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A Genetic Analysis of the Functional Interactions within Mycobacterium tuberculosis Single-Stranded DNA Binding Protein

  • Kervin Rex ,

    Contributed equally to this work with: Kervin Rex, Sanjay Kumar Bharti

    Affiliation Department of Microbiology and Cell Biology, Indian Institute of Science, Bangalore, India

  • Sanjay Kumar Bharti ,

    Contributed equally to this work with: Kervin Rex, Sanjay Kumar Bharti

    Affiliation Department of Microbiology and Cell Biology, Indian Institute of Science, Bangalore, India

  • Shivjee Sah,

    Affiliation Department of Microbiology and Cell Biology, Indian Institute of Science, Bangalore, India

  • Umesh Varshney

    varshney@mcbl.iisc.ernet.in

    Affiliations Department of Microbiology and Cell Biology, Indian Institute of Science, Bangalore, India, Jawaharlal Nehru Centre for Advanced Scientific Research, Bangalore, India

Abstract

Single-stranded DNA binding proteins (SSBs) are vital in all organisms. SSBs of Escherichia coli (EcoSSB) and Mycobacterium tuberculosis (MtuSSB) are homotetrameric. The N-terminal domains (NTD) of these SSBs (responsible for their tetramerization and DNA binding) are structurally well defined. However, their C-terminal domains (CTD) possess undefined structures. EcoSSB NTD consists of β1-β1′-β2-β3-α-β4-β451-β452-β5 secondary structure elements. MtuSSB NTD includes an additional β-strand (β6) forming a novel hook-like structure. Recently, we observed that MtuSSB complemented an E. coli Δssb strain. However, a chimeric SSB (mβ4-β5), wherein only the terminal part of NTD (β4-β5 region possessing L45 loop) of EcoSSB was substituted with that from MtuSSB, failed to function in E. coli in spite of its normal DNA binding and oligomerization properties. Here, we designed new chimeras by transplanting selected regions of MtuSSB into EcoSSB to understand the functional significance of the various secondary structure elements within SSB. All chimeric SSBs formed homotetramers and showed normal DNA binding. The mβ4-β6 construct obtained by substitution of the region downstream of β5 in mβ4-β5 SSB with the corresponding region (β6) of MtuSSB complemented the E. coli strain indicating a functional interaction between the L45 loop and the β6 strand of MtuSSB.

Introduction

Single-stranded DNA binding protein (SSB) binds single-stranded DNA in a sequence independent manner during major DNA transactions such as DNA replication, repair and recombination [1][5]. Besides their crucial function in DNA transactions, they protect transiently generated single-stranded DNA (ssDNA) from nucleases or chemical attacks [6]. The eubacterial SSBs contain subunits with a similar basic fold, but may exhibit variations in their quaternary association [7]. SSBs possess an oligonucleotide-binding fold (OB-fold) in the N-terminal domain responsible for their oligomerization and DNA binding. The conserved C-terminal acidic tail of SSBs is important in protein-protein interactions [8][11]. One of the features of EcoSSB, important for its in vivo function, is the dynamic transition in its modes of DNA binding [6], [12]. SSB binds to ∼35 nucleotides by two of its subunits known as SSB35 mode and is required for unlimited cooperatively. While all the four subunits bind to ∼56 or ∼65 nucleotides in a limited cooperative manner known as SSB56 or SSB65 modes, respectively [13][16].

The crystal structures of SSB in free and DNA bound forms have provided valuable information to understand their function [17], [18]. EcoSSB monomer consists of an N-terminal domain (∼115 amino acids) of defined structure, and the C-terminal domain whose three dimension structure is not available. The tertiary structure of the N-terminal domain of EcoSSB is defined by the presence of β1-β1′-β2-β3-α-β4-β451-β452-β5 secondary structure elements (Fig. 1). In the X-ray crystal structure, one of the β hairpin loops (L45) with well-defined electron density connects β4 and β5. Structural studies of EcoSSB suggested that its quaternary association is mediated by the L45 loops as well as by the six-stranded β-sheets formed by the dimers [17]. Furthermore, the L45 loop undergoes a significant change upon binding to DNA [18]. Functional importance of this movement, however, remains unclear.

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Figure 1. Comparison of EcoSSB and MtuSSB.

(A) EcoSSB and MtuSSB sequences were aligned with ClustalW program. Identical amino acid residues (*), very similar amino acid residues (:) and similar amino acid residues (.) are indicated. Secondary structural elements (α helix and β strands) are shown as per EcoSSB nomenclature [17]. Acidic amino acids in MtuSSB L45 region are highlighted in ‘red’. (B) DNA binding domains of EcoSSB and MtuSSB tertiary structures were superposed using Pymole. Various secondary structural elements mentioned in Fig. 1A are indicated. L45 loop in both the SSBs (connecting β451 and β452) are also indicated.

https://doi.org/10.1371/journal.pone.0094669.g001

MtuSSB shares ∼30% identity and ∼39% similarity with EcoSSB in its primary sequence. The secondary structure involved in OB-fold is very similar in the two SSBs except for the presence of a novel β6 strand (numbered according to EcoSSB, 17) downstream of the β5 in MtuSSB (Fig. 1). While both the SSBs share overlapping tertiary structures, there are notable variation in their quaternary associations due to the presence of the β6 strand in MtuSSB [19]. Although a role for β6 strand in providing stability through the formation of a clamp like structure has been suggested in the mycobacterial SSBs [19][21] its biological importance is unknown.

Recently, using an in vivo assay wherein replication of the resident ssb support plasmid in an E. coli strain deleted for its chromosomal copy of ssb gene could be selectively blocked, we showed that overexpression of MtuSSB complemented E. coli [22]. However, a chimeric SSB (mβ4-β5), wherein the β4-β5 region (which possess the L45 loop) of EcoSSB was replaced with the corresponding secondary structure elements of MtuSSB, did not complement the strain [22]. This suggested that the L45 loop might be involved in specific interactions within MtuSSB. In this study, we have designed additional chimeric constructs to uncover the importance of such interactions between the MtuSSB L45 loop and the novel β6 strand for its function in E. coli.

Material and Methods

DNA oligomers, bacterial strains and media

DNA oligomers (Table 1) were obtained from Sigma-Aldrich, India. E. coli strains (Table 1) were grown in Luria-Bertani (LB) medium. LB-agar contained 1.6% (w/v) agar (Difco, USA) in LB. Ampicillin (Amp, 100 μg ml−1), kanamycin (Kan, 25 μg ml−1), tetracycline (Tet, 7.5 μg ml−1), or chloramphenicol (Cam, 15 μg ml−1) were added to growth media as required.

Cloning, overexpression, purification and gel filtration analysis of SSBs

Standard recombinant DNA methods and site directed mutagenesis [23] were used to generate chimeric SSBs (Table 1, and Methods S1). SSB open reading frames were subcloned into pTrc99C, pBAD/HisB and pET11d vectors, purified and stored in 50 mM Tris-HCl, pH 8.0, 0.1 mM Na2EDTA, 500 mM NaCl and 10% glycerol [22]. Oligomeric status of SSBs was determined by gel filtration chromatography [22], [24].

Electrophoretic mobility shift assays (EMSA)

SSB tetramers (0.2, 2 and 10 pmol) were mixed with 5′ [32P] - end labeled 79mer DNA oligomer (1 pmol, ∼20,000 cpm) in 15 μl reactions containing 20 mM Tris-HCl, pH 8.0, 50 mM NaCl, 5% glycerol (v/v) and 50 μg/ml BSA, incubated for 30 min at 4°C and electrophoresed on 8% native-PAGE (30∶0.5, acrylamide:bisacrylamide) using 1× TBE (Tris-Borate-Na2EDTA) for 1–2 h at 15 V cm−1 in cold room, and visualized by BioImage Analyzer (FLA5000, Fuji).

Complementation analysis

The complementation assays were performed using a recently described revised plasmid bumping method [22]. Briefly, the pBAD based expression constructs were introduced into E. coli RDP317-1 harboring pHYDEcoSSB as support plasmid (ColE1 ori, CamR, whose replication is dependent on the presence of isopropyl-β-D-thiogalactopyranoside, IPTG) and the transformants were selected on LB agar containing Kan, Amp and 0.02% arabinose (or Kan, Amp and 0.5 mM IPTG, as control). The isolated colonies were streaked on LB agar containing Kan and Amp with various concentration of arabinose.

Growth curve analysis

Freshly isolated transformants were inoculated in LB containing Kan, Amp and 0.02% arabinose to obtain late stationary phase cultures; and inoculated at 0.1% level in LB containing Kan, Amp and arabinose (as indicated) in the honeycomb plates. The growth was recorded at 600 nm using Bioscreen C growth reader (OY growth, Finland) at 37°C on an hourly basis. Average values (±SEM) were plotted.

Microscopic studies

Freshly isolated transformants of E. coli Δssb strain harboring pBAD based SSB constructs were grown to log phase (7–9 h in 2 ml LB containing arabinose). Bacterial cells were collected by centrifugation, fixed with 4% paraformaldehyde, kept on poly-L-lysine treated multi-well slide, washed with PBS and visualized in fluorescence microscope (ZEISS, Axio Imager) with a 100× objective lens [22].

Results

Experimental rationale and generation of SSB chimeras

The N-terminal domain of EcoSSB is defined by β1-β1′-β2-β3-α-β4-β451-β452-β5 as its secondary structure elements (Fig. 1A). The N-terminal domain of MtuSSB, in addition possesses a β6 strand (Fig. 1), which causes a notable variation in its quaternary structure by the formation of a clamp like structure at the dimeric interface of the interacting subunits [19]. The C-terminal domains of both the SSBs possess acidic tails important in protein-protein interactions during various DNA transactions [8][11].

Recently, we observed that MtuSSB sustained E. coli for its essential function of SSB [22]. However, the mβ4-β5 SSB, wherein amino acids 74 to 111 (comprising β4, β451, β452 and β5 strands) were replaced with the corresponding region of MtuSSB, failed to sustain E. coli despite its normal oligomerization and DNA binding properties. Another chimera, mβ1-β5 wherein the β1-β5 elements of EcoSSB were replaced with the corresponding elements of MtuSSB, conferred filamentation phenotype to E. coli. However, the mβ1-β6 SSB with the entire N-terminal domain of MtuSSB (i. e. including the β6 strand) fused to the C-terminal domain of EcoSSB, functioned well in E. coli [22]. These observations suggested specific interaction of β4-β5 region of MtuSSB with the β6 region of MtuSSB. To study the functional importance of such an interaction and to further our understanding of the structure-function relationship of eubacterial SSBs, we generated additional chimeric SSBs (Fig. 2).

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Figure 2. Schematic representation of various SSB constructs.

Secondary structure elements of N-terminal domain of MtuSSB and EcoSSB are represented in red and green, respectively. The beginning and end of structural unit are also numbered in the same color. The C-terminal domains are shown by discontinuous lines. SSB chimeras are shown in respective colors.

https://doi.org/10.1371/journal.pone.0094669.g002

The mβ4-β5 SSB was modified to generate mβ4-β5 (acidic), and mβ4-β6 SSBs. One of the distinctive features of the region between the β4 and the β5 strands of MtuSSB is that, unlike EcoSSB, it possesses a number of acidic residues (Fig. 1A). Hence, these residues were changed to EcoSSB specific sequences in a chimera designated mβ4-β5 (acidic) by mutating E90, T91, E95, K96, E103, D105, and E106 within MtuSSB region of β4-β5 to T90, D91, Q95, D96, V103, N105 and V106, respectively. To generate mβ4-β6, MtuSSB sequence corresponding to amino acids 74–111 in mβ4-β5 was extended to 131 to include β6 of MtuSSB. Among other constructs, mβ1-α contained the first 73 amino acids (consisting of β1-α structural elements) from MtuSSB and the amino acid 74 to the end from EcoSSB. In mβ6 SSB, the β6 strand and the downstream spacer sequences of MtuSSB (amino acid 114 to 133) substituted the corresponding region of EcoSSB. The remainder of the sequences (the N-terminal region consisting of the first to 113 amino acids and the C-terminal region (amino acids 134 to the end) were from EcoSSB. The mβ6-CTD contains the β6 strand and the C-terminal region (amino acid number 114 to the end) from MtuSSB whereas, the N-terminal region (the first 113 amino acids) from EcoSSB. Lastly, the mCTD construct contains only the C-terminal region from MtuSSB (amino acid number 129 to the end) and the N- terminal and the spacer sequences (first 128 amino acids) of EcoSSB. More details of generation of these constructs are provided in Methods S1 and Table S1.

Oligomerization of the chimeric SSBs

All SSBs were purified and analyzed by gel filtration chromatography to determine their oligomerization status (Fig. 3). Elution profile of the chimeric SSBs was very similar to those of the wild-type EcoSSB and MtuSSB suggesting that they folded properly and formed homotetramers.

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Figure 3. Oligomerization status of SSB proteins.

Standard curve Ve/Vo versus log molecular size markers is shown in the left most panel. Ve represent the peak elution volume of proteins and Vo represents the void volume of the column determined using blue dextran (2,000 kDa). Protein size markers [β-galactosidase (116 kDa), elongation factor-G (77 kDa), bovine albumin (66 kDa), egg albumin (44 kDa) and carbonic anhydrase (29 kDa)] were used to make the plot. The tetramer peak corresponding to EcoSSB is indicated. Panels (A) to (I) show the gel filtration chromatography elution profiles of SSB proteins. Vo and Ve of each SSB is indicated.

https://doi.org/10.1371/journal.pone.0094669.g003

DNA binding properties

To demonstrate the DNA binding abilities of various SSB constructs, we performed electrophoretic mobility shift assays (EMSA) using 32P labeled 79mer DNA. Using this assay (Fig. 4), EcoSSB and MtuSSB form a faster migrating complex under limiting SSB concentration (Complex I). As the concentration of SSB increases, a second slower migrating band (Complex II) appears. Based on their mobility, these complexes potentially correspond to the SSB56/65 and SSB35 modes of DNA binding, respectively. More importantly, within the detection limits of this assay, all the chimeric SSBs reveal DNA binding similar to the parent SSBs (compare panels 4A and 4B with 4C to 4H), suggesting that the quaternary structures of the chimeric SSBs are largely unaffected by the mutational manipulations performed to generate them.

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Figure 4. Electrophoretic mobility shift assays using 32P labeled 79mer ssDNA.

DNA oligomer (1 pmol) was mixed with 0.2 pmol, 2 pmol or 10 pmol SSB tetramer (as indicated) for 30 min and analyzed on native PAGE (8%). DNA binding resulted in ‘Complex I’ at lower protein concentrations and ‘Complex II’ at higher protein concentrations.

https://doi.org/10.1371/journal.pone.0094669.g004

Functionality of SSB chimeras in E. coli

Recently, we described a sensitive assay to assess the functionality of a test SSB using a modification of the original ‘plasmid bumping method’ [22], [25]. In the revised assay, the test ssb construct (on a ColE1 ori plasmid, AmpR) is introduced in a Δssb (ssb::kan) strain of E. coli (RDP317-1, KanR) harboring a plasmid borne support of wild-type ssb on another ColE1 ori plasmid, pHYDEcoSSB (CamR). The replication of pHYDEcoSSB is dependent on the presence of IPTG. Hence, withdrawal of IPTG from the growth medium results in the loss of the support plasmid (pHYDEcoSSB) and failure of the strain growth unless sustained by the test SSB. Growth of the original transformants of the test ssb plasmid on plate lacking IPTG, together with the loss of CamR phenotype, suggests that the test ssb complemented the Δssb strain of E. coli for its function of SSB. An advantage of this assay is that the in vivo activity of even a weakly functioning SSB can be assessed (fitness disadvantage of the test ssb, if any, is avoided by selectively blocking replication of the original ssb support plasmid).

Using this method, we checked the in vivo activity of various SSB constructs subcloned into a ColE1 ori (AmpR) plasmid wherein their expression was inducible by arabinose (the pBAD series of constructs, Table 1). As shown in Fig. 5A, all constructs showed expression of the corresponding SSBs in E. coli TG1. Subsequently, to check for their in vivo function, the ssb constructs were introduced into RDP317-1 strain (KanR) harboring pHYDEcoSSB (CamR), and the transformants were selected on Kan, Amp and 0.02% arabinose plates either containing or lacking IPTG. An analysis of the plating efficiencies (obtained from the ratios of transformants on the –IPTG to +IPTG plates) is shown in Table 2. The mβ4-β5(acidic) SSB did not complement the Δssb strain of E. coli suggesting that conversion of mβ4-β5 SSB to mβ4-β5(acidic) SSB does not make it functional in E. coli. However, transplantation of the β6 region of the MtuSSB into the mβ4-β5 construct in mβ4-β6, resulted in an efficient rescue of the Δssb strain of E. coli suggesting a functional interaction between the β4-β5 and the β6 regions of MtuSSB. Interestingly, substitution of the unstructured region of EcoSSB downstream of its β5 region with the β6 region of MtuSSB in mβ6 SSB, maintained its activity suggesting that the β4-β5 region of EcoSSB is tolerant of its downstream sequences.

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Figure 5. Complementation assays with various SSB constructs.

(A) E. coli TG1 strains harboring pBAD constructs of SSBs (as shown) were grown to mid log phase in 2–3 ml cultures. Aliquots (1 ml) were either not supplemented (−) or supplemented (+) with 0.02% arabinose, and grown further for 3 h. Cells were harvested and processed as described [22]. Cell-free extracts (∼10 μg total protein) were resolved on SDS-PAGE (15%). (B) Transformants of E. coli RDP 317 harboring chimeric SSBs obtained in the presence of IPTG were suspended in LB and streaked on LB-agar (Kan, Amp) containing IPTG or arabinose (0.002–0.2%) and incubated at 37°C for ∼12 h. Sectors: 1, pBAD vector; 2, pBADEcoSSB; 3, pBADMtuSSB; 4, pBADmβ4-β5; 5, pBADmβ4-β5(acidic); 6, pBADmβ4-β6; 7, pBADmβ1-α; 8, pBADmβ6; 9, pBADmβ6-CTD;10, pBADmCTD.

https://doi.org/10.1371/journal.pone.0094669.g005

In vivo complementation by various SSB constructs was further validated by streaking of the freshly obtained transformants (Fig. 5B) on plates containing either IPTG (as control) or varying concentrations of the inducer (0.002–0.2% arabinose). As expected from the replication of the pHYDEcoSSB support plasmid in the presence of IPTG, all transformants showed growth on the +IPTG plate. Like the vector control (sector 1), neither the mβ4-β5 nor the mβ4-β5 (acidic) complemented the Δssb strain at any of the arabinose concentrations (sectors 4 and 5). Further, the results of the growth curve analyses (Fig. 6) of the strains harboring SSBs that sustained E. coli are also consistent with the plating efficiency data. Weakly functioning SSBs, in general, resulted in longer lag phases when expression of SSBs was induced with 0.002% arabinose (panel ii). These differences were, however, lost in cultures induced with 0.02% or 0.2% arabinose (panels iii and iv) which result in higher level of expression of these SSBs (Fig. S1). As a control, when the growth curve analyses were carried out in the absence of inducer, arabinose (Fig. 6, panel i) none of the cultures grew confirming that the phenotypes observed in Table 2, and Figs. 5B and 6 (panels ii and iii) are due to the plasmid borne SSBs. The longer lag phases in Fig. 6 (panel ii) could be a stress related phenomenon. Interestingly, we observed that the weakly functioning SSBs also conferred temperature and cold sensitive phenotypes to E. coli for growth at 42°C and 30°C, respectively (Fig. 7). These phenotypes could also be suppressed upon induction of SSB expression with higher concentrations of arabinose. It may also be noted that even under these conditions (temperatures of 42°C or 30°C), the mβ4-β5 and mβ4-β5 (acidic) failed to complement the E. coliΔssb strain (Figs. 7A and 7B, sectors 4 and 5, respectively).

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Figure 6. Growth analysis.

Growth of E. coli RDP317 (Δssb::kan) supported by various SSBs in the absence (panel i) or presence of 0.002, 0.02% or 0.2% arabinose (panels ii, iii and iv, respectively). Averages of the growth of three independent colonies together with SEM are plotted.

https://doi.org/10.1371/journal.pone.0094669.g006

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Figure 7. Growth of E. coli Δssb::kan supported by various SSB constructs at 30°C (A) and 42°C (B).

Transformants of E. coli RDP 317-1 harboring chimeric SSBs were obtained in the presence of IPTG and processed as in Fig. 5B. Sectors: 1, pBAD vector; 2, pBADEcoSSB; 3, pBADMtuSSB; 4, pBADmβ4-β5; 5, pBADmβ4-β5(acidic); 6, pBADmβ4-β6; 7, pBADmβ1-α; 8, pBADmβ6; 9, pBADmβ6-CTD;10, pBADmCTD.

https://doi.org/10.1371/journal.pone.0094669.g007

Microscopic analyses

In our earlier study microscopic analyses of the fixed E. coli cells revealed that the mβ1-β5 SSB, a poorly functioning SSB, resulted in a notable filamentation phenotype [22]. On the other hand, SSBs that functioned, but not as well as EcoSSB, resulted in a slightly elongated cell phenotype. As before, MtuSSB showed a phenotype of slightly elongated cells (Fig. 8, compare panels d and a). However, the mβ4-β6 SSB showed a more pronounced phenotype of the elongated cells (compare panel j with a). The mβ1-α SSB showed a weak phenotype of the elongated cells (compare panels m with a). Interestingly, as in Figs. 6 and 7, overexpression of the SSBs suppressed these phenotypes (compare panels d with e and f; j with k and l; m with n and o).

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Figure 8. Microscopic observations of E. coli Δssb::kan supported by various SSB constructs.

Cultures of E. coli RDP317 (Δssb::kan) transformants harboring various SSB constructs were grown in the presence of indicated concentrations of arabinose and analyzed by phase contrast microscopy. Bars at the lower left of each panel indicate a scale of 2 μm.

https://doi.org/10.1371/journal.pone.0094669.g008

Discussion

Determination of the three-dimensional structure of MtuSSB by X-ray crystallography revealed that while its structure at the tertiary level is very similar to that of EcoSSB, it shows significant variations at the level of quaternary interactions [19]. A notable difference seen at the level of tetramerization of MtuSSB is the presence of a clamp like structure formed by the β6 strand of the mycobacterial SSB [19]. However, it has so far remained unclear as to what the biological significance of this unique structural element of MtuSSB is.

The L45 loop in EcoSSB has been shown to undergo a conformational change upon DNA binding and suggested to be important for its cooperative binding [17], [18]. In addition, the computational analyses suggested that the movements of L45 loop in EcoSSB, MtuSSB, and Streptomyces coelicolor SSB are different [21]. Our observation shows that the mβ4-β5 construct wherein the L45 loop (of MtuSSB origin) is intact does not function in E. coli but the mβ4-β6 SSB wherein a small region (β6) downstream of β5 was also included, does. Together with the biophysical and computational analyses [17], [18], [19], [21], these observations highlight the importance of the functional interactions of the L45 loop with the β6 region. And, some of these interactions may well contribute to the stability of the MtuSSB tetramer predicted from the crystal structure analysis [19]. However, it should also be said that our present study does not allow us to comment on the mechanistic details of such interactions for the SSB function in vivo.

How crucial is the species specificity of these interactions (in the context of SSB tetramer) for SSB function? When we changed this region of EcoSSB with the corresponding region of MtuSSB in the context of E. coli L45 loop, we did not detect a significant defect in the chimeric SSB (mβ6), suggesting that the interactions of the L45 loop with its downstream sequence are more tolerant in EcoSSB. In the context of M. tuberculosis L45, when the entire upstream region of MtuSSB was provided, such as in the mβ1-β5 SSB i. e., wherein the N-terminal domain (β1-β5) of EcoSSB was replaced with the corresponding sequence from MtuSSB, it did sustain E. coli viability but the growth was poor and it resulted in a filamentation phenotype [22]. These observations suggest that the context of both the upstream and the downstream regions (with respect to the L45 loop of MtuSSB) is biologically significant. Lack of either of the regions compromises SSB function in a context dependent manner. However, the chimeras mβ1-α and mβ6-CTD, wherein the entire region upstream of, or downstream of the loop L45 (of EcoSSB), respectively are from MtuSSB, functioned well in E. coli (as did the mβ6). These observations suggest that in EcoSSB, any interactions mediated by the L45 are more tolerant of the neighboring sequences. This is further indicated by the observation (Fig. 6, panel ii) that the construct mCTD (EcoSSB harboring only the CTD from MtuSSB) functioned nearly as well as the mβ6 (harboring only the β6 of MtuSSB) or the mβ6-CTD (harboring the entire region downstream of L45, from MtuSSB). An availability of the three-dimensional structures of the chimeric SSBs may further our understanding of the interactions L45 establishes within SSB.

Finally, the modification [22] of the ‘plasmid bumping’ assay [25] we recently developed has been useful in determining the efficacy of SSB mutants in sustaining E. coli even when they are compromised in their function, and provided with a convenient approach to study the structure-function relationship of the various structural elements of the eubacterial SSBs.

Supporting Information

Figure S1.

SSB expression in response to increasing arabinose concentration in the medium.

https://doi.org/10.1371/journal.pone.0094669.s001

(DOC)

Table S1.

Nucleotide and amino acid sequences of the EcoSSB, MtuSSB and various chimeric SSBs.

https://doi.org/10.1371/journal.pone.0094669.s002

(DOC)

Methods S1.

Details of chimeric SSB constructions.

https://doi.org/10.1371/journal.pone.0094669.s003

(DOC)

Acknowledgments

We thank our laboratory colleagues for their suggestions on the manuscript. UV is a J. C. Bose fellow of DST. SS is Dr. D. S. Kothari post-doctoral fellow.

Author Contributions

Conceived and designed the experiments: UV SB SS KR. Performed the experiments: KR SB SS. Analyzed the data: UV KR SB SS. Contributed reagents/materials/analysis tools: KR SB SS. Wrote the paper: UV SB KR.

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