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Infection and Immunity, July 2003, p. 3740-3747, Vol. 71, No. 7
0019-9567/03/$08.00+0 DOI: 10.1128/IAI.71.7.3740-3747.2003
Copyright © 2003, American Society for Microbiology. All Rights Reserved.
Division of Microbiology and Molecular Genetics, School of Medicine, Loma Linda University, Loma Linda, California 92350,1 Division of Immunology, Beckman Research Institute of the City of Hope, Duarte, California 910102
Received 18 September 2002/ Returned for modification 16 December 2002/ Accepted 25 March 2003
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Previously, it has been reported that the recA locus can affect the phenotypic expression and distribution of the gingipains in P. gingivalis (1, 2, 10). A defective mutant was constructed by allelic exchange (1) by using the cloned vimA gene, which is downstream of the recA gene and appears to be part of the same transcriptional unit. The mutant strain, designated FLL92, was not black pigmented and showed increased autoaggregration and significant reductions in proteolytic, hemolytic, and hemagglutinating activities. In in vivo experiments using a mouse model, the virulence of P. gingivalis FLL92 was dramatically reduced in comparison to that of the wild-type W83 strain. While reductions in Arg-X- and Lys-X-specific proteolytic activities were observed in P. gingivalis FLL92, transcription of the gingipain genes was unaltered in this mutant compared to that of the wild-type strain (1). A similar unaltered level of expression of the gingipain genes was also observed in P. gingivalis FLL32, a recA-defective isogenic mutant that had reduced Arg-X- and Lys-X-specific proteolytic activities (2). The detection of immunoreactive bands in an extracellular fraction of P. gingivalis FLL32 by using anti-Rgp or anti-Kgp has raised the question of whether the reduced level of proteolytic activity in this mutant may be due to a defect in the processing of the proteases (2). While these data may suggest posttranscriptional regulation of these genes, we cannot rule out the possibility that altered translation and/or transport of the gingipains may contribute to the observed reduced protease activity in the vimA-defective mutant. Further, if it were shown that the gingipain proenzyme forms were detected extracellularly, it might suggest that gingipain biogenesis requires a host-specific factor(s).
In this report, we have further characterized the vimA-defective P. gingivalis FLL92 strain. A late onset of gingipain protease activity occurred during the stationary phase of growth. In the absence of significant proteolytic activity during exponential growth phase, Western blot analyses identified unique Rgp- and Kgp-immunoreactive bands in extracellular protein fractions from P. gingivalis FLL92. Moreover, the RgpB proenzyme was present in this reduced proteolytic extracellular fraction. These results indicate that the gingipain RgpB is excreted in an inactive form in the vimA-defective mutant. Furthermore, protease activity in P. gingivalis may be regulated by multiple mechanisms. Finally, this finding may suggest an important role for the vimA gene in protease activation in P. gingivalis.
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Cell fraction preparation and protease assay. One-liter cultures of P. gingivalis strains FLL92 and W83 were grown from actively growing cells. Preparations of whole-cell culture, cell-free medium, cell suspension, vesicles, and vesicle-free medium were made as previously reported (36). The whole-cell culture fraction is a sample of the culture after the bacterium has been grown to a specific growth phase. This sample has the bacterial cells suspended in the growth medium, and the enzyme activity includes the gingipains that are attached to the bacterial cell surface plus those that are secreted in the culture medium. After centrifugation, the cell pellet is resuspended in a buffer, and the enzyme activity in this sample (the cell suspension fraction) represents the gingipains that are attached to the bacterial cell surface. The enzyme activity in the supernatant (the cell-free medium fraction) includes the gingipains that are secreted in the culture medium. Secreted gingipains can be either associated with vesicles or soluble in the culture medium; thus, ultracentrifugation of the cell-free supernatant pellets the vesicles, while the soluble gingipains remain suspended. The enzyme activity of this vesicle pellet resuspended in a buffer (the vesicle fraction) indicates the activity associated with the vesicles. The enzyme activity of the supernatant (the vesicle-free medium fraction) after ultracentrifugation represents the soluble gingipains.
Extracellular proteases were prepared from the culture supernatant (500 ml) of cells grown to late log phase (OD660 of 0.8) or stationary phase (OD660 of 1.5). The cells were harvested by centrifugation (10,000 x g, 30 min), and the supernatant was further clarified by filtration through a 0.45-µm-pore-size membrane (Millipore Corporation, Bedford, Mass.). The cell-free culture fluid was precipitated with 37.5 or 60% acetone (-20°C), and the protein pellet was resuspended in 7 ml of 100 mM Tris-HCl buffer (pH 7.4), dialyzed for 24 h against the same buffer, and then stored on ice or at 0°C. The presence of Arg-X- and Lys-X-specific cysteine protease activities was determined with a microplate reader (Bio-Rad Laboratories, Hercules, Calif.) according to methods reported elsewhere (1).
Enzyme purification.
Cell-free culture fluid was obtained by centrifugation (10, 000 x g, 30 min) of the harvested whole-cell culture. The supernatant was further clarified by vacuum filtration with a 0.45-mm-pore-size membrane (Millipore Corporation). The cell-free culture fluid was precipitated with 60 or 37.5% acetone at -20°C and applied to a Sephadex G-150 column as described by Pike et al. (34). Nine-milliliter fractions were collected and pooled according to N-
-benzoyl-DL-arginine-p-nitroanilide (BAPNA; for Rgp activity) and acetyl-lysine-p-nitroanilide (Ac-Lys-pNA; for Kgp activity) activities and reactivities to RgpA-, RgpB-, and Kgp-specific antibodies (36). Three peaks of activity against the two substrates and reactivity to specific antibodies were found. The Rgp-specific peak fractions were pooled, concentrated, and applied to an arginine-Sepharose column according to the protocol described by Otsuka et al. (30), with modified elution volumes of 75 ml. The fractions were pooled and used for further analysis.
SDS-PAGE and Western blot analysis. Sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE) was performed with a 4 to 12% bis-Tris separating gel in MOPS (morpholinepropanesulfonic acid)-SDS running buffer (NuPAGE Novex gels; Invitrogen, Carlsbad, Calif.) according to the manufacturer's instructions. Samples were prepared (65% sample, 25% 4x NuPAGE LDS sample buffer, 10% NuPAGE reducing agent), heated at 72°C for 10 min, and then electrophoresed at 200 V for 65 min with the XCell SureLock Mini-Cell (Invitrogen). The protein bands were visualized by staining with Simply Blue Safe stain (Invitrogen). The separated proteins were then transferred to nitrocellulose membranes (Schleicher & Schuell, Keene, N.H.) and processed at 15 V for 25 min with a Semi-Dry Trans-blot apparatus (Bio-Rad). The blots were probed with antibodies against specific protease domains. Immunoreactive proteins were detected by the procedure described in the Western Lightning Chemiluminescence Reagent Plus kit (Perkin-Elmer Life Sciences, Boston, Mass.). The secondary antibody was immunoglobulin G (heavy plus light chains)-horseradish peroxidase conjugate (Zymed Laboratories, Inc., South San Francisco, Calif.).
Denaturation-renaturation procedure for in vitro protease activation. Extracellular protein fractions from P. gingivalis were mixed with 8 M urea and incubated at 4°C for 1 h. The urea was slowly removed from the mixture by centrifugation (10,000 x g) in a Millipore filtration unit (Biomax 10K NMWL membrane, 0.5-ml volume) with the addition of increasing volumes of 100 mM Tris-HCl buffer (pH 7.4).
Mass spectrometry sequence analysis. Sequence analysis of the proteins was performed in the Mass Spectrometry Core Facility at the Beckman Research Institute of the City of Hope (Duarte, Calif.). The gel-separated proteins were reduced, alkylated, and digested in the gel as described in published procedures (9). Tryptic peptides were extracted and analyzed with a custom-built nano flow high-performance liquid chromatography system (8) coupled to an LCQ Classic Ion Trap mass spectrometer (ThermoFinnigan, San Jose, Calif.). Peptide tandem mass spectra were automatically screened to remove low-quality spectra (26) and compared to spectra in the National Center for Biotechnology Information nonredundant database (http://ncbi.nlm.nih.gov/blast/db) by using TurboSequest (ThermoFinnigan). Individual peptide matches were confirmed, and proteins were considered to be identified if at least two different peptides were identified.
Fluorescence labeling of proteases by using DNS-EGR-CK. Fluorescence labeling of proteases in the extracellular protein fraction from P. gingivalis was done as previously reported (4). Briefly, solutions of extracellular protein fractions from P. gingivalis were treated at 4°C for 10 min with equal volumes of 0.2 M Tris-HCl (pH 8.4) containing 20 mM CaCl2 and 20 mM 2-mercaptoethanol. Dansyl-glutamyl-glycyl-arginyl chloromethyl ketone (DNS-EGR-CK) (0.25 mg; Calbiochem, San Diego, Calif.) was dissolved in 600 µl of 95% (vol/vol) aqueous ethanol just before use. Fifty microliters was added to the reduced protease solution, and the reaction was allowed to proceed at 4°C until the enzyme activity (monitored by BAPNA hydrolysis) was abolished. Samples of the protein solution were then dried in a SpeedVac concentrator (Thermo Savant, Holbrook, N.Y.). To identify the protease band unambiguously after SDS-PAGE, labeling was also performed in the presence of 50 µM leupeptin. The dried fluorescence-labeled proteases were then treated with SDS-PAGE sample buffer and subjected to electrophoresis.
Casein substrate zymography. Novex Zymogram gels (12% Tris-glycine gel with ß-casein incorporated as a substrate) were obtained from Invitrogen and used according to the manufacturer's instructions. Proteolytic activity was visualized as a clear band against a blue background.
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FIG. 1. Proteolytic activity of P. gingivalis mutants. P. gingivalis was grown to late log phase (OD660 of 0.8) or stationary phase (OD660 of 1.5) in 1 liter of BHI broth supplemented with hemin and vitamin K. Activity against BAPNA was tested in whole-cell culture according to methods reported elsewhere (1). The results shown are representative of four independent experiments.
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FIG. 2. Distribution of Rgp protease activity in P. gingivalis. Activities against BAPNA were tested in whole-cell culture (WC), cell-free medium (CF), cell suspension (CS), vesicles (V), and vesicle-free medium (VF). The fractions were prepared according to the methods of Potempa et al. (36). One hundred percent of the activities in the whole-cell fraction were assumed to be produced by that strain. The activities measured in P. gingivalis FLL92 represent 10 and 60% of the activities measured in the wild-type strain W83 in exponential (OD660 = 0.8) and stationary (OD660 = 1.5) growth phases, respectively. CF + CS = WC; VF + V = CF.
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-p-tosyl-L-lysine chloromethyl ketone (data not shown).
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FIG. 3. SDS-PAGE of acetone-precipitated P. gingivalis extracellular proteins. Proteins in the supernatant fractions of cultures at different growth phases in BHI medium were precipitated with 37.5% (A) or 60% (B) acetone. The fractions were solubilized at 72°C in reducing buffer. NuPAGE bis-Tris gels (4 to 12%) were stained with Simply Blue Safe stain. Lanes: 1, W83 at exponential phase; 2, FLL92 at exponential phase; 3, W83 at stationary phase; and 4, FLL92 at stationary phase. The molecular mass markers (in kilodaltons) are indicated on the left. Each lane contains 20 µg of protein. It is noteworthy that the 64-kDa band was observed in abundance when 37.5% acetone instead of 60% acetone was used for the precipitation.
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FIG. 4. Western immunoblot analysis of the extracellular proteins from P. gingivalis by using specific anti-Rgp and anti-Kgp antibodies as probes. All lanes contained 20 µg of acetone (37.5%)-precipitated proteins from the supernatant fractions of cultures in BHI medium at different growth phases. The membrane was reacted with antiserum raised in rabbits or chickens against the Arg-X- and Lys-X-specific protease from P. gingivalis. The secondary antibody was goat anti-rabbit or anti-chicken immunoglobulin G-horseradish peroxidase conjugate.(Zymed Laboratories Inc.). Reactions were done with rabbit anti-RgpB (A), rabbit anti-RgpA (B), and chicken anti-Kgp (C). Lanes: 1, W83 at exponential phase; 2, FLL92 at exponential phase; 3, W83 at stationary phase; 4, FLL92 at stationary phase. It is noteworthy that the 64-kDa band was identified as the RgpB proenzyme by mass spectrometry (see the text).
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Protease activation. Proteolytic cleavage is a common mechanism that can generate an active enzyme from a larger proenzyme. While activation can be achieved by the action of other proteolytic enzymes (5, 18), we cannot rule out the possibility that the tertiary structure of the putative proenzyme may be incompatible for activation or that an inhibitor may be present at its catalytic site. Since most proteins are denatured in the presence of high concentrations of urea and some will renature if the high concentration is slowly reduced (16), extracellular proteins from P. gingivalis FLL92 grown to late exponential phase were subjected to a urea denaturation-renaturation cycle. Figure 5 shows proteolytic activation that is approximately fourfold greater in the extracellular protein fraction from P. gingivalis FLL92 grown to late exponential phase than that of the wild-type strain. Western blot analysis of the urea-activated fraction using antibodies against RgpB shows the continued presence of the 64-kDa band; however, immunoreactive bands in the 50- to 57-kDa range were missing (Fig. 6). Taken together, these findings suggest that the decrease in the 50- to 57-kDa immunoreactive bands accompanied by an increase in the intensity of the 48-kDa band may explain the increase in Rgp proteolytic activity. The 48-kDa band is similar in size to the band representing the catalytic domain in the wild-type strain (Fig. 4A).
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FIG. 5. Protease activation in the extracellular protein fraction from P. gingivalis FLL92. P. gingivalis was grown to late log phase (OD660 of 0.8) in 1 liter of BHI broth supplemented with hemin and vitamin K. Acetone (37.5%)-precipitated proteins were mixed with 8 M urea and incubated at 4°C for 1 h. The urea was slowly removed from the mixture by centrifugation (10,000 x g) in a Millipore filtration unit with the addition of increasing volumes of 100 mM Tris-HCl buffer (pH 7.4). Activities against BAPNA were tested according to the methods of Potempa et al. (36). The results shown are representative of four independent experiments.
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FIG. 6. Western blot analysis of the urea-activated fraction using antibodies against RgpB. All lanes contained 20 µg of acetone (37.5%)-precipitated proteins from the supernatant fractions of P. gingivalis FLL92 cultures grown in BHI medium at exponential growth phases. The membrane was reacted with antiserum raised in rabbits against RgpB. Lanes: 1, FLL92 exponential-growth-phase extracellular proteins; 2, FLL92 exponential-growth-phase extracellular proteins treated with urea (see the text).
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FIG. 7. Gel electrophoresis of DNS-EGR-CK-labeled extracellular protein from P. gingivalis. Acetone-precipitated extracellular proteins from P. gingivalis W83 and P. gingivalis FLL92 were labeled with the fluorescent irreversible inhibitor DNS-EGR-CK as described in the text and subjected to SDS-PAGE on 4 to 12% gels as described for Fig. 3A. The gels were viewed under UV light to visualize labeled proteins. (A) Lanes: 1, W83 at exponential phase; 2, FLL92 at exponential phase; 3, W83 at stationary phase; 4, FLL92 at stationary phase; 5, FLL92 at exponential phase and treated with urea. (B) Lanes: 1, W83 at exponential phase; 2, FLL92 at exponential phase; 3, W83 at stationary phase; and 4, FLL92 at stationary phase. All the lanes in panel B were labeled with DNS-EGR-CK in the presence of 50 µM leupeptin. Each lane contains 20 µg of protein. The arrow indicates the DNS-EGR-CK-labeled protein band.
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FIG. 8. Detection of proteolytic activity in casein-conjugated polyacrylamide gel. All lanes contained 20 µg of acetone (37.5%)-precipitated proteins from the supernatant fractions of cultures in BHI medium at exponential growth phases. Samples were solubilized at room temperature for 10 min in a Tris-glycine SDS sample buffer (Invitrogen) prior to electrophoresis. Lanes: 1, W83; 2, FLL92. The arrow indicates a 48-kDa proteolytic band present in the FLL92 exponential-growth-phase extracellular proteins.
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In a recent study, a porR-defective, non-black-pigmented mutant of P. gingivalis also showed a late onset of soluble proteolytic activity (42). It is unclear, however, if both the vimA and porR genes are part of a common pathway for protease activation and distribution. The porR gene product is part of the polysaccharide biosynthetic pathway which can affect gingipain biogenesis, its anchorage, and its possible distribution on the cell surface (42). While the porR gene does not regulate the transcription of the gingipain genes, we cannot rule out the possibility that the posttranscriptional-posttranslational regulation of gingipain biogenesis may involve the indirect effect of the porR gene product on the cell membrane. The generation and maintenance of subcellular organization in bacteria are critical for many cell processes and properties; thus, it is possible that the polysaccharide effect on the fluidity of the cell membrane could affect the transport, maturation, or distribution of the gingipains. In Shigella flexneri, distribution of the virulence protein IcsA (VirG) on the bacterial cell surface can be altered by modification of the lipopolysaccharide in the outer membrane (12, 39, 40). It is unclear if the vimA gene affects polysaccharide synthesis in P. gingivalis and thus could use a similar mechanism like S. flexneri to affect gingipain biogenesis and distribution. Preliminary reverse transcriptase PCR experiments show that the vimA mutation does not affect the expression of the porR gene at the transcriptional level. A relationship between polysaccharide biosynthesis and VimA is being further investigated.
The late onset of proteolytic activity in P. gingivalis FLL92 in stationary phase may be consistent with a stringent response, although we cannot rule out the possibility that other protease genes (e.g., tpr) (31, 32) might be upregulated to compensate for the gingipain deficiency. Bacteria undergoing nutritional stress, such as amino acid deprivation, synthesize highly phosphorylated guanosine nucleotides (ppGpp and pppGpp) (6). As part of this phenomenon, termed the stringent response, these nucleotides have been shown to play a role in growth-related gene expression during nutrient deprivation in Escherichia coli (6) or virulence gene expression in stationary phase in Legionella pneumophila (14, 15). A homologue of the relA gene in P. gingivalis has been identified (41). Construction of the relA mutant P. gingivalis KS7 revealed that it was defective in ribosome-mediated ppGpp formation and in the stringent response (41); however, it is unclear if this gene plays a role in the modulation of proteolytic activity in this organism.
P. gingivalis FLL92 released soluble proteins that reacted with gingipain-specific antibodies into the media. These soluble proteins appear to contain most of the total proteolytic activity in this strain. If this is so, it would be consistent with the DNS-EGR-CK specifically labeled protein band, representing the catalytic domain, being more intense in the increased proteolytic, extracellular fraction from P. gingivalis FLL92 grown to stationary phase. The high-molecular-weight immunoreactive proteins could represent the unprocessed or partially processed proteases. A unique 64-kDa protein was selectively precipitated from exponential-phase culture fluid by using approximately 38% acetone. This protein was definitively confirmed in this study to be RgpB with its profragment. The intermediate species in gingipain biogenesis may have their catalytic sites blocked, but the site can be activated by a urea denaturation-renaturation cycle. All the anti-RgpB immunoreactive bands between 55 and 67 kDa were no longer observed after a urea denaturation-renaturation cycle of a nonproteolytic fraction that resulted in a fourfold increase in protease activity. It is noteworthy that the 64-kDa protein band was observed in the urea-treated fraction; however, the inability to label this protein with DNS-EGR-CK may suggest that the active site is not accessible. Casein substrate zymography revealed that the 64-kDa band did not display any proteolytic activity. Thus, taken together, these results may indicate that the proenzyme is not responsible for the increased activity observed after urea activation.
An active enzyme can be generated from a larger polypeptide by autoprocessing or by the action of other proteolytic enzymes (19). Several cysteine proteases are converted to their active forms by removal of the prosegment by an autocatalytic mechanism (19). There is accumulating evidence that a multicomponent maturation pathway(s), perhaps including an autolytic mechanism, may be involved in the production of Arg-X- and Lys-X-specific proteases in P. gingivalis (4, 37). While it is clear that proteolytic processing of the full-length gingipain precursors in P. gingivalis is required to produce the isoforms detected (4, 37, 38), the continued presence of the RgpB proenzyme in the urea-activated fraction may suggest that the mechanism of protease activation in P. gingivalis requires a host-specific factor. It is unclear whether a factor, perhaps the vimA gene product or a product regulated by the vimA gene, is involved in the maturation process. It is also unclear if the vimA gene may affect the phenotypic expression of other proteases in P. gingivalis. The multiple proteolytic bands which may represent different isoforms of gingipain R and other proteases (7, 13) were observed only in assays of the wild-type strain. The effects of VimA on other proteases are currently under investigation.
Finally, it is noteworthy that the gingipain genes are not clustered on the P. gingivalis chromosome (oral pathogen sequence databases are available at http://www.oralgen.lanl.gov). The results of this study, therefore, would support the hypothesis that inactivation of the vimA gene may affect a common pathway for protease biogenesis. Collectively, our data suggest that the protease genes are regulated differently during different growth phases. While vimA may affect regulation of proteolytic activity during exponential growth phase, it is apparent that the onset of proteolytic activity in stationary phase may be under the control of a different gene(s). We have presented evidence for posttranslational regulation of proteolytic activity in P. gingivalis. Furthermore, to our knowledge, this is the first report of the identification of a gingipain proenzyme from P. gingivalis. This model system will facilitate a more careful study of gingipain biogenesis in P. gingivalis.
This work was supported by the Loma Linda University Schools of Medicine and Dentistry, by University of California Tobacco Related Disease Research Program grant 10RT-0122 (to H.M.F.), by National Institute of Dental and Craniofacial Research grant R01 DE13664 (to H.M.F.), and by National Institutes of Health Cancer Center support grant CA33572 (to M.K.Y.).
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