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Section of Periodontology1, Section of Molecular and Cellular Oncology and Microbiology2 and Dental Hospital, Section of Periodontology3, Tokyo Medical and Dental University, Graduate School, 1-5-45, Yushima, Bunkyo-Ku, Tokyo 113-8549, Japan
Correspondence Shinichi Arakawa shinichi.peri{at}tmd.ac.jp
Received June 11, 2003
Accepted September 2, 2003
Tannerella forsythensis (previously named Bacteroides forsythus) is a Gram-negative, anaerobic, fusiform bacterium that is a primary or secondary aetiological agent in periodontal disease in humans. T. forsythensis expresses several putative virulence factors, including a sialidase; however, there has been no molecular genetic characterization of this enzyme. A sialidase clone (pHI-1) was screened from a total of 455 recombinant clones of a genomic DNA library using the 2'- (4-methylumbelliferyl)-
-D-N-acetylneuraminic acid (MUNeuAc) filter-paper spot assay. The sialidase gene ORF (siaHI) consists of a 1395 bp coding sequence and encodes a protein with 465 amino acids with an overall molecular mass of 52 kDa. The sialidase does not have sequence similarity to any other bacterial sialidase. The entire sialidase ORF was expressed in Escherichia coli. Furthermore, the sialidase was purified from the type strain of T. forsythensis and from a recombinant clone, pHI-1 : 1, and was analysed using a non-denaturing gel, revealing that the enzyme preparations were respectively separated as two major bands and as a single band. Southern blot hybridization analysis revealed similar patterns of siaHI-hybridizing bands among clinical isolates of T. forsythensis from periodontitis patients. This is the first study on the cloning and expression of a T. forsythensis sialidase gene and the purification of the SiaHI enzyme from T. forsythensis ATCC 43037T and recombinant E. coli.
-D-N-acetylneuraminic acid. The GenBank/EMBL/DDBJ accession number for the siaHI gene sequence of T. forsythensis ATCC 43037T is AY069941.
| INTRODUCTION |
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Several bacterial enzymes, including phospholipases and proteases, have been suggested as potential virulence determinants in prematurity (McGregor et al., 1990). Among these, there has recently been interest in the sialidases of pathogenic bacteria and their potential role in pathogenesis. Sialidases are enzymes that cleave
-ketosidic linkages between sialic acid and the glycosyl residues of glycoproteins, glycolipids or colominic acids. Sialidase activity has been found in viruses, bacteria, protozoa, fungi and metazoans (Berry et al., 1988). The sialidase of the Gram-negative bacillus Erysipelothrix rhusiopathiae has been shown to be involved in infection and tissue destruction (Gyles, 1986). Anaerobic Gram-negative rods belonging to the genera Prevotella and Bacteroides were suggested to be the main sources of sialidase activity in vaginal fluid (Briselden et al., 1992). Bacteroides isolates obtained from pathological specimens were found to have significantly higher levels of sialidase activity than isolates from non-pathological specimens (Grossi et al., 1994). Sialidases have been demonstrated to modify a variety of host-associated activities that result in a modification of the host's ability to respond to bacterial infection and could be an important virulence factor of T. forsythensis. However, little is known about how this putative T. forsythensis virulence factor may contribute to its pathogenesis in vivo. In order to define the molecular nature of the T. forsythensis sialidase and as a first step to determining its specific role in the virulence of this bacterium, the sialidase gene was isolated, its nucleotide sequence was determined, recombinant sialidase was expressed in Escherichia coli and sialidases were purified from both T. forsythensis and the E. coli clone.
| METHODS |
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Isolation of chromosomal DNA.
After culturing as described above, T. forsythensis ATCC 43037T and the clinical isolates were harvested by centrifugation (5000 g at 4 °C for 20 min). Chromosomal DNA was isolated using the method of Marmur (1961).
Construction of a T. forsythensis genomic library and screening for sialidase-producing clones.
Chromosomal DNA of T. forsythensis ATCC 43037T was isolated, size-fractionated (410 kbp) using a QIAquick gel extraction kit (Qiagen) after partial digestion with Sau3AI (New England Biolabs) and ligated to the BamHI site of pBluescript SKII (+). This ligation reaction was used to transform E. coli HB101 and transformants were incubated aerobically on LB-ampicillin agar plates. Colonies were lifted from the agar plates onto a membrane (Hybond-N+; Amersham) and transferred to another agar plate. The plates were incubated overnight at 37 °C. Colonies were transferred from this agar plate to a nylon membrane and soaked in a 100 µM solution of the fluorogenic neuraminidase substrate 2'-(4-methylumbelliferyl)-
-D-N-acetylneuraminic acid (MUNeuNAc sodium salt; Sigma) (Myers et al., 1980) in 0.17 M sodium acetate buffer (pH 5.4) and incubated at 37 °C for 1015 min. Colonies on the membrane were examined for sialidase activity by detecting the release of 4-methylumbelliferone from MUNeuNAc as fluorescence under long-wavelength UV light (450 nm) (Moncla & Braham, 1989).
Nucleotide sequencing of T. forsythensis sialidase gene.
Nucleotide sequencing of the sialidase-positive clone (pHI-1) was performed using the dideoxynucleotide chain termination method of Sanger et al. (1977), with a template of double-stranded plasmid DNA and site-specific synthetic oligonucleotide primers (Nisshin Seifun Corp.). Template plasmid DNA was prepared with a QIA plasmid isolation kit (Qiagen). The sequences of both DNA strands were determined and all sequences overlapped with adjacent sequences. Nucleotide sequences were assembled and analysed using DNASIS software (Hitachi).
Construction of deletion plasmids.
In order to identify the smallest fragment that encoded sialidase, deletion plasmids were constructed (see Fig. 2a) and activity was measured using a fluorescent assay method (Myers et al., 1980). The digested fragments were separated on 1.0 % agarose gels and purified from these agarose gels using a QIAquick gel extraction kit (Qiagen). The fragments were ligated with unique sites of pBluescript SKII (+) and pBluescript KSII (+), digested with the appropriate enzymes. The deletion plasmids thus obtained were examined qualitatively for sialidase activity as outlined above.
In vitro mutagenesis.
The predicted sialidase structural gene, containing the first ATG codon of ORF1 (translation start codon), was amplified by PCR from pHI-1. We used the following synthetic oligonucleotide primers: R1 (sense primer, 5'-CCGAATTC AAAATTGTCATGACA-3'; EcoRI site underlined), R2 (sense primer, 5'-CCGAATTCAAAATTGTCCGGACA-3'; ATG start codon changed to CGG) and F1 (antisense primer, 5'-GGCTCGAGTCAT CACTTTTTCTC-3'; XhoI site underlined) (see Fig. 2b). Pwo DNA polymerase (Roche Diagnostics), known for its high proofreading activity (Roggentin et al., 1989), was used in order to prevent unwanted mutations. After digestion with EcoRI and XhoI, these products were ligated to the appropriate site of pBluescript SKII (+) and used to transform E. coli HB101. Transformants were screened for sialidase activity as outlined above.
Chromatography.
The ÄKTA explorer 10S protein purification system (Amersham Pharmacia Biotech) was employed for column chromatography to regulate buffer flow and to monitor elution status and absorbance at 254 and 280 nm was recorded automatically. The sialidase-positive clone (pHI-1 : 1) and T. forsythensis were cultured in 5 l broth and grown to early stationary phase. Bacterial cells were harvested by centrifugation at 5000 g for 30 min at 4 °C. Cells were disrupted by sonication, centrifuged to remove cellular debris and finally filtered using a 0.22 µm filter. At the first step, 15 ml of the resultant crude extract was diluted with 35 ml phosphate buffer (10.1 mM Na2HPO4, 1.76 mM KH2PO4) and loaded onto a cation-exchange Resource S column (Amersham) equilibrated with 0.1 M MES/NaOH (pH 6.0) buffer at a flow rate of 2 ml min-1. Adsorbed components were eluted with a 300 ml linear gradient of NaCl from 0 to 1 M. Active fractions with sialidase activity were collected and dialysed against 50 mM Tris/HCl (pH 8.0) buffer using a Hitrap column (Amersham). Thereafter, the concentrate was subjected to an anion-exchange Resource Q column (Amersham) equilibrated with 50 mM Tris/HCl (pH 8.0) buffer. Active sialidase fractions were collected and concentrated and NaCl was removed using a vivaspin centrifugal concentrator (exclusion molecular mass 10 kDa; Sartorius). Protein concentrations were measured using Protein Assay reagent (Bio-Rad) as an equivalent concentration of BSA.
Non-denaturing PAGE.
Since the purified preparations stagnated in the stacking gel during SDS-PAGE, the purity and activity of the purified enzymes were determined by non-denaturing PAGE, which was performed according to the method of Bhown & Bennett (1983). All buffers and solutions were made fresh, stored at 4 °C and used within a week to obtain the most consistent results. Non-denaturing gels (10 %) were electrophoresed at 4 °C for 45 h. The gel was then washed with 0.17 M sodium acetate buffer (pH 5.4) for 5 min and sialidase activity was examined with the fluorogenic substrate as described above. In order to visualize sialidase activity, a CCD image of the gel was taken under long-wavelength UV light (450 nm) and another gel loaded under the same conditions was stained with 0.2 % Coomassie brilliant blue R-250 in 50 % methanol and destained for 1 h (two or three times) at room temperature in order to visualize protein bands.
Southern blot analysis.
DNA from clinical isolates and T. forsythensis ATCC 43037T was digested with BbsI (New England Biolabs). Following electrophoresis on 1 % agarose gels, the separated DNA fragments were transferred onto a Hybond-N+ membrane (Amersham) using a capillary transfer technique (Southern, 1975). Transferred DNA fragments were cross-linked to the membrane using a UV cross-linker (FUNA; Funakoshi). The 2.3-kbp BbsIBbsI DNA fragment of pHI-1 was labelled with peroxidase using an ECL non-radioactive labelling kit (Amersham) and hybridized at high stringency to the membrane, in accordance with the manufacturer's instructions.
| RESULTS |
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Identification of an ORF encoding sialidase
The nucleotide sequence of each strand of the 3.2-kbp insert of pHI-1 was determined (Fig. 2a). Four ORFs were identified in the inserted DNA of pHI-1. In order to determine which ORF encodes sialidase, several deletion derivatives of pHI-1 were constructed. The sialidase activity of each derivative was assessed using a filter paper spot assay (Fig. 2b). The deletion derivatives pHI-1 : 1 and pHI-1 : 2 contained the 1.4-kbp BamHIHindIII fragment of pHI-1 in pBluescript SKII (+) and pBluescript KSII (+), respectively. Clone pHI-1 : 3 contained the 1.5-kbp PstIPstI fragment (Fig. 2a). After incubation with the fluorogenic substrate, E. coli carrying the deletion derivative pHI-1 : 1 exhibited blue fluorescence with an intensity comparable with that observed for pHI-1, whereas neither pHI-1 : 2 nor pHI-1 : 3 produced a fluorescence signal (Fig. 2a). These results suggest that ORF1, contained in the BamHIHindIII fragment, conferred sialidase activity on the E. coli host.
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In order to confirm that translation starts from the first ATG of ORF1, in vitro mutagenesis was performed. The region containing ORF1 was amplified by PCR with the primers R1, R2 and F1. The mean length of the PCR products of these primers was 1.4 kbp (range 3131710 bp). Sequencing confirmed that the R1 PCR product contained the wild-type ORF1 (initial ATG codon unchanged), whereas the R2 product contained a mutant ORF1 (first ATG codon changed to CGG). Transformant pBR1 (which contained the R1 PCR product) exhibited sialidase activity, whereas transformant pBR2 (which contained the R2 PCR product) did not (Fig. 2b). These results suggest that ORF1 of pHI-1 encodes T. forsythensis sialidase. We chose the name siaHI for the gene corresponding to ORF1.
Nucleotide and predicted amino acid sequences of T. forsythensis ATCC 43037T sialidase
Nucleotide sequence analysis of pHI-1 : 1 revealed a potential translation initiation site at base position 313. An ORF of 1395 nucleotides (BamHIHindIII fragment of pHI-1) would encode a protein of 465 amino acids, with a calculated molecular mass of 52 kDa and a deduced pI of 6.60. A comparison of the properties of other bacterial sialidases with those of the siaHI product, even with PSI BLAST searches, suggested that the enzyme may represent a novel protein that has not previously been identified. For example, a similarity search of the EMBL and DDBJ databases using the FASTA and BLAST programs revealed that there was only 24 % sequence identity (overlap of 379 amino acids) between the predicted amino acid sequences of T. forsythensis sialidase and ORF5 (oxidoreductase) of the Streptococcus pneumoniae neuraminidase gene (nanB; accession no. U43526). Moreover, the siaHI product exhibited no structural similarity to Asp box motifs (SerXAspXGlyXThrTrp) or RIP motifs (ArgIlePro), which are highly conserved among sialidases from phylogenetically unrelated organisms but not the active site of these enzymes (Roggentin et al., 1989). Therefore, it appears that the siaHI sialidase is not a classical one that has been reported previously but a novel protein unrelated to any known sialidases.
Purification of T. forsythensis sialidase
As a first step towards purification, a cation-exchange column was employed to purify the sialidase from sonicated extracts from T. forsythensis ATCC 43037T and the sialidase-positive recombinant clone pHI-1 : 1. The major sialidase activity was detected in two fractions that eluted at NaCl concentrations of 150250 mM in both samples (Fig. 3a, b). The concentrates were then subjected to an anion-exchange column. Active fractions having sialidase activity were eluted with the flow-through fraction in both samples (Fig. 3c, d) and were concentrated and NaCl was removed. In order to check the purity of these fractions, samples of 1 mg (BSA equivalent) were analysed by SDS-PAGE (7.512.0 %). However, the purified samples stagnated in the stacking gel and did not migrate to the running gel; therefore, these samples were subjected to non-denaturing PAGE. The enzymes from T. forsythensis ATCC 43037T and pHI-1 : 1 were respectively separated as two major bands and as a single band (Fig. 4a), and the sialidase activity of these protein bands was confirmed by sialidase assay using MUNeuNAc. As shown in Fig. 4(b), the purified protein preparation from pHI-1 : 1 showed sialidase activity and the size of this band was identical to that of the lower band from T. forsythensis. Furthermore, the upper band from T. forsythensis also demonstrated sialidase activity.
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Determination of the prevalence of the siaHI gene among clinical isolates of T. forsythensis
In order to determine whether siaHI was present in clinically isolates of T. forsythensis, genomic DNA was prepared from three T. forsythensis isolates and subjected to hybridization at high stringency with a DNA probe representing the BbsIBbsI DNA fragment of pHI-1, a fragment (bases 165 to 2487) that contains the siaHI structural gene. This DNA probe hybridized strongly with a 2.3-kbp BbsI fragment of chromosomal DNA from T. forsythensis ATCC 43037T and the three clinical isolates (Fig. 5a). On the other hand, chromosomal DNA from E. coli HB101 containing plasmid pBluescript SKII (+) or (-) did not react with this probe in a separate experiment (data not shown). The three clinical isolates all exhibited sialidase activity using the filter-paper assay, but the presence of two distinct proteins was not determined. These results suggest that this sialidase gene is present in all three T. forsythensis clinical isolates (42-11, 29-41 and 33-22).
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| DISCUSSION |
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There were four potential ORFs in the sequence of the sialidase-encoding genomic DNA fragment, which differed in their orientations and lengths. The ORF of the sialidase gene was identified as follows. (i) Only pHI-1 : 1 of the deletion mutants that contained the four potential ORFs expressed sialidase activity. (ii) There was no other potential ORF that encoded a 52 kDa protein in pHI-1. (iii) A stop codon existed upstream from the ATG codon (at position 313) of pHI-1 : 1. (iv) Although there was no cluster that consisted of a ribosome-binding site and the corresponding ATG codon, protein was produced by this structural gene. In other words, this ORF was translated in E. coli. (v) Mutation of the corresponding ATG (Met) residue of this ORF led to loss of enzyme activity. These results suggested that the 1.4 kbp sequence encoded sialidase. The overall G+C content of ORF1 was 52.5 mol%, which is slightly higher than that of the T. forsythensis prtH genes (43.7 mol%) (Saito et al., 1997). Since analysis of the 5' end of this sequence revealed that there was a potential ribosome-binding site but no promoter-like sequences, it is possible that the siaHI gene is a part of an operon and is transcribed from a promoter further upstream. Ongoing DNA sequence studies and RNA transcriptional analyses should help to elucidate the transcriptional control of the siaHI gene.
The enzyme was purified from sonicated extracts of T. forsythensis ATCC 43037T and sialidase-positive clone pHI-1 : 1 by cation- and anion-exchange column chromatography. The enzymes from T. forsythensis ATCC 43037T and pHI-1 : 1 were respectively separated as two major bands and as a single band (Fig. 4a) and the sialidase activity of these protein bands was confirmed by the sialidase assay using MUNeuNAc (Fig. 4b). Furthermore, as shown in Fig. 3, the enzymes from T. forsythensis and the E. coli clone (pHI-1 : 1) did not behave identically during chromatography (Fig. 3c, d). These results could be explained as follows: (i) modification of the enzyme might occur in T. forsythensis and not in E. coli, (ii) other sialidases might exist in this bacterium. Streptococcus pneumoniae expresses two distinct sialidases (neuraminidases), NanA (Berry et al., 1988), which is cell-associated, and NanB (Berry et al., 1996). These results revealed that the purified sample from pHI-1 : 1 might be identical to that from the original bacterium T. forsythensis. Obviously, further studies on the sizes of purified preparations using gel filtration, its location in the organism and the biological significance of T. forsythensis sialidase are required. Analysis of the crystal structure of purified sialidase should be carried out to elucidate the structure of this enzyme in nature and to elaborate selective potent inhibitors against the enzyme in a rational way.
In order to determine the prevalence and heterogeneity of the sialidase gene in this species, a flanking region of pHI1 : 1 was detected in chromosomal DNA from clinical isolates by Southern blotting. Similar patterns of siaHI-hybridizing bands were obtained for all three clinical isolates of T. forsythensis from periodontitis patients. These results showed that siaHI is conserved among clinical isolates of T. forsythensis from periodontitis patients (all of which were found to produce sialidase; data not shown), suggesting that the sialidase encoded by siaHI could be a potential virulence factor in the pathogenesis of T. forsythensis in periodontal disease. Taken together, the available findings suggest that the sialidase produced by T. forsythensis strains, including clinical isolates from periodontitis patients, might be encoded by the novel sialidase gene siaHI.
The present results represent the first successful cloning of a sialidase gene (siaHI) from T. forsythensis. The evidence that we have cloned the structural sialidase gene consists of the observed enzyme expression in E. coli and the results of Southern blot analysis. A gene inactivation system has been developed for T. forsythensis (Honma et al., 2001) and isolation of the siaHI gene will make it possible to construct T. forsythensis mutants that are defective in this gene for testing in appropriate animal models. In this manner, it should be possible to define the existence of a second sialidase and the potential role of siaHI in the virulence of this periodontopathic bacterium. Clinically, the siaHI gene and the recombinant protein (SiaHI) could be utilized as a probe or antigen for detecting the virulence factor: sialidase or anti-sialidase antibody developed in patients from specimens such as subgingival plaque and saliva, and the correlation between the detection of this enzyme and clinical symptoms also should be evaluated.
| ACKNOWLEDGEMENTS |
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J. Sakakibara, K. Nagano, Y. Murakami, N. Higuchi, H. Nakamura, K. Shimozato, and F. Yoshimura Loss of adherence ability to human gingival epithelial cells in S-layer protein-deficient mutants of Tannerella forsythensis Microbiology, March 1, 2007; 153(3): 866 - 876. [Abstract] [Full Text] [PDF] |
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E. Vanterpool, F. Roy, W. Zhan, S. M. Sheets, L. Sangberg, and H. M. Fletcher VimA is part of the maturation pathway for the major gingipains of Porphyromonas gingivalis W83. Microbiology, November 1, 2006; 152(Pt 11): 3383 - 3389. [Abstract] [Full Text] [PDF] |
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A. Sharma, S. Inagaki, K. Honma, C. Sfintescu, P.J. Baker, and R.T. Evans Tannerella forsythia-induced Alveolar Bone Loss in Mice Involves Leucine-rich-repeat BspA Protein J. Dent. Res., May 1, 2005; 84(5): 462 - 467. [Abstract] [Full Text] [PDF] |
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