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Infection and Immunity, March 2005, p. 1404-1410, Vol. 73, No. 3
0019-9567/05/$08.00+0 doi:10.1128/IAI.73.3.1404-1410.2005
Copyright © 2005, American Society for Microbiology. All Rights Reserved.
Department of Biology, University of Richmond, Richmond, Virginia,1 Section for Molecular Genetics and Microbiology and Institute for Cellular and Molecular Biology, University of Texas at Austin, Austin, Texas2
Received 3 October 2004/ Returned for modification 29 October 2004/ Accepted 4 November 2004
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In Escherichia coli, which is very closely related to S. flexneri phylogenetically (20), the Pst high-affinity inorganic phosphate uptake system has been well characterized. The Pst system is a member of the periplasmic binding protein-dependent ABC transporter family, which transports molecules from the periplasm to the cytoplasm. The proteins in the Pst system are encoded within the five-gene pst operon. The system is composed of the periplasmic phosphate binding protein PstS; the two transmembrane proteins PstA and PstC, which transport the phosphate through the inner membrane; the ATP binding protein PstB, which supplies the energy for transport via ATP hydrolysis; and a protein (PhoU) whose role in phosphate transport is not clear (29).
In addition to mediating high-affinity phosphate uptake, the Pst system also influences phosphate-mediated gene regulation. Inorganic phosphate regulation of gene expression in E. coli and S. flexneri is mediated by the two-component regulatory system PhoR/PhoB (25, 33). This regulatory system consists of the phosphate sensor PhoR and the transcriptional activator PhoB, which binds to PhoB boxes in the promoters of genes that it regulates. PhoR, whose amino terminus is associated with the bacterial membrane, senses phosphate levels outside the cell (10). Under reduced phosphate conditions, PhoR phosphorylates the transcriptional activator PhoB, which enhances the DNA binding activity of this protein (10). Active PhoB directly binds the promoter region of PhoB-regulated genes to activate gene expression in most cases (11). Among the 31 PhoB-regulated genes is the gene encoding alkaline phosphate (phoA). When phosphate levels are high outside the cell, the Pst complex maintains PhoR in a conformation that dephosphorylates (and therefore inactivates) PhoB. In E. coli, mutations that disrupt the Pst system generally result in constitutive expression of the PhoB regulon (33).
In S. flexneri, a polar mutation in the pstS gene eliminates expression of the entire pst operon and thus of the Pst system, and an S. flexneri strain carrying this pst mutation forms smaller plaques on Henle cells than those formed by wild-type S. flexneri (22). The underlying reason for the small plaque phenotype of the S. flexneri pst mutant is currently unknown; however, since other phosphate transport systems may compensate for lack of Pst-mediated phosphate transport, the defect in the pst mutant could be due to constitutive expression of the PhoB regulon. The aim of this study was to elucidate the molecular basis of the plaque formation defect of an S. flexneri pst mutant strain.
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TABLE 1. Bacterial strains and plasmids
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Standard recombinant DNA procedures. Small plasmids were routinely isolated using a QIAprep Spin Miniprep kit (QIAGEN, Santa Clarita, Calif.). Chromosomal DNA was isolated using a DNeasy tissue kit (QIAGEN). DNA was extracted from agarose gels and/or purified using either a QIAquick gel extraction kit or a QIAGEN QuiaxII bead kit (QIAGEN). Chromosomal DNA was extracted using a QIAGEN DNeasy tissue kit. All procedures were performed according to the manufacturer's instructions. Restriction enzyme digests were performed using buffers and enzymes from Promega Corp. (Madison, Wis.). Ligations were performed using T4 DNA ligase (Promega) and the buffer supplied by the manufacturer and were incubated at either 16°C for 4 h to overnight for sticky-end ligations or at room temperature (25°C) overnight for blunt-end ligations.
All PCRs were carried out using either Taq (Promega) or Pfu Turbo polymerase (Stratagene Cloning Systems, La Jolla, Calif.) by using the buffers and instructions supplied by the manufacturer. Taq was used for all PCRs unless the fragments were to be cloned or sequenced, in which case Pfu Turbo was used. Primers for individual PCRs are listed in the appropriate sections below. The reactions conditions were as follows: (i) 5 min at 95°C; (ii) 30 s at 95°C; (iii) 30 s at 55°C; (iv) 2 min/kb of desired product at 72°; (v) repeat steps two to four 29 times; (vi) 10 min at 72°C; (vii) 4°C.
IcsA localization. Rabbit polyclonal antibody against IcsA (Rabbit 35) was obtained from Edwin Oaks (Walter Reed Army Institute of Research). Bacterial strains were grown to late logarithmic phase, centrifuged, washed two times with Dulbeccos phosphate-buffered saline (PBS-D), and fixed in PBS-D containing 4% paraformaldehyde for 15 min. Then, the bacteria were washed twice with PBS-D, resuspended in 100 µl of IcsA antiserum diluted 1:100 in PBS-D, and incubated for 1 h. After three washes in PBS-D, the bacteria were resuspended in 100 µl of fluorescein isothiocyanate-conjugated goat anti-rabbit secondary antibody (ICN Biomedicals) diluted 1:100 in PBS-D and incubated for 1 h shielded from light. The bacteria were washed twice with PBS and resuspended in a final volume of 100 µl of PBS. One to 10 microliters of the samples was air dried on a slide. Coverslips were mounted on the slide in mounting media containing PBS-D, pH 8, 0.1% phenylenediamine, and 90% glycerol and visualized by fluorescent microscopy.
phoA expression. phoA expression was measured using the plasmid-borne phoA-gfp fusion pLR83 (22) or by reverse transcription (RT)-PCR. For phoA-gfp expression studies, Shigella strains containing pLR83 were subcultured 1:100 into HPM or LPM and grown for 5 to 6 h at 37°C. One milliliter of each culture was centrifuged and the pellet was resuspended in 4% paraformaldehyde for 10 min. The samples were then washed twice by centrifugation followed by resuspension of the cell pellet in low-salt PBS. Green fluorescent protein (GFP) levels were quantified using a FACSCaliber (Becton Dickinson, Franklin Lakes, N.J.) fluorescence-activated cell sorter with an excitation at 488 nm. FACSCaliber settings were as follows: forward scatter, E01; side scatter, 505; and relative fluorescence between 515 and 545 nm, 798.
For phoA expression studies using RT-PCR, overnight LB cultures were pelleted and concentrated 10-fold in LPM media. The resuspended cells were inoculated 1:100 into either LPM or HPM and incubated at 37°C for 5 h. Total RNA was isolated from the cultures by using a RNeasy Mini kit (QIAGEN) and quantitated by measuring the absorbance at 260 nm. To amplify and quantitate the amount of phoA mRNA in each sample, RT-PCR was carried out using a One-Step RT-PCR kit (QIAGEN) according to the manufacturer's instructions. Aliquots of the reactions were removed at cycles 21, 24, 27, and 30 to verify linearity. RT-PCR was performed with 10 ng of total RNA by using the phoA primers UR033 (5' TATTGCACTGGCACTCTTACC 3') and UR037 (5' AGCGCATAGTGAGTGTATTGC 3'). The RT-PCR products were run on a 1.5% agarose gel, and the amount of DNA in each
0.3-kb phoA band was quantified using densitometry analysis.
Construction of UR005 (S. flexneri pstS phoB double mutant) by allelic exchange. The phoBR genes from strain SM100 were amplified by using PCR with primers phoBR1 (5 'CGGGATCCAAACTCAGTGGAATGGG 3') and phoBR2 (5' CGGAATTCGCATCGGCTGGCTTATGG 3'). The phoBR fragment was digested with EcoRI and BamHI and ligated with pWKS30 digested with EcoRI and BamHI to generate pLL1. A 1.5-kb fragment containing a tetracycline resistance gene (tet) was isolated from pMTLtet by digestion with PstI and mung bean nuclease and was inserted into the SmaI site in phoB on pLL1. phoBR with the tet resistance cassette in phoB was excised as a XhoI/XbaI fragment and ligated into pHM5 digested with SalI/XbaI to generate pLL2.
pLL2 containing the phoB::tet gene was mated from E. coli SM10
pir to S. flexneri SM169, and cells were plated on tryptic soy broth agar containing tetracycline and chloramphenicol. Isolated colonies were then streaked on LB agar plates containing 5% sucrose, tetracycline, and chloramphenicol to select for double-crossover recombinant colonies. Putative mutants were screened for carbenicillin sensitivity on LB agar. Disruption of the chromosomal phoB gene was confirmed by PCR analysis.
Generation of the pstA point mutation pstAR220Q by overlap extension. To generate the mutation in S. flexneri pstA which changes arginine 220 to glutamine (pstAR220Q), PCR overlap extension (5) was employed using the overlapping primers UR015 (5' GCGATTGCCCAAATTGCC 3') and UR016 (5' GGCAATTTGGGCAATCGC 3') containing the underlined mutations. The two overlapping fragments were generated separately using PCR with the primer pairs UR016-UR013 (5' GTATCGTTCTTCCGTTCACCA 3') and UR015-UR014 (5' ATACGTACCGCTTCGTCAATG 3'). The PCR products were gel purified, and these fragments were used as the template DNA in a second PCR with primers UR013 and UR014 to generate a full-length DNA fragment containing the pstAR220Q mutation.
To replace wild-type pstA in pPst1 with the mutated pstAR220Q, the 2.1-kb StyI fragment from the pstAR220Q PCR fragment was used to replace the corresponding StyI fragment in pPst1. Sequence analysis at the Nucleic Acid Research Facility at Virginia Commonwealth University confirmed that the pstAR220Q point mutation was the only mutation present on the resulting plasmid pAB1.
Henle cell assays. Monolayers of Henle cells (intestinal 407 cells; American Type Culture Collection, Manassas, Va.) were used in all experiments and were maintained at 37°C in a 5% CO2 atmosphere in Henle medium, which consists of minimum essential medium (Invitrogen Corp., Carlsbad, Calif.), 2 mM glutamine, nonessential amino acids, and 10% fetal bovine serum (Invitrogen). The intracellular multiplication assay was performed as described previously (6). Briefly, to infect the Henle cells with Shigella, subconfluent monolayers were infected with Shigella at a multiplicity of infection of 100 and incubated for 45 min. The infected monolayers were washed and incubated in Henle medium containing gentamicin (20 µg/ml). At the indicated time points, bacteria were recovered from one set of infected Henle cells by lysis of the Henle cells with 1 to 5% deoxycholate and plated on Congo red agar. A second set of infected monolayers was stained with Wright-Giemsa stain to quantitate percent invasion (percentage of Henle cells containing three or more intracellular bacteria). The average number of intracellular bacteria per infected Henle cell was calculated as CFU from the Congo red agar divided by the number of infected Henle cells.
Plaque assays were performed as described by Oaks et al. (16) with the modifications described in Hong et al. (6), and plaques were scored after 2 to 4 days.
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FIG. 1. The S. flexneri pst mutant shows polar localization of IcsA. Phase-contrast and immunofluorescence images from the same sample field of SA100 (A and C) and SM169 (B and D) followed staining with anti-IcsA are shown. Cells were observed at x100 magnification. White arrows indicate representative bacteria with polarized IcsA.
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FIG. 2. The S. flexneri pst mutant has a normal growth rate in reduced phosphate media. Overnight cultures of the SM100 (closed symbols) or SM169 (open symbols) were subcultured 1:100 into T media containing various concentration of phosphate and grown at 37°C. Phosphate concentrations were 2 ( , ), 0.1 ( , ), 0.01 ( , ), and 0.001 (, ) mM. The optical density of the cultures was measured at various time points. The experiments were performed three times, and a representative experiment is shown.
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FIG. 3. The S. flexneri pst mutant has a normal growth rate in the initial stages of growth within Henle cells. The number of intracellular bacteria (SM100 [wt] or SM169 Pst [Pst]) was determined at each time point postinfection by counting the number of Henle cells in each sample by using a hemocytometer and then lysing the infected Henle cells and plating the contents on selective media to determine the number of bacteria present in the sample. This value was normalized to the percentage of infected cells, which was determined by microscopy.
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FIG. 4. Aberrant induction of the S. flexneri phoA promoter in the pst mutant SM169. SA100 or SM169 carrying pLR83 (phoA-gfp) was grown in HPM or LPM, and the fluorescence was quantitated by fluorescence-activated cell sorting after 5 to 6 h. Ten thousand bacterial cells were assayed for each experimental condition. The experiments were performed three times, and the standard deviations of the means are shown.
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FIG. 5. Plaque assay with S. flexneri pst mutants. Confluent Henle cell monolayers were infected with 104 bacteria per 35-mm-diameter plate and the plaques were photographed after 3 days. The experiments were performed three times, and a representative experiment is shown.
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We confirmed that pstAR220Q conferred wild-type expression of the PhoB regulon in the S. flexneri pst mutant by examining expression of the PhoB-regulated gene phoA by RT-PCR. phoA DNA was amplified by RT-PCR on RNA isolated from various S. flexneri strains grown in LPM or HPM. The pst mutant strain containing only the vector (SM169/pWKS30) showed consistently high expression of phoA regardless of the phosphate levels. The pst operon containing the pstAR220Q mutation on pAB1 complemented the constitutive PhoB regulon defect in the pst mutant SM169 just as effectively as the wild-type pst operon on pPst1: SM169 carrying either pAB1 or pPst1 had a wild-type pattern of phoA expression (i.e., low levels of phoA expression in HPM and high levels of phoA expression in LPM) (Fig. 6).
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FIG. 6. The S. flexneri pstAR220Q mutation confers normal regulation of phoA expression. Total RNA was isolated from strains grown for 5 h in HPM or LPM. The phoA gene was amplified from the RNA by using RT-PCR, and the amount of phoA expressed by each strain was assessed qualitatively using gel electrophoresis and quantitatively using densitometry analysis. Strains were the following: Pst, SM169/pWKS30; Pst+, SM169/pPst1; and PstAR220Q, SM169/pAB1. M is the phiX174 HaeIII DNA size standard.
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E. coli pst mutants are defective in both high-affinity phosphate transport and in phosphate-dependent regulation of the PhoB regulon (29, 33). It was not apparent which of these Pst-mediated functions was required for normal plaque formation in Shigella since defects in either or both of these tasks could contribute to the small plaque phenotype. Because other phosphate transport systems such as the PitA and PitB systems exist in S. flexneri (35), it was possible that these systems compensate for loss of Pst-mediated phosphate transport in S. flexneri pst mutants but not necessarily for aberrant regulation of the PhoB regulon. Thus, the failure to form wild-type plaques was hypothesized to be the result of aberrant PhoB-mediated regulation. Two lines of evidence from this study support this model. First, the small plaque defect in the pstS mutant was suppressed by mutating the gene encoding the activator of the PhoB regulon (phoB) to eliminate PhoB regulon overexpression in the pst mutant. This data also suggests that PhoB may not be required for virulence, which is consistent with the observation that some Shigella dysenteriae strains have mutations in phoB (9). Second, a Pst system with PstAR220Q, which confers normal expression of the PhoB regulon but defective Pst-mediated phosphate transport, restored the ability of the Shigella pst mutant to form wild-type plaques on Henle cell monolayers. Taken together, these results indicate that the regulatory function of Pst is more important than it's phosphate transport function for S. flexneri's growth and intercellular spread in Henle cells, and the results are consistent with the model of aberrant PhoB regulon expression being responsible for SM169's plaque formation defect.
Optimal growth of a bacterium in its niche requires finely tuned gene expression. Shigella has numerous genes that are predicted to be regulators of gene expression (35). If the Shigella pst mutant expresses any of the 31 PhoB-regulated genes (33) at aberrantly high levels (due to the defective Pst system) while in the eukaryotic cell, this uncontrolled expression may be detrimental. Two PhoB regulon genes encode known or predicted periplasmic proteins: PsiF and PhoA, a nonspecific alkaline phosphatase (7, 15). Two genes in the PhoB regulon, psiE and phoE, encode an inner membrane protein and an outer membrane porin, respectively (1, 15, 18). Uncontrolled expression of either of these membrane proteins may disrupt the bacterial membrane or allow too much of a transported ligand to enter Shigella. Two PhoB-regulated operons are involved in phosphonate uptake and degradation (33). Phosphonates are a class of organophosphorus compounds that have carbon-phosphorous bonds. The enzymes encoded by these systems may be harmful to intracellular Shigella if expressed at abnormally high levels. Further, overexpression of the membrane components of the ABC transporter systems, which transport the substrates for these systems into the bacterial cell, may be toxic to the cell or slow down the growth rate when Shigella is intracellular. Finally, the PhoB-regulated protein PhoH contains two motifs that resemble a nucleotide binding pocket and, not surprisingly, PhoH binds ATP (8). PhoH may hydrolyze ATP, since this is a common feature of many ATP binding proteins. Excessive ATP hydrolysis when Shigella is intracellular may be detrimental. Interestingly, the genome sequence of S. flexneri strain 2457 has two frameshifts in the phoH gene, but the phoH sequence in S. flexneri strain 301 does not have these frameshifts. It is not known whether PhoH is expressed in SM100, the strain used in this study.
Recent studies suggest that the Pst system may modulate the virulence of several other pathogens. Mutations in pst cause reduced virulence in the fish pathogen Edwardsiella tarda (14, 28) and eliminate virulence in an E. coli strain pathogenic to pigs (3). In an enteroinvasive E. coli strain, an insertion mutation in the pst operon resulted in a hyperinvasive phenotype; however, this is not the case for S. flexneri (27). In enteroinvasive E. coli, overexpression of the Pst operon may induce an unknown invasion pathway. Expression of the Streptococcus pneumoniae pstS gene increases during growth in the murine peritoneal cavity, but it is not known whether the encoded protein contributes to virulence (17). Valdivia and Falkow (31) showed that the pstS gene was induced when Salmonella enterica serovar Typhimurium was intracellular; however, the pstS mutant was not attenuated in virulence. This may reflect a difference in the intracellular location of Salmonella compared to Shigella. Salmonella resides in an altered macrophage vacuole, while Shigella is found in the cytosol of colonic epithelial cells.
Although the S. flexneri pstS and phoA genes are induced in the eukaryotic cytosol, which suggested that the bacteria may be sensing reduced levels of available phosphate (22), the underlying reason for the small plaque phenotype in the pst mutant appears to be aberrant overexpression of the PhoB operon, not phosphate limitation. Previously observed induction of genes in the PhoB regulon when Shigella was intracellular was complicated, as only part of the bacterial population that was grown in Henle cells induced the pstS and phoA genes during the initial stages of infection. This suggested that either individual Henle cells may have different phosphate levels or different parts of the Henle cell may have different phosphate levels (22). In light of our new data that supports aberrant overexpression of the PhoB regulon, not phosphate limitation, as the underlying reason for the small plaques in the pst mutant, it is possible that the bacteria are not severely starved for phosphate in the eukaryotic cytosol. Instead, the intracellular bacteria may be experiencing moderate phosphate limitation which would cause the intermediate induction of the PhoB regulon that appears to be optimal for Shigella in the Henle cell cytosol but would not cause complete induction (as in the pst mutant) of the PhoB regulon that appears to be detrimental to plaque formation when Shigella is intracellular. Finally, intracellular induction of the PhoB regulon may be due not to phosphate limitation but to cross talk with the CreBC two-component regulatory system. In E. coli there is a phosphate-independent induction of the PhoB regulon that requires the sensor protein CreC, which may be detecting a central metabolism intermediate, and glucose, acetate, or pyruvate C (34). A similar system may exist in Shigella.
This work was supported by Public Health Service Grants AI09918 awarded to L. J. Runyen-Janecky and AI16935 awarded to S. M. Payne and by funding from the University of Richmond School of Arts and Sciences. A. M. Boyle was supported by the Robert F. Smart Award in Biology at the University of Richmond.
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