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Journal of Bacteriology, March 2004, p. 1606-1613, Vol. 186, No. 6
0021-9193/04/$08.00+0 DOI: 10.1128/JB.186.6.1606-1613.2004
Copyright © 2004, American Society for Microbiology. All Rights Reserved.
Department of Medical Microbiology and Immunology, University of Alberta, Edmonton, Alberta T6G 2R3, Canada
Received 1 December 2003/ Accepted 3 December 2003
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The individual proteins that comprise the different conjugative systems have conserved motifs, and in particular, Walker-type nucleoside triphosphate (NTP)-binding domains (motif A, GxxGxGKS/T; motif B, hhhhDE, where h indicates a hydrophobic residue [26]) are the most common. Each member of the TraG family of coupling proteins has these domains, but none has been shown to hydrolyze ATP in vitro (27). ATP hydrolysis is predicted to be an in vivo activity of the coupling proteins, resulting in structural rearrangements within the inner membrane gate and possibly energizing substrate translocation through the inner membrane to the Mpf complex (8, 9). NTP-binding motifs also partly define members of the VirB4 family of inner membrane-associated transfer proteins, and it has been speculated that these motifs hydrolyze ATP to power either the assembly of the transfer apparatus or the translocation of substrate (35). Similar to the in vivo results with purified coupling proteins, preparations of the VirB4-related proteins TrbE and TrwK, encoded by plasmids RP4 and R388, respectively, also did not hydrolyze ATP or GTP (24). ATP hydrolysis by TrbE and VirB4 may occur under in vivo conditions, since the NTP-binding motifs are essential for the functioning of both proteins (2, 5, 24). The precise role of the NTP-binding motifs of VirB4-related proteins in the conjugative donor apparatus is ill-defined.
Our study focused on the VirB4-related protein TrhC, an inner membrane-associated Mpf protein required for the conjugative transfer of the large IncHI1 resistance plasmid R27, originally identified in Salmonella enterica serovar Typhi (20, 28). Previously, we created a TrhC-green fluorescent protein (GFP) fusion construct and were able to visualize the cellular location and observe the temperature-dependent assembly of the TrhC-containing protein complexes (7). TrhC was present in membrane-associated protein complexes, visualized as distinct fluorescent foci at the cell periphery. For the present study, our aims were to identify the R27-encoded proteins that are required for the formation of TrhC-containing protein complexes and to characterize the role of the Walker NTP-binding motifs within TrhC in protein complex assembly, DNA transfer, and phage susceptibility.
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0.6, induced with 0.4 mM isopropyl-ß-D-thiogalactopyranoside (IPTG) for 1 h while incubation continued at 28°C, harvested by centrifugation, washed in phosphate-buffered saline (Oxoid), and then imbedded in a translucent nutrient agar slab on a microscope slide, and still images were captured under UV illumination (7). The enumeration of fluorescent foci was performed as described previously (7, 11). For the determination of conjugative transfer frequencies in complementation mating experiments, donor cells (E. coli RG192 or DY330R plus R27 trhC transfer mutant plus trhC-encoding expression vector) were mixed with recipient cells (DY330N) for 18 h and plated on selective media as previously described (19, 31). Hgal bacteriophage spot tests were also performed as previously described (7). |
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TABLE 1. Plasmids and E. coli strains used for this study
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The dependency on transfer proteins other than TrhC-GFP for focus formation signified that the fluorescent foci likely represent transfer protein assemblies. When TrhC-GFP was produced from the expression construct pMWG191, cells were a confluent green (i.e., no foci were present), but in the presence of both wild-type R27 and pMWG191, foci were again observed (7). This implied that R27-encoded proteins were part of a protein complex containing enough TrhC-GFP molecules to be visible. In addition, when three transposon mutants of R27 (trhB, trhE, and trhL mutants) were present with the trhC-gfp expression vector, fluorescent foci were not visible (7), indicating that specific transfer proteins were required for complex assembly.
We previously generated transfer mutants in two separate regions of R27 encoding transfer functions (Tra1 and Tra2) by transposon and site-directed mutagenesis (Table 1), and in this study each of these transfer-deficient mutants was used in conjunction with pMWG191 to evaluate the requirements for TrhC-GFP to enter into membrane-associated protein complexes. Notably, each of the R27 transfer mutants has previously been complemented for transfer by the production in trans of the respective wild-type transfer protein (19, 20); therefore, extreme polar effects caused by the gene disruptions were not observed.
After transformation of the trhC-gfp expression plasmid pMWG191 separately into E. coli cells containing one of the 19 different R27 transfer mutants, preparations of live cells were visualized under UV illumination (Fig. 1). Twelve of the 19 R27 transfer mutants were unable to support the formation of fluorescent foci, as these cells contained, on average, between 0.0 and 0.4 foci per cell, and the percentages of cells containing one focus or more ranged from 0.8 to 15% among the different mutants (Fig. 1). We speculate that in these instances in which a particular mutation prohibits focus formation, the missing transfer protein is a component of the TrhC-GFP-containing complex or is directly required for its assembly. The loss of these requisite components likely results in incomplete (i.e., transfer-deficient) subassemblies that are below the threshold level of visualization.
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FIG. 1. Fluorescence microscopy of live E. coli cells harboring pMWG191 and an R27 transfer mutant. n cells were evaluated for the presence of fluorescent foci by criteria that were described previously (7). Solid-line boxes indicate populations of cells with fluorescence patterns similar to that of R27 plus pMWG191, whereas dashed-line boxes indicate mixed populations, in which a large proportion of individual cells have either foci or homogenous fluorescence.
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In the fluorescence assay, TrhC is produced in two forms: TrhC-GFP (from pMWG191) and TrhC (from all R27 transfer mutants except the trhC mutant). For determination of the effect of coproduction of the two TrhC species on focus formation, cells carrying pMWG191 and wild-type R27 were examined (Fig. 1). The fluorescence patterns of these cells were similar to those of cells carrying pMWG191 and an R27 trhC mutant; therefore, the presence of native TrhC does not affect TrhC-GFP condensation into foci. Furthermore, the overproduction of TrhC-GFP from pMWG191 results in an approximately 2-log unbalanced stoichiometry between the fusion protein and the other transfer proteins (our unpublished observations). The excess TrhC-GFP in cells containing foci was likely seen as the confluent (non-focus-associated) fluorescence, similar to that seen in cells lacking R27 but producing TrhC-GFP.
Generation of NTP-binding motif mutations in trhC and trhC-gfp. We previously cloned trhC into the expression vector pMS119EH to create pMWG36 (Table 1). After site-directed mutagenesis using primers to introduce deletions and substitutions into the Walker A and B motif-encoding regions of trhC (pMWG36) and trhC-gfp (pMWG191) (Fig. 2), the resulting plasmid constructs were transformed into both DY330R cells and DY330R cells containing pDT2969 (an R27 trhC transfer mutant). In the Walker A motif, mutations were introduced in the region encoding Gly-Lys-Ser (GKS). These included the replacement of all three residues with the small, nonpolar amino acid alanine (GKS to AAA), a single Ala substitution of the similarly small, nonpolar Gly (AKS), Gly replaced by a small, polar Ser (SKS), and the more dramatic mutation of Lys (positively charged, polar) to Glu (acidic side chain, polar) (GES). In the Walker B motif, we deleted the Asp-Glu-Ala-Trp (DEAW) subregion and also replaced the highly conserved charged polar residues Asp and Glu (DE subregion) with uncharged Asn (NE) and Glu (EE). We also created a tandem substitution in both the Walker A and B motifs (AAA/EE) by using two successive rounds of primer-mediated site-directed mutagenesis.
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FIG. 2. Fluorescence microscopy of live E. coli cells harboring pMWG191 or derivatives encoding mutations in the Walker A or B motif with (right panels) or without (left panels) pDT2969. n cells were evaluated for the presence of fluorescent foci by criteria that were described previously (7). n.d., not determined.
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0.2 and the percentage of cells having one or more foci was
5.0% (Fig. 2). In contrast, the production of TrhC-GFP (the wild type or NTP-binding motif mutants) within cells containing pDT2969 resulted in an average of
2.9 foci per cell, with
91% of cells having one or more foci (Fig. 2). When the extents of foci present in cells producing wild-type TrhC-GFP and in cells producing mutant TrhC-GFP were compared, little difference was observed. These data indicate that the NTP-binding motifs are not required for the assembly of TrhC-associated transfer protein complexes.
Mutations in the NTP-binding motifs of TrhC prohibit plasmid transfer.
To determine the effect of NTP-binding motif mutations on conjugative transfer, we conducted standard conjugative transfer complementation experiments. The ability of pMWG36 and its derivatives to restore, in trans, the transfer of three different R27 trhC transfer mutants was tested (Table 2). The production of wild-type TrhC from pMWG36 restored the transfer of pDT2957-, pDT2969-, and pDT2978-containing donor cells to wild-type R27 transfer levels (
10-1 transconjugant/donor under these conditions) (data not shown). All mutated pMWG36 constructs had no or severely impaired (>106-fold reduction) complementation of pDT2957- and pDT2978-containing cells (Table 2). The tandem mutation of both the Walker A and B motifs also did not complement transfer, and cumulatively, these results suggest that the NTP-binding motifs of TrhC are required for conjugative DNA transfer. Comparable results were also found during mutational studies of VirB4 from the Ti plasmid (2) and the related TrbE from IncP plasmid RP4 (24).
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TABLE 2. Complementation of conjugative transfer and susceptibility of donor cells containing (i) R27 trhC transfer mutants and ii) pMWG36 or derivatives encoding TrhC Walker motif mutations to a bacteriophage
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It is also possible that recombination between pMWG36 mutants and pDT2969 occurred, generating a self-transferable form of pDT2969 which resulted in the observed transfer events. To rule out this possibility, we used transconjugants from each pMWG36 mutation construct plus pDT2969 mating event as donors. No transconjugants were detected in this subsequent mating (data not shown), suggesting that transconjugants from the primary mating received intact pDT2969, not a recombinant form containing a functional copy of trhC.
Complementation of pDT2969 with Walker B mutation constructs of pMWG36 gave variable results (Table 2). The deletion of amino acids DEAW or the mutation of Asp to Arg did not support transfer, whereas a mutation of Asp to Glu decreased transfer only
1,000-fold. The capability of the Asp-Glu mutation to partially complement transfer may result from the subtle biochemical difference between these two amino acids.
Mutations in the NTP-binding motifs of TrhC prohibit phage uptake and propagation. Another characteristic we used to determine the functionality of trhC clones encoding NTP-binding motif mutations was the susceptibility of donor cells to a pilus-specific bacteriophage that lyses cells with functional Mpf determinants. By using Hgal, a bacteriophage specific for IncH plasmid-containing cells (22), we were able to determine which donor cells harboring pDT2957, pDT2969, or pDT2978 plus pMWG36 or pMWG36 derivatives were vulnerable to this RNA phage (Table 2). For those cells containing wild-type pMWG36 and any of the three R27 transfer mutants, there was significant lysis, whereas cells containing any of the pMWG36 constructs encoding mutations in the trhC Walker motifs and any of the three R27 trhC transfer mutants were resistant to Hgal (Table 2). Phage susceptibility depends on the Mpf proteins, and the inability of TrhC NTP-binding motif mutants to support this function (or conjugative transfer) indicates that these are critical domains for the overall functions supplied by TrhC.
Production and stability of TrhC and TrhC-GFP. Mutations made in the Walker A and B motifs of TrhC and TrhC-GFP and the expression of TrhC-GFP in cells containing different complements of transfer proteins could result in an altered stability of TrhC and TrhC-GFP. If this is true, insufficient amounts of TrhC protein may be present to support the complementation of conjugative transfer or the formation of fluorescent foci. For determination of the level of intact TrhC or TrhC-GFP produced in each strain during fluorescence, complementation, and bacteriophage susceptibility assays, whole-cell lysates were probed with an anti-TrhC polyclonal serum (Fig. 3). In all circumstances, either TrhC or TrhC-GFP was detected in cells carrying R27 transfer mutants and pMWG36 or pMWG191. The predominate species detected in each lysate correlated to whole TrhC or TrhC-GFP, and few degradation products were observed. These data suggest that the reduced transfer frequency of R27 when supported by a TrhC Walker A or B mutant resulted from the alteration of the NTP-binding domain rather than from decreased stability of the mutants. Additionally, the stability of TrhC-GFP was not drastically influenced by the absence of individual transfer proteins; therefore, the deficiency of foci produced by 12 R27 transfer mutants is likely due to the necessity of those transfer proteins for protein complex assembly rather than to TrhC-GFP degradation in their absence.
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FIG. 3. Production and stability of TrhC and TrhC-GFP. A polyclonal TrhC antiserum (7) was used in an immunoblot to detect TrhC or TrhC-GFP in whole-cell lysates of IPTG-induced cultures harboring wild-type or mutant pMWG36 or pMWG191 plus pDT2969 (A) or pMWG191 plus R27 (B) transfer mutants. Underlined residues indicated amino acid substitutions in subregions of the Walker A (GKS) and/or Walker B (DEAW) motif. -, whole-cell lysate of RG192 plus pDT2969 used as a negative control. Approximately equal amounts of total protein were loaded from each lysate, as the amount of sample used was equalized by using optical density measurements of each culture prior to sample preparation and was verified by Coomassie-stained sodium dodecyl sulfate-polyacrylamide gel electrophoresis (data not shown).
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In our experimental system, GFP foci represent clusters of protein, since a lone GFP molecule would be undetectable as a discrete signal. We predict that foci represent heterologous complexes of transfer proteins composed partly of TrhC-GFP rather than homogenous assemblies of TrhC-GFP molecules. The complex nature of a TrhC-GFP focus was revealed by the dependence on 12 other Trh and Tra proteins for assembly. Eleven of the 12 proteins that are essential for TrhC-GFP focus formation have been classified as Mpf proteins, with the only exception being TraJ. This transfer protein is predicted to have four transmembrane domains by the program TMHMM (16) and is therefore likely to be an inner membrane-associated protein (data not shown). TraJ could possibly interact with other transfer proteins at this cellular location. The protein complex represented as a fluorescent focus may therefore be a subassembly composed of select cell envelope-associated transfer proteins, including both Mpf and non-Mpf proteins.
Distinct protein subcomplexes have also been characterized from the VirB T-DNA transfer apparatus of Agrobacterium tumefaciens that are not composed of the entire complement of VirB proteins but are hypothesized to be the core for construction of the remainder of the transfer apparatus (14, 15). These include complexes of VirB6-B8-B9 which can form independently of the other Vir proteins (14) and a VirB7-B9-B9-B10 complex that was extracted from the membrane of A. tumefaciens (15). VirB8 was observed to be essential for the assembly of VirB9- and VirB10-associated protein complexes (17). There is no evidence that the 12 transfer proteins required for the formation of TrhC-GFP foci participate in direct interactions with TrhC. Instead, these proteins may cumulatively represent a network of interacting proteins of which TrhC is a member. The assembly of this network of proteins may be ordered, and the loss of an initializing component would likely prevent complete assembly, observed in this study as the absence of fluorescent foci. Furthermore, TraA, TraK, TraG, and TraI are each not required for focus formation, but their absence caused a 25 to 53% reduction in the number of cells containing foci. These proteins may be part of the interaction network but may play an auxiliary role in complex assembly and are not absolutely required. The R27 type IV secretion coupling protein TraG has been demonstrated to interact with the Mpf protein TrhB (6), and this may account for the observed influence of TraG on TrhC-associated complex assembly, of which TrhB is a member. The TraG-TrhB interaction and the influence of TraG on the TrhC-containing complex highlight the relationship of the different structures that compose the transfer apparatus: distinct subassemblies and complexes may be observed, but the coordination of all of the elements as a singular unit may ultimately be required for its functioning.
The precise functional role of TrhC (and TrhC NTP-binding motifs) in the transfer apparatus is undetermined. Our results suggest that the functioning of the transfer system (including DNA transfer and pilus production) is dependent on the NTP-binding motifs of TrhC but that the assembly of the apparatus is not. We demonstrated that numerous mutations affecting the TrhC NTP-binding domains had little effect on the formation of the TrhC-associated subassembly of transfer proteins. It has also been suggested that the assembly of VirB protein subcomplexes does not require NTP binding or metabolism by VirB4 (4). VirB4 Walker A motif mutants did not diminish the stimulated uptake of plasmid RSF1010 in recipient cells producing a subset of the VirB proteins, including the VirB4 mutants (4). Although NTPase activity has not been demonstrated for TrhC or any related proteins in vitro, the in vivo conditions may support this energy-providing function for the translocation of DNA and/or pilin substrates.
This work was supported by a Canadian Institutes of Health Research grant to D.E.T. and M.W.G., an Alberta Heritage Foundation for Medical Research (AHFMR) Scientist award to D.E.T., and an AHFMR studentship and an Honorary Izaak Walton Killam Memorial Scholarship to M.W.G.
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