracytoplasmic receptors that specifically bind metals (Dintilhac and Claverys, 1997).

Results obtained by Dintilhac and colleagues suggest that the psa locus encodes an ABC-type Mn permease complex involved in competence and transformation (Dintilhac et al., 1997). Genetic transformation in S. pneumoniae occurs as a programmed event during a physiologically defined competent state (Morrison and Baker, 1979; Tomasz and Hotchkiss, 1964). Competence development depends on cell density and is mediated by the accumulation of an extracellular heptadecapeptide, competence-stimulating peptide (CSP; Havarstein et al., 1995). Regulation of competence is only partly understood (Campbell et al., 1998). One competence-induced locus, the cin (rec) operon (Martin et al., 1995; Pearce et al., 1995), includes the recA gene, whose product facilitates homologous recombination between single- and double-stranded DNA (Kowalczykowski, 1991).

Adherence studies showing a decreased binding capacity of the knockout mutant psaA suggested that, similar to other family members, PsaA functions in the process of bacterial adherence to human cells (Berry and Paton, 1996). Considering its function as a permease and the fact that purified PsaA failed to block adherence (E. Tuomanen, unpublished observations), a property required of a structural adhesin, it has more recently been suggested that the Psa permease is involved in the regulation of adherence rather than being an adhesin itself (Dintilhac et al., 1997). A regulatory role is consistent with the behaviour of several pneumococcal permeases (Cundell et al., 1995).

In contrast to surface-anchored proteins of other streptococcal species (Fischetti et al., 1990; Schneewind et al., 1992), S. pneumoniae decorates its surface with choline-binding proteins (CBPs), which are non-covalently bound to the phosphorylcholine of the teichoic acid. The CBPs include PspA, a protective antigen (Yother and Briles, 1992; Yother et al., 1992), and LytA (Tomasz et al., 1970; Garcia et al., 1986; Ronda et al., 1987), the major autolysin. Recently, a new CBP, CbpA, has been characterized as a structural adhesin and a determinant of virulence (Rosenow et al., 1997).

In this study, we report two additional open reading frames (ORFs) in the psa locus encoding an ATP-binding protein (PsaB) and a hydrophobic membrane protein (PsaC), in addition to the known lipoprotein PsaA and another protein (PsaD), which shares similarities to a periplasmic thiol peroxidase of Escherichia coli (Cha et al., 1996). We confirm that the loss of function mutants psaA and psaD are adhesion deficient. We demonstrate that this phenotype most probably arises because of a changed distribution of CBPs on the surface and a missing translational product of the structural adhesin CbpA. Furthermore, we show that insertion duplication mutagenesis of psaB, psaC, psaA and psaD results in penicillin tolerance and transformation deficiency. Except for the reduction of chain formation in the psaC and psaD mutant, the addition of exogenous Mn did not reconstitute any of the phenotypes described. We discuss the possible implications of these observations for the current understanding of the role of PsaA as a possible vaccine candidate.

Results

DNA sequence and organization of the putative ABC transporter

The entire nucleotide sequence of the 3.141 kb putative Psa ABC transporter was determined. Analysis of the sequence revealed four ORFs (Fig. 1A) encoding an ATP-binding protein (PsaB), a hydrophobic membrane protein (PsaC), a lipoprotein (PsaA) and a protein with similarity to a periplasmic thiol peroxidase of E. coli (PsaD). The amino acid sequence of the ATP-binding protein (PsaB) included two consensus binding sites for ATP. The first nucleotide binding site (GPAGAGKST) starting at amino acid 34 of PsaB conformed to the consensus sequence (GxxGxGKS/T) in the glycine-rich loop of ATP-binding enzymes (Walker et al., 1982). In addition, a glutamine/glycine-rich motif (LSGGQFQR) was identified between amino acids 97 and 104. This region may function as a peptide linker joining different domains of the protein. A second nucleotide binding site was located between amino acids 109 and 123 (RCLVQEADYILLDEP; Ames et al., 1990; Hyde et al., 1990). The second aspartic acid residue of this motif is 100% conserved and is thought to bind MgATP (Higgins et al., 1988; Ames et al., 1990). The protein encoded by psaC is a putative transmembrane protein. This assumption was supported by sequence comparison with other described transmembrane proteins. PsaC demonstrated 81% identity with a putative transmembrane protein in S. gordonii (Kolenbrander et al., 1994), 76% identity with a transmembrane protein in S. parasanguis (Fenno et al., 1989) and 40% identity with a transmembrane protein that is part of a Mn transporter in a cyanobacterium (Bartesevich and Pakrasi, 1995). Hydropathy analysis using the method of Kyte and Doolittle (1982) revealed that the protein encoded by psaC contains six potential membrane-spanning domains (data not shown). Furthermore, at amino acid 190, a 17-amino-acid sequence (AMQSVGTILIVAMLITP) was identified. Several hydrophobic membrane proteins known to be involved in peptide transport as well as other small molecule transport functions share this motif (Dassa and Hofnung, 1985; Gilson et al., 1988; Alloing et al., 1990). The two subsequent ORFs, psaA and psaD (formerly orf3 ), have been described previously (Berry and Paton, 1996). PsaD showed 25–50% similarity with gene products downstream of psaA homologues, ssaB, fimA and scaA (Ganeshkumar et al., 1991; Andersen et al., 1993; Oligino and Fives, 1993; Berry and Paton, 1996). psaD is predicted to encode a protein of 173 amino acid residues with an amino acid sequence that is 46% identical to a periplasmic thiol peroxidase of Escherichia coli (Cha et al., 1996), which scavenges superoxide and peroxide ions.

. A. Organization of the psa locus. The putative promoter P1 upstream of psaB is indicated by an arrow, and the putative promoter upstream of psaD is named P2. Transformation of pneumococcus with the vector pJDC9 ligated to an internal target gene fragment results in duplication of the target fragment and subsequent gene disruption. B. Northern blot analysis of the parent strain R6 total RNA probed with an intragenic fragment of psaD. The position of the full-length transcript lies at 3.1 kb, and the smaller transcript matches the size of psaD (0.6 kb).

Northern blot analysis using a 379 bp probe specific for psaA revealed a single transcript, slightly larger than 3 kb (Fig. 1B), indicating that the ORFs psaB, psaC, psaA and psaD are organized as an operon. Using a 311 bp probe specific for psaD, two transcripts were obtained. The first transcript was 3 kb, matching the size of the transcript obtained with the probe specific for psaA. The second transcript of 0.6 kb was more weakly expressed. These results suggest that transcription of the Psa ABC transporter locus was initiated from a promoter located upstream of psaB. psaD was transcribed either from its own promoter or by readthrough of the psa operon. Similar organization of ABC loci is found in S. parasanguis (Fenno et al., 1995) and suggested for S. gordonii (Kolenbrander et al., 1998). Insertional duplication mutagenesis was used to knock out all four genes of the psa locus.

Chain formation

Pneumococci characteristically grow in diplococcal units (60–70% of a population), with a minority of cells forming short chains of three to six cells (Tomasz, 1968). Compared with the parent strain R6, mutants with defects in psaC and psaD showed altered morphological features. The mutant psaC grew in chains up to a length of 40–50 cells, whereas the mutant psaD demonstrated chain formation of 200–300 pneumococci in stationary phase (Fig. 2). Forming small conglomerates, the mutants psaB and psaA showed only a slightly aberrant morphology.

. Morphology of psaD mutant. Chain formation of mutant psaD grown in C + Y medium as examined by phase-contrast microscopy (bottom) and electron microscopy (top).

Chain formation is known to occur in pneumococcal cultures grown in medium in which choline is replaced by ethanolamine (Tomasz, 1968). These cells also fail to autolyse and do not undergo natural transformation. In contrast to the parent strain, the mutants psaB, psaC, psaA and psaD did not undergo autolysis in the stationary phase of growth; the loss of culture turbidity was less than 10% over 24 h. Pneumococci undergo rapid lysis upon exposure to low concentrations of deoxycholate (DOC) (0.005% ml−1), which triggers autolysin activity. Pneumococcal cultures of the mutants psaB, psaC, psaA and psaD could not be lysed, even by 10 × higher concentrations of DOC (data not shown).

Rate of penicillin-induced killing in mutants psaB, psaC, psaA and  psaD

Cultures of the mutants psaB, psaC, psaA, psaD, Lyt-4-4 and R6 were exposed at an OD620 of 0.2–0.3 to 10 times the MIC of penicillin. The drug effect on turbidity and viability was followed. After 1 h, R6 underwent penicillin-induced lysis, while over a period of 6 h, the psaB, psaC, psaA, psaD and Lyt-4-4 mutants demonstrated no significant indication of lysis (Fig. 3A). A substantial loss of viability was demonstrated for the parent strain R6, which was reduced in the autolysin-defective strain Lyt-4-4. These results correspond with the findings of Moreillon et al. (1990), who observed that mutation of the major autolytic amidase resulted in decreased penicillin-induced killing of pneumococci (3–4 log units per 6 h compared with 4–5 log units of killing per 6 h in R6). Although psaB, psaC, psaA and psaD mutants also underwent loss of viability, the number of surviving cfu exceeded that of Lyt-4-4 (Fig. 3B). Thus, psaB, psaC, psaA and psaD mutants had a greatly reduced sensitivity to the antibacterial effect of penicillin, including lytic and killing effects.

. Effect of loss of function of psa operon genes on penicillin-induced lysis and loss of viability. Wild-type strain R6 (□), Lyt strain Lyt-4-4 (*), mutant psaC (▵), mutant psaA (⋄) and mutant psaD (○). Cultures in the early exponential phase of growth (107 cfu ml−1) were treated with 10 × MIC of penicillin (0.1 μg ml−1), and both the OD620 (A) and the bacterial viability (B) were followed for 8 h.

Changes in the autolytic amidase in psaB, psaC, psaA and psaD mutants

The reduced lytic and killing effects of penicillin in the permease mutants could be caused by changes in the expression or activity of the autolysin. The addition of exogenous recombinant autolysin to cultured Lyt-4-4 results in the reconstitution of lysis. This property formed the basis of an in vitro assay to analyse the functionality of the autolysin of the penicillin-tolerant mutants. As a positive control, a crude autolysin preparation of R6 restored autolysis of Lyt-4-4. In contrast, a crude autolysin preparation of psaB, psaC, psaA and psaD mutants failed to render Lyt-4-4 sensitive to penicillin (Fig. 4). Furthermore, Western blot analysis of psaC, psaA and psaD mutants showed no translational product of autolysin (Fig. 5). These results suggest that penicillin tolerance and reduction in killing in this set of mutants resulted from alteration of the expression of autolysin. Northern blot analysis of the autolysin locus would have addressed the level of dysregulation, but all attempts to lyse the bacteria to obtain mRNA failed, including treatments with DOC, exogenous autolysin, lysozyme and hot phenol extraction. The fact that the psaB, psaC, psaA and psaD mutants failed to lyse indicated that major changes in the cell wall composition had taken place.

. Functional assay of autolytic activity. Crude autolysin preparations of parent R6 (□), mutant psaC (▵), mutant psaA (⋄) and mutant psaD (○) were added to cultures of the autolysis-defective strain Lyt-4-4 at an OD620 of 0.3. Lysis was followed after the addition of 10 × MIC of penicillin (0.1 μg ml−1) at an OD620 of 0.25.

. Immunoblot analysis of crude autolysin preparations of the set of psa mutants. Lysates of psa mutants and R6 were transferred to nitrocellulose and probed with rabbit anti-recombinant autolysin antibody (1:1000). Parent strain R6 was used as a positive control.

A link between autolysis and transformation?

Recently, a recA competence-specific transcript has been shown to include the gene for autolysin lytA (Fig. 6). The cin (rec) operon includes cinA, recA, dinF and lytA (Martin et al., 1995). Transcription of lytA, which is located downstream of dinF, can be induced by three different promoters (Mortier-Barriere et al., 1998). During competence, the transcription of the autolysin gene is strongly induced by the competence-inducible promoter Pc located upstream of cinA. In non-competent cells, lytA is transcribed from the promoter Pb, located upstream of recA, and from the promoter PI, located directly upstream of the autolysin gene lytA (Fig. 6). The location of the three promoters described allows three different transcriptional products. Non-induction of two of these promoters, Pb and PI, leads to an impact on two physiological events, transformation and autolysis (Mortier-Barriere et al., 1998). To address the link between autolysis and transformation in the permease mutants, the transformation efficiency of the mutants psaB, psaC, psaA and psaD was determined. In this assay, strains were transformed with a selectable marker, StrR DNA, through a complete natural competence cycle. The psaB, psaC and psaD mutants grown to an OD620 of 0.1 showed a reduction in transformation of > 90% compared with the parent strain R6; however, the mutant psaA was not transformation deficient. To determine if a shift in timing of competence occurred in the mutants (Pearce et al., 1994), we tested the transformation efficiency of the set of mutants at OD620 of 0.3, 0.5 and 0.8 (Table 1). None of the mutants showed increased transformation efficiency at these higher ODs. Although the frequency of transformation was greatly reduced in the psaB, psaC and psaD mutants, a few transformants were always detected, a finding distinct from the complete absence of transformation of a comA-defective mutant (Hui and Morrison, 1991). Complementation of the cultures of psaB, psaC and psaD mutants with the competence-stimulating peptide (CSP) did not restore transformation at any time during growth. As the RecA protein is required for transformation and the autolysin gene is co-transcribed with recA, Western blot analysis was performed for the RecA protein. The mutants psaC, psaA and psaD showed wild-type levels of translational products of recA (Fig. 7), demonstrating that the lack of expression of autolysin was not caused by non-initiation of the promoter upstream of recA. The size of RecA was slightly different in the mutants psaC, psaA and psaD. These differences did not correlate with transformation deficiency, as parent strain R6 and mutant psaA demonstrated different sizes of RecA but transformed normally.

. The gene organization around the cin (rec) operon is shown. Transcription of the autolysin gene is strongly induced in competent cells from the promoter Pc, the competence-inducible promoter located upstream of cinA (transcript c). In non-competent cells, lytA is expressed from Pb, the recA promoter (transcript b) and from PI, a promoter located immediately upstream of lytA (transcript I).

Table 1. . Transformation efficiencies of parent strain R6, mutants psaB, psaC, psaA and psaD. Transformation was scored by the acquisition of a streptomycin resistance marker in the presence and in the absence of synthetic CSP (5 ng μl−1). Numbers indicate the percentage of transformed bacteria.
image

. Immunoblot analysis of crude bacterial lysates using anti-RecA antibodies. RecA at 43 kDa (⇒) was detected in the mutants psaC, psaA and psaD as well as in the parent strain R6.

Adhesion deficiency and detection of different CBP patterns in psaC, psaA and  psaD mutants

Adherence properties of the mutants were assessed using the A-549 lung cell line. Adhesion of the parent strain R6 and the mutants was expressed in total numbers (cfu/cell) as well as in percentage compared with the parent strain (100%). At a dose of 107 cfu ml−1, adherence of R6 was 1.62 × 105 cfu per monolayer (SD 100 ± 15.5), compared with 1.64 × 104 cfu (25.8% adherence; SD 100 ± 9.2) for psaC, 4.3 × 104 cfu (40.2% adherence; SD 100 ± 10.5) for psaA and 6.5 × 104 cfu (50.7% adherence; SD 100 ± 14.06) for psaD. Knowing that the mutagenesis of the genes psaC, psaA and psaD led to loss of expression of the CBP autolysin, the expression of other CBPs on the surface of each mutant was determined (Fig. 8A). The identity of the different CBPs in strain R6 was determined by referring to a CBP preparation consisting of eight recombinant purified CBPs (K. Gosink, manuscript in preparation). This CBP ladder served as a marker for Western blot analysis. The psaC and psaA mutants demonstrated an almost complete loss of CBPs. The structural adhesin CbpA was absent in all psa mutants. This was confirmed by Western blot analysis using a polyclonal CbpA-specific antibody (Fig. 8B). In order to exclude the possibility that the mutations in psaC, psaA and psaD affected the production of cell wall choline to which CBPs bind, the teichoic acid was analysed by immunoblotting; mAb TEPC-15, which recognizes the phosphorylcholine, failed to detect differences in the wall teichoic acid (data not shown).

. Characterization of choline-binding proteins of permease mutants. CBPs were purified by adsorption of bacteria onto choline agarose beads, followed by bacterial lysis and specific elution of proteins retained on the beads with a choline-containing buffer. The identity of the different CBPs in R6 was determined by referring to a CBP preparation consisting of eight recombinant-purified CBPs. This CBP ladder served as a marker, indicated by arrows. A. CBPs were analysed for each mutant by Western blot using polyclonal anti-CBP antibody (1:400). B. Immunoblot analysis against a preparation of CBPs using polyclonal CbpA antibody (1:1000). CbpA is indicated by (⇒).

Addition of Mn to psaA and  psaDmutant cells did not restore the expression of autolysin or CbpA but was required for growth

The addition of MnSO4 has been shown to be required for the growth of the mutant psaA (Dintilhac et al., 1997). Consistent with this observation, the mutants psaA and psaD failed to grow in chemically defined medium without MnSO4 or MnCl2. The addition of MnSO4 at concentrations > 0.5 μM led to a reconstitution of growth with an optimum at 2 μM MnSO4. As the addition of MnSO4 at concentrations> 0.5 μM restored the growth of psaA and psaD mutants, we investigated whether the addition of different concentrations of MnSO4 (0.5–100 μM) was also able to restore the expression of autolysin and CbpA. Western blot analysis failed to demonstrate expression of autolysin or CbpA at any concentration of added MnSO4. Furthermore, growth of the parent strain R6 in C + Y without Mn2+, Zn2+ or Mn2+/Zn2+ neither changed the pattern of CBP distribution nor affected expression of autolysin or CbpA. However, aggregation and growth in chains up to a length of 40 was observed in R6 grown in medium deprived of these cations. The addition of Mn2+, Zn2+ or Mn2+/Zn2+ to the mutants psaC and psaD reduced chain formation but failed to reconstitute transformation (data not shown).

Discussion

Antibiotic tolerance is of clinical significance, as it has been shown that the inability to eradicate tolerant bacteria leads to failure of antibiotic therapy (Handwerger and Tomasz, 1985; Tuomanen et al., 1986; 1988). Furthermore, tolerance is thought to promote the development of antibiotic resistance, because it creates survivors of antibiotic therapy. Many resistant pneumococci are also tolerant (Liu and Tomasz, 1985). Antibiotic tolerance arises in two different settings. First, all species of bacteria become phenotypically tolerant as growth rate decreases (Tuomanen, 1986). Secondly, some bacterial species become genotypically tolerant by the acquisition of mutations. Mechanistically, both phenomena lead to a downregulation of autolysin triggering. The most simple example of tolerance is the loss of the major autolytic enzyme, which was the basis for the description of the first tolerant mutant of S. pneumoniae described in 1970 (Tomasz et al., 1970). In the clinical situation, 30% of penicillin-susceptible pneumococci and more than 40% of penicillin-resistant pneumococci are penicillin tolerant (Tuomanen et al., 1988). However, clinical isolates defective in autolysin expression have not yet been described. This implies that tolerance in the clinical setting arises because of regulation of autolysin activity.

We have described four genes that are organized in an operon encoding the putative Psa ABC transporter. Insertion duplication mutagenesis revealed a pleiotropic phenotype of penicillin tolerance, adhesion and transformation deficiency and chain formation. The psa operon appears to affect the expression of CBPs on the surface of pneumococci. No translational products of autolysin or the adhesin CbpA were produced by any of the mutants. Mn, the reported substrate of the transporter, did not restore any aspect of the phenotypes, except the reduction in chain formation. This suggests that the phenotypes described appeared to arise by different mechanisms.

Two models can be proposed to explain the Psa phenotype. In the first model, the Psa transporter may control the expression of autolysin on a transcriptional level. Regulation of autolysin expression at the level of the competence-inducible promoter, Pc, is not likely, as penicillin tolerance occurred independent of the competence-restricted phase of growth of the bacteria. The observation that psaB, psaC and psaD mutants demonstrated transformation deficiency in addition to penicillin tolerance would be consistent with the changes in transcription of recA and lytA initiated from the Pb promoter. However, Western blot analysis showed a translational product of RecA in the psaC, psaA and psaD mutants. Although we were not technically able to perform a Northern blot because of the autolytic defect, this result implied that the Psa transporter may regulate the transcription of autolysin from the promoter PI, located directly upstream of autolysin. A second model would imply that the described non-translation of autolysin is caused by changes at the level of translation.

The original description of PsaA suggested that it was a structural adhesin (Russell et al., 1990). psaA and psaD mutants have been shown to display reduced virulence in intranasal and intraperitoneal models of virulence in mice and to have significantly reduced adherence to A-549 lung cells in vitro (Berry and Paton, 1996). Given its more recent identification as a permease (Dintilhac et al., 1997), a regulatory role in adherence became more likely. The regulatory role is supported by our observation that psa mutants demonstrated a complete absence of CbpA. This finding provides an alternative explanation of reduced virulence and adhesion, as CbpA was recently described as a structural adhesin and virulence determinant (Rosenow et al., 1997). Furthermore, many CBPs appear to be affected by the loss of function of psaC, psaA and psaD mutants. In particular, psaC and psaA mutants demonstrate the absence of a vast majority of CBPs. These pleiotropic changes could arise by three processes: (i) at a transcriptional level; (ii) via post-translational modification; or (iii) by changes in the choline in the cell wall to which the CBPs attach. This final possibility was less likely, as Western blot analysis of wild type and psaB, psaC and psaD mutants with an anticholine antibody showed similar patterns. This allows the conclusion that the teichoic acid structure in the mutants and the parent strain is most probably identical. The results suggesting that the psa locus encodes an ABC-type Mn permease complex raised the hypothesis that Mn might function as a cofactor for either the post-translational processing of CBPs or the export of CBPs, possibly affecting or regulating a putative CBP transporter. The inability of Mn to restore CBP expression in the mutants makes it less likely to assume that Mn functions as a simple cofactor.

Although prominent phenotypes associated with mutation of the Psa locus relate to penicillin tolerance and adhesion deficiency, further data suggested that transformation efficiency was also affected in the psaB, psaC and psaD mutants. The possibility that transformation deficiency occurred because of non-translation of recA was ruled out by Western blot analysis. All mutants showed the presence of the RecA protein, although slight differences in the size of the translated RecA were observed. These differences in size seemed to have no impact on transformation efficiency, as neither R6 nor mutant psaA are transformation deficient. The inability of CSP or Mn to restore the transformation defect also fails to identify the link between Psa and transformation.

In summary, two new genes of the putative ABC transporter Psa have been identified. psaB encodes a putative ATP-binding protein, and psaC encodes a putative hydrophobic transmembrane protein. These two genes are located directly upstream of the genes encoding the known lipoprotein PsaA and the protein PsaD (already described as orf3 ). Coincident changes in the expression of autolysin, CbpA and other CBPs support the hypothesis that the putative ABC transporter Psa is part of a signalling pathway indirectly affecting adhesion, lysis, transformation and virulence. Mn transport only partially contributes to this signalling. PsaA is currently being considered as a potential pneumococcal vaccine candidate (Sampson et al., 1994). While generation of antibody capable of decreasing adherence is a desirable property of a vaccine immunogen, promotion of penicillin tolerance would be a significant drawback to a vaccine. Given the negative impact of penicillin tolerance on clinical disease, the use of PsaA in a vaccine formulation should be considered with caution.

Experimental procedures

Strains of pneumococci and growth conditions

S. pneumoniae strain R6 (Tiraby and Fox, 1973) was obtained from the Rockefeller University collection. The autolysin-deficient strain Lyt-4-4 was provided from the collection of Dr A. Tomasz, Rockefeller University. This strain is a stable point mutant created by chemical mutagenesis. S. pneumoniae was cultured on tryptic soy agar (TSA; Difco) supplemented with 3% (v/v) sheep blood. For growth in liquid culture, the bacteria were grown at 37°C without aeration in 5% CO2 using a semi-synthetic casein hydrolysate medium supplemented with yeast extract (C + Y medium; concentration of Mn2+ = 0.5 μM) (Lacks and Hotchkiss, 1960). For Mn2+/Zn2+ experiments, a defined medium (C + Y without Mn2+/Zn2+) with adjustment to the concentrations of Mn2+ and Zn2+ was used. For the selection and maintenance of pneumococci containing chromosomally integrated plasmids, bacteria were grown in the presence of 1 μg ml−1 erythromycin (Sigma).

Recombinant DNA methods

DNA ligations, restriction endonuclease digestions, agarose gel electophoresis and DNA amplification by polymerase chain reaction (PCR) were performed according to standard techniques (Sambrook et al., 1990). DNA purification and plasmid preparations were performed using kits from Qiagen and Promega/Wizard according to the manufacturer's instructions. Transformation of E. coli with plasmid DNA was carried out with CaCl2-treated cells as described previously (Brown et al., 1979). Transformation of S. pneumoniae was performed according to standard protocols (Pearce et al., 1993).

Inverse PCR and DNA walking

Chromosomal DNA was prepared according to an established protocol (Pearce et al., 1993). Parts of the gene psaC were obtained by sequencing an amplification product, which was recovered using the primer psaCEcoB (5′-TATTGGGAATTCTCGACCACCAAGGCC-3′), chosen to be similar to the described putative ABC transporter in S. gordonii PK488 (Kolenbrander et al., 1994), and primer psaA2 (5′-CGTGTGGATCCTCTTTTCCTTTTTCA-3′). Amplifying sequences further upstream by this technique failed, therefore we used inverse PCR to obtain the missing ORFs. Genomic DNA of R6 was digested with Sau3A, generating fragments of about 0.8–1.0 kb in size containing the target sequence. Recircularization was performed by ligation of the DNA fragments. Amplification of DNA was carried out using primers INVpsaC1 (5′-TTCACCACGACCTCAGCAAGATTCCC-3′) and INVpsaC2 (5′-AATCAAGACCCGCTGGAATTGACC-3′) complementary to sequences located near the 5′ termini of the target DNA (Maniatis et al., 1982). A 1.6 kb fragment including psaB and the 5′ portion of psaC was obtained, gel purified and sequenced at the Center for Biotechnology at St Jude's Hospital. Both strands were sequenced independently from each other, and the redundancy was greater than 99.99%.

Insertional inactivation of psaB, psaC, psaA and psaD

To create the knockout mutants, the method of insertional duplication mutagenesis, which is a homology-directed insertion of foreign DNA, was used (Haldenwang et al., 1980; Mejean et al., 1981) (Fig. 1). For insertional duplication mutagenesis of psaA, an internal 379 bp fragment (bp 1704–2084) was amplified using total DNA of R6 and psaA1 (5′-TGCAAGAATTCTTGTAGCATGTGCTA-3′) and psaA2 as primers. The PCR product was digested with BamHI and EcoRI. An identical strategy was used to knock out the other genes. The insertional inactivation of psaB was performed using the primers psaB1 (5′-AGTTTAGGATCCGTATCGAAAACC-3′) and psaB2 (5′-AGCAAAGAATTCATCCAAGAGGATATAGTCG-3′). The resulting fragment was 490 bp long (bp 1–491). For the insertional inactivation of psaC, an integral 420 bp fragment (bp 890–1310) was amplified using the primers psaC1 (5′-TTTCAGAATTCTACGCGGGATGTCAC-3′) and psaC2 (5′-GACAGGGATCCCCATGGCTTTAGCCA-3′). The insertional inactivation of psaD was performed using the primers psaD1 (5′-TTGGAGAATTCCGACTGTTTCAGCTA-3′) and psaD2 (5′-AAGGTGGATCCATTGAAACAGTCAAT-3′). The resulting fragment was 311 bp long (bp 2710–3021). The amplified fragments were cloned in pJDC9 (Chen and Morrison, 1987). The resulting recombinant plasmids were then transformed into R6. Mutations were confirmed by Southern blot analysis (data not shown).

Penicillin susceptibility and autolysis rates

Autolysis rates of the strains were determined using 10 ml cultures of S. pneumoniae exposed to 10 times the MIC of benzylpenicillin (0.1 μg ml−1) when the OD620 reached 0.25–0.3. Autolysis rates were calculated as the first-order rate constant K = ln (A0/A120) × min−1, where A0 represents the peak of absorbance reading at 620 nm and A120 the reading after a further 120 min of incubation (Liu and Tomasz, 1985). The effect of penicillin treatment on the viability was determined by exposing 10 ml cultures in the early exponential phase of growth (OD620 = 0.3, corresponding 5 × 107 cfu ml−1) to 10 times the MIC of benzylpenicillin. After various times of exposure, 100 μl portions were removed, serially diluted in C + Y supplemented with 100 units of penicillinase (Sigma) and plated on TSA supplemented with 3% sheep blood (v/v).

Crude preparation of autolysin and assay for autolytic activity

Purification of pneumococcus autolysin was performed on the basis of an established protocol (Mosser and Tomasz, 1970). Late exponential phase bacteria (500 ml) were harvested by centrifugation at 5000 × g for 10 min. The bacterial pellet was resuspended in 10 ml of ice-cold 20 mM KH2PO4 and shock frozen in an ethanol–ice mixture. After the bacterial pellet was thawed slowly, the samples were sonicated to break the cell wall. In order to fractionate cell wall and autolysin, the samples were centrifuged at 30 000 × g for 30 min. The supernatant comprised a crude preparation of autolysin; the pellet contained most of the solid cell wall components. The amount of protein in the supernatant was determined by the Bradford test. The activity of autolysin obtained by the method described above was determined in a biological assay. The lysis-defective strain Lyt-4-4 was grown to an OD620 of 0.25 and exposed to 10 times the MIC of penicillin and crude autolysin preparations. The turbidity readings of the cultures were followed for 8 h, incubating the strains at 37°C and 5% C02.

Transformation assay

The transformation efficiency of the permease mutants was assessed according to an established protocol (Pearce et al., 1994). Cultures of mutants were grown to the peak of competence at an OD620 of 0.1 and transformed with the selectable marker StrR DNA. Additional transformation assays were performed at OD620 of 0.3, 0.5 and 0.8. Transformation efficiency was calculated as the percentage of StrR transformants/total number of bacteria and compared with the parent strain, R6. Transformations were performed with and without adding exogenous CSP (5 ng μl−1 final concentration).

Choline-binding protein purification

Choline-binding protein purification was performed according to the protocol of Rosenow et al. (1997). Vinylsulphone-activated agarose beads (Sigma) served as the immobilized choline affinity matrix. For this purpose, they were washed twice with 10 ml of distilled water and then rotated overnight at room temperature in 10 mM choline in a sodium carbonate buffer, pH 11.5. The beads were washed with 10 ml of phosphate-buffered saline (PBS) to remove unbound choline. The choline agarose beads were added to a 400 ml culture of pneumococci (108 cfu ml−1) and incubated for 30 min. The bacteria bead mixture was isolated by centrifugation at 8000 × g for 15 min, then lysed in 50 ml of C + Y medium containing Triton X-100 (0.5% w/v) in the presence of leupeptin (20 μg ml−1) and phenylmethylsulphonyl fluoride (PMSF; 100 μg ml−1). The lysate was centrifuged at 1000 × g for 5 min to pellet the beads. The beads were washed once with three volumes of PBS, 0.5 M NaCl to remove non-specifically bound material. Choline-bound material was eluted with three volumes of PBS adjusted to a final concentration of 10% choline (w/v). This eluate was dialysed against PBS and then passed through a Centricon 10 ultrafilter (Amicon).

Analytical and immunological methods

The CBPs and RecA were analysed by running 8% and 10% SDS–PAGE and by Western blotting using Immobilon-P membranes (Millipore Corporation). The membranes were incubated with polyclonal rabbit anti-CBP antibody (1:400) (Rosenow et al., 1997), polyclonal rabbit anti-autolysin antibody (1:1000), polyclonal rabbit anti-CbpA antibody (1:1000) and polyclonal rabbit anti-RecA antibody (1:1000). The membranes were developed using goat anti-rabbit horseradish peroxidase (ECL chemiluminescence kit; Amersham).

Northern blot

Total RNA was prepared according to the manufacturer's instructions (Qiagen). Approximately 10–20 μg of total RNA was separated in a 1.2% formaldehyde gel. The gel was rinsed in 20 × SSC buffer, and RNA was transferred to nylon membranes (Hybond N−; Amersham) by capillary blotting (Sambrook et al., 1990). A 379 bp PCR fragment generated by primers psaA1 and psaA2 was used as the psaA-specific probe. A 311 bp PCR fragment generated by primers psaD1 and psaD2 was used as the psaD-specific probe. The probes were labelled with [α-32P]-dCTP (Amersham). Hybridization was performed under stringent conditions according to standard protocols.

Adhesion assay

The human lung carcinoma cell line A-549 has an epithelial-like morphology and resembles most type II pneumocytes. A-549 cells were grown to confluence in 24-well plates (Corning Costar) coated with collagen type 1 (Sigma). Pneumococcal cultures grown in C + Y medium to an OD620 of 0.4 were centrifuged and resuspended in DMEM plus 1% FBS at a concentration of approximately 107 cfu ml−1. The concentration was confirmed by viable counting on TSA blood plates. Confluent A-549 cells were infected with 1 ml aliquots of bacterial suspension and incubated at 37°C. After an incubation time of 30 min, the cells were washed five times with PBS. To detach the cells, 100 μl of 0.25% trypsin was added to each well, and 400 μl of 0.025% Triton X-100 was used for lysis. To determine the number of adherent bacteria, serial dilutions were performed and, finally, 100 μl of bacteria suspension was plated on TSA blood plates (plus 1 μg ml−1 erythromycin). All assays were performed in six parallel wells, and results are presented as means ± standard deviation.

Transmission and scanning electron microscopy

Bacteria were grown overnight in C + Y medium to an OD620 of 0.5 and fixed in 0.1 M cacodylate buffer, pH 7.4, containing 2.5% glutaraldehyde. After this procedure, bacteria were post-fixed in 1% osmium tetroxide, dehydrated in gradients of ethanol, stained en bloc with 2% uranyl acetate and embedded in Spurr's resin. Sections were stained with 2% uranyl acetate and Reynold's lead citrate and examined under a JEOL 1200 EX II electron microscope.

Computer-assisted sequence analysis

Sequence analysis and alignments were conducted with the program DNASTAR and with the Genetics Computer Group sequence analysis software package. The computer program BLAST was used to search for amino acid sequences that were homologous to those of psaB, psaC and psaD gene products (Altschul et al., 1990).

Nucleotide sequence accession number

The DNA sequence of the 3.141 kb Psa locus has been assigned the GenBank accession number A7 055088.

Footnotes

  • Present address: New York University Medical Center, Department of Cell Biology, New York, NY 10016, USA
  • Acknowledgements

    This work was supported in part by grants from NIH AI27913 and AI39482 and the American Lebanese Syrian Associated Charities. We acknowledge the excellent technical assistance of Juan Li and Geli Gao. We would like to thank R. Masure for helpful suggestions and discussions.

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