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Infection and Immunity, June 2006, p. 3480-3487, Vol. 74, No. 6
0019-9567/06/$08.00+0 doi:10.1128/IAI.00739-05
Copyright © 2006, American Society for Microbiology. All Rights Reserved.
Department of Bacteriology, Hiroshima University Graduate School of Biomedical Sciences, 1-2-3 Kasumi, Minami-ku, Hiroshima 734-8553, Japan,1 Unité Associé INRA de Microbiologie Moléculaire, Ecole Nationale Vétérinaire de Toulouse, 23 Chemin des Capelles, 31076 Toulouse cedex, France2
Received 17 May 2005/ Returned for modification 7 September 2005/ Accepted 27 February 2006
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In spite of the accumulation of knowledge on the effect of CDT on target cells, less information is available on biogenesis of CDT holotoxin. A. actinomycetemcomitans CdtA, CdtB, and CdtC are translated as approximately 25-, 32-, and 21-kDa proteins, respectively, and are presumably exported across the cytoplasmic membrane with the cleavage of signal sequences using signal peptidases. We have previously shown that A. actinomycetemcomitans CdtA possesses a putative lipid modification motif (37) but have not characterized CdtA for the lipid modification. Since genetic manipulation of A. actinomycetemcomitans is difficult, we characterized CdtA using E. coli carrying the A. actinomycetemcomitans cdtABC genes to extrapolate the biogenesis of CDT holotoxin in A. actinomycetemcomitans. Here we show that membrane-associated CdtA is a lipoprotein. In the periplasm, CDT is a complex composed of CdtA, CdtB, and CdtC, whereas CDT in the culture supernatant is a complex composed of N-terminally truncated CdtA (CdtA'), CdtB, and CdtC. This suggests that CdtA undergoes lipid modification during the export process and subsequent N-terminal processing after forming a complex with CdtB and CdtC in the periplasm. We suggest that lipid modification of CdtA is important for the export of A. actinomycetemcomitans CDT holotoxin into the culture supernatant.
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TABLE 1. Strains used in this study
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Assay for CDT activity. The test samples were prepared from the culture supernatant and the cell lysate of E. coli carrying pMWcdtABC or pMWcdtA(C16G)BC (where 16th cysteine is changed to glycine in cdtA). Exponentially growing cells at an optical density at 660 nm (OD660) of ca. 0.5 were harvested using centrifugation at 5,000 x g for 10 min, and the culture supernatant was recovered. Cell lysates were prepared from the harvested cells using the method described below. The protein concentration of the culture supernatant and cell lysate were measured using the Bio-Rad protein assay kit and adjusted, respectively, by adding LB to culture supernatant or by adding phosphate-buffered saline (PBS; 137 mM NaCl, 2.7 mM KCl, 8.1 mM Na2HPO4, and 1.5 mM KH2PO4 at pH 7.3) to the cell lysate. HeLa cells were plated on a 96-well plate (Falcon; Becton Dickenson) at a concentration of 2 x 103 cells per 100-µl well 1 day before the experiment. A total of 100 µl of filter-sterilized (0.22-µm-pore-size filter) sample containing 0.5 µg of total protein from the culture supernatant or 100 µg of total protein from the cell lysate was inoculated into the HeLa cell monolayer in the first well of the 96-well plate. After the sample and medium were mixed well, a half-aliquot (100 µl) of sample-medium mixture was added to the next well and serially diluted 1:2 likewise through 12 dilutions. Morphological change was observed by phase-contrast microscopy (Nikon DIAPHOT 300) from day 1 to day 3. Cell distension was defined as more than five times the expansion in size compared to that of control cells. Cytodistending activity (total activity) was titrated using the endpoint as the highest twofold dilution of toxic material giving 50% transformed cells (CD50) after 72 h of incubation. Specific activity was defined as the CD50/mg of the total protein.
Preparation of crude CDT. CDT holotoxin was obtained from A. actinomycetemcomitans Y4 or E. coli carrying the cdtABC genes on the plasmid pTK3022 or pQEcdtABC (22, 37). CDT expression in E. coli was induced by the addition of 1 mM isopropyl-D-thiogalactopyranoside (IPTG) for 4 h at an OD660 of 0.5 to 0.7. Crude CDT from A. actinomycetemcomitans or the recombinant E. coli was prepared in several fractions. (i) For the culture supernatant, cells exponentially growing in culture medium were inoculated into 3 liters of fresh medium and incubated with continuous agitation using a rotary shaker for 4 h at 37°C until the cells reached the stationary phase. The culture was centrifuged at 5,000 x g for 30 min at 4°C. The concentrated culture filtrate was prepared using 80% saturated ammonium sulfate precipitation of the culture supernatant followed by dialysis with PBS. The dialyzed sample was filter sterilized through a membrane filter (pore size, 0.22 µm; Millipore). (ii) For the periplasm fraction, cells recovered from culture by centrifugation were washed twice with PBS and pelleted by centrifugation. The pellet was suspended in 0.2 M Tris-HCl (pH 8.0) containing 1 M sucrose, 1 mM EDTA (pH 8.0), 0.5 mM benzamidine, and 0.02 mg/ml soybean trypsin inhibitor and gently mixed for 1 h on ice. The suspension was then centrifuged twice at 9,700 x g for 20 min at 4°C. The supernatant was diluted 10-fold with PBS. (iii) For the total cell lysate fraction, harvested cells were washed with PBS twice and resuspended in the same buffer at ca. 10 times the volume of the wet cell pellet. Cells were disrupted using an ultrasonic disruptor (UD-200; TOMY, Tokyo, Japan) for 20 s three times at an output level of four. Unbroken cells were removed by centrifugation at 5,000 x g for 5 min. The supernatant was used as the cell lysate.
Immunoaffinity purification of CDT holotoxin. Crude CDT for immunoaffinity purification was prepared using an 80% saturated ammonium sulfate precipitation of the culture supernatant of E. coli carrying pTK3022. The precipitate after dialysis with wash buffer (0.2 M NaHCO3, 0.5 M NaCl, pH 8.0), the crude CDT, was applied to an affinity column where anti-CdtA antibody was coupled to CNBr-activated Sepharose 4B using the procedure described by the manufacturer (Amersham). The CDT complex was eluted using elution buffer (0.2 M glycine-HCl, 0.2 M NaCl, pH 2.3) following immediate neutralization with 1/10 volume of 1 M Tris-HCl, pH 8.0.
Immunoprecipitation and the pull-down assay. Immunoprecipitation using antiserum against the CDT components and pull-down assay were performed using the culture supernatant or the periplasmic fraction. For immunoprecipitation, ammonium sulfate precipitation of 3 liters of culture supernatant from E. coli carrying pTK3022 was prepared as described above. The precipitate was dissolved in 20 ml of PBS and dialyzed for more than 4 h against 2 liters of PBS at 4°C. The dialyzed sample was concentrated to ca. 1 ml using an Amicon Centriprep YM-10 (Millipore) and subjected to pretreatment with sodium dodecyl sulfate (SDS) or not treated. The periplasmic fraction extracted from 500 ml of E. coli culture carrying pTK3022 was prepared as described above and concentrated to ca. 1 ml using an Amicon Centriprep YM-10 (Millipore) and subjected to pretreatment with SDS or not treated. For SDS treatment, 1% SDS was added to the crude preparation of either the culture supernatant or cell lysate, diluted 10-fold with PBS, and incubated with 2 µl of rabbit anti-CdtA, -CdtB, or -CdtC serum in a 1-ml sample for 1 h at 4°C (37). Twenty microliters of protein-A Sepharose beads (Amersham) was added and incubated further for 1 h. Beads were pelleted by centrifugation at 10,000 x g for 5 min, washed three times in PBS, resuspended in 70 µl of sample buffer containing 2% SDS, 10% ß-mercaptoethanol, 0.01% bromophenol blue, 20% glycerol, 120 mM Tris HCl (pH 6.8), and boiled for 5 min. Beads were again pelleted by centrifugation, and the supernatant was analyzed using SDS-polyacrylamide gel electrophoresis (PAGE) and immunoblotting. Antisera against CdtA, CdtB, and CdtC were prepared as described by Sugai et al. (37). For the pull-down assay, culture supernatant and the periplasmic fraction of E. coli carrying pQEcdtABC were prepared as described above except that pretreatment with SDS was performed. A total of 500 µl of Ni-chelated agarose beads (QIAGEN) was added to the sample solution and gently shaken for 1 h. The beads were recovered by centrifugation at 5,000 x g for 5 min and washed twice with 10 ml of wash buffer (50 mM NaH2PO4 [pH 8.0], 300 mM NaCl, 20 mM imidazole). The sample was eluted with 2 ml of elution buffer (50 mM NaH2PO4 [pH 8.0], 300 mM NaCl, 250 mM imidazole) by centrifugation at 5,000 x g for 5 min. The supernatant was used as the pull-down sample after dialysis against PBS and concentration using a Centricon 10 concentrator (Millipore, Bedford, MA).
Radioisotope labeling. Recombinant CdtA was radiolabeled with [3H]glycerol (specific activity of 370 to 740 GBq/mmol; ARC, Tokyo,Japan) or [3H]palmitate (specific activity of 1.11 to 2.22 TBq/mmol; ARC, Tokyo, Japan) (24). Briefly, CDT was expressed in 100-ml cultures of E. coli carrying pTK3022 or pUCcdtA(C16G)BC by adding 1 mM IPTG at an OD660 of ca. 0.5. At the same time, 148 KBq/ml (4 µCi/ml) of radio isotope was added to the medium, and the culture was incubated for an additional 4 h (OD660 of ca. 0.9). After incubation and radiolabeling, harvested cells were given a total membrane preparation as described elsewhere (24). The prepared membrane was dissolved in 100 µl of PBS containing 1% SDS, and a 1-µl aliquot was withdrawn to measure the radioactivity to determine the amount of total membrane using a liquid LSC5100 scintillation counter (AloKa) in 5 ml of the scintillation cocktail Scintisol EX-H (DOJINDO, Kumamoto, Japan). After the radioactivities of the membranes were adjusted to ca. 250,000 to 300,000 cpm/100 µl of the [3H]palmitate-labeled sample and 150,000 to 200,000 cpm/100 µl of the [3H]glycerol-labeled sample, the samples (100 µl) were diluted 10 times with PBS, and immunoprecipitation with anti-CdtA serum was performed. After immunoprecipitation (described above), all immunoprecipitated samples from 100-ml cultures were electrophoresed by SDS-PAGE, and the radiolabeled proteins were visualized using fluorography with an amplifier (Amersham).
Outer and inner membrane separation. E. coli outer and inner membrane separation was performed using a modification of the method described by Osborn (26). Briefly, E. coli cells carrying pTK3022 or pUCcdtA(C16G)BC were harvested at an OD660 of ca. 0.9 after induction with 1 mM IPTG for 4 h. Harvested cells were resuspended in 9 ml of 0.75 M sucrose and 10 mM Tris-HCl at pH 7.8. The cell wall peptidoglycan was digested with 90 µl of 10 mg/ml lysozyme (Sigma) for 2 min on ice. Spheroplasts were prepared by gradually adding 18 ml of 1.5 mM EDTA followed by ultrasonic disruption (UD-200; TOMY, Tokyo, Japan). Unbroken cells were removed by centrifugation at 5,000 x g for 5 min. Crude membranes (cell membrane fraction) were prepared using ultracentrifugation at 100,000 x g for 35 min. Crude membranes were resuspended in 0.5 ml of 25% sucrose and 5 mM EDTA. They were placed on a 5% step gradient consisting of sucrose at 30% (2.1 ml), 35% (2.1 ml), 40% (2.1 ml), 45% (2.1 ml), 50% (2.1 ml), and 55% (0.5 ml) in 5 mM EDTA. The step gradient was ultracentrifuged at 28,000 rpm for 20 h using a Beckman SW28.1 rotor. After centrifugation, fractionation (0.5 ml) was performed from the bottom of the tube under gravity. The protein concentration of each fraction was measured at the OD595 using the Bio-Rad Protein Assay kit. Ten microliters of each fraction was diluted into 800 µl with H2O and mixed with 200 µl of the dye reagent provided in the kit. After incubation at room temperature for 5 min, the absorbance was measured at 595 nm using an Amersham Ultraspec 100 Pro. Twenty microliters of each fraction was subjected to immunoblotting for the detection of CDT or Braun's lipoprotein. Braun's lipoprotein was used as the marker of the outer membrane fractions by immunoblotting with an antiserum provided by H. C. Wu, Uniformed Services University of the Health Sciences, Bethesda, Md. (14). NADH oxidase was assayed in each fraction as the marker for the inner membrane fraction using a method described elsewhere (26).
DNA techniques and plasmid construction. Routine DNA manipulations were performed using standard procedures. All restriction enzymes, T4 DNA ligase, and DNA polymerase were from Roche, Tokyo, Japan, or New England BioLabs, Inc., Beverley, Mass. Other materials and chemicals used were from commercial sources.
Site-directed mutagenesis of the 16th cysteine residue to glycine coded in the cdtA gene of pTK3022 was carried out using the overlap extension method (31). The primers used were 5'-TTAGTGGCTGGTTCGTCA-3' and 5'-TGACGAACCAGCCACTAA-3' (boldface letters indicate mutagenic oligonucleotides to alter the target sequence). The mutated DNA containing cdtA(C16G)BC was subcloned into pUC19. In some experiments, the DNA fragment containing cdtABC in pTK3022 or the mutated DNA fragment containing cdtA(C16G)BC was cloned into pMW219 (Nippon gene, Osaka, Japan), which is a plasmid with a low copy number in E. coli (3).
Other procedures. SDS-PAGE and Western blotting were carried out as described previously (37). Immunodetection was carried out using Renaissance 4CN Plus (Dupont-NEN). The N terminus was sequenced using a model 49X Procise (Applied Biosystems) after the Coomassie-stained bands were removed and transferred to a polyvinylidene difluoride membrane. Electrospray ionization mass spectrometry was performed using an Applied Biosystems/MDS-Sciex mass analysis following the manufacture's instructions.
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TABLE 2. Possible lipobox consensus sequence in various CDTs
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FIG. 1. Lipid modification of CdtA. Bacterial cells were radiolabeled with either [3H]glycerol or [3H]palmitate. The cell membrane and the periplasmic fractions were solubilized with 1% SDS-containing buffer. A 1:10 dilution of the SDS preparation with PBS was made, and the CdtA was immunoprecipitated using anti-CdtA serum and purified with protein A-Sepharose. The immunoprecipitated protein was separated by SDS-PAGE followed by fluorography. (A) [3H]glycerol-labeled membrane fraction. (B) [3H]palmitate-labeled membrane.(C) [3H]palmitate-labeled periplasmic fraction. Lanes 1, E. coli carrying pTK3022; lanes 2, E. coli carrying pUCcdtA(C16G)BC; lane 3, E. coli carrying vector only (only in panel A). Arrow indicates the lipid-modified CdtA. (D) Effect of globomycin on the processing of CdtA. Various concentrations of globomycin, a signal peptidase II-specific inhibitor, was added to the culture 30 min before labeling with [3H]palmitate. After membrane preparation, the radiolabeled bands of lipid-modified prolipoprotein (diacylglyceryl [DG]-proCdtA), where the signal sequence remains uncleaved, and mature lipoprotein (lipoCdtA) were resolved by SDS-PAGE followed by fluorography.
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FIG. 2. CdtA in the outer membrane. Outer and inner membrane separation of E. coli carrying pTK3022 (A) or pUCcdtA(C16G)BC (B) was performed after spheroplast isolation using sucrose density gradient separation. After fractionation (0.5 ml/tube) from the bottom of the tube, each fraction was assayed for protein concentration (line) using the Bio-Rad protein assay kit. The OD595 value represents relative protein concentrations. NADH oxidase activity (bars) shows the inner membrane fractions. Immunoblots of each fraction are shown using anti-CdtA, anti-CdtB, anti-CdtC, or anti-Braun's lipoprotein (Braun's lpp) serum. The anti-Braun's lipoprotein serum shows the outer membrane fractions.
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FIG. 3. Immunoprecipitation and the pull-down assay for the CDT holotoxin. Crude CDT was prepared from either the periplasmic space (A) or the culture supernatant (B) of E. coli carrying pTK3022. CDT components were immunoprecipitated with anti-CdtA or anti-CdtC in the presence or absence of SDS pretreatment at a concentration of 1%. Immunoprecipitated samples were analyzed using SDS-PAGE and immunoblotted using rabbit anti-CdtA, anti-CdtB, or anti-CdtC. The smeared bands at ca. 25 kDa may be rabbit immunoglobulin light chains. Similarly, crude CDT was prepared from either periplasmic space (C) or culture supernatant (D) of E. coli carrying pQEcdtABC. CDT components were pulled down with Ni-chelated beads using His6-tagged CdtC from E. coli carrying pQEcdtABC. Pull-down samples were subjected to SDS-PAGE and immunoblotting using rabbit anti-CdtA, anti-CdtB, or anti-CdtC.
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FIG. 4. Immunoaffinity purification of the CDT complex. Crude CDT was prepared using 80% saturated ammonium sulfate precipitation of the culture supernatant of E. coli carrying pTK3022. After dialysis with wash buffer (0.2 M NaHCO3, 0.5 M NaCl, pH 8), crude CDT was applied to an affinity column, where anti-CdtA antibody was coupled to CNBr-activated Sepharose 4B. The CDT complex was eluted with elution buffer (0.2 M glycine-HCl, 0.2 M NaCl, pH 2.3) followed by immediate neutralization with a 1/10 volume of 1 M Tris-HCl, pH 8.0. The complex was analyzed using SDS-PAGE with Coomassie brilliant blue staining (A). The left lane contains molecular size markers. Detected N-terminal amino acid sequences of each Coomassie-stained band are shown at the right in panel A. (B) Immunoaffinity purification of CDT complex from A. actinomycetemcomitans Y4 culture supernatant. Crude CDT was prepared by 80% saturated ammonium sulfate precipitation of the culture supernatant of A. actinomycetemcomitans Y4. Immunoaffinity purification using an anti-CdtA affinity column and immunoblotting was performed as described above. Lane 1, A. actinomycetemcomitans Y4 total cell lysate; lane 2, immunopurified sample from A. actinomycetemcomitans Y4 culture supernatant; lane 3, immunopurified sample from culture supernatant of E. coli carrying pTK3022.
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Lipid modification of CdtA is important for secretion of the CDT complex. We next determined the biological importance of the lipid-modification of CdtA. We used a low-copy-number plasmid, pMW219, to express the CDT holotoxin to mimic the expression of CdtABC genes in A. actinomycetemcomitans. We compared CDT activities in the culture supernatant and in the sonic lysate of E. coli carrying pMWcdtABC and in E. coli carrying pMWcdtA(C16G)BC. As shown in Fig. 5, the CDT activity in the culture supernatant of E. coli carrying pMWcdtA(C16G)BC was significantly lower compared to the strain producing the wild-type CDT, whereas this significant change was not observed in the CDT activity in the cell lysate.
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FIG. 5. Lipid modification and cytodistending activity. Wild-type and mutated CDT holotoxin were produced from E. coli carrying pMWcdtABC and pMWcdtA(C16G)BC, respectively. Cells carrying both plasmids were cultured at an OD660 of 0.05 and incubated under the same conditions with vigorous shaking. Both samples were harvested at logarithmic phase (OD660 of 0.5); then the culture supernatant (A) and cell pellet were prepared. Cells were resuspended in PBS at pH 7.3 and ultrasonically disrupted (B, cell lysate). Both supernatant (0.5 µg/100 µl) and cell lysate (100 µg/100 µl) fractions were sterilized using 0.22-µm-pore-size filter and titrated for cytodistending activity (CD50/mg) on HeLa cells using the serial dilution described in Materials and Methods.
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Figure 6 shows our current model for the biogenesis of the CDT complex based on the observations obtained in this study. We suggest that the unmodified CdtA, immature CdtB, and immature CdtC are secreted into the periplasmic space through a sec-dependent secretion pathway (data not shown). After translocation to the inner membrane, immature CdtB and CdtC undergo processing by signal peptidase I. Unmodified CdtA then undergoes processing by lipoprotein-specific signal peptidase II followed by lipid modification. After the amide-linked fatty acid modification at the N-terminal cysteine, lipid-modified CdtA is transported to the outer membrane where the lipid-modified CdtA, CdtB, and CdtC form a complex and subsequently are released into the periplasm. Processing of the N-terminal ca. 40 amino acids of CdtA by an unidentified protease(s) takes place in the periplasm, and the resulting mature holotoxin is secreted into the culture medium by an unknown mechanism. The significant decrease in CDT activity in the culture supernatant of E. coli carrying pMWcdtA(C16G)BC strongly suggests that the incapacity for lipid modification of CdtA affects secretion of CDT holotoxin into the culture supernatant. Membrane anchoring of lipid-modified CdtA may be important for the efficient formation of the CDT complex or for efficient secretion. Further studies regarding the in vivo kinetics of the complex formation and subsequent secretion are necessary to understand the biological importance of lipid modification of the CdtA in A. actinomycetemcomitans.
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FIG. 6. Hypothetical model of CDT complex formation and secretion. Immature CdtA, CdtB, and CdtC are translated from the cdtA, cdtB, and cdtC genes and secreted into the periplasmic space in a sec-dependent general secretion pathway using their N-terminal signal sequences. During passage through the inner membrane, the signal sequences are cleaved and immature CdtB (imCdtB) and immature CdtC (imCdtC) become mature forms using the truncating signal peptidase I. Unmodified CdtA (unCdtA) is cleaved at its signal sequence by signal peptidase II and modified with lipid. The lipid-modified CdtA (lipoCdtA) is carried to the outer membrane using the serine residue next to a lipid-modified cysteine residue (lipoCdtA). This forms a complex with CdtB and CdtC in the outer membrane and periplasmic space. The lipid moiety of CdtA may be hidden by CdtA itself or by CdtB and CdtC in the periplasm. Finally, an unknown protease(s) cleaves the N-terminal ca. 40 amino acids of the lipid-modified cysteine residue, and then the complex is secreted into the culture medium. Molecular sizes and structures of the CDT complex are arbitrarily estimated.
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This study was supported in part by a grant-in-aid for scientific research from the Ministry of Education, Science, Sports and Culture of Japan.
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