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Research Article | Molecular Biology and Physiology

The Two-Component System CopRS Maintains Subfemtomolar Levels of Free Copper in the Periplasm of Pseudomonas aeruginosa Using a Phosphatase-Based Mechanism

Lorena Novoa-Aponte, Cheng Xu, Fernando C. Soncini, José M. Argüello
Craig D. Ellermeier, Editor
Lorena Novoa-Aponte
aDepartment of Chemistry and Biochemistry, Worcester Polytechnic Institute, Worcester, Massachusetts, USA
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Cheng Xu
aDepartment of Chemistry and Biochemistry, Worcester Polytechnic Institute, Worcester, Massachusetts, USA
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Fernando C. Soncini
bInstituto de Biología Molecular y Celular de Rosario, Universidad Nacional de Rosario, Consejo Nacional de Investigaciones Científicas y Técnicas, Rosario, Santa Fe, Argentina
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  • ORCID record for Fernando C. Soncini
José M. Argüello
aDepartment of Chemistry and Biochemistry, Worcester Polytechnic Institute, Worcester, Massachusetts, USA
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Craig D. Ellermeier
University of Iowa
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DOI: 10.1128/mSphere.01193-20
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  • FIG 1
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    FIG 1

    Transcriptional control mediated by TCSs. (A) Activation dynamics of canonical TCSs exemplified with the E. coli Cu-sensing CusRS. (B) Scheme of the TCS P. aeruginosa CopRS regulon. Promoter regions recognized by CopR (yellow rectangles) and transcription direction (red arrowheads) are shown. Overlapping arrows indicate that the start codon of second gene overlaps the stop codon of first gene in both pcoAB and copRS operons.

  • FIG 2
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    FIG 2

    Cu tolerance of ΔcopR and ΔcopS mutant strains. Growth rate of WT, ΔcopR, ΔcopS (PW5705 and PW5706), ΔcopA1, and CopR and CopS complemented strains in the absence or the presence of increasing (0 to 4 mM) concentrations of CuSO4. Data are the mean ± SEM from at least three independent experiments.

  • FIG 3
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    FIG 3

    Whole-cell Cu levels in WT, ΔcopR, ΔcopS, ΔcopA1, and CopR and CopS complemented strains under normal growth conditions (i.e., no additional CuSO4 added) (A) and after 10 min exposure to 2 mM CuSO4 (B) or 4 mM CuSO4 (C). Data are the mean ± SEM from three independent experiments. Significant differences from values with the WT strain as determined by unpaired two-tailed Student’s t test are *, P < 0.05; **, P < 0.01; ***, P < 0.001; ****, P < 0.0001.

  • FIG 4
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    FIG 4

    Expression of genes in the CopRS regulon in WT, ΔcopR, ΔcopS, and corresponding complemented strains in the absence (white) and the presence (black) of 0.5 mM CuSO4 (5-min treatment). Transcript levels of pcoA, pcoB, PA2807, ptrA, and queF genes are plotted relative to that of the housekeeping gene PA4268. Data are the mean ± SEM from three independent experiments.

  • FIG 5
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    FIG 5

    Cu tolerance of ΔcopR and ΔcopS mutant strains complemented with CopR and CopS mutant proteins lacking the phosphorylatable residues. (A) Growth rate of the ΔcopR mutant complemented with copRD51A or copRD51E in the absence or the presence of increasing (0 to 4 mM) concentrations of CuSO4. (B) Growth rate of the ΔcopS mutant complemented with copSH235A in the presence of 0 to 4 mM CuSO4. Data are the mean ± SEM from three independent experiments.

  • FIG 6
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    FIG 6

    Expression of pcoB in ΔcopR and ΔcopS mutant strains complemented with CopR and CopS lacking the phosphorylatable residues. pcoB expression was determined in the absence (white) and the presence (black) of 2 mM CuSO4 (5-min treatment) in the indicated strains. The ΔcopR mutant was complemented with copR coding for substitutions Asp51Ala and Asp51Glu. The ΔcopS mutant was complemented with the copS gene coding for substitution His235Ala. Transcript levels of pcoB are plotted relative to the housekeeping gene PA4268. Data are the mean ± SEM from three independent experiments.

  • FIG 7
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    FIG 7

    Structural superposition of the periplasmic Cu+ binding loop of P. aeruginosa CopS (gray) and E. coli CusS (yellow). The structure of CopS was modeled using the CusS structure as the template (PDB ID: 5KU5 [43]). An overall root mean square deviation of 0.791 Å (Cα atoms) was calculated for the superposition of CopS and CusS structures. Conserved Cu binding sites at the dimeric interface (His41, Phe42, and His140) are shown as sticks in the structural model and highlighted in yellow in the sequence alignment. The Cu+ binding sites within the CusS orange loops (framed in rectangle in the alignment) are not conserved in CopS.

  • FIG 8
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    FIG 8

    Determination of the dissociation constants KD of the periplasmic Cu binding loop of CopS(34–151). (A) Spectrophotometric titration of 100 μM BCA and 18.7 μM Cu+ with 10 to 50 μM His-tagged CopS(34–151). The arrow indicates the decrease in absorbance at 562 nm upon protein addition. The inset shows the fitting of the data set to equation 2 with a KD of (2.77 ± 0.07) × 10−14 M (R2 0.992). Two Cu sites per CopS dimer are assumed. (B) Spectrophotometric titration of 10 μM PAR and 4 μM Cu2+ with 2 to 20 μM Strep-tagged CopS(34–151). The arrows indicate the increase in absorbance at 415 nm and the decrease at 562 nm upon protein addition. The inset shows the fitting of the data set to equation 4 with a KD of (3.3 ± 0.1) × 10−14 M (R2 0.984).

  • FIG 9
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    FIG 9

    Model of the phosphatase-based mechanism of the P. aeruginosa CopRS. Phosphatase On: when periplasmic free Cu remains under the subfemtomolar level, the CopS phosphatase activity maintains low levels of phosphorylated CopR, shutting off the transcriptional response to high periplasmic Cu. Phosphatase Off: upon Cu binding, CopS autophosphorylates at His235. This turns off the CopS phosphatase activity, allowing the accumulation of phosphorylated CopR and triggering the expression of the CopRS regulon (i.e., pcoA, pcoB, queF, PA2807, and ptrA).

Supplemental Material

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  • FIG S1

    Topology, functional domains, and location of transposon insertions in CopS. The periplasmic Cu+ sensor domain of CopS is highlighted (black solid line). His41 and His140 in blue and Phe42 in yellow are the residues forming the metal binding site. The C-terminal, cytoplasmic effector domain (black dotted line) contains the phosphorylatable His235 (red). Both insertional mutants, PW5705 and PW5706, have in-frame stop codons, producing shorter versions of CopS, lacking either part of the Cu binding residues and the effector domain (PW5705) or just the effector domain (PW5706). The CopS topology model was created using the Protter online tool version 1.0 (U. Omasits, C. H. Ahrens, S. Müller, and B. Wollscheid, Bioinformatics 30:884–886, 2014, https://doi.org/10.1093/bioinformatics/btt607). Download FIG S1, PDF file, 0.2 MB.

    Copyright © 2020 Novoa-Aponte et al.

    This content is distributed under the terms of the Creative Commons Attribution 4.0 International license.

  • FIG S2

    Expression of genes in the CopRS regulon in the ΔcopR and ΔcopS mutant strains quantified in the absence (white) and the presence (black) of 0.5, 2, and 4 mM CuSO4 (5-min treatment). Transcript levels of pcoA, pcoB, PA2807, ptrA, and queF genes are plotted relative to that of the housekeeping gene PA4268. Data are the mean ± SEM from three independent experiments. Download FIG S2, PDF file, 0.04 MB.

    Copyright © 2020 Novoa-Aponte et al.

    This content is distributed under the terms of the Creative Commons Attribution 4.0 International license.

  • FIG S3

    Expression of the copRS operon in the ΔcopR and ΔcopS mutant strains quantified in the absence (white) and the presence (black) of 0.5, 2, and 4 mM CuSO4 (5-min treatment). Transcript levels of copR and copS genes are plotted relative to that of the housekeeping gene PA4268. Data are the mean ± SEM from three independent experiments. Download FIG S3, PDF file, 0.03 MB.

    Copyright © 2020 Novoa-Aponte et al.

    This content is distributed under the terms of the Creative Commons Attribution 4.0 International license.

  • FIG S4

    Expression of Cu transporter genes in the ΔcopR and ΔcopS mutant strains quantified in the absence (white) and the presence (black) of 0.5, 2, and 4 mM CuSO4 (5-min treatment) (11). Transcript levels of copA1, coding for the Cu+ efflux P1B-type ATPase CopA1; cusA, a component of the RND CusABC system (A); and oprC, coding for Cu importer OprC (B), are plotted relative to that of the housekeeping gene PA4268. Data are the mean ± SEM from three independent experiments. Download FIG S4, PDF file, 0.04 MB.

    Copyright © 2020 Novoa-Aponte et al.

    This content is distributed under the terms of the Creative Commons Attribution 4.0 International license.

  • FIG S5

    Cu tolerance of ΔackA and Δpta mutant strains. Growth rate of WT, ΔcopR, ΔcopS, ΔackA, and Δpta strains in the presence of 0 to 4 mM CuSO4. Data are the mean ± SEM from at least three independent experiments. Download FIG S5, PDF file, 0.1 MB.

    Copyright © 2020 Novoa-Aponte et al.

    This content is distributed under the terms of the Creative Commons Attribution 4.0 International license.

  • FIG S6

    Multiple sequence alignment of the P. aeruginosa CopRS TCS proteins with bacterial homologs. (A) P. aeruginosa CopR protein sequence was aligned with characterized bacterial RR to identify the conserved phosphorylatable Asp residue (highlighted in blue). (B) P. aeruginosa CopS and E. coli CusS protein sequences were aligned with homologs of both of CopS-like and CusS-like proteins from different species. Conserved Cu binding sites at the dimeric interface are highlighted in yellow. E. coli CusS Cu binding sites, not conserved in CopS, are highlighted in orange. The conserved phosphorylatable His residue is highlighted in blue. UniProt accession numbers precede each species name. Download FIG S6, PDF file, 0.1 MB.

    Copyright © 2020 Novoa-Aponte et al.

    This content is distributed under the terms of the Creative Commons Attribution 4.0 International license.

  • FIG S7

    SDS-PAGE analysis of the periplasmic copper binding loop of CopS(34–151). Ten micrograms of purified His6-tagged (A) or Strep-tagged (B) protein was subjected to 8 to 16% gradient SDS-PAGE. Gels were stained with Coomassie blue G250. Left lanes: molecular weight marker. Right lanes: purified proteins. Arrows indicate the protein monomers and dimers, with expected masses of 19 and 38 kDa, respectively. The presence of the C-terminal His6 tag in CopS(34–151) stabilized the dimer form of the protein. The C-terminal Strep tag did not. The gel shown in panel A was spliced for labeling purposes (blue vertical line). Download FIG S7, PDF file, 1.1 MB.

    Copyright © 2020 Novoa-Aponte et al.

    This content is distributed under the terms of the Creative Commons Attribution 4.0 International license.

  • FIG S8

    Phylogenetic tree of CopS-like and CusS-like proteins. Separately, P. aeruginosa CopS and E. coli CusS were used to find homologs in the UniProtKB database. The top 20 hits (>45% homology) from each BLAST search were aligned with Clustal Omega, and the resulting alignment was used to construct the displayed average distance tree. Different taxa were colored as follows: dark blue, Enterobacterales; cyan, Burkholderiales; and pale violet, Pseudomonadales. UniProt accession numbers precede each species name. Download FIG S8, PDF file, 0.1 MB.

    Copyright © 2020 Novoa-Aponte et al.

    This content is distributed under the terms of the Creative Commons Attribution 4.0 International license.

  • TABLE S1

    Bacterial strains, plasmids, and primers used in this study. Download Table S1, PDF file, 0.1 MB.

    Copyright © 2020 Novoa-Aponte et al.

    This content is distributed under the terms of the Creative Commons Attribution 4.0 International license.

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The Two-Component System CopRS Maintains Subfemtomolar Levels of Free Copper in the Periplasm of Pseudomonas aeruginosa Using a Phosphatase-Based Mechanism
Lorena Novoa-Aponte, Cheng Xu, Fernando C. Soncini, José M. Argüello
mSphere Dec 2020, 5 (6) e01193-20; DOI: 10.1128/mSphere.01193-20

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The Two-Component System CopRS Maintains Subfemtomolar Levels of Free Copper in the Periplasm of Pseudomonas aeruginosa Using a Phosphatase-Based Mechanism
Lorena Novoa-Aponte, Cheng Xu, Fernando C. Soncini, José M. Argüello
mSphere Dec 2020, 5 (6) e01193-20; DOI: 10.1128/mSphere.01193-20
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    • ABSTRACT
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KEYWORDS

Pseudomonas aeruginosa
copper
homeostasis
periplasm
two-component regulatory systems

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