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Journal of Bacteriology, February 2008, p. 1064-1071, Vol. 190, No. 3
0021-9193/08/$08.00+0 doi:10.1128/JB.01370-07
Copyright © 2008, American Society for Microbiology. All Rights Reserved.

Department of Microbiology, Leprosy Research Center, National Institute of Infectious Diseases, Tokyo, Japan,1 Department of Host Defense, Osaka City University Graduate School of Medicine, Osaka, Japan,2 Japan BCG Laboratory, Tokyo, Japan,3 Department of Immunology, National Institute of Infectious Diseases, Tokyo, Japan,4 Molecular Epidemiology Division, Mycobacterium Reference Center, The Research Institute of Tuberculosis, Japan Anti-Tuberculosis Association, Tokyo, Japan5
Received 23 August 2007/ Accepted 5 November 2007
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Many antigenic or immunoregulatory glycolipids with structural diversity are expressed on the mycobacterial cell wall. These molecules are considered to be involved in bacterial virulence through host immune responses (5, 14, 22, 23). It is necessary to elucidate the molecular structure, biochemical characteristics, and biological functions of the lipid components to better understand the mechanisms of pathogenesis and drug resistance of the MAC. The most prominent feature of the MAC is the presence of antigenic glycolipids, the glycopeptidolipids (GPLs), which are present on the cell surface (1). The standard method for differentiation of MAC strains is serologic typing based on the oligosaccharide (OSE) residue of the GPL. GPLs contain a tetrapeptide-amino alcohol core, D-phenylalanine-D-allo-threonine-D-alanine-L-alaninol (D-Phe-D-allo-Thr-D-Ala-L-alaninol), with an amido-linked 3-hydroxy or 3-methoxy C26-to-C34 fatty acid at the N terminus of D-Phe (4). The D-allo-Thr and terminal L-alaninol are further linked with 6-deoxy-talose (6-d-Tal) and 3,4-di-O-methyl-rhamnose (3,4-di-O-Me-Rha), respectively. This core GPL is present in all species of the MAC and shows a common antigenicity (1). In the serotype-specific GPLs, a haptenic OSE is linked with the 6-d-Tal residue. To date, 31 distinct serotype-specific polar GPLs have been identified biochemically; the complete structures of GPLs are partly defined for serotype 1 to 4, 7, 8, 9, 12, 14, 17, 19 to 21, 25, and 26 GPLs (7, 10). On the other hand, it has been reported that serotype-specific GPLs participate in pathogenesis and immunomodulation in the host (2, 13). Modification of the GPL structure might play an important role not only in antigenicity but also in host immune responses and bacterial physiology (18). Recently, chemical synthesis of various haptenic OSEs was demonstrated, and the genes encoding glycosylation pathway enzymes for the biosynthesis of GPLs were identified and characterized (8, 12, 19, 21). However, genes responsible for serotype-specific glycosylation have yet to be analyzed for most of the serotypes.
In a previous study, we determined the complete structure of the GPL derived from M. intracellulare serotype 7 and characterized the serotype 7-specific gene cluster for GPL synthesis (10). The structure of serotype 7 GPL closely resembles that of serotype 12 GPL, except for O methylation (Fig. 1). In the present study, we determined the nucleotide sequence of the serotype 12-specific gene cluster involved in the glycosylation of the GPL and characterized two novel open reading frames (ORFs) encoding O-methyltransferases that determine the difference of serotype 12 GPL from serotype 7 GPL.
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FIG. 1. Structures of serotype 7 and 12 GPLs. O-methyl groups specific to the serotypes are indicated by arrows.
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Isolation of cosmid clones carrying the GPL biosynthesis gene cluster and sequence analysis.
PCR was used to isolate cosmid clones carrying the rhamnosyltransferase gene (rtfA), using primers rtfA-F (5'-TTTTGGAGCGACGAGTTCATC-3') and rtfA-R (5'-GTGTAGTTGACCACGCCGAC-3'). The insert of cosmid clone 161 was sequenced using a kit (BigDye Terminator cycle sequencing kit, version 3.1; Applied Biosystems, Foster City, CA) and a sequence analyzer (ABI Prism 310; Applied Biosystems). The putative function of each ORF was identified by similarity searches between the deduced amino acid sequences and those of known proteins, using BLAST (http://www.ncbi.nlm.nih.gov/BLAST/) and FramePlot (http://www.nih.go.jp/
jun/cgi-bin/frameplot.pl) with the DNASIS computer program (Hitachi Software Engineering, Yokohama, Japan).
Transformation of M. intracellulare. PCR was used to amplify and clone orfA and orfB into the plasmid vector pVV16. M. intracellulare NF 027 and NF 112 were transformed with the resultant plasmids by electroporation. Primers used to amplify orfA, orfB, and orfA-orfB were orfA-F (5'-GCGGATCCAGTGTGCAGACGAGCGGAACT-3'), orfA-R (5'-GCGAATTCTTATCGAGAAAAAATAAAAG-3'), orfB-F (5'-GCGGATCCACTGCTAGACTCCGCCACCAT-3'), and orfB-R (5'-GCGAATTCCTACACCTTCACGGCGAGTC-3').
Preparation of GPLs and OSE moieties. GPL 7 and GPL 12 were purified from M. intracellulare NF 027 and NF 103, respectively. The preparation of GPLs was performed as described previously (10, 15, 17). Briefly, each strain was grown in Middlebrook 7H9 broth (Difco Laboratories, Detroit, MI) with 0.5% glycerol and 10% Middlebrook oleic acid-albumin-dextrose-catalase enrichment (Difco Laboratories) at 37°C for 2 to 3 weeks. The heat-killed bacteria were sonicated and extracted using chloroform-methanol (2:1 [vol/vol]). The extractable lipids were hydrolyzed with 0.2 N sodium hydroxide in methanol at 37°C for 2 h. After neutralization using 6 N hydrochloride, chloroform-methanol (2:1 [vol/vol]) and water were added. The organic phase containing alkaline-stable lipids was recovered and evaporated, with subsequent addition of acetone to remove any acetone-insoluble components. The supernatant was dried up. It was then treated using a Sep-Pak silica cartridge (Waters Corp., Milford, MA) with washing (chloroform-methanol [95:5 {vol/vol}]) and elution (chloroform-methanol [1:1 {vol/vol}]) for partial purification. The GPL was then purified completely by preparative thin-layer chromatography (TLC) with silica gel G (Uniplate; 20 cm x 20 cm x 250 µm; Analtech, Inc., Newark, DE). The TLC was developed repeatedly, using chloroform-methanol-water (60:16:2 [vol/vol/vol]), until a single spot was obtained. To prepare the OSE moiety, purified GPL was processed using β-elimination with alkaline borohydride, and then the carbohydrate chain moiety elongated from D-allo-Thr was released as described previously (10, 15). Briefly, GPL was treated with 5 mg/ml sodium borohydride or borodeuteride in 0.5 N sodium hydroxide-ethanol (1:1 [vol/vol]) at 60°C for 16 h, with stirring. The reaction mixture was decationized with Dowex 50W X8 beads (The Dow Chemical Company, Midland, MI). The supernatant was collected and evaporated under nitrogen to remove boric acid. The dried residue was partitioned into two layers, using chloroform-methanol (2:1 [vol/vol]) and water. The upper aqueous phase was recovered and evaporated. In these processes, the OSE was purified as an oligoglycosyl alditol.
MALDI-TOF MS and MALDI-TOF/TOF MS analyses. The molecular species of the intact GPLs were detected using matrix-assisted laser desorption ionization-time-of-flight mass spectrometry (MALDI-TOF MS) with an Ultraflex II spectrophotometer (Bruker Daltonics, Billerica, MA). Each GPL was dissolved in chloroform-methanol (2:1 [vol/vol]) at a concentration of 1 mg/ml; 1 µl of a sample was then applied directly to the sample plate, followed by the addition of 1 µl of 10-mg/ml 2,5-dihydroxybenzoic acid in chloroform-methanol (1:1 [vol/vol]) as a matrix. The intact GPL was analyzed in the reflectron mode, with an accelerating voltage operating in positive mode at 20 kV (3). The OSE was analyzed by the fragment pattern with MALDI-TOF/TOF MS to determine the glycosyl composition. The OSE was dissolved with ethanol-water (3:7 [vol/vol]); the matrix was 10 mg/ml 2,5-dihydroxybenzoic acid in ethanol-water (3:7 [vol/vol]). The OSE and matrix were added to the sample plate by the same method as that for intact GPL. They were then analyzed in the lift-lift mode.
GC-MS analyses of alditol acetate derivatives. Gas chromatography (GC) and GC-MS analyses of partially methylated alditol acetate derivatives were performed to determine glycosyl compositions and linkage positions. Perdeuteromethylation was conducted using a modified procedure of Hakomori, as described previously (10, 11). Briefly, the dried OSE was dissolved with a mixture of dimethyl sulfoxide and sodium hydroxide, and deuteromethyl iodide was added. The reaction mixture was stirred at room temperature for 15 min, followed by the addition of water and chloroform. After centrifugation at 2,400 x g for 15 min, the upper water layer was discarded. The chloroform layer was washed twice with water and evaporated completely. To prepare partially deuteromethylated alditol acetates, perdeuteromethylated OSE was hydrolyzed using 2 N trifluoroacetic acid at 120°C for 2 h, reduced with 10 mg/ml sodium borodeuteride at 25°C for 2 h, and acetylated with acetic anhydride at 100°C for 1 h (6, 10, 16). GC-MS was then performed using a benchtop ion-trap mass spectrometer (Trace DSQ GC/MS; Thermo Electron Corporation, Austin, TX) equipped with a fused capillary column (30 m; 0.25-mm internal diameter) (Equity-1 or SP-2380; Supelco, Bellefonte, PA). Helium was used as the carrier gas, and the flow rate was 1 ml/min. The SP-2380 column was used for the analysis of alditol acetate derivatives. The temperature program was started at 60°C, with an increase of 40°C/min to 260°C and a hold at 260°C for 25 min. The Equity-1 column was used for analysis of perdeuteromethylated alditol acetate derivatives. The temperature program was 80°C for 1 min, with an increase of 20°C/min to 180°C followed by an increase of 8°C/min to 280°C.
Nucleotide sequence accession number. The nucleotide sequence reported here has been deposited in the NCBI GenBank database under accession number AB353739.
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TABLE 1. Similarity of Orfs in M. intracellulare serotype 12 strain ATCC 35762 to known protein sequences
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FIG. 2. Comparison of genetic organization of GPL biosynthesis clusters. (a) M. avium strain A5 organization, based on the annotated sequence obtained from GenBank (accession no. AY130970). (b) M. intracellulare ATCC 35762 (NF 103), sequenced in this study. (c) M. intracellulare ATCC 35847 (NF 027), sequenced in our previous study (GenBank accession no. AB274811). The orientation of each gene is shown by the arrow direction. The black arrows represent mobile elements, and the gray arrow represents a pseudogene. Mutually homologous ORFs and sequences are indicated with dotted lines.
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The alkaline-stable lipids derived from six transformants of NF 027 and NF 112 in addition to the control strains (vector only) were developed by TLC, and the produced GPLs were compared to the spots of GPL 7 and GPL 12 (Fig. 3). The Rf values for GPLs synthesized in NF 027 transformed with orfA and NF 027 transformed with orfA and orfB (GPL 7-orfA and GPL 7-orfAB, respectively) were almost identical to that for GPL 12; the Rf value for the GPL synthesized in NF 027 transformed with orfB (GPL 7-orfB) was intermediate between those of GPL 7 and GPL 12, although the GPL synthesized in the control strain (GPL vector) was not changed from GPL 7. These results suggest that orfA, orfB, and orfA-orfB introduced into serotype 7 strain NF 027 were expressed and that they functioned for the modification of GPLs. We investigated the structural definition of these modified GPLs.
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FIG. 3. TLC patterns of alkaline-stable lipids derived from M. intracellulare serotype 7 transformants. GPL 7 and GPL 12 were purified from M. intracellulare serotype 7 strain ATCC 35847 (NF 027) and serotype 12 strain ATCC 35762 (NF103). TLC was developed with a solvent system of chloroform-methanol-water (65:25:4 [vol/vol/vol]). Circled spots indicate prominent GPLs.
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FIG. 4. MALDI-TOF MS spectra of GPLs derived from M. intracellulare serotype 7, serotype 12, and serotype 7 transformants. a.u., absorbance units.
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FIG. 5. Fragment patterns of MALDI-TOF/TOF MS spectra of OSEs in GPLs derived from M. intracellulare serotype 7, serotype 12, and serotype 7 transformants. The MALDI-TOF/TOF MS spectra were acquired using 10 mg/ml 2,5-dihydroxybenzoic acid in ethanol-water (3:7 [vol/vol]) as the matrix; the molecularly related ions were detected as [M + Na]+ in lift-lift mode. The assigned fragment patterns of glycosyl residues are depicted. a.u., absorbance units.
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FIG. 6. Preparative GC-MS spectra of alditol acetate (a and b) and perdeuteromethylated alditol acetate (c and d) derivatives. The patterns of prominent fragment ions are presented. An SP-2380 column was used for the analysis of alditol acetate derivatives. The temperature program was started at 60°C, with an increase of 40°C/min to 260°C and a hold at 260°C for 25 min. An Equity-1 column was used for the perdeuteromethylated alditol acetate derivatives. The temperature program was 80°C for 1 min, with an increase of 20°C/min to 180°C followed by an increase of 8°C/min to 280°C.
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TABLE 2. Summarized structures of OSEs derived from serotype 7 transformants
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FIG. 7. Synthesis of O-methyl groups specific for GPL 7 and GPL 12 in the terminal disaccharide. The structures asterisked in the figure were not detected in this study. Serotype 12-specific O methylations and ORFs responsible for their syntheses are indicated by black arrows.
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4-O-Me-Rha
Rha
Rha
6-d-Tal, indicating that the product from orfA had activity to synthesize an O-methyl group at C-4 in L-Rha next to the terminal Hex (Table 2 and Fig. 7). NF 027 transformed with orfB produced 4N-acyl-4,6-dideoxy-3-O-Me-Hex
Rha
Rha
Rha
6-d-Tal, indicating that the product from orfB had activity to synthesize an O-methyl group at C-3 in the terminal Hex. NF 027 transformed with orfA and orfB produced serotype 12-specific GPL, indicating that these two ORFs were responsible for producing the serotype 12-specific structure. The TLC patterns showed that the migration of GPL 7-orfB was different from that of GPL 7, although the MS data showed that they had the same molecular weight and the same number of methyl groups. A possible explanation for this is that a difference in the position of O methylation could influence hydrogen bond formation and the polarity of the whole molecule and consequently result in a different TLC migration pattern. GPL 7-orfB had an O-methyl group at C-3 but not at C-2 in the terminal Hex, indicating that the reaction of O methylation at C-2 by the 2-O-methyltransferase in serotype 7 is strongly inhibited by O-methylation at C-3. In addition, NF 027 transformed with orfA produced a trace of serotype 7-specifc GPL (Fig. 3, lane 4), and NF 027 transformed with orfA and orfB produced only serotype 12 GPL (Fig. 3, lane 6), suggesting that O methylation at C-2 in the terminal Hex might hinder the reaction of O methylation at C-4 in Rha next to the terminal Hex or that O methylation at C-3 in the terminal Hex might promote the reaction of O methylation at C-4 in Rha. Because it is not likely that M. intracellulare serotypes 7 and 12 independently acquired different methyltransferase genes in the same genetic location between orf1 and orf3, the common ancestor for these two serotypes possibly had all three genes and activated them as the occasion demanded. However, our results showed that reactions of O methylation at C-3 and C-2 in the terminal Hex were competitive (Fig. 3, lane 5, and Table 2). Tsang et al. (26) reported that the frequency of isolation of MAC organisms from AIDS or non-AIDS patients varied among serotypes and that M. intracellulare serotype 12 was isolated more often than serotype 7. These two serotypes of M. intracellulare might have evolved to adapt to certain environments by losing orf2 or orfA-orfB.
Actually, GPLs are among the immunogenic molecules of the MAC. Tassel et al. reported that the core GPL seems to play a role in suppression of a mitogen-induced blastogenic response of spleen cells (25); furthermore, our previous study showed that sera of patients with MAC disease contain antibodies against GPLs and that the antibody level reflects disease activity (17). In addition, the immunomodulating activity of GPLs on macrophage functions is serotype dependent (13, 24). Elucidation of the structure-activity relationship of GPLs is necessary to better understand the pathogenesis of MAC infection.
N.N. is grateful to M. Kai and M. Makino for helpful discussions.
Published ahead of print on 16 November 2007. ![]()
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