Skip to main content

DNA polymorphism analysis of Brucella lipopolysaccharide genes reveals marked differences in O-polysaccharide biosynthetic genes between smooth and rough Brucella species and novel species-specific markers

Abstract

Background

The lipopolysaccharide is a major antigen and virulence factor of Brucella, an important bacterial pathogen. In smooth brucellae, lipopolysaccharide is made of lipid A-core oligosaccharide and N-formylperosamine O-polysaccharide. B. ovis and B. canis (rough species) lack the O-polysaccharide.

Results

The polymorphism of O-polysaccharide genes wbkE, manAO-Ag, manBO-Ag, manCO-Ag, wbkF and wbkD) and wbo (wboA and wboB), and core genes manB core and wa** was analyzed. Although most genes were highly conserved, species- and biovar-specific restriction patterns were found. There were no significant differences in putative N-formylperosamyl transferase genes, suggesting that Brucella A and M serotypes are not related to specific genes. In B. pinnipedialis and B. ceti (both smooth), manBO-Agcarried an IS711, confirming its dispensability for perosamine synthesis. Significant differences between smooth and rough species were found in wbkF and wbkD, two adjacent genes putatively related to bactoprenol priming for O-polysaccharide polymerization. B. ovis wbkF carried a frame-shift and B. canis had a long deletion partially encompassing both genes. In smooth brucellae, this region contains two direct repeats suggesting the deletion mechanism.

Conclusion

The results define species and biovar markers, confirm the dispensability of manBO-Agfor O-polysaccharide synthesis and contribute to explain the lipopolysaccharide structure of rough and smooth Brucella species.

Background

The members of the genus Brucella are gram-negative bacteria that cause brucellosis, a zoonotic disease of great importance worldwide. Currently, several Brucella species are recognized [1]. B. abortus, B. melitensis, B. suis, B. neotomae, B. ovis, and B. canis have been known for a long time and are traditionally distinguished according to their preferential host, biochemical tests and cell surface characteristics [2]. In addition, Brucella strains isolated from cetaceans and pinnipeds during the last fifteen years have been grouped into B. ceti and B. pinnipedialis, [3]. Very recently, some Brucella strains have been isolated from the common vole and a new species, B. microti, proposed [4]. B. abortus, B. melitensis and B. suis have been classically subdivided into biovars according to H2S production, CO2-dependence, dye sensitivity and distribution of the A and M epitopes (see below) [2]. However, because these tests are difficult to standardize, molecular markers have been investigated [59].

Wild type B. melitensis, B. abortus, B. suis, B. neotomae, B. ceti, B. pinnipedialis and B. microti express a smooth (S)-type lipopolysaccharide (LPS) formed by an O-polysaccharide connected to a core oligosaccharide which, in turn, is linked to lipid A, the section embedded into the outer membrane. However, both B. ovis and B. canis lack the O-polysaccharide and, accordingly, their LPS is termed rough (R) (R-LPS). Brucella LPS is of great interest not only because of these species differences but also because it is the foremost diagnostic antigen and a major virulence factor [10]. Despite this, the structure and genetics of Brucella LPS is only partially understood. The O-polysaccharide is a homopolymer of N-formyl-perosamine in α (1–2) or in α (1–2) plus α (1–3) linkages [11], and these variations relate to the main serovars in Brucella S species (A dominant, related to the α (1–2) linkage; M dominant [α (1–2) plus α (1–3) in a 4:1 proportion]; or A = M [α (1–2) plus α (1–3) in a > 4:1 proportion]). Previous studies in B. melitensis 16 M and H38 (both biovar 1) have identified two genetic regions involved in O-polysaccharide synthesis and translocation (Figure 1)(reviewed in [12]). Region wbo encodes two putative glycosyltransferases (wboA and wboB) and region wbk contains the genes putatively involved in perosamine synthesis (gmd [GDP-mannose 4, 6 dehydratase] and per [perosamine synthetase]), its formylation (wbkC) and polymerization (glycosyltransferases) (wbkA and wbkE), as well as those for bactoprenol priming (wbkD and wbkF) and O-PS translocation (wzm and wzt). In addition, wbk contains genes (manAO-Ag, manBO-Ag, manCO-Ag) which may code for the enzymes that furnish mannose, the perosamine precursor. Intriguingly, wbkB and manBO-Agdo not generate R phenotypes upon disruption [12, 13], and B. ovis and B. canis carry wbk genes despite the absence of the O-polysaccharide [14]. Much less is known on the Brucella core oligosaccharide. Reportedly, it contains 2-keto, 3-deoxyoctulosonic acid, mannose, glucose, glucosamine and quinovosamine [12, 15] but the structure is unknown. Thus far, only three genes have been proved to be involved in core synthesis: pgm (phosphoglucomutase, a general biosynthetic function), manB core (mannose synthesis) and wa** (putative glycosyltransferase) [12]. Obviously, genetic analysis encompassing a variety of strains could shed light on the differences behind the phenotypes of S and R species, confirm or rule out a role for known genes, and identify differences that could serve as serovar or biovar markers. With these aims, wbkE, manAO-Ag, manBO-Ag, manCO-Ag, wbkF, wkdD, wboA, wboB, wa** and manB core were analyzed for polymorphism in the classical Brucella spp., B. ceti, and B. pinnipedialis.

Figure 1
figure 1

Regions and genes encoding LPS biosynthetic enzymes in B. melitensis 16 M Region wbk contains genes coding for: (i), enzymes necessary for N-formylperosamine synthesis ( gmd, per, wbkC ); (ii), two O-PS glycosyltransferase ( wbkE, wbkA ); (iii), the ABC transporter ( wzm, wzt ); (iv) the epimerase/dehydratase necessary for the synthesis of an N-acetylaminosugar ( wbkD ); and (v), the polyisoprenyl-phosphate N-acetylhexosamine-1-phosphate transferase enzyme that primes bactoprenol ( wbkF ). Genes manAO-Ag, manBO-Ag, manCO-Agcould be involved in the synthesis of mannose, the perosamine precursor. Restriction sites: A, Alu I; AvI, Ava I; Av, Ava II; B, Bgl I; Bg, Bgl II; C, Cla I; E, Eco RI; EV, Eco RV; H, Hind III; Ha, Hae II; Hf, Hinf I; P, Pst I; Pv, Pvu II; S, Sau 3A; Sa, SaI I; St, Sty I.

Results

LPS genes in Brucella spp. and biovars

Figure 1 shows the organization of LPS genes in B. melitensis 16 M [12]. PCR amplification of wbkE, manBO-Ag, manAO-Ag, manCO-Ag, wkdD, wbkF, wboA and wboB, wa** and manB core was conducted on representative strains of each of the Brucella species included in this study and their biovars with attention to the LPS characteristics (i.e. S versus R; and A dominant, M dominant, or A = M for the S-LPS). Except for wboA and wboB in B. ovis, all genes were successfully amplified in the strains of all Brucella species and biovars tested. These results confirm the absence of the wbo region in B. ovis [16, 17]. They also suggest that conservation of wbk extends beyond those genes (wbkA to wbkC) examined in a previous work [14] and that wa** and manB core were are also conserved in the genus. Further analyses were then conducted to examine these possibilities.

Gene polymorphism in wbk

wbkE

For all strains, the wbkE PCR-amplified product displayed the same Eco RV, Hinf I, Pst I and Pvu II RFLP patterns. Although B. melitensis 63/9 biovar 2 showed a different Sty I pattern, only one of eight additional B. melitensis biovar 2 strains tested showed this Sty I pattern (data not shown).

manAO-Ag

B. neotomae had a distinct manAO-Agrestriction pattern consisting of an additional Ava II site (Figures 2 and 3, Table 1). Moreover, in silico analysis showed a specific profile for B. ovis consisting of a nucleotide substitution (GAA to GGA) at position 497 which modified the ManA C-terminal sequence at amino acid 165 (not shown). Also, a single nucleotide deletion (CAAT to CA-T) was detected at position 738; this frame shift leads to a change in amino acid sequence after position 246. Nucleotide sequence of PCR products from several strains confirmed the deletion in manAO-Agas characteristic of B. ovis (not shown).

Table 1 Brucella strains used in this study.
Figure 2
figure 2

Restriction maps of the core- and O-polysaccharide genes with the restriction enzymes used. For each gene, restriction map A corresponds to that deduced from the nucleotide sequence of B. melitensis 16 M. Only differences compared to the nucleotide sequences of B. melitensis 16 M are indicated in restriction maps B, C, D, E, F and G. The restriction patterns A, B, C, D, E, F and G are further indicated in Table 1 for each gene and for each Brucella strain studied. Additional sites and their most probable location according to restriction patterns are indicated by the restriction name (e.g. Hf) and by the position name and an asterisk.

Figure 3
figure 3

PCR-RFLP analysis of Brucella LPS genes manAO-Ag, manBO-Ag, wbkD , wbkF , wboA and wa**. Panel A. Lanes: 1, molecular size markers; 2, manAO-Agfrom B. melitensis 16 M uncut; 3, manAO-Agfrom B. melitensis 16 M cut by Ava II; 4, manAO-Agfrom B. neotomae cut by Ava II; 5, wbkF from B. melitensis 16 M uncut; 6, wbkF from B. melitensis 16 M cut by Alu I; 7, wbkF from B. melitensis bv2 cut by Alu I; 8, wbkF from B. abortus bv2 cut by Alu I; 9, wbkF 2* from B. melitensis 16 M uncut; 10, wbkF 2* from B. canis uncut; 11, wbkF 2* from B. melitensis 16 M cut by EcoR V; 12, wbkF 2* from B. canis cut by EcoR V; 13, wboA from B. melitensis 16 M uncut; 14, wboA from B. melitensis 16 M cut by Alu I; 15, wboA from B. abortus cut by Alu I; 16, wa** from B. melitensis 16 M uncut; 17, wa** from B. melitensis 16 M cut by Ava II; 18, wa** from B. suis bv2 cut by Ava II; 19, wa** from B. melitensis 16 M cut by Hinf I; 20, wa** from B. ovis cut by Hinf I. Panel B. Lanes: 1, molecular size markers; 2, manBO-Agfrom B. melitensis 16 M uncut; 3, manBO-Agfrom B. pinnipedialis uncut; 4, manBO-Agfrom B. melitensis 16 M cut by Sau 3A; 5, manBO-Agfrom B. melitensis bv2 cut by Sau 3A; 6, manBO-Agfrom B. abortus cut by Sau 3A; 7, manBO-Agfrom B. suis cut by Sau 3A; 8, manBO-Agfrom B. suis bv2 cut by Sau 3A; 9, manBO-Agfrom B. ovis cut by Sau 3A; 10, manBO-Agfrom B. pinnipedialis cut by Sau 3A; 11, manBO-Agfrom B. ceti cut by Sau 3A; 12, manBO-Agfrom B. melitensis 16 M cut by Eco RV; 13, manBO-Agfrom B. abortus cut by Eco RV. Panel C. Lanes: 1, molecular size markers; 2, wbkD from B. melitensis 16 M uncut; 3, wbkD from B. abortus uncut; 4, wbkD from B. canis uncut; 5, wbkD from B. melitensis 16 M cut by Sau 3A; 6, wbkD from B. abortus cut by Sau 3A; 7, wbkD from B. canis cut by Sau 3A.

manCO-Ag

Despite the use of several endonucleases (Bam HI, Ava I, Ava II, Bgl I, Cla I, Pst I), manCO-Agrestriction patterns were identical in all Brucella strains (Figure 2, Table 1). Therefore, no polymorphism was observed by this method.

manBO-Ag

B. melitensis 16 M (biovar 1) and B. abortus Tulya (biovar 3) presented a similar manBO-Agrestriction pattern (pattern A), and B. melitensis biovars 2 and 3 showed a Sau 3A site absent in other strains (pattern B). All B. abortus (except B. abortus Tulya (biovar 3)) strains tested showed a specific pattern characterized by the absence of the Eco RV site at position 1238 (pattern C). B. suis biovars 1, 3, 4 and 5, B. canis and B. neotomae formed a separate group (pattern C) on the basis of the Sau 3A restriction patterns of this gene. B. ovis shared this pattern only partially because it lacked one more Sau 3A site (pattern F). B. suis biovar 2 strains lacked the manBO-AgSau 3A site and showed an additional Hinf I site in this gene (pattern E). When this gene was amplified (primers manB-A and manB-B; (Table 2) from B. ovis 63/290, sequenced, and aligned with the homologous genes of B. melitensis biovar 1, B. abortus biovar 1, and B. suis biovar 1, polymorphism in both sequence and length was detected. As compared to B. melitensis biovar 1 and B. abortus biovar 1, two more nucleotides were found at position 1265–1266 in B. suis biovar 1 and B. ovis which should lead to a modification of C-terminal sequence of the protein (not shown). All strains isolated from marine mammals yielded restriction manBO-Agpatterns very different from those of the six classical species (pattern G, Table 1) as well as a larger PCR product (2,933 bp and 2,091 bp, respectively) (Figure 3). Sequencing of the PCR product of three strains (B2/94, B1/94 and B14/94) revealed an IS711 element (842 bp) inserted into the gene (from position 780 to 1622) (Figure 2), and this insertion was confirmed by PCR in 82 additional marine mammal strains (not shown).

Table 2 DNA Primers used

wbkD and wbkF

The wbkD PCR product was tested with Hinf I, Ava II, Sau 3A, Bgl I, Cla I and Sty I, but a very low degree of DNA polymorphism was observed (Figures 2 and 3, and Table 1). For B. melitensis, B. neotomae and all marine mammal strains, all strains showed the same Sau 3A pattern. An additional Sau 3A site was observed for all B. abortus, B. suis and B. ovis strains (pattern B). Interestingly, the B. canis product showed a reduced size of around 400 bp and, therefore, yielded species specific restriction patterns(Figures 2 and 3). This result indicated the existence of a deletion in B. canis wbkD (see below). The wbkF PCR product showed also a low degree of polymorphism when tested with Eco RV, Hae II, HinfI, Alu I, Sau 3A and Sty I (Figures 2 and 3, and Table 1). One pattern, however, was specific for B. melitensis biovar 2 which lacked an Alu I site, and a distinct pattern for two B. abortus biovar 2 and 45/20, was also observed with Alu I site. Remarkably, no amplification was obtained for B. canis, suggesting that the sequence of the wbkF-B primer corresponded to a deletion extending from the adjacent wbkD gene (see above). In fact, when the appropriate primer was used, the wbkF PCR product showed a reduced size of about 400 bp. To examine this point further, the wbkF-wbkD locus was amplified and sequenced in B. melitensis, B. ovis and B. canis. The sequences showed a 351 bp deletion in B. canis extending from wbkD nucleotide 1594 (in BMEI 1426) to wbkF nucleotide 918 (in BMEI 1427) (Figure 3 and 4) as confirmed by the genome sequence of B. canis RM 6/66 (ATCC 23365) (Genbank accession # CP000872 and CP000873). Moreover, as compared to their homologs in B. melitensis, B. abortus and B. suis, gene wbkF of B. ovis showed a single nucleotide deletion at position 35. This frame shift mutation necessarily leads to an extensive modification of cognate protein (Figure 5).

Figure 4
figure 4

The B. melitensis 16 M chromosome I region absent in B. canis and the adjacent DNA. The two 7 bp direct repeats located in B. melitensis 16 M at both sides of the fragment absent in B. canis are in bold.

Figure 5
figure 5

Comparison of the B. suis ManB core and WbkF with the corresponding B. ovis proteins. Conserved amino acids are indicated by stars. The alignment was performed using the Clustal W program.

Gene polymorphism in wboA

A low degree of DNA polymorphism was observed in wboA. However, one pattern was specific of B. abortus since all strain testedlacked an Alu I site. As described above, no amplification was observed for any B. ovis strain. This confirms [16, 17] that absence of wboA (and wboB) is a B. ovis species-specific marker.

Polymorphism in core LPS genes

Despite using six restriction enzymes, all brucellae displayed the same RFLP pattern for the manB core amplicon. In silico, the four genomes available showed low polymorphism. A single nucleotide deletion at position 812 was detected in B. ovis, which should modify the C-terminal sequence of the protein (Figure 5). Similarly, a low degree of polymorphism was observed in wa**. With the exception of B. suis biovar 2, one Pst I pattern was specific of B. suis. Biovar 2 also lacked an Ava II site, which could be considered as a biovar marker. With Hinf 1, a pattern was specific of B. ovis (Figure 2, Table 1).

Discussion

Despite the high DNA homology of brucellae, gene polymorphism and species- and biovar-specific markers have been consistently found. Concerning outer membrane molecules, both have been found in genes of proteins [16, 18, 19] but not in the LPS genes examined, all of the wbk region (wbkA, gmd, per, wzm, wzt, wbkB, and wbkC). Interestingly, these O-polysaccharide genes were found to be highly conserved not only in the classical S Brucella species and biovars but also in B. ovis and B. canis, the two species that lack the O-polysaccharide [14]. Therefore, an implication of these observations is that the R phenotype of B. ovis and B. canis cannot be explained by the absence of any of those seven wbk genes. More recently, the wbk region has been extended to include wbkE, manAO-Ag, manBO-Ag, manCO-Ag, wbkF, and wkdD [12]. The present study includes an analysis of some of these genes and the results not only show the existence of specific markers but, more important, they also improve our understanding of the genetics-structure relationship in Brucella LPS. Concerning the O-polysaccharide, the results are relevant to interpret the variations in O-polysaccharide linkages of S Brucella and add further weight to our previous finding (12) that the putative mannose genes in wbk are not essential for perosamine synthesis. Furthermore, they help to explain the differences existing between S and R Brucella species.

Despite extensive transposon mutagenesis searches, only four putative glycosyltransferase genes have been implicated in N-formylperosamine polymerization in Brucella: wbkA, wbkE, wboA and wboB. As mentioned above, wbkA is conserved in classical Brucella species [14], and the results reported here show that wboA, wboB and wbkE are similarly present in S B. melitensis, B. abortus, B. suis, B. pinnipedialis and B. ceti. Moreover, these genes displayed low polymorphism, no matter the A or M serotype. It has to be noted that the consensus sequences of glycosyltransferases are conspicuous enough to make unlikely the existence of O-polysaccharide transferases other than wboA, wboB, wbkA and wbkE, and that, although the α (1–3) linkage relates to the M serotype, there is evidence showing that at least some A dominant strains generate a very small proportion (i.e. 2%) of α (1–3) linkages [20]. In keeping with this, it has been observed that strain RB51 (a wboA mutant of the A-dominant B. abortus 2308 S strain [21]) generates small amounts of atypical M-type polysaccharides [22]. All this evidence suggests that, rather than the presence of a α (1–3)-specific transferases in the M serotype, there are subtle variations in the expression of wboB, wbkA or wbkE, or in the activity of the corresponding glycosyltransferases that lead to the increase in α (1–3) linkages typical of the M and A = M serotypes.

A surprising feature of the wbk is the presence of genes that are not essential for O-polysaccharide synthesis. Godfroid et al. [13] analyzed the functions of the ORFs between BMEI1404 (wbkA, encoding a putative mannosyltransferase [perosaminyltransferase since mannose and perosamine are related]) and BMEI1418 (wbkC, encoding a putative formyltransferase) and found that disruption of ORF BMEI1417 (wbkB) generated no R phenotype. Later, it was found that the genome of B. melitensis contains three putative mannose synthesis genes (ORFs BMEI1394 to BMEI1396) adjacent to wbkA. Because mannose is the direct precursor of perosamine and O-polysaccharide genes usually cluster together, Monreal et al. [23] proposed the names of manAO-Ag, manBO-Ag, manCO-Agfor BMEI1394 to BMEI1396, and their assignment to wbk is supported by the finding by González et al. [12] that disruption of ORF BME1393 (wbkE) blocks O-polysaccharide synthesis. The latter authors provided proof that at least manBO-Ag, is dispensable for perosamine synthesis but also pointed out that the existence of manB core -manC core (ORFs BMEII0900 and BMEII0899) preclude to rule out any role for the wbk putative mannose synthesis genes since there could be internal complementation [12]. All these results are fully consistent with the observation that, although manBO-Agis disrupted by IS711 in B. pinnipedialis and B. ceti, these two species keep the S phenotype. The wbk region has features suggestive of horizontal acquisition [14] whereas manB core (and manC core ) are Brucella older genes necessary for the synthesis of the LPS core oligosaccharide [23, 24]. Accordingly, a drift to dysfunction of the wbk man genes may have been made possible by the redundancy created after horizontal acquisition of wbk, and the similarity in this regard between B. ceti and B. pinnipedialis suggests a common ancestor.

The results of this research also shed additional light on the genetic basis behind the R phenotype of B. ovis and B. canis. Previous work has shown a large deletion in B. ovis that encompasses wboA and wboB [16, 17]. The present work confirms the absence of these two putative perosaminyltraneferase genes in B. ovis, an absence that can account by itself for the lack of O-polysaccharide in this species [12, 25]. To this evidence, the present work adds the nucleotide deletion detected in B. ovis wbkF. Indeed, the frame-shift thus created predicts a very modified protein. Presumably, WbkF is involved in catalyzing the transfer of an acetylated aminosugar to undecaprenylphosphate, thus priming this carrier for O-chain polymerization. The N-terminal region of the E. coli WbkF homologue was found to be necessary for this function [26] and, therefore, it seems likely that the frame-shift in B. ovis wbkF produces a non-functional protein, thus explaining in part the R phenotype of this species. Other changes detected in several B. ovis LPS genes do not have this dramatic effect. As discussed above, the man wbk genes are dispensable and, therefore, the nucleotide substitution and frame shift detected in B. ovis manAO-Agdo not contribute to the R phenotype. Since disruption of manB core generates a deep R-LPS [24, 24], the presence of two more nucleotides in the sequence of B. ovis manB core was interesting. However, this deletion modified only the C-terminal sequence (5 last amino-acids) of the protein making unlikely a change severe enough to contribute to the R phenotype. In support of this interpretation, B. ovis R-LPS is not deeply truncated like that of manB core mutants. Moreover, the same two nucleotide addition was detected in B. suis, and it is known that a functional manB core is required for the synthesis of S-LPS in this species [27].

A DNA deletion of 351 bp. including 3' end of wbkF and 3' end of wbkD was detected in B. canis, which might have occurred by a slipped mispairing mechanism (a direct repeat sequence of 7 bp «GGATCAT» is present at both sides of the deleted sequence in the other Brucella species (Figure 5). It is clear that this deletion has profound consequences in the synthesis of LPS. We have discussed above the essential role of wbkF in O-polysaccharide synthesis, and wbkD seems involved in the synthesis of quinovosamine, a sugar that is possibly linking the Brucella O-polysaccharide to the R-LPS [12]. This double mutation clearly explains the R phenotype of B. canis and is consistent with the absence of quinovosamine in this species [28].

Conclusion

The analyses carried out suggest new hypothesis to study the genetics of Brucella O-polysaccharide serotypes and provide evidence on both the dispensability of some wbk genes which is consistent with their horizontal acquisition. They also confirm the essential role of wbkD and wbkF in O-polysaccharide synthesis and, at the same time, contribute to understand the R phenotype of B. ovis and B. canis. Finally, they provide several biovar and species specific markers that can be used to design the corresponding molecular typing tools.

Methods

Brucella strains

The strains (Table 1) were maintained freeze-dried in the INRA Brucella Culture Collection, Nouzilly (BCCN), France. For routine use, they were grown on tryptic soy agar (Difco)-0.1% (w/v) yeast extract (Difco). Fastidious strains (B. abortus biovar 2 and B. ovis) were grown on the same medium supplemented with 5% sterile horse serum (Gibco BRL). All strains were checked for purity, and species and biovar confirmed by standard procedures [2].

DNA preparation

Bacteria were cultured at 37°C for 24 h, suspended in 3 ml sterile distilled water, harvested (2000 × g, 10 minutes) and resuspended in 567 μl of 50 mM Tris, 50 mM EDTA, 100 mM NaCl (pH 8.0). Then, 30 μl of 10% (w/v) SDS and 3 μl of 2% (w/v) proteinase K were added, the mixture was held at 37°C for 1 h and extracted twice with phenol-chloroform. Nucleic acids in the aqueous phase were precipitated with two volumes of cold ethanol, dissolved in 100 μl of 10 mM Tris, 1 mM EDTA (pH 8.0) and the amount of DNA estimated by electrophoresis on 0.8% agarose gels using appropriate DNA solutions as the standards.

Polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP)

The 20-mer primers were selected to amplify manBO-Ag, manAO-Ag, manCO-Ag, wbkF, wkdD, wbkE, wboA and wboB, wa* and manB core according to the B. melitensis 16 M genome sequence (Genbank accession numbers AE008917 and AE008918) (Table 2). Amplification mixtures were prepared in 100 μl volumes containing 10 mM Tris-HCl (pH 9.0), 50 mM KCl, 1.5 mM MgCl2, 0.1% Triton X-100, 0.2 mg ml-1 gelatin (1 × PCR buffer; Appligene), 200 μM each deoxynucleoside triphosphate, 1 μM each primer, 100 ng of genomic DNA, and 2.5 U of Taq DNA polymerase (Appligene). Amplification was performed in a GeneAmp PCR System 9600 thermocycler (Perkin Elmer) as follows: cycle 1, 94°C for 5 minutes (denaturation); the next 30 cycles, 58°C for 30 s (annealing), 70°C for 30 s (extension) and 94°C for 30 s (denaturation); the last cycle, 58°C for 30 s (annealing) and 70°C for 10 minutes (extension). For PCR-RFLP, Alu I, Ava I, Ava II, Bam HI, Bgl I, Bgl II, Cla I, Eco RI, Eco RV, Hind III, Hae II, Hinf I, Pst I, Pvu II, Sau 3A, SaI I, Sty I were used. The restriction enzymes were chosen according to the B. melitensis 16 M genomic sequences of the above-listed genes.

2.4. Nuceotide sequence and data analysis

PCR products of the expected sizes were purified from 1% agarose gels (Invitrogen) with a QIAquick gel extraction kit (Qiagen GmbH, Hilden, Germany), cloned into pGEM-T Easy vector (Promega, Madison, Wis.), and transformed into competent JM109 Escherichia coli cells (Promega). The transformants were selected with ampicillin, and recombinants were selected by blue-white differentiation. Plasmids were isolated from several clones with a Qiagen Plasmid Mini kit. To check for the presence of the correct insert, plasmids were digested with EcoRI and the restriction products were separated on 1% agarose gels. Nucleotide sequencing of clone was performed by automated cycle sequencing with Big Dye terminators (ABI 377XL; PE Applied Biosystems, Foster City, Calif.) and primers RP (reverse primer) and UP (universal primer M13-20). Multiple DNA and amino acid sequence alignments were performed with CLUSTAL W http://www2.ebi.ac.uk/clustalw/.

Nucleotide sequence accession numbers

The Brucella nucleotide sequences determined in this work have been deposited in the GenBank/EMBL/DDBJ databases under the following accession numbers: FJ376556, FJ 376557 for the manBO-Aggene of B. pinnipedialis B2/94 and B. ceti B1/94.

References

  1. Euzéby JP: List of prokaryotic names with standing in nomenclature. 2008, [http://www.bacterio.cict.fr/index.html]

    Google Scholar 

  2. Alton GG, Jones LM, Angus RD, Verger JM: Techniques for the brucellosis laboratory. 1988, Paris, France: INRA

    Google Scholar 

  3. Foster G, Osterman BS, Godfroid J, Jacques I, Cloeckaert A: Brucella ceti sp. nov. and Brucella pinnipedialis sp. nov. for Brucella strains with cetaceans and seals as their preferred hosts. Int J Syst Evol Microbiol. 2007, 57: 2688-2693. 10.1099/ijs.0.65269-0.

    Article  CAS  PubMed  Google Scholar 

  4. Scholz HC, Hubalek Z, Sedlacek I, Vergnaud G, Tomaso H, Al DS, Melzer F, Kampfer P, Neubauer H, Cloeckaert A, Maquart M, Zygmunt MS, Whatmore AM, Falsen E, Bahn P, Gollner C, Pfeffer M, Huber B, Busse HJ, Nockler K: Brucella microti sp. nov., isolated from the common vole Microtus arvalis. Int J Syst Evol Microbiol. 2008, 58: 375-382. 10.1099/ijs.0.65356-0.

    Article  CAS  PubMed  Google Scholar 

  5. Le Fléche P, Jacques I, Grayon M, Al Dahouk S, Bouchon P, Denoeud F, Nockler K, Neubauer H, Guilloteau LA, Vergnaud G: Evaluation and selection of tandem repeat loci for a Brucella MLVA typing assay. BMC Microbiol. 2006, 6: 9-10.1186/1471-2180-6-9.

    Article  PubMed Central  PubMed  Google Scholar 

  6. Marianelli C, Ciuchini F, Tarantino M, Pasquali P, Adone R: Molecular characterization of the rpoB gene in Brucella species: new potential molecular markers for genotyping. Microbes Infect. 2006, 8: 860-5. 10.1016/j.micinf.2005.10.008.

    Article  CAS  PubMed  Google Scholar 

  7. Garcia-Yoldi D, Marín CM, de Miguel MJ, Muñoz PM, Vizmanos JL, López-Goñi I: Multiplex PCR assay for the identification and differentiation of all Brucella species and the vaccine strains Brucella abortus S19 and RB51 and Brucella melitensis Rev1. Clin Chem. 2006, 52: 779-781. 10.1373/clinchem.2005.062596.

    Article  CAS  PubMed  Google Scholar 

  8. Foster JT, Okinaka RT, Svensson R, Shaw K, De BK, Robison RA, Probert WS, Kenefic LJ, Brown WD, Keim P: Real-time PCR assays of Single-Nucleotide Polymorphisms defining the major Brucella clades. J Clin Microbiol. 2008, 46: 296-301. 10.1128/JCM.01496-07.

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  9. Whatmore AM, Perrett LL, MacMillan AP: Characterisation of the genetic diversity of Brucella by multilocus sequencing. BMC Microbiol. 2007, 7: 34-10.1186/1471-2180-7-34.

    Article  PubMed Central  PubMed  Google Scholar 

  10. Lapaque N, Moriyón I, Moreno E, Gorvel JP: Brucella lipopolysaccharide acts as a virulence factor. Curr Opin Microbiol. 2005, 8: 60-66. 10.1016/j.mib.2004.12.003.

    Article  CAS  PubMed  Google Scholar 

  11. Perry MB, Bundle DR: Advances in brucellosis research. Edited by: Adams LG. 1990, Texas A&M University Press, College Station, 76-88.

    Google Scholar 

  12. González D, Grilló MJ, De Miguel M, Ali T, Arce-Gorvel V, Delrue R-M, Conde-Álvarez R, López-Goñi I, Iriarte M, Marín CM, Weintraub A, Widmalm G, Zygmunt MS, Letesson JJ, Gorvel JP, Blasco JM, Moriyón I: Brucellosis vaccines: assessment of Brucella melitensis lipopolysaccharide rough mutants defective in core and O-polysaccharide synthesis and export. PLoS ONE. 2008, 3: e2760-10.1371/journal.pone.0002760.

    Article  PubMed Central  PubMed  Google Scholar 

  13. Godfroid F, Cloeckaert A, Taminiau B, Danese I, Tibor A, de Bolle X, Mertens P, Letesson JJ: Genetic organisation of the lipopolysaccharide O-antigen biosynthesis region of Brucella melitensis 16 M (wbk). Res Microbiol. 2000, 151: 655-668. 10.1016/S0923-2508(00)90130-X.

    Article  CAS  PubMed  Google Scholar 

  14. Cloeckaert A, Verger JM, Grayon M, Paquet JY, Garin-Bastuji B, Foster G, Godfroid J: Conservation of seven genes involved in the biosynthesis of the lipopolysaccharide O-side chain in Brucella spp. Res Microbiol. 2000, 151: 209-216. 10.1016/S0923-2508(00)00141-8.

    Article  CAS  PubMed  Google Scholar 

  15. Iriarte M, González D, Delrue R-M, Monreal D, Conde R, López-Goñi I, Letesson JJ, Moriyón I: Brucella: Molecular and Cellular Biology. Edited by: López-Goñi I, Moriyón I. 2004, Horizon Bioscience, Wymondham, UK, 159-192.

    Google Scholar 

  16. Vizcaíno N, Caro-Hernández P, Cloeckaert A, Fernández-Lago L: DNA polymorphism in the omp25/omp31 family of Brucella spp.: identification of a 1.7-kb inversion in Brucella cetaceae and of a 15.1-kb genomic island, absent from Brucella ovis, related to the synthesis of smooth lipopolysaccharide. Microbes Infect. 2004, 6: 821-834. 10.1016/j.micinf.2004.04.009.

    Article  PubMed  Google Scholar 

  17. Garcia-Yoldi D, Marín CM, López-Goñi I: Restriction site polymorphisms in the genes encoding new members of group 3 outer membrane protein family of Brucella spp. FEMS Microbiol Lett. 2005, 245: 79-84. 10.1016/j.femsle.2005.02.026.

    Article  CAS  PubMed  Google Scholar 

  18. Cloeckaert A, Verger JM, Grayon M, Paquet JY, Garin-Bastuji B, Foster G, Godfroid J: Classification of Brucella spp. isolated from marine mammals by DNA polymorphism at the omp2 locus. Microbes Infect. 2001, 3: 729-738. 10.1016/S1286-4579(01)01427-7.

    Article  CAS  PubMed  Google Scholar 

  19. Ficht TA, Husseinen HS, Derr J, Bearden SW: Species-specific sequences at the omp2 locus of Brucella type strains. Int J Syst Bacteriol. 1996, 46: 329-331.

    Article  CAS  PubMed  Google Scholar 

  20. Meikle PJ, Perry MB, Cherwonogrodzky JW, Bundle DR: Fine structure of A and M antigens from Brucella biovars. Infect Immun. 1989, 57: 2820-2828.

    CAS  PubMed Central  PubMed  Google Scholar 

  21. Vemulapalli R, McQuiston JR, Schurig GG, Sriranganathan NM, Halling SM, Boyle SM: Identification of and IS711 element interrupting the wboA gene of Brucella abortus vaccine strain RB51 and a PCR assay to distinguish strain RB51 from other Brucella species and strains. Clin Diagn Lab Immunol. 1999, 6: 760-764.

    CAS  PubMed Central  PubMed  Google Scholar 

  22. Cloeckaert A, Zygmunt MS, Guilloteau LA: Brucella abortus vaccine strain RB51 produces low levels of M-like O-antigen. Vaccine. 2002, 20: 1820-1822. 10.1016/S0264-410X(02)00035-X.

    Article  CAS  PubMed  Google Scholar 

  23. Monreal D, Grilló MJ, González D, Marín CM, de Miguel MJ, López-Goñi I, Blasco JM, Cloeckaert A, Moriyón I: Characterization of Brucella abortus O-polysaccharide and core lipopolysaccharide mutants and demonstration that a complete core is required for rough vaccines to be efficient against Brucella abortus and Brucella ovis in the mouse model. Infect Immun. 2003, 71: 3261-3271. 10.1128/IAI.71.6.3261-3271.2003.

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  24. Allen CA, Adams LG, Ficht TA: Transposon-derived Brucella abortus rough mutants are attenuated and exhibit reduced intracellular survival. Infect Immun. 1998, 66: 1008-1016.

    CAS  PubMed Central  PubMed  Google Scholar 

  25. McQuiston JR, Vemulapalli R, Inzana TJ, Schurig GG, Sriranganathan NM, Fritzinger D, Hadfield TL, Warren RA, Snellings N, Hoover DL, Halling SM, Boyle SM: Genetic characterization of a Tn5-disrupted glycosyltransferase gene homologue in Brucella abortus and its effect on lipopolysaccharide composition and virulence. Infect Immun. 1999, 67: 3830-3835.

    CAS  PubMed Central  PubMed  Google Scholar 

  26. Amer AO, Valvano MA: The N-terminal region of the Escherichia coli WecA (Rfe) protein, containing three predicted transmembrane helices, is required for function but not for membrane insertion. J Bacteriol. 2000, 182: 498-503. 10.1128/JB.182.2.498-503.2000.

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  27. Foulongne V, Bourg G, Cazevieille C, Michaux-Charachon S, O'Callaghan D: Identification of Brucella suis genes affecting intracellular survival in an in vitro human macrophage infection model by signature-tagged transposon mutagenesis. Infect Immun. 2000, 68: 1297-1303. 10.1128/IAI.68.3.1297-1303.2000.

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  28. Bowser DV, Wheat RW, Foster JW, Leong D: Occurrence of quinovosamine in lipopolysaccharides of Brucella species. Infect Immun. 1974, 9: 772-774.

    CAS  PubMed Central  PubMed  Google Scholar 

Download references

Acknowledgements

Research at the laboratories of the authors is supported by the European Commission (Research Contract QLK2-CT-2002-00918), Ministerio de Ciencia y Tecnología of Spain (Proyecto Proyecto AGL2004-01162/GAN). We thank Maggy Grayon for her contribution on DNA extraction from Brucella strains.

Author information

Authors and Affiliations

Authors

Corresponding author

Correspondence to Michel S Zygmunt.

Additional information

Authors' contributions

MSZ, IM and AC conceived the study. MSZ designed and performed the experimental work. All authors analyzed the data. MSZ wrote the manuscript. IM, and AC helped to draft the manuscript. All authors read, corrected and approved the final manuscript.

Authors’ original submitted files for images

Rights and permissions

This article is published under license to BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

Reprints and permissions

About this article

Cite this article

Zygmunt, M.S., Blasco, J.M., Letesson, JJ. et al. DNA polymorphism analysis of Brucella lipopolysaccharide genes reveals marked differences in O-polysaccharide biosynthetic genes between smooth and rough Brucella species and novel species-specific markers. BMC Microbiol 9, 92 (2009). https://doi.org/10.1186/1471-2180-9-92

Download citation

  • Received:

  • Accepted:

  • Published:

  • DOI: https://doi.org/10.1186/1471-2180-9-92

Keywords