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Infection and Immunity, August 2008, p. 3451-3463, Vol. 76, No. 8
0019-9567/08/$08.00+0 doi:10.1128/IAI.00343-08
Copyright © 2008, American Society for Microbiology. All Rights Reserved.
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Department of Microbiology, University of Texas Southwestern Medical Center, Dallas, Texas 75390-9048,1 Department of Cell Biology and Molecular Genetics and Maryland Pathogen Research Institute, University of Maryland, College Park, Maryland 20742-44512
Received 14 March 2008/ Returned for modification 28 April 2008/ Accepted 10 May 2008
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ccpA mutant exhibited a dramatic "hypervirulent" phenotype compared to the parental MGAS5005 strain, reflected as increased lethality in a model of systemic infection (intraperitoneal administration) and larger lesion size in a model of skin infection (subcutaneous administration). Expression of ccpA in trans from its native promoter was able to complement both phenotypes, suggesting that CcpA acts to repress virulence in GAS. To identify the CcpA-regulated gene(s) involved, a transcriptome analysis was performed on mid-logarithmic-phase cells grown in rich medium. CcpA was found to primarily repress 6% of the GAS genome (124 genes), including genes involved in sugar metabolism, transcriptional regulation, and virulence. Notably, the entire sag operon necessary for streptolysin S (SLS) production was under CcpA-mediated CCR, as was SLS hemolytic activity. Purified CcpA-His bound specifically to a cre within sagAp, demonstrating direct repression of the operon. Finally, SLS activity is required for the increased virulence of a
ccpA mutant during systemic infection but did not affect virulence in a wild-type background. Thus, CcpA acts to repress SLS activity and virulence during systemic infection in mice, revealing an important link between carbon metabolism and GAS pathogenesis. |
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In gram-positive bacteria such as Bacillus subtilis, CCR involves the central protein of the phosphoenolpyruvate phosphotransferase system (PTS), called HPr (10). HPr, a sensor of the metabolic state of the cell, becomes phosphorylated on a serine residue (S46) during growth in glucose and complexes with carbon catabolite control protein A (CcpA), the primary mediator of CCR. CcpA, a member of the LacI/GalR transcriptional regulator family, controls the expression of a wide variety of genes important for metabolism in gram-positive bacteria. The HPr-CcpA complex mediates CCR by binding to catabolite response elements (cre) present within the promoters or coding regions of regulated genes. A 14-base-pair consensus cre has been determined for B. subtilis, with the sequence TGWAARCGYTWNCW (44), but slight variations have been observed in other gram-positive bacteria (52). Upon binding to these cre, CcpA primarily represses expression of genes that might be involved in alternative sugar source utilization but also activates transcription of genes that may function in glucose metabolism (14, 17, 49).
Experimental evidence obtained for several important gram-positive pathogens has begun to implicate CcpA in virulence gene regulation. For example, in Listeria monocytogenes, the virulence regulator PfrA is under CCR (30). In Clostridium perfringens, expression of both the enterotoxin (cpe) and the type IV pilus is controlled by CcpA-mediated regulation (29, 50). Importantly, for the human pathogen Streptococcus pneumoniae, a mutation in CcpA attenuates the organism for nasopharyngeal colonization and virulence in mouse models of pneumonia (21) and intraperitoneal (i.p.) infection (16). These results suggest a major role for CcpA in virulence gene regulation by gram-positive pathogens.
Streptococcus pyogenes, a strict human pathogen, is responsible for a wide array of diseases, ranging from self-limiting pharyngitis to severe invasive necrotizing fasciitis (7). Global transcriptional regulation of its many virulence genes represents a key step in the ability of the group A streptococcus (GAS) to proliferate in the human host and to cause such a wide variety of diseases (22, 33). Like many pathogens, the GAS use two-component signal transduction systems (TCS) to sense the environment and coordinately regulate gene expression. For example, the CovRS TCS represses expression of many key virulence factors, is important for the ability of GAS to respond to stress, and is important for invasive potential during infection (6, 8, 47). In addition to TCS, growth-phase-specific virulence regulators, including Mga, RofA, and Rgg, coordinately control factors that are important for various phases of the GAS host-pathogen life cycle (20, 22). For example, Mga activates genes important for early colonization and adhesion during exponential phase, when nutrient levels are high, whereas Rgg regulates genes critical for dissemination and spread during stationary phase, when nutrients are limiting. Additionally, the global regulator of the stringent response, CodY, positively influences the expression of streptolysin S (SLS) and other virulence factors relative to nutritional status (26). Thus, metabolism and nutrient availability appear to have a significant influence on the regulation of many GAS virulence factors.
One possible link between metabolism and growth phase regulation of virulence in GAS might be through CcpA-mediated CCR. A recent in silico analysis of the M1 GAS SF370 genome by use of the B. subtilis consensus revealed cre associated with predicted sugar metabolism operons as well as in the promoters (mga and sagA) or coding regions (speB) of known virulence regulators and genes (2). CcpA was found to bind specifically to the mgap promoter, resulting in early activation of mga expression from the P1 start of transcription in an M6 GAS background. It was proposed that this might provide an avenue for direct interaction between carbon utilization and virulence gene regulation in GAS.
Interestingly, the putative cre found in sagAp overlaps the –35 binding site, indicating a strong likelihood for repression by CcpA. SLS is an oxygen-stable hemolysin/cytolysin that has been shown to contribute to virulence in GAS, especially following the subcutaneous route of infection (9, 13). The nine-gene sag operon is required for production and secretion of SLS, with the first gene, sagA, encoding the structural protein. In addition, sagA has also been shown to contain the pel locus, a regulatory RNA that positively influences the expression of many virulence factors, in some serotypes (23, 27). Given the implication for CcpA-mediated CCR to influence virulence regulation and SLS production in GAS, we assessed the role of CcpA in GAS pathogenesis. Here we report that CcpA is a global regulator of carbon utilization that also represses virulence and expression of SLS in GAS.
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(hsdR17 recA1 gyrA endA1 relA1) was used as the host strain for plasmid construction and was cultured in Luria-Bertani (LB) medium (EM Science). Antibiotics were used at the following concentrations: ampicillin at 100 µg/ml for E. coli, spectinomycin at 100 µg/ml for both E. coli and GAS, kanamycin at 50 µg/ml for E. coli and 300 µg/ml for GAS, and erythromycin at 500 µg/ml for E. coli and 1 µg/ml for GAS. |
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TABLE 1. Bacterial strains and plasmids
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Construction of the
ccpA mutant MGAS5005.718.
SOE PCR was used to delete the ccpA gene. Briefly, the primers ccpA-PCRS#1 and ccpA-PCRS#2 (Table 2) were used to amplify a 1,005-bp upstream region containing the first six nucleotides of ccpA, a BglII site, and a 9-bp overlap with the second fragment at the 3' end. The primers ccpA-PCRS#3 and ccpA-PCRS#4 (Table 2) were used to amplify an 1,115-bp downstream region containing the last 100 nucleotides of ccpA, with a BglII site at the 5' end. These fragments were then combined as template DNA with the ccpA-PCRS#1 and ccpA-PCRS#4 primers (Table 2) to generate the deletion. The resulting product was blunt end ligated into EcoRV-digested pBluescript IIKS (–) to yield pKSM716. The nonpolar spectinomycin resistance gene was amplified from pSL60-1 (25) by use of the primers aad9-L2-bglII and aad9-R2-bglII (Table 2), digested with BglII, and ligated into BglII-digested pKSM716 to create pKSM717 (Table 1). The BamHI/XhoI
ccpA aad9 fragment from pKSM717 was ligated with BamHI/XhoI-digested pJRS233 to yield pKSM718 (Table 1).
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TABLE 2. PCR primers used in this study
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ccpA mutant was created using temperature-sensitive allelic exchange as previously described (35). Mutants were screened for sensitivity to erythromycin and verified by PCR using the primers ccpA-L5 and aad9-R1 (Table 2) and by Southern blotting (Fig. 1B).
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FIG. 1. MGAS5005 ccpA mutant and complementation. (A) Schematic showing ccpA genomic region from MGAS5005, with downstream Spy0425 and Spy0426 open reading frames and putative Rho-independent terminator (lollipop). The predicted transcriptional start (PccpA) is shown (arrow), including the identified cre at position –63 from the start of transcription. The deleted ccpA region replaced with aad9 (thick bar) is also indicated. Solid vertical lines represent HindIII sites, and the dashed line indicates the loss of a site. (B) Southern blot of genomic DNAs from WT MGAS5005 (lane 1) and the ccpA mutant (lane 2), using the probe labeled "S" in panel A. (C) Northern blot of RNAs isolated from WT MGAS5005 (lane 1), the ccpA mutant (lane 2), and the complemented ccpA (ccpA) mutant, using the probe labeled "N" in panel A.
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km2 was digested with SmaI and blunt end ligated into pJRS525 to yield pKSM201. The ccpAp-ccpA fragment from pKSM715 was cloned into pKSM201 by using PvuII/NcoI to create pKSM719 (Table 1).
Southern blot analysis.
Chromosomal DNA (7.5 µg) was digested with HindIII, separated in a 0.7% agarose gel, and transferred downward to a positively charged nylon membrane overnight under alkaline conditions, followed by UV cross-linking. The probe was PCR amplified using the primers Spy0515-L and -R (Table 2) and then radiolabeled with [
-32P]dATP. The blot was hybridized for 2 h with 5 x 106 cpm of the radiolabeled probe at 42°C, followed by two washes in 2x SSC (1x SSC is 0.15 M NaCl plus 0.015 M sodium citrate) with 0.1% sodium dodecyl sulfate for 20 min at 42°C and then two washes in 0.1x SSC with 0.1% sodium dodecyl sulfate for 20 min. Blots were exposed to a phosphorimager cassette and visualized using a Storm 860 phosphorimager (GE Healthcare).
Northern blot analysis. Northern blots of total RNA were performed using a NorthernMax protocol (Ambion) as previously described (38). Briefly, 1 to 10 µg of total RNA was separated in a formaldehyde-agarose gel, transferred to a positively charged nylon membrane, and UV cross-linked (Stratagene). The probe was amplified by PCR using the primers ccpA-L2 and R2 (Table 2) and then radiolabeled as previously described. Hybridization and scanning of the Northern blots were done as detailed above for Southern blots.
Murine infection models. An overnight culture (5 ml) was used to inoculate 75 ml of THY and incubated static with appropriate antibiotics at 37°C until late logarithmic phase. Approximately 2 x 107 CFU/ml, as determined by microscope counts and verified by plating for viable colonies, was used to infect 6- to 7-week-old female CD-1 mice (Charles River Laboratories). Mice were injected with 100 µl (2 x 108 CFU) of the cell suspension by the i.p. route and were monitored as necessary for 72 h postinfection. Mice were euthanized by CO2 asphyxiation upon signs of systemic morbidity (hunching, lethargy, and hind leg paralysis). Survival data were assessed by Kaplan-Meier survival analysis and tested for significance by the log rank test, using GraphPad Prism (GraphPad Software).
The invasive skin model of infection was performed as described previously (41). Six- to 7-week-old female CD-1 mice (Charles River Laboratories) were anesthetized and depilated over an
2-cm2 area of the haunch with Nair (Carter Products, New York, NY), and 100 µl of a cell suspension (
2 x 108 CFU/mouse) was injected subcutaneously. Mice were monitored twice daily and were euthanized by CO2 asphyxiation upon signs of morbidity. Lesion sizes (length by width) were measured at 72 h postinfection, with length determined at the longest point of the lesion. Lesion size data were analyzed using GraphPad Prism (GraphPad Software) and tested for significance using an unpaired two-tailed t test.
Microarray and real-time reverse transcription-PCR (RT-PCR) validation.
Microarray experiments were performed as previously described (39). Briefly, 10-µg samples of RNA from three biological replicates were isolated from MGAS5005 and the isogenic
ccpA strain MGAS5005.718, using a Triton X-100 isolation protocol (48). RNAs were treated with DNase I and analyzed for quality on a formaldehyde-agarose gel. RNA samples were converted to cDNA with an amino-allyl UTP and were labeled with both Cy5 and Cy3 dyes, using a Cyscribe postlabeling kit (GE Healthcare), to allow for dye-swap experiments. Yields and incorporation of dye were determined using a Nanodrop ND-1000 instrument (Nanodrop Technologies). Equal volumes (25 µl) of labeled Cy5 cDNA and Cy3 cDNA were dried under vacuum, resuspended in 23.8 µl of distilled H2O, and boiled for 5 min, followed by cooling on ice for 1 min. A 5x Hyb buffer (GE Healthcare) (17 µl) and formamide (27.2 µl) were added to the cDNA and applied to array slides under raised coverslips (Lifterslip, Inc). Microarray slides were hybridized at 50°C overnight in slide chambers (Array It). Slides were washed twice for 10 min each under the following buffer concentrations and temperatures: 6x SSPE-0.01% Tween 20 (1x SSPE is 0.18 M NaCl, 10 mM NaH2PO4, and 1 mM EDTA [pH 7.7]) at 50°C, 0.8x SSPE-0.001% Tween 20 at 50°C, and 0.8x SSPE at room temperature. Slides were scanned using a Genepix 4100A personal array scanner and GenePixPro 6.0 software (Axon Instruments).
Data from the output GenePix results file (gpr file) were analyzed using Acuity 4.0 software (Axon Instruments). Microarray data were normalized using the ratio of the means. Data sets were then generated by analyzing data points whose mean of the ratio (635/532) was
2.0 or
0.50, followed by removal of samples for which four of the six microarray hybridization experiments (67%) did not show significance. Array validation was carried out on 12 differentially regulated genes with real-time RT-PCR (see below) using real-time primer pairs (Table 2). Correlation coefficients for the arrays were determined by plotting the log value from the array (x) against the log value from real-time RT-PCR (y). An equation describing the line of best fit was determined, with the resulting R2 value representing the fitness of the data, with higher correlations approaching an R2 value of 1.
Real-time RT-PCR. Briefly, 25 ng of DNase I-treated total RNA was isolated from each strain and added to SYBR green master mix (Applied Biosystems) containing 5 µg of each specific real-time primer for the one-step protocol (Table 2). The real-time RT-PCR experiments were completed using a Lightcycler 480 instrument (Roche), and levels presented represent ratios of wild-type (WT) to experimental values relative to the level of gyrA transcript.
SLS hemolysis assay.
Hemolysis assays were performed as previously described (37). Briefly, the WT, the
ccpA mutant, and the complemented strain containing pKSM719 were grown in THY broth supplemented with 10% heat-inactivated horse serum. Samples were taken every hour for a total of 8 hours and immediately frozen at –80°C. Bacterial cells were pelleted, and a 1:10 dilution was made of the supernatant. Five hundred microliters of this dilution was added to an equal volume of 2.5% (vol/vol) difibrinated sheep red blood cells (RBC), which were washed three times with sterile phosphate-buffered saline, pH 7.4. This mixture was incubated at 37°C for 1 h and cleared by centrifugation at 3,000 x g. Supernatants were measured at 541 nm by use of a spectrophotometer (Molecular Dynamics) to determine release of hemoglobin by lysed RBC. Percent hemolysis was defined as follows: [(sample A – blank A)/(100% lysis A)] x 100. To assay for streptolysin O-mediated hemolytic activity, the SLS inhibitor trypan blue (13 µg/µl) was added to samples prior to incubation.
sagAp-luc construction (pKSM727). The firefly luciferase gene (luc) was amplified from pLuc-MCS (Stratagene) by using the primers Luc-L and Luc-R (Table 2). The resulting fragment was blunt end ligated into EcoRV-digested pJRS525 to create pKSM720 (Table 1). Transformants were screened for orientation using the primers 1211 and Luc-R1 (Table 2). The sagAp promoter fragment was amplified using the primers PsagA-L1-B and PsagA-R1-X (Table 2), digested with BamHI and XhoI, and ligated into BglII/XhoI-digested pKSM720 to create pKSM727 (sagAp-luc) (Table 1).
Luciferase assay. Luciferase assays were performed as follows. MGAS5005 transformed with pKSM727 was grown statically in 13 ml CDM supplemented with 0.25% of either glucose, sucrose, or a mixture of glucose and fructose and with the appropriate drug at 37°C. Upon reaching 30 Klett units, 500-µl samples were taken every 15 Klett units. Samples were pelleted, supernatant was discarded, and samples were placed at –20°C overnight. The luciferase assay was performed using a luciferase assay system (Promega). Pellets were resuspended in various amounts of 1x lysis buffer to normalize them to cell units according to the equation 4.5 = (x ml)(65 Klett units/2). The luciferase assay was read using a Centro XS3 LB 960 luminometer (Berthold Technologies), into which 50 µl of Luciferin-D reagent was directly injected.
Expression and purification of GAS HPr and HPr kinase. Amino-terminal fusions of a six-His tag to both GAS HPr and HPr kinase were constructed as follows. A 261-bp region containing ptsH (HPr) and a 930-bp region containing ptsK (HPr kinase) were amplified from serotype M1 SF370 (Table 1) genomic DNA by using the primer pairs ptsHL2/ptsHR2 and HprK-NcoI L/HprK-XhoI R, respectively (Table 2). The resulting products were digested with NcoI and XhoI and ligated into NcoI/XhoI-digested pProEX-HTb to produce pKSM712 and pKSM713, respectively (Table 1). Following verification by PCR and DNA sequence analysis, pKSM712 and pKSM713 were transformed into E. coli BL21(DE3) Gold (Stratagene) for protein expression.
GAS His-HPr and His-HPr kinase were purified via Ni-nitrilotriacetic acid resin (Qiagen) under native conditions based on the manufacturer's protocol. Briefly, expression of protein was induced at an optical density at 600 nm of 0.6 nm for 4 h with 1 mM IPTG (isopropyl-β-D-thiogalactopyranoside), and cell pellets were lysed in the presence of 1 mg/ml lysozyme and 1x Complete protease inhibitors (Roche), using a Branson sonicator (5 cycles of 30-s pulses at 50% duty cycle, with an output of 7.5). The protein concentration was determined for each fraction by use of protein assay reagent (Bio-Rad), using an Ultrospec 2100 spectrophotometer (GE Healthcare). Chosen fractions were dialyzed with two buffer changes in 4 liters of TKED buffer (100 mM Tris-HCl, 150 mM KCl, 1 mM EDTA, 0.1 mM dithiothreitol), and glycerol was added to 10% prior to storage of protein aliquots at –20°C.
To produce phosphorylated HPr (HPr-P), 20-µg aliquots of GAS His-HPr kinase and His-HPr were incubated in a reaction mixture containing 10 mM ATP, 20 mM Tris, 7.5 mM fructose 1,6-bisphosphate, 5 mM MgCl2, and 1 mM dithiothreitol at 37°C for 15 min.
EMSA.
Electrophoretic mobility shift assays (EMSAs) were performed as previously described (2), using both PCR fragments and double-stranded oligonucleotides (ds-Oligo). For the PCR probe, a sagAp middle fragment was amplified using the primers M1_sagA cre-L and M1_sagA cre-R (Table 2), end labeled with [
-32P]ATP by use of T4 polynucleotide kinase (New England Biolabs), and purified by crush-and-soak elution. Twenty micromolar HPr-P was added to a constant amount (10 to 25 ng) of end-labeled sagAp probe, and increasing amounts of GAS His-CcpA (1 to 4 µM) were added. GAS His-CcpA was purified as described previously (2). Competition assays were performed by adding 500 ng of unlabeled probe (ccpAp, sagAp left, sagAp middle, or sagAp right) to binding reaction mixtures. After incubation for 30 min at 37°C, reaction products were separated in a 5% polyacrylamide-10% (vol/vol) glycerol gel at room temperature. Gels were dried under vacuum at 80°C for 1 h, exposed overnight to a phosphorimaging screen, and scanned using a Storm860 phosphorimager (Amersham Biosciences). Resulting data were analyzed with ImageQuant analysis software (version 5.0).
The oligonucleotide-based EMSA was performed as described above, except that ds-Oligo probes were generated by annealing 30-bp sense and antisense oligonucleotide pairs representing PccpACRE, PsagACRE, and randomly rearranged PccpACRE (scrambled). Annealed oligonucleotide probes were end labeled with [
-32P]ATP and purified across a Sephadex G-25 column (Roche). A constant amount of labeled ds-Oligo probe (ca. 1 to 5 ng) and increasing amounts of GAS His-CcpA (5 to 12.5 µM) were used in each reaction mixture. Competition assays were performed by the addition of 700 ng unlabeled ds-Oligo probes to binding reaction mixtures.
Construction of sagB strains.
To create non-SLS-producing strains, a polar mutation was made in sagB, the second gene in the sag operon. Briefly, a 500-bp fragment internal to sagB was amplified using the primers SagB-L and SagB-R (Table 2) and blunt end ligated into EcoRV-digested pJRS233 (35) to yield pKSM732. The resulting plasmid was electroporated into both WT and
ccpA mutant strains by using a temperature-sensitive inactivation strategy as described previously (38). Strains were verified by loss of hemolysis on blood agar plates and by PCR using the primers 1211 and SagB-L or SagB-R (Table 2).
Microarray data accession number. Array data have been submitted to the NCBI GEO database and are accessible through series number GSE11328.
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ccpA mutant shows increased virulence in mice.
To assess the role of CcpA in GAS pathogenesis, a
ccpA mutant was constructed in the mouse-virulent M1 strain MGAS5005. The organization of the ccpA genomic region is highly conserved in the GAS (Fig. 1A). Similar to the case with other lactic acid bacteria, ccpA is divergently transcribed from the upstream pepQ XAA-Pro dipeptidase gene, with the predicted ccpAp promoter and cre present within the intergenic region, as previously described (2). However, GAS specifically possess two genes directly downstream of ccpA, encoding a glycosyl transferase (5005_Spy0425) and a glucosyl transferase (5005_Spy0426), followed by a Rho-independent transcriptional terminator (Fig. 1A). Although ccpA does not appear to be essential in GAS (24), attempts to inactivate ccpA using polar insertional strategies were unsuccessful. RT-PCR analysis found that ccpA and Spy0425 are transcriptionally linked (data not shown), suggesting that ccpA may be in an operon with a gene important for growth.
Therefore, an in-frame deletion of ccpA containing a nonpolar aad9 spectinomycin resistance cassette (25) was introduced into the genome of MGAS5005, and the mutation was verified by Southern blotting (Fig. 1B). The resulting
ccpA mutant produced a small-colony phenotype on THY agar plates, which has been observed for ccpA mutants in other bacteria (21, 52). Although the
ccpA strain produced a longer lag phase during growth in rich liquid medium, the mutant had no noticeable growth defects upon entering logarithmic phase compared to the parent strain MGAS5005 (data not shown). A complementing plasmid, pKSM719, containing ccpA under the control of its native promoter (ccpAp), resulted in elevated expression of ccpA transcripts, as demonstrated by Northern blotting (Fig. 1C).
To determine the role of CcpA in virulence, the
ccpA mutant was assayed in two mouse models of GAS infection. In the first model of systemic infection, CD-1 mice were infected i.p. with either the WT MGAS5005 strain containing empty vector, the
ccpA mutant with empty vector, or the
ccpA mutant strain complemented with ccpA in trans. Surprisingly, infection of mice with the
ccpA mutant led to a more rapid death than did infection with parental MGAS5005, with 90% lethality by 17 h postinfection (Fig. 2A). In addition, more than one-half of these mice exhibited severe hemorrhaging from several body sites, such as the rectum and mouth (data not shown). In comparison, only 50% of the MGAS5005-infected mice were dead at the end of 72 h, which is statistically significant (P < 0.0001). Overexpression of ccpA in the
ccpA mutant complemented the increased virulence to slightly less than the WT level, linking CcpA to the observed hypervirulence phenotype. In a subcutaneous model of GAS skin infection, the
ccpA mutant showed a significantly increased lesion size compared to those seen with both WT MGAS5005 and the complemented mutant (Fig. 2B). Interestingly, increased lethality was not observed with the
ccpA strain, suggesting no enhancement of dissemination from the skin leading to systemic disease. These data strongly suggest that CcpA acts to repress virulence in the GAS, leading to increased pathogenesis in mouse models of both systemic and localized infections.
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FIG. 2. ccpA mutant shows increased virulence in mice. (A) Survival curve for mice infected by the i.p. route with WT MGAS5005 (empty vector) (n = 30), the ccpA mutant (empty vector) (n = 32), or the complemented ccpA (ccpA) mutant (n = 25) at a range of 1.1 x 107 to 2.4 x 107 CFU. Data shown represent four independent experiments. Significance was determined using Kaplan-Meier survival analysis and a log rank test. (B) Lesion sizes for mice infected by the subcutaneous route with WT MGAS5005 (n = 9), the ccpA mutant (n = 11), or the complemented ccpA (ccpA) mutant (n = 8), using a range of 2.0 x 108 to 2.4 x 108 CFU. Sizes of ulcerative lesions were measured (mm2) at 72 h postinfection, and every point represents a single animal, with bars indicating statistical means. P values were determined using an unpaired two-tailed t test.
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ccpA mutant was undertaken (see Materials and Methods). WT MGAS5005 was compared to the isogenic
ccpA mutant grown in rich THY medium with glucose to mid-log phase, a point in growth at which CcpA-mediated regulation would be expected to be strongest. A decrease (CcpA activation) or increase (CcpA repression) in transcript level in the mutant of >2-fold over three biological replicates was considered significant. Under these conditions, CcpA was found to regulate about 6% of the M1 MGAS5005 genome (124 genes), with the vast majority of regulated genes (116 genes [90%]) showing repression by CcpA (see Table S1 in the supplemental material). The microarray analysis was validated by real-time RT-PCR on 15 differentially regulated genes (Table 3), resulting in a strong correlation, with an r2 value of 0.925. |
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TABLE 3. Microarray and real-time RT-PCR validation of ccpA strain compared to MGAS5005
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As predicted by the infection studies, CcpA also regulates several genes important for GAS pathogenesis. In particular, the most highly CcpA-repressed locus in the array study represented the entire SLS operon (sagA to sagI) (Table 3; see Table S1 in the supplemental material). In addition to SLS being a well-characterized cytolysin and virulence factor (9, 31), the sagA locus also contains the pel regulatory RNA, which has been shown to regulate the expression of other virulence genes in GAS (27). However, we did not observe effects on emm, sic, or speB expression that would be predicted by altering pel expression (27). CcpA was also able to repress expression of spd, encoding a secreted DNase that contributes to the escape of GAS from the innate immune response (45). Finally, CcpA activated expression of the virulence regulator RivR (Ralp-4), which is both CovR repressed and can influence the expression of the Mga virulence regulon (40). Thus, CcpA appears to influence both carbon utilization and virulence gene expression in GAS.
Expression of SLS (sagA/pel) is catabolite repressed by CcpA.
The strong repression of sagA/pel by CcpA observed in the transcriptome analysis would predict a concomitant increase of SLS activity in the
ccpA mutant during exponential phase. To investigate this, SLS-specific hemolytic activity was assayed using 2.5% defibrinated sheep RBC incubated with culture supernatants taken at 1-h time points during growth from WT MGAS5005 containing an empty vector, the
ccpA mutant containing an empty vector, and the complemented
ccpA mutant. SLS hemolytic activity showed a dramatic increase early in logarithmic phase for the
ccpA mutant and remained elevated well into stationary phase (Fig. 3). In comparison, both WT MGAS5005 and the complemented
ccpA strain exhibited very little SLS hemolytic activity during logarithmic phase, followed by a rapid increase to maximum levels at the transition to stationary phase (Fig. 3). In experiments using the SLS inhibitor trypan blue, no RBC lysis was seen for any of the samples, indicating that all hemolytic activity was due to SLS, not streptolysin O (data not shown). These results correlate with the CcpA-mediated repression of the sag operon during exponential growth observed with the microarray study.
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FIG. 3. SLS hemolytic activity is repressed by CcpA. WT MGAS5005 (empty vector), ccpA mutant (empty vector), and complemented ccpA (ccpA) cells were grown in THY broth supplemented with 10% heat-inactivated horse serum, and supernatant samples were isolated at different time points for analysis of SLS activity. Data are presented as average percentages of hemolysis (solid lines) for three independent experiments, with standard error bars. The growth for each strain normalized to growth of WT MGAS5005 is shown in Klett units for one representative experiment (dashed lines).
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FIG. 4. sagAp promoter activity is catabolite repressed by glucose. WT MGAS5005 containing the sagAp-luc luciferase reporter plasmid was grown in CDM containing 0.25% of either glucose, sucrose, or a mixture of glucose and fructose. Samples were taken across growth (dashed lines) and assayed for luciferase production, expressed in relative luciferase units (solid lines). The graph shown is representative of three independent experiments.
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FIG. 5. CcpA binds specifically to the sagAp cre. (A) Schematic showing sagAp region with putative cre on the antisense strand, overlapping the –35 consensus sequence. Promoter probes left, middle, right, and sagAp cre are shown below. (B) EMSA using the sagAp middle probe end labeled with [ -32P]ATP. A constant amount of probe (10 to 25 ng) was incubated at 37°C for 30 min with increasing amounts of GAS His-CcpA (1 to 3 µM) and a constant amount of HPr-P-Ser (20 µM) (lanes 2 to 9). Five hundred nanograms of cold competitor probe was added to lanes 5 to 8 (ccpAp, sagAp left, sagAp middle, and sagAp right, respectively). (C) EMSA using a ccpAp ds-Oligo probe end labeled with [ -32P]ATP. A constant amount (1 to 2 ng) of labeled probe was incubated with increasing amounts (5 to 12.5 µM) of purified GAS His-CcpA for 30 min at 30°C prior to separation in a 5% polyacrylamide, 10% glycerol gel (lanes 1 to 5). Unlabeled competitor ds-Oligo probes corresponding to ccpAp (lane 6), a scrambled sequence (lane 7), mgap (lane 8), sagAp (lane 9), and rivR/ralp4 (lane 10) were incubated with 12.5 µM CcpA to assay specific binding.
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Role of SLS in CcpA-mediated repression of virulence.
Mutation of most genes in the sag operon, including sagB, leads to loss of SLS activity in GAS (9). To determine if the increased expression of SLS in the
ccpA mutant contributes to the increased virulence seen in mice, the sagB gene was inactivated in both WT MGAS5005 and the
ccpA mutant. Since the mutation of sagB is downstream of sagA/pel, it would be expected to inhibit SLS production independent of the pel transcript. Both the sagB single mutant and the sagB
ccpA double mutant showed a complete loss of hemolysis on sheep blood agar plates compared to WT MGAS5005 (Fig. 6A). In addition, culture supernatants from both the sagB and sagB
ccpA mutants did not exhibit hemolytic activity in the hemolysis assay (data not shown).
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FIG. 6. Role of SLS in GAS systemic infection in mice. (A) Plate colonies of WT MGAS5005, sagB single mutant, and sagB ccpA double mutant strains on 5% sheep blood agar plates after growth at 37°C. (B) Survival curves for WT MGAS5005 (n = 5), MGAS5005 ccpA (n = 5), single sagB mutant (n = 20), and double sagB ccpA mutant (n = 22) i.p. mouse infections. Data shown represent two independent experiments (n = 52 [total]). Significance was determined using Kaplan-Meier survival analysis and a log rank test.
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ccpA mutant, the sagB single mutant, or the
ccpA sagB double mutant at an average dose of 2.73 x 107 CFU (Fig. 6B). The sagB single mutant had a small effect on virulence by the i.p. route of infection compared to WT MGAS5005, but this was not statistically significant (Fig. 6B). Published studies using the same route of infection also found a similar result (13). In contrast, inactivation of sagB in the
ccpA mutant not only altered its hypervirulence phenotype but also resulted in significant attenuation (P < 0.0001) compared to the sagB single mutant (Fig. 6B). In addition, the sagB
ccpA double mutant also showed significant attenuation (P < 0.0254) compared to WT MGAS5005. Therefore, the CcpA-mediated repression of virulence observed following i.p. infection is dependent on SLS production. Furthermore, in the absence of SLS, the loss of CcpA actually leads to attenuation of systemic virulence in GAS. |
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Defining the CcpA regulon of GAS.
In Lactococcus lactis and Bacillus subtilis, CcpA is a global regulator of gene expression, primarily affecting operons required for uptake and utilization of nonglucose sugar sources. However, in the oral pathogen Streptococcus mutans, CcpA was also able to regulate key virulence genes (1). To assess the CcpA regulon in the pathogenic GAS, we used a transcriptome analysis comparing the WT MGAS5005 strain with an isogenic
ccpA mutant during exponential growth in rich medium, where glucose is present and CcpA activity would be expected to be highest. Our study identified 124 regulated genes (6% of the GAS genome) which were either up- or down-regulated at least twofold, with an added cutoff that four of six biological replicates with dye swaps must also be significant (see Table S1 in the supplemental material). This is comparable to the numbers of regulated genes observed in L. lactis (118 in early log phase and 86 in mid-log phase) and S. mutans (170 in mid-log phase) (1, 52). However, given that 148 CcpA-regulated genes of L. lactis were also identified during the transition from exponential to stationary-phase growth, the inclusion of later time points in our analysis would likely reveal even more of the GAS CcpA regulon.
The array analysis found that the majority of the GAS CcpA regulon (90%) is repressed during exponential growth phase, emphasizing that the primary function of CcpA is to down-regulate gene expression under high-glucose conditions. As expected, over 60% of the genes regulated by CcpA are involved in metabolism and carbohydrate transport, which corresponds to the results of studies with other gram-positive bacteria (1, 52). As might be expected from these results, detectable growth phenotypes, such as small colony size on plates and an increased lag phase in liquid media, could be observed in the CcpA mutant, although the growth rate was not significantly altered compared to that of the WT. Thus, CcpA appears to regulate carbon uptake and metabolism in response to glucose in GAS, and the inability to control this process does appear to have effects on GAS structure and growth.
Importantly, CcpA also regulates established virulence genes in GAS (see Table S1 in the supplemental material), including the secreted DNase B gene (spd) and the entire sag operon necessary for SLS synthesis and secretion. Several studies have indicated that expression of sagA/pel is tightly growth phase dependent, exhibiting low expression until transition into stationary phase (15, 27). Combined with the in silico analysis showing a putative cre within the sagA/pel promoter (2), these data strongly suggested that the sag operon was under CCR. This was confirmed here based on our transcriptome results, the sagAp-luc luciferase studies, and the SLS activity assays (Fig. 3 and 4). Furthermore, EMSA demonstrated specific binding of His-CcpA to the sagAp cre, indicating direct repression by CcpA. sagAp is also under direct repression by the CovRS TCS both in vitro and in vivo (11, 15, 19, 47). In fact, the sagAp cre characterized here overlaps the –35 region and falls within the region protected by CovR in DNase I footprints (15). Whether these two systems interact to control sag/pel expression is not clear. Interestingly, the MGAS5005 parental strain used here is a covS mutant that exhibits increased sagA production compared to that of WT strains and correlates with invasive potential in mice (47). Since both regulatory systems strongly repress SLS production in GAS, this suggests that this activity is tightly controlled during infection and expressed only under specific conditions.
CcpA represses the expression of TCS5 (5005_Spy1305/1306) and TCS10 (5005_Spy0784/0785) as well as activates expression of the RofA-like protein RivR (Table 3; see Table S1 in the supplemental material). TCS5 has been shown to positively regulate an adjacent mannose/fructose PTS operon that also appears as a repressed operon in our CcpA array data (Table 3) (43). RivR has been associated with positively influencing expression of the Mga virulence regulon in GAS (40). Recent studies found that CcpA activates transcription of mga by binding to a cre upstream of mgap (2). Interestingly, we did not find mga to be regulated significantly by CcpA in the microarray analysis. Since we have predicted that CcpA initiates mga expression very early in growth, prior to autoregulation, we may not see any regulation at the time points used here. Alternatively, since mga can be influenced by the pel regulatory RNA encoded within the sagA transcript (27), this may overcome the expected loss of mga expression in a CcpA mutant.
Determining a consensus GAS cre. Of the 124 CcpA-regulated genes identified in our transcriptome analysis, 76 total genes contained 31 unique cre predicted in our in silico analysis, either within their promoter regions, within the genes themselves, or associated with a 5' gene in the operon (2). Thus, 61% of the CcpA-regulated genes showed the potential for direct CcpA regulation through a cre identified using the B. subtilis consensus with one mismatch. Our binding studies have now found four cre that are bound specifically by CcpA in GAS, located in ccpAp, mgap, sagAp, and rivR (Fig. 5) (2). Alignment of these sites along with the 28 other unique GAS cre associated with CcpA-regulated genes produces a GAS consensus cre that is more flexible at five positions (positions 6, 7, 8, 9, and 13) and more specific at position 12 than the B. subtilis consensus (Fig. 7). This suggests that our initial screen was too strict and possibly missed potential sites. A new in silico search using the GAS consensus (Fig. 7) identified 13 new putative cre and 24 of 31 previously identified cre showing regulation on the microarray, with the remaining 7 being found with one mismatch. In addition, 11 more genes are associated with the newly described cre sites. Thus, 93/124 CcpA-regulated genes (75%) found in the array were associated with a cre by use of the GAS consensus. Overall, it appears that a GAS cre exhibits more flexibility at several positions than a B. subtilis cre does. However, this consensus will benefit from the study of more CcpA-cre interactions in GAS.
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FIG. 7. GAS cre. The sequence logo represents the GAS consensus cre for Ccp-regulated genes. The published Bacillus sp. consensus cre and a GAS consensus cre determined from the sequence logo are shown below. Underlined and shaded letters indicate differences from the Bacillus cre. Degenerate nucleotide symbols are as follows: W = A or T; R = A or G; Y = C or T; N = A, C, G, or T; S = C or G; B = C, G, or T; and H = A, C, or T.
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ccpA mutant was complemented beyond WT levels with ccpA overexpressed in trans, suggesting that the release of CCR had a significant effect on virulence gene expression in vivo. These results contrast with published studies of the closely related organism S. pneumoniae, where
ccpA mutants were attenuated for virulence using three different mouse models of infection, including systemic (i.p.) infection, pneumonia, and nasopharyngeal colonization (16, 21). The reason for the observed attenuation in the
ccpA mutant was suggested to be either reduced expression of cell wall proteins vital for metabolism in vivo or regulation of polysaccharide synthesis. However, we did not see comparable changes in GAS for surface proteins or capsule at mid-logarithmic phase in our array analysis.
SLS is a CcpA-repressed virulence factor during GAS systemic infection.
Among the most highly CcpA-repressed genes in the array analysis were sagA/pel and the entire sag operon, leading to an increase in SLS hemolytic activity (Table 3; Fig. 3 and 4). This raised the question of whether the increase in SLS production might be responsible for the hypervirulence seen in the mouse models of infection. Previous studies have shown that SLS contributes to the severity of localized necrotic lesions in mice (9, 13), which would help to explain this phenotype observed in the subcutaneous infection model (Fig. 2B). However, SLS-deficient mutants in an M5 GAS background did not show a significant virulence defect compared to the WT following i.p. infection of mice (13). The same thing was observed here, where a nonhemolytic sagB mutant of MGAS5005 did not show a significant difference from the parental strain following i.p. infection (Fig. 6B). In contrast, inactivation of SLS production in the
ccpA mutant background (sagB
ccpA) showed a dramatic reduction in virulence (P < 0.0001), abrogating the hypervirulence and resulting in an overall attenuation compared to either MGAS5005 or the sagB single mutant (Fig. 6B). This provides genetic evidence that the hypervirulent phenotype seen with the
ccpA mutant during systemic infection is attributable to the increased expression of SLS in this strain. Furthermore, in the absence of SLS production, a
ccpA mutation leads to attenuation.
The high level of CcpA-mediated repression of sagA might suggest that SLS has a role in secondary metabolism in the human host, where the function of the cytolysin in vivo may be to help release nutrients into the immediate environment surrounding the organism. This damage may have a cost of activating the host immune response, stimulating neutrophil migration to the site of infection and eliciting an inflammatory response. This would necessitate strict regulation of SLS expression, either through CcpA-mediated CCR or via CovRS repression. Thus, SLS expression is normally repressed in vivo, potentially by the presence of high levels of glucose in the peritoneum. Additional experiments will be necessary to determine if this also occurs during soft tissue infection at the skin.
During the final preparation of the manuscript, a study from Shelburne et al. was published which also described the role of CcpA in the pathogenesis of the M1 GAS strain MGAS5005 (42). In fact, the parental MGAS5005 strain used in our work was obtained directly from the same group. Notably, they analyzed the transcriptome of their
ccpA mutant and found that CcpA strongly repressed expression of the sag operon and SLS activity, in addition to other virulence and regulatory genes. In the majority of cases, the results described here closely mirror their data and help to strongly validate both studies, with one significant exception. Shelburne et al. found that their
ccpA mutant was attenuated following i.p. infection in female CD-1 mice, whereas our studies showed an increase in virulence in the identical background. They did not investigate the mechanism of CcpA-mediated attenuation in their study. Although the difference could be attributed to a secondary mutation obtained during mutagenesis of ccpA for one of the groups, successful complementation by both groups would appear to rule this out. Another possible explanation could be subtle differences in the execution of the i.p. infection model. Since we observed attenuation in a
ccpA mutant in the absence of SLS production, this provides a potential mechanism for the differences seen in vivo. Regardless, the two studies clearly demonstrate for the first time a direct link between carbon metabolism and virulence in GAS. In contrast, our work has revealed a significant role for CcpA-mediated repression of the cytolysin SLS in the severity of GAS systemic infection that was not previously appreciated.
This work was supported by a grant from the National Institutes of Health (NIH/NIAID grant AI47928 to K.S.M.).
Published ahead of print on 19 May 2008. ![]()
Supplemental material for this article may be found at http://iai.asm.org/. ![]()
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