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Journal of Bacteriology, October 2005, p. 6991-6997, Vol. 187, No. 20
0021-9193/05/$08.00+0 doi:10.1128/JB.187.20.6991-6997.2005
Copyright © 2005, American Society for Microbiology. All Rights Reserved.
Department of Biochemistry and Molecular Biology, School of Medicine, Wayne State University, Detroit, Michigan 48201,1 Department of Biology, McMaster University, Hamilton, Ontario L8S 4K1, Canada2
Received 12 May 2005/ Accepted 27 July 2005
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In response to toxicity, microorganisms have evolved mechanisms for arsenic resistance. Arsenic resistance (ars) genes are common in microbes and are localized to ars operons on either the chromosome or plasmid (11). Many, if not most, ars operons consist of three genes: arsR, arsB, and arsC. ArsR is a trans-acting repressor (23, 25) that senses environmental As(III) and controls the expression of ArsB and ArsC. ArsC is a reductase that reduces As(V) to As(III) (14), while ArsB extrudes As(III) out of the cells by functioning as an As(OH)3/H+ antiporter (10). Therefore, expression of both ArsB and ArsC provides resistance to both As(III) and As(V). In addition to the three-gene chromosomal ars operon, some ars operons such as those carried by Escherichia coli plasmids R773 and R46 have five genes, arsRDABC, that encode two additional proteins, ArsD and ArsA. ArsD exhibits weak As(III)-responsive transcriptional repressor activity (4), and ArsA is an ATPase that forms a complex with ArsB to provide higher levels of As(III) resistance than ArsB alone (15).
While conducting a genomics analysis of the ars operon in microbial populations, we observed that the chromosome sequence of legume symbiont Sinorhizobium meliloti strain Rm1021 (GenBank accession no. AL591786) displays a cluster of four open reading frames (ORFs) that are putative arsenic resistance genes. The first ORF (SMc02647) codes for a hypothetical polypeptide of 137 amino acids that shows sequence similarity to the ArsR subfamily of helix-turn-helix bacterial transcription regulatory proteins. However, the putative S. meliloti ArsR does not contain the N-terminal CXCXXC motif, which has been shown to be required for binding of the inducer arsenite in E. coli and R773 ArsR (19, 25). Instead, S. meliloti ArsR has two pairs of vicinal cysteines located near the C-terminal end of the protein, but the involvement of these thiols in metalloid binding remains to be determined. The second ORF (SMc02648) codes for a putative membrane protein that belongs to the major intrinsic protein or aquaporin superfamily (6) and shows sequence homology with the bacterial glycerol facilitator (GlpF), yeast aquaglyceroporin Fps1p, and mammalian aquaglyceroporin AQP9. This putative 233-residue transmembrane channel will henceforth be referred to as AqpS (aquaglyceroporin from Sinorhizobium). The third ORF (SMc02649) codes for a putative 140-amino-acid arsenate reductase, which is homologous to the E. coli ArsC sequence. The fourth ORF (SMc02650) encodes a 241-residue hypothetical protein designated ArsH and has conserved domains related to the NADPH-dependent flavin mononucleotide reductase class of proteins.
The presence of aqpS in place of arsB in the S. meliloti ars operon is of considerable interest. GlpF, the glycerol facilitator in E. coli and a member of the aquaporin superfamily, was the first to be identified as a trivalent metalloid transporter, responsible for the uptake of antimonite (17) and arsenite (10) and for metalloid sensitivity. Fps1p, the yeast homologue of GlpF, was subsequently shown to be the route of uptake of As(III) in Saccharomyces cerevisiae (24). The mammalian aquaglyceroporin AQP9 has recently been shown to transport both As(III) and Sb(III) (8, 9). In E. coli, uptake of As(III) by GlpF renders cells sensitive to As(III). How can the AqpS channel, which, by analogy with all other aquaporins, can only equilibrate As(III) on both sides of the membrane, replace the ArsB antiporter, whose function is to actively extrude As(III) against a concentration gradient? This apparent paradox can be resolved if the S. meliloti ars operon confers resistance to As(V) but not to As(III). In this scenario, once As(V) enters the cell, it is reduced to As(III) by ArsC. This establishes a concentration gradient of As(III) inside the cell relative to the outside, so that As(III) flows out of the cell through the AqpS channel. In this paper, we provide evidence in support of the hypothesis that AqpS and ArsC together confer a novel pathway of As(V) detoxification in S. meliloti.
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Bacterial strains and growth conditions. The strains and plasmids used in this work are listed in Table 1. S. meliloti cells were grown either in Luria-Bertani (LB) medium (16) supplemented with 2.5 mM CaCl2 and 2.5 mM MgSO4 or in a low-phosphate medium (12). E. coli cells were grown either in LB or low-phosphate medium.
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TABLE 1. Bacterial strains and plasmids
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Disruption of ars genes in S. meliloti. Crossover PCR (21) was used to generate the S. meliloti ars deletion strains. An internal fragment of either the aqpS or arsC gene was deleted and replaced with a short synthetic fragment so that the final PCR product maintained the translational reading frame. The PCR fragment was restricted with SstI and PstI and ligated to similarly digested suicide vector pJQ200mp18 (13). Plasmid pJQ200mp18 is based on the p15A origin of replication and incorporates sacB from Bacillus subtilis, which is inducible by sucrose and is lethal when expressed in S. meliloti. Gene replacement was carried out by mobilizing the deletion-insertion construct from E. coli into S. meliloti Sm1021. Double recombinants were selected on sucrose. The resulting gentamicin-sensitive streptomycin-resistant transconjugants were further analyzed by PCR to verify the expected deletion.
The aqpS gene was deleted by removal of the sequence for amino acids 12 to 177 of the 233-residue AqpS. The deleted region was replaced with a 24-bp synthetic fragment (5'-TGGATCCTGCGCCTCGACGGCATC-3'), coding for amino acids WILRLDGI. Similarly, insertional inactivation of the 140-residue ArsC resulted in deletion of amino acids 15 to 84, which were replaced with the WILRLDGI sequence. To disrupt arsH, an internal fragment of the targeted gene was PCR amplified and cloned upstream of the promoterless reporter gene gusA and tdimer2 in plasmid pTH1469 (J. Cheng and T. M. Finan, unpublished data). This plasmid is unable to replicate in S. meliloti. A single homologous recombination created transcriptional reporter gene fusion with simultaneous disruption of arsH. All primer sequences that were used for the disruption and expression cloning of S. meliloti ars genes will be provided upon request.
Cloning of S. meliloti genes. aqpS, arsC, and arsH genes were amplified from the genomic DNA of S. meliloti, which was purified from an overnight culture of strain Rm1021 by use of the DNeasy tissue kit (QIAGEN). The DNA sequences were amplified by PCR using nucleotide primers complementary to the 5' and 3' regions flanking the open reading frames to produce a PCR fragment with an NcoI site at the 5' end and a HindIII site at the 3' end. A 30-cycle PCR (94°C for 1 min, 55°C for 1 min, and 72°C for 2 min) was performed with strain Rm1021 genomic DNA. The PCR products were ligated to pGEM-T Easy Vector (Promega). The resulting constructs were digested with NcoI and HindIII, and the NcoI-HindIII fragments containing the complete coding sequence for ars genes were ligated to the expression vector pBAD/Myc-HisA, which had been similarly digested. The resulting constructs contained the full-length aqpS, arsC, or arsH gene cloned in frame with the sequence for a C-terminal myc tag and six-histidine tag followed by a stop codon. The correct reading frame was verified by DNA sequencing.
Transport assays. For uptake assays in E. coli, OSBR1 competent cells were transformed with constructs bearing S. meliloti arsenic resistance genes and grown in a low-phosphate medium at 37°C supplemented with 125 µg/ml ampicillin. Overnight cultures were diluted 20-fold in low-phosphate medium containing 0.2% arabinose plus 125 µg/ml ampicillin and grown at 37°C to an A600 of 1. The cells were harvested, washed, and suspended in a buffer consisting of 75 mM HEPES-KOH (pH 7.5) containing 150 mM KCl and 1 mM MgSO4 and brought to an A600 of 10 at room temperature. To initiate the transport assay, 0.1 ml of the concentrated cell suspension was diluted in 1 ml of the same buffer at room temperature containing 50 µM sodium arsenite or sodium arsenate. Samples (0.1 ml) were withdrawn at the indicated times, filtered through 0.2-µm-pore-diameter nitrocellulose filters (Whatman), and washed with 15 ml of the same buffer, all at room temperature. The filters were digested overnight at room temperature with 0.3 ml of concentrated HNO3 (EM Science) (69 to 70%). The dissolved filters were incubated for 10 min at 70°C, allowed to cool to room temperature, and diluted with 5.7 ml of high-pressure-liquid-chromatography-grade water (Sigma) to produce a final concentration of HNO3 of approximately 4%. Standard solutions were made in the range of 0.5 to 150 ppb in 4% HNO3 by use of an arsenic standard (Ultra Scientific). The total arsenic content was determined with a Perkin-Elmer ELAN 9000 inductively coupled plasma-mass spectrometer. Kinetic data were analyzed using SigmaPlot version 9.0.
Metalloid sensitivity assays. For measurement of the As(III) or Sb(III) resistance phenotype, S. meliloti strains were grown for 24 h at 30°C in LB medium supplemented with 2.5 mM CaCl2, 2.5 mM MgSO4, and appropriate antibiotics. The cells were diluted 100-fold into fresh, prewarmed medium with the indicated concentrations of As(III) or Sb(III) and incubated at 30°C with shaking for another 24 h. Growth was estimated from the absorbance at 600 nm. For measurement of the As(V) or Sb(V) resistance phenotype, cells were grown in a low-phosphate medium (12) and processed as described above.
For an E. coli metalloid resistance assay, competent cells of either AW3110 or OSBR1 were transformed with constructs bearing S. meliloti arsenic resistance genes. Assays to determine the As(III) or Sb(III) resistance phenotype were performed in LB medium. Cells were grown overnight at 37°C in LB medium with ampicillin (125 µg/ml). Overnight cultures were diluted 100-fold in fresh LB medium containing various concentrations of As(III) or Sb(III) plus 0.2% arabinose and grown for another 5 h, and the cell density was measured at 600 nm. To determine the As(V) or Sb(V) resistance phenotype, E. coli cells were grown in a low-phosphate medium at 37°C supplemented with 125 µg/ml ampicillin. Overnight cultures were diluted 100-fold in low-phosphate medium containing various concentrations of sodium arsenate and 0.2% arabinose. Growth was estimated from the absorbance at 600 nm after 5 h of growth at 37°C.
Purification of S. meliloti ArsC. S. meliloti ArsC was purified from cultures of E. coli strain TOP10 harboring the S. meliloti ArsC-pBAD/Myc-HisA plasmid. Cells were grown at 37°C in LB medium to an A600 of 0.5, at which point 0.02% arabinose was added to induce ArsC expression. The cells were grown for another 4 h before being harvested by centrifugation. ArsC was purified according to the protocol described previously (26). The concentration of ArsC in purified preparations was determined from the absorbance at 280 nm by use of an extinction coefficient of 2,800 M1 cm1 (5).
Assay of arsenate reductase activity. Arsenate reductase activity was assayed at 37°C using a coupled assay as described previously (18). The assay buffer contained 50 mM MOPS (morpholinepropanesulfonic acid)-MES (morpholineethanesulfonic acid) (pH 6.5), 0.1 mg/ml bovine serum albumin, 0.4 mM NADPH, 1 mM glutathione, 1 µM yeast glutaredoxin, 50 nM yeast glutathione reductase (Calbiochem), and 5 to 10 µM S. meliloti ArsC. Sodium arsenate was added as indicated. Arsenate reductase activity was monitored at 340 nm and expressed as nanomoles of NADPH oxidized per milligram of S. meliloti ArsC by using a molar extinction coefficient of 6,200 for NADPH.
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aqpS), SmK957 (
arsC), and SmK958 (
arsH), respectively. Each of these mutant strains was viable, and their growth rates were similar to that of the wild-type strain in the absence of arsenical salts. Deletion of aqpS resulted in increased resistance to either Sb(III) or As(III), the level of resistance being higher for the former than the latter (Fig. 1). These results are in agreement with earlier observations that deletion of GlpF in E. coli and Fps1p in S. cerevisiae results in increased resistance to trivalent metalloid. These data suggest that AqpS is involved in the uptake of As(III) and Sb(III). In contrast, AqpS-disrupted cells were more sensitive to As(V) than the wild-type cells (Fig. 2, top panel). This is most likely because once As(V) enters the cell through phosphate transport systems, it is reduced to As(III) by ArsC, which then reaches toxic levels due to the absence of the AqpS channel. These results support the hypothesis that AqpS is the primary transport system for As(III) in S. meliloti but functions in efflux, not uptake.
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FIG. 1. Trivalent metalloid sensitivity in ars deletion strains of S. meliloti. Overnight cultures of aqpS-, arsC-, and arsH-deleted S. meliloti were diluted 100-fold into fresh LB medium supplemented with 2.5 mM CaCl2 and 2.5 mM MgSO4 and containing the indicated concentrations of sodium arsenite (top panel) and potassium antimonyl tartrate (bottom panel). After 24 h of growth at 30°C, the absorbance at 600 nm was measured. Strains used: (), S. meliloti Rm1021 (wild type); ( ), SmK956 ( aqpS); ( ), SmK957 ( arsC); ( ), SmK958 ( arsH).
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FIG. 2. Pentavalent metalloid sensitivity in ars deletion strains of S. meliloti. Overnight cultures of aqpS-, arsC-, and arsH-deleted S. meliloti were diluted 100-fold into fresh low-phosphate medium containing the indicated concentrations of sodium arsenate (top panel) and potassium hexahydroxyantimonate (bottom panel). Metalloid resistance assays were performed as described in Materials and Methods. Strains used: (), S. meliloti Rm1021 (wild type); ( ), SmK956 ( aqpS); ( ), SmK957 ( arsC); ( ), SmK958 ( arsH).
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FIG. 3. Arsenite uptake into cells of E. coli OSBR1 ( ars glpF) is facilitated by the S. meliloti aquaglyceroporin channel AqpS. Transport of As(III) (top panel) and As(V) (bottom panel) was assayed as described in Materials and Methods. (), OSBR1; ( ), AqpS-pBAD/Myc-HisA in OSBR1; ( ), AqpS-ArsC-pBAD/Myc-HisA in OSBR1; ( ), AqpS-ArsC-ArsH-pBAD/Myc-HisA in OSBR1.
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Inactivation of the arsH gene resulted in increased sensitivity at low levels of As(III) (Fig. 1, top panel) and, to a lesser degree, As(V) (Fig. 2, top panel). Thus, ArsH also appears to be involved in arsenic detoxification. Finally, each of the S. meliloti ars deletion strains exhibited levels of sensitivity to Sb(V) similar to those seen with the wild-type strain (Fig. 2, bottom panel), indicating that these ars genes are not involved in Sb(V) detoxification.
Complementation studies of S. meliloti ars genes in E. coli strains AW3110 and OSBR1. The S. meliloti aqpS, arsC, and arsH genes were cloned behind the arabinose promoter in plasmid pBAD/Myc-HisA and expressed in E. coli strains AW3110, in which the chromosomal arsRBC operon was lacking (2), and OSBR1, which was created from AW3110 by inserting TnphoA into glpF (17). All complementation experiments were done in the presence of 0.2% arabinose as inducer. None of the S. meliloti ars genes was expressed in the absence of arabinose, as analyzed by immunoblotting (data not shown). Since OSBR1 has a disrupted glpF, it is unable to accumulate As(III) and, consequently, is more resistant to As(III) than AW3110 (Fig. 4, bottom panel). However, upon expression of AqpS in either OSBR1 or AW3110, both strains showed similar sensitivities to As(III) (Fig. 4). When the experiments were conducted in the presence of As(V), there were no differences in phenotypes between the aqpS complemented and parental strains (Fig. 5). These experiments support the hypothesis that AqpS serves as an As(III) channel and does not carry As(V).
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FIG. 4. S. meliloti aqpS and arsC genes do not confer arsenite resistance in E. coli. Arsenite resistance in E. coli strains AW3110 and OSBR1 bearing S. meliloti ars genes was assayed as described in Materials and Methods. Expression of the ars genes was induced with 0.2% arabinose. (Top panel) (), W3110 (wild type); ( ), AW3110; ( ), AqpS-pBAD/Myc-HisA in AW3110; ( ), ArsC-pBAD/Myc-HisA in AW3110; ( ), AqpS-ArsC-pBAD/Myc-HisA in AW3110. (Bottom panel) ( ), W3110 (wild type); ( ), OSBR1; ( ), AW3110; ( ), AqpS-pBAD/Myc-HisA in OSBR1; ( ), ArsC-pBAD/Myc-HisA in OSBR1; ( ), AqpS-ArsC-pBAD/Myc-HisA in OSBR1.
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FIG. 5. S. meliloti aqpS and arsC genes confer arsenate resistance in E. coli. Arsenate resistance in E. coli strain AW3110 and OSBR1 bearing S. meliloti ars genes was assayed as described in Materials and Methods. (Top panel) (), W3110 (wild type); ( ), AW3110; ( ), AqpS-pBAD/Myc-HisA in AW3110; ( ), ArsC-pBAD/Myc-HisA in AW3110; ( ), AqpS-ArsC-pBAD/Myc-HisA in AW3110. (Bottom panel) (), W3110 (wild type); ( ), OSBR1; ( ), AqpS-pBAD/Myc-HisA in OSBR1; ( ), ArsC-pBAD/Myc-HisA in OSBR1; ( ), AqpS-ArsC-pBAD/Myc-HisA in OSBR1.
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FIG. 6. Detoxification of arsenical in E. coli K-12 and S. meliloti 1021. In both E. coli and S. meliloti arsenate is brought into cells by the phosphate transporters. The first step of detoxification involves reduction of arsenate to arsenite by either E. coli or S. meliloti ArsC. Subsequent detoxification steps in E. coli involves removal of the trivalent form of the metalloid from the cytosol by active extrusion through the As(OH)3/H+ antiporter ArsB, while in S. meliloti, the AqpS channel facilitates downhill transport of As(III). Since arsenite can be taken up directly by cells, using either GlpF in E. coli or AqpS in S. meliloti, the detoxification mechanism functions when S. meliloti cells are exposed to arsenate.
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S. meliloti ArsC shows close sequence similarity to R773 ArsC. The catalytic mechanism of the R773 ArsC has been studied in detail, and the S. meliloti enzyme almost certainly uses a similar mechanism (7). S. meliloti ArsC did not show Sb(V)-reductase activity, and S. meliloti ars deletion strains showed levels of sensitivity to Sb(V) similar to those seen with the wild-type strain (Fig. 2, bottom panel). Therefore, AqpS-ArsC combination can provide resistance to As(V) but not Sb(V).
Genomic sequence analysis indicated that only a few other organisms (for example, Mesorhizobium loti, Caulobacter crescentus, and Ralstonia solanacearum) exploit this unique AqpS-ArsC detoxification system. However, the presence of this pathway may be more widespread in organisms that encode an arsenate reductase and an aquaglyceroporin and are exposed primarily to As(V).
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