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Applied and Environmental Microbiology, August 2002, p. 3969-3977, Vol. 68, No. 8
0099-2240/02/$04.00+0 DOI: 10.1128/AEM.68.8.3969-3977.2002
Copyright © 2002, American Society for Microbiology. All Rights Reserved.
Department of Molecular Microbiology and Immunology, Oregon Health and Science University, Portland, Oregon 97201,1 Western Fisheries Research Center, Seattle, Washington 981152
Received 29 January 2002/ Accepted 14 May 2002
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Diagnosis of R. salmoninarum infection in salmon is often based on detection of the 57-kDa (p57) protein, mRNA, or DNA (6, 11, 13, 34, 37, 41). p57 is a good marker of active infection as this protein is the predominant cell surface and secreted protein produced by R. salmoninarum (23, 26, 51). However, little is known about whether antigenic variation exists in p57 or how variation may affect the biological functions of p57.
The gene encoding p57 has been cloned and designated msa (major soluble antigen) (12), and two copies of the msa gene have been identified in the R. salmoninarum genome (36). The msa1 and msa2 genes have identical coding regions and are both present in all strains of R. salmoninarum that have been examined (36). The msa1 and msa2 gene sequences diverge 40 bp 5' to the open reading frame, while sequences 3' to the open reading frame are essentially identical for at least 225 bp, except for a single base substitution 37 nucleotides (nt) downstream of the stop codon (36).
While the precise role of p57 in pathogenesis is unclear, we and other workers have demonstrated that secreted p57 has both agglutinating and immunomodulatory activities (7, 21, 42, 47, 52). p57 concentrated from bacterial culture supernatant binds and agglutinates salmonid leukocytes, as well as red blood cells from a number of mammalian species (14, 52). p57 does not agglutinate salmonid erythrocytes or mouse leukocytes, suggesting that binding occurs via a specific receptor(s). Two murine monoclonal antibodies (MAbs), MAbs 4C11 and 4H8, block the leukocyte-agglutinating activity, while the same antibodies, as well as MAb 4D3, also block p57-mediated agglutination of rabbit red blood cells (52). Furthermore, MAbs 4C11, 4H8, and 4D3 recognize epitopes on the amino-terminal portion of p57 since these antibodies bind a recombinant amino-terminal fragment but do not bind a recombinant carboxy-terminal fragment of p57 (48). These data suggest that the leukocyte-binding domain(s) may be associated with the amino-terminal portion of p57. At present it is unclear if these antibodies inhibit one leukocyte-binding site or multiple binding sites.
In this study we screened natural isolates of R. salmoninarum using MAbs to determine whether antigenic variation occurs in p57 and to facilitate characterization of the precise epitopes recognized by the agglutination-blocking MAbs. We describe a Norwegian R. salmoninarum isolate, strain 684, that produces p57 but lacks the 4C11 epitope. Full-length p57 is produced, and only a single nucleotide substitution was identified in the coding regions of both the msa1 and msa2 genes. p57 isolated from 684 has an increased capacity to bind leukocytes, indicating that the mutation, in addition to altering an antigenic epitope, is also associated with enhanced functional activity. To our knowledge, this is the first molecular characterization of antigenic variation produced by mutations in the msa genes of R. salmoninarum.
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R. salmoninarum strains and culture.
R. salmoninarum isolates K50, K70, K28, Little Goose, and D6 were provided by C. Banner (Department of Fish and Wildlife, Corvallis, Oreg.) and are recognized by anti-p57 MAbs 4D3 and 2G5 (51). R. salmoninarum strains ATCC 33209 and ATCC 33739 were obtained from the American Type Culture Collection (Manassas, Va.). R. salmoninarum isolate 684 was provided by O. B. Dale (National Veterinary Institute, Oslo, Norway). Isolate 684 was isolated from a clinically diseased brown trout (Salmo trutta) that was obtained from a hatchery in Aurland Sognefjord, Norway. The hatchery had experienced previous clinical outbreaks of bacterial kidney disease, and the Gram stain results, growth characteristics, and API-ZYM test results for isolate 684 were consistent with classification of this organism as R. salmoninarum (O. B. Dale, personal communication). Frozen (-70°C) aliquots of R. salmoninarum strains were initially cultured in KDM-2 medium containing 10% fetal bovine serum (17). For large-scale culture, starter cultures of ATCC 33209 and 684 were first prepared from freezer stocks and grown in KDM-2 broth medium modified so that it contained 0.05% (wt/vol) cysteine and no fetal bovine serum. The cultures were stirred continuously while they were incubated at 15°C for 10 days. Bacteria were enumerated by using the membrane filtration-fluorescent antibody technique (15), and equivalent numbers of R. salmoninarum ATCC 33209 and 684 were inoculated into separate 1.25-liter volumes of the modified KDM-2 broth medium. In the first experiment (preparation 1), the initial inoculum densities were 1 x 105 cells ml-1, and in the second experiment (preparation 2), the initial inoculum densities were 8 x 103 cells ml-1. Cultures were grown for an additional 12 days (preparation 1) or 14 days (preparation 2), and the numbers of viable bacteria were determined by plate counting. To harvest cultures, cells were pelleted by centrifugation at 5,000 x g, and both cell pellets obtained at 4°C and supernatants were frozen at -70°C.
Chromosomal DNA isolation and Southern blotting.
Genomic DNA was prepared by using a modified procedure described in the Molecular Biology Protocols (U.S. Department of Commerce/NOAA/NMFS/NWFSC website at http://www.nwfsc.noaa.gov/protocols/GramPosDNA.html) that was originally adapted from the work of Flamm et al. (20). Briefly, 100 µl of a 500-mg (wet weight) ml-1 suspension of bacterial cells was added to 0.9 ml of 0.01 M sodium phosphate-buffered saline (PBS) containing 20% sucrose, 2.5 mg of lysozyme (Sigma), and 1 mM EDTA and incubated overnight at 37°C. Nine milliliters of lysis buffer (10 mM Tris-HCl [pH 8.0], 1 mM EDTA, 10 mg of proteinase K [Gibco BRL, Grand Island, N.Y.] ml-1, 1% sodium dodecyl sulfate [SDS]) was added, and the preparation was incubated for 3 h at 37°C. DNA was extracted with phenol-chloroform, ethanol precipitated, isolated by using a glass rod, and resusupended in 10 mM Tris-HCl-1 mM EDTA. For Southern blotting, genomic DNA was cut with BamHI, HindIII, EcoRI, and XhoI restriction endonucleases for 6 h at 37°C. Digested DNA (7 µg) was resolved on a 0.75% agarose gel for 21 h. DNA was transferred to a nitrocellulose membrane and heated for 45 min at 80°C as described previously (43). A probe comprising a 629-nt PCR fragment obtained by using primers 7 and 8 (Fig. 1) was labeled with [
-32P]dCTP by using a random hexamer labeling kit (Roche) according to the manufacturer's directions (19). Southern hybridization and washes of the blot were performed by standard methods (43).
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FIG. 1. (A) Linear depiction of the msa1 and msa2 genes of R. salmoninarum ATCC 33209. The 5' region and the 3' single nucleotide that are different in the ATCC 33209 msa1 and msa2 genes are indicated by boxes. (B) Primers used for PCR and sequencing of p57 msa1 and msa2. Primers 1, 3, 5, and 6 are specific for either msa1 or msa2, while all other primers do not distinguish between the known msa gene sequences. Translational start (ATG) and stop (TAA) sites are indicated.
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Amplification and sequencing of msa1 and msa2.
The entire coding sequences of the msa1 and msa2 genes were amplified from R. salmoninarum genomic DNA by using 5' region forward primer 1, 3, 5, or 6 in combination with 3' reverse primer 2 (Fig. 1). PCR amplification was carried out by using high-fidelity PfuTurbo polymerase as recommended by the manufacturer (Stratagene, La Jolla, Calif.). PCR amplification cycles (95°C for 5 min, followed by 30 cycles of 95°C for 40 s, 58°C for 40 s, and 72°C for 4 min) and final extension for 10 min at 72°C were performed with a Perkin-Elmer 9700 thermocycler. Reactions were carried out in a total volume of 50 µl. PCR products were resolved on a 1% agarose gel (Metaphor agarose; BioWhittaker Molecular Applications, Rockland, Maine) and were purified by QIAquick gel extraction (Qiagen Inc., Valencia, Calif.). Four 5' primers (primers 1, 3, 5, and 6) and an internal 3' region reverse primer (primer 4) were used to sequence the msa1 and msa2 PCR amplicons directly from the 5' region through 726 nt of the coding region. Subsequently, the entire coding sequence of 684 msa1 and msa2 was determined by sequencing both strands of cloned msa1 and msa2 genes with primers 1 to 4 and 7 to 15 (Fig. 1). Nucleotide sequencing was performed by using an ABI Prism terminator cycle sequencing kit and AmpliTaq DNA polymerase according to the manufacturer's directions (Applied Biotechnology, Inc., Foster City, Calif.). Reactions were performed with an Applied Biosystems 377 PRISM automated DNA sequencer (PE Applied Biosystems, Foster City, Calif.) at the Nucleic Acid Core Facility of the Department of Molecular Microbiology and Immunology at Oregon Health and Science University, Portland.
Cloning of msa1 and msa2 from strain 684.
msa1 and msa2 PCR products were ligated into the pT7Blue-1 vector (Novagen, Madison, Wis.) and transformed into NovaBlue Singles Competent Escherichia coli according to the manufacturer's directions (Novagen).
MAbs.
MAbs 3H1, 4D3, 4C11, and 4H8 bind p57 and have been described previously (52). Cells were grown in BALB/c mice as ascites, and antibody was purified by using protein A-Sepharose.
Gel electrophoresis.
SDS-PAGE was performed as previously described (53).
Dot and Western blotting.
Frozen R. salmoninarum cells were thawed, pelleted, washed in 10 mM PBS (pH 7.4), and finally resuspended in an equal volume of PBS. For dot blotting, bacterial cells were diluted 1:500 in PBS, and 100 µl of the suspension was applied to a dot blot apparatus and incubated overnight at 17°C. Wells were blocked with 3% bovine serum albumin-Tris-buffered saline (pH 8.0) for 1 h at room temperature. Wells were washed three times with 150 µl of Tris-buffered saline, 100 µl of a 10-µg ml-1 solution of primary antibody was added, and the preparation was incubated for 1 h at room temperature. Wells of the dot blot were washed three times, and the nitrocellulose was removed. Dot blots were incubated in a 1:500 dilution of peroxidase-conjugated goat anti-mouse immunoglobulin (HyClone, Logan, Utah) for 1 h at room temperature. After three washes, blots were incubated with a 4-chloro-1-naphthol substrate (Bio-Rad Laboratories, Hercules, Calif.).
Leukocyte agglutination assays.
Salmonid anterior kidney leukocytes were isolated and separated by using 51% Percoll as previously described (1). About 1 x 106 cells were applied per well in 10% fetal bovine serum in a total volume of 100 µl. Leukocytes were incubated with twofold dilutions of p57 (200 to 1.6 µg ml-1). While agglutination occurred rapidly, the minimum concentration of p57 that exhibited agglutinating activity was determined after 24 h by microscopic examination. For inhibition experiments, protein A-purified MAb 4C11 or control antibody PCG1-1 [immunoglobulin G2b(
) (49)] was preincubated with ECP prior to addition of cells.
p57 leukocyte binding assay.
Peripheral blood or anterior kidney leukocytes (5 x 106 cells) in tissue culture medium containing 20% fetal bovine serum were incubated with 25 µg of p57 for 1 h at 4°C in a total volume of 150 µl. The cells were washed three times with tissue culture medium (1 ml) and then lysed with a buffer containing 1% bovine serum albumin, 0.05% Tween 20, and 0.25% NP-40 in PBS for 30 min. The lysates were heated for 5 min at 85°C to release bound p57, and the insoluble material was pelleted by centrifugation (14,000 x g for 2 min). A quantitative enzyme-linked immunosorbent assay (ELISA) was used to determine the concentration of soluble p57 in the supernatant.
Quantitative ELISA for p57.
A quantitative ELISA for p57 was performed as described previously (41), with the following modifications. Briefly, half-area microplate wells were coated with 50 µl of a 5-µg ml-1 MAb 3H1 solution, and following the antigen incubation step wells received 50 µl of a 1-µg ml-1 biotinylated MAb 4D3 solution. The biotinylated MAb was detected by using a 1:500 dilution of streptavidin-alkaline phosphatase (Southern Biotechnology, Birmingham, Ala.) and incubation with a p-nitrophenylphosphate substrate (Sigma).
Nucleotide sequence accession numbers.
Sequences of the cloned strain 684 msa1 and msa2 genes have been deposited in the GenBank database under accession numbers AF458101 and AF458102.
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FIG. 2. Screening R. salmoninarum isolates with MAbs 3H1, 4D3, 4H8, and 4C11. Washed bacterial cells were dot blotted onto nitrocellulose and individually probed with 10 µg of each MAb ml-1. Binding was detected with peroxidase-conjugated goat anti-mouse immunoglobulin. The designation and origin of each isolate are indicated on the right.
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FIG. 3. R. salmoninarum strains 684 and ATCC 33209 express similar amounts of p57 with indistinguishable electrophoretic migration positions as determined by Western blotting with MAbs 4D3 (A) and 4H8 (B). p57 from strain 684 lacks the 4C11 epitope (C). Equal amounts of R. salmoninarum cells were boiled in reducing SDS-PAGE sample buffer, separated on an SDS-12% PAGE gel, transferred to nitrocellulose overnight, and subjected to immunoblotting with 5 µg of MAb 4D3, 4H8, or 4C11 ml-1. Peroxidase-conjugated goat anti-mouse immunoglobulin was used to detect MAb binding. The molecular masses (in kilodaltons) of prestained markers (lanes Mw) are indicated on the left. The results are representative of one of three experiments.
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14 kb, was likely a product of cross-hybridization of the 5' probe to the second A repeat present in both the msa1 and msa2 genes, as a 3' probe amplified from ATCC 33209 by using primers 11 and 2 hybridized only with the
14-kb band (Wiens, unpublished data). Taken together, these data demonstrate that the msa1 and msa2 genes are present in isolate 684 and that the flanking DNA sequence of the msa1 and msa2 genes in isolate 684 is similar, but not identical, to the flanking DNA sequence in ATCC 33209, as judged by restriction enzyme analysis.
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FIG. 4. Strain 684 contains both msa1 and msa2 as determined by PCR (A to C) and Southern blotting (D). (A and B) PCR was performed as described in Materials and Methods by using primers 1 and 2 to amplify msa1 (A) and primers 3 and 2 to amplify msa2 (B). The target DNA in PCR amplifications were as follows: lanes 1, 10 ng of ATCC 33209 genomic DNA; lanes 2, 10 ng of 684 genomic DNA; lanes 3, control (no DNA). (C) PCR amplification performed with either msa1- or msa2-specific primers and 0.1 to 10 ng of target plasmid DNA containing either a cloned msa1 gene or a cloned msa2 gene. (D) Southern blotting of genomic DNA from strain ATCC 33209 (lane 1) or strain 684 (lane 2) that was probed with a 629-nt PCR fragment obtained with primers 7 and 8 and labeled with [ -32P]dCTP. The migration positions of the molecular size markers (in kilobases) are indicated on the left in panels A through C and on the right in panel D.
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FIG. 5. DNA sequences and predicted amino acids of p57 encoded by msa1 and msa2 from R. salmoninarum strains ATCC 33209 and 684. The 5' primers used to amplify msa1 or msa2 are underlined. Dashes indicate identity with ATCC 33209 msa1. Only one sequence for ATCC 33209 msa1 and msa2 is shown as the sequences are identical starting 38 bp 5' of the ATG start site through the entire coding region.
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TABLE 1. ECP from isolate 684 agglutinates salmonid leukocytes with twofold higher activity than ECP from ATCC 33209
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FIG. 6. (A) p57 produced by R. salmoninarum strain 684 has 50% increased binding activity for chinook salmon anterior kidney leukocytes compared to the binding activity of an equivalent amount of p57 isolated from R. salmoninarum strain ATCC 33209. The data are averages ± standard errors of the means for binding of p57 to leukocytes from three salmon. The asterisk indicates that the results were significantly different at a P value of <0.05 (Student's t test). ECP was purified from culture supernatants of bacteria grown at the same time under identical conditions. The purification procedure and binding assay are described in Materials and Methods. (B) p57 from strain 684 exhibits a twofold increase in binding to rabbit red blood cells. The three asterisks indicate that the results were significantly different at a P value of <0.001 (Student's t test). (C) Identical amounts of immunoreactive p57 are present, as determined by a capture ELISA. MAb 3H1 was coated onto a plate, followed by dilutions of the ECP containing p57 from either strain ATCC 33209 or strain 684. Bacterial protein concentrations were determined by the Bradford protein assay. Biotinylated MAb 4D3 was used as a capture antibody, and this was followed by detection with a strepavadin-alkaline phosphatase conjugate. O.D., optical density. (D) Secreted p57 produced by strain 684 lacks the 4C11 epitope. The ELISA was identical to the ELISA whose results are shown in panel C, except that biotinylated MAb 4C11 was used instead of biotinylated MAb 4D3. The data are representative of the data from two experiments performed with the two preparations of ATCC 33209 and 684 ECP.
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TABLE 2. MAb 4C11 inhibits ATCC 33209 p57-mediated agglutination of leukocytes but not 684 p57-mediated agglutination of leukocytesa
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A surprising finding was that the two 684 msa genes had a common mutation, while the remaining coding sequences of 684 msa1 and msa2 were indistinguishable. With the exception of a single nucleotide change, the 684 msa1 and msa2 coding sequences were also identical to the reported coding sequences of ATCC 33209 msa1 and msa2 (36). O'Farrell and Strom (36) have proposed that the msa genes arose via duplication of an ancestral msa gene and that the presence of the two genes provides a selective advantage to R. salmoninarum. Here, we confirmed and extended the findings of these authors by demonstrating the presence of msa1 and msa2 in both ATCC 33209 and a Norwegian R. salmoninarum isolate. Examination of the genomic organization of the msa genes by BamHI, HindIII, and EcoRI digestion followed by Southern blotting identified hybridizing DNA fragments that were the same size in both 684 and ATCC 33209. These data suggest that the genomic organization of msa1 and msa2 is similar in the two strains and that two msa genes are present in R. salmoninarum isolates from diverse geographic areas. However, there are also differences, as XhoI digestion produced a 6.2-kb band in ATCC 33209 and a 6.9-kb hybridizing band in 684. Perhaps this difference and the presence of the 4C11 epitope may be useful for further molecular classification of R. salmoninarum isolates. It should be noted that only five isolates, including isolate 684, have been examined to date for the presence of msa1 and msa2 and that a more extensive survey is required to determine how prevalent these genes are in other R. salmoninarum isolates. The primers that we have identified which selectively amplify either msa1 and msa2 may facilitate further analysis of these genes.
The mechanism by which the identical changes were introduced into msa1 and msa2 of strain 684 is unclear. One possibility is that a spontaneous mutation occurred in one of the msa genes, which was followed by nonreciprocal recombination with the other msa gene. In support of this mechanism, the single nucleotide difference 3' of the stop codon in ATCC 33209 (Fig. 1) is absent in isolate 684. In ATCC 33209, msa1 contains a G while msa2 contains a C at this position. Like the ATCC 33209 msa2 gene, the 684 msa1 and msa2 genes both contain a C located 37 bp 3' of the stop codon. If the nonreciprocal recombination mechanism hypothesis is correct, then in the simplest scenario the mutation may have been first introduced into msa2 and then introduced by recombination into the msa1 locus, thus resulting in identical coding sequences as well as identical 3' sequences. It should be noted that the 5' sequences, at least as far as the -69 (msa1) and -73 (msa2) nucleotides 5' of the translational initiation codon, resemble those determined for ATCC 33209 msa1 and msa2 and thus may not be involved in recombination. It is notable that IS3-like insertion sequences have been reported to flank the msa copies at a distance of 2 to 3 kb and thus may have been involved in msa gene duplication, potentially though recombination (36, 40). Recombination and unidirectional transfer of DNA between a pseudogene(s) and a functional gene(s) or between complete gene copies appear to be a common mechanism of antigenic variation in a number of pathogenic microorganisms (5, 30, 31, 35, 38, 46). A well-studied example is Neisseria gonorrhoeae, in which pilin antigenic variation can occur by unidirectional transfer of DNA sequences from a silent pilin locus to the expressed pilin gene through high-frequency recombination events (28, 29, 33, 44). At present we do not know if both msa genes are expressed or the frequency of the putative recombination process in the R. salmoninarum msa genes. The divergent 5' sequences of msa1 and msa2 suggest that the msa genes may be differentially regulated. In addition to recombination as a mechanism of antigenic variation, we do not exclude the possibility that the identical mutations may be due to a bias in the mutational machinery or repair process targeting this region of the msa genes.
A surprising finding was that p57 isolated from isolate 684 culture supernatant displayed increased agglutinating and binding activity for salmonid leukocytes and rabbit erythrocytes. We envisage several possible mechanisms by which the mutation enhances binding activity. One possibility is that the mutation may increase the stability of p57. We have previously demonstrated that p57 is highly susceptible to digestion by an R. salmoninarum-produced serine protease (39, 42, 48). In addition, proteolytic activity may reside within the p57 protein itself (3). Alternatively, the mutation may increase the binding affinity for the putative receptor(s) on fish leukocytes and rabbit red blood cells. Enhanced binding could be due to an altered conformation of p57 or a change in the actual binding site. It is of interest that the mutation occurs close to the A1 repeat in p57 (48). The A1 and A2 direct repeats are 81 amino acids long, and each repeat contains a transcription factor-immunoglobulin (TIG)-like domain (2), also called an IPT domain (immunoglobulin-like fold shared by plexins and transcription factors [4]). The TIG/IPT domain is predicted to form an unusual type E immunoglobulin fold and is found in the extracellular regions of members of the plexin family of adhesion-repulsion molecules. If the A1 and A2 repeats are involved in binding to fish leukocytes, it is intriguing to speculate that the mutation at position 139 may alter these domains or their function. A final possibility is that the mutation may alter the binding of a cofactor involved in the binding of p57 to leukocytes. Investigations are under way to distinguish among these possibilities and fully map the binding site(s) on p57.
Although the role of p57 in pathogenesis is unclear, this protein is a well-accepted marker of infection by R. salmoninarum (6, 11, 13, 34, 37, 41). The correlation of cell-associated p57 with isolate virulence, the high levels of synthesis by R. salmoninarum, the in vitro binding activity with fish leukocytes, and the maintenance of duplicated msa genes support the hypothesis that p57 plays an important role in the pathogenesis of bacterial kidney disease. In this study we identified a p57 antigenic variant that has lost the 4C11 epitope and has increased in vitro binding and agglutinating activities. If this binding activity is relevant in pathogenesis, then loss of a neutralizing epitope may help R. salmoninarum escape a salmonid immune response. Alternatively, the mutation may be involved in tropism among tissues or among different salmonid species. A novel finding of this work was the demonstration of identical mutations in the coding regions of both the msa1 and msa2 genes. The development of isogenic strains and in vivo challenge experiments are required to determine the contribution of the p57 Ala139-to-Glu mutation to R. salmoninarum virulence.
We thank B. Wiens, M. Rittenberg, T. Welch, and J. Crosa for critical reviews of the manuscript. We thank T. Welch for help with Southern blotting and S. Alcorn for isolation of salmon leukocytes.
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