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Updated: Aug 16, 2026

Generation of In-Frame Gene Deletion Mutants in Pseudomonas aeruginosa and Testing for Virulence Attenuation in a Simple Mouse Model of Infection
Published on: January 8, 2020
Ciprofloxacin induction of a susceptibility determinant in Pseudomonas aeruginosa
Michelle D Brazas1, Robert E W Hancock
1Centre for Microbial Diseases and Immunity Research, Room 232, 2259 Lower Mall Research Station, University of British Columbia, Vancouver, British Columbia, Canada.
Abstract:
With few novel antimicrobials in development, resistance to the current selection of antibiotics increasingly encroaches on our ability to control microbial infections. One limitation in our understanding of the basis of the constraints on current therapies is our poor understanding of antibiotic interactions with bacteria on a global scale. Custom DNA microarrays were used to characterize the response of Pseudomonas aeruginosa to ciprofloxacin, a fluoroquinolone commonly used in therapy against chronic infections by this intrinsically resistant bacterium. Of the approximately 5,300 open reading frames (ORFs) on the array, 941 genes showed statistically significant (P = 0.05) differential expression in response to 0.3x MIC of ciprofloxacin; 554 were promoted and 387 were repressed. Most striking among the responsive genes was the region between PA0613 and PA0648, which codes for the bacteriophage-like R2/F2 pyocins. In this region, virtually every ORF was increased by 0.3x MIC of ciprofloxacin and even more dramatically up-regulated (7- to 19-fold) following treatment with 1x MIC of ciprofloxacin. Pyocin gene expression was confirmed with lux reporter mutants and real-time PCR studies; pyocin-like particles were also present in transmission electron micrographs of supernatants from cells treated with 1x MIC of ciprofloxacin. Interestingly, mutants in this region exhibited >/=8-fold-increased resistance to ciprofloxacin and other fluoroquinolones, demonstrating that this region is a susceptibility determinant. Since this region is known to be variably present in the genomes of clinical isolates of P. aeruginosa (R. K. Ernst et al., Environ. Microbiol. 5:1341-1349, 2003, and M. C. Wolfgang et al., Proc. Natl. Acad. Sci. USA 100:8484-8489, 2003), these findings demonstrate that the R2/F2 pyocin region is a "loaded gun" that can mediate fluoroquinolone susceptibility in P. aeruginosa.
Insights
The R2/F2 pyocin region in Pseudomonas aeruginosa significantly impacts fluoroquinolone resistance. Upregulation of these pyocins increases bacterial resistance, highlighting a novel target for antimicrobial development.
Area of Science:
- Microbiology
- Genomics
- Antimicrobial Resistance
Background:
- Limited novel antimicrobials and increasing antibiotic resistance pose significant threats to public health.
- Understanding global antibiotic-host interactions is crucial for developing effective therapies.
- Pseudomonas aeruginosa is an intrinsically resistant bacterium often treated with fluoroquinolones.
Purpose of the Study:
- To globally characterize the gene expression response of Pseudomonas aeruginosa to ciprofloxacin.
- To identify specific genetic regions involved in bacterial response and resistance to fluoroquinolones.
Main Methods:
- Custom DNA microarrays were employed to analyze differential gene expression.
- Real-time PCR and lux reporter mutants were used to confirm pyocin gene expression.
- Transmission electron microscopy visualized pyocin-like particles.
Main Results:
- Ciprofloxacin treatment (0.3x and 1x MIC) significantly altered the expression of 941 genes in P. aeruginosa.
- The bacteriophage-like R2/F2 pyocin region showed dramatic up-regulation (7- to 19-fold) with ciprofloxacin exposure.
- Mutants lacking the R2/F2 pyocin region exhibited an 8-fold increase in resistance to ciprofloxacin and other fluoroquinolones.
Conclusions:
- The R2/F2 pyocin region acts as a susceptibility determinant for fluoroquinolones in P. aeruginosa.
- This region, variably present in clinical isolates, represents a potential target for novel antimicrobial strategies.
- The R2/F2 pyocin region is a critical factor mediating fluoroquinolone susceptibility in this pathogen.
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