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bioRxiv · 10.1101/2025.06.03.657621

Evolutionary trajectories determine the feasibility of collateral sensitivity based antibiotic treatment strategies in critical bacterial pathogens

Brandis, G.·Chauhan, V.·Enkvist, L.·Chukhareva, Y.·Damell, C.·Cruz Davila, E.·Islam, T. M.·Melander, G.·Paulsson, E.·Sundell, A.·Zweifel, E.·Knöppel, A.
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Abstract

The rise of antibiotic resistance among pathogenic bacteria necessitates innovative therapeutic strategies. A promising technique is the use of collateral sensitivity where resistance to one antibiotic increases susceptibility to another. In this study, we explored the clinical relevance of collateral sensitivity through experimental evolution and genetic engineering in six critical bacterial pathogens using 23 distinct antibiotics. Our in-depth analysis of Escherichia coli showed that clinically relevant resistance mutations did not confer collateral sensitivity to the tested antibiotics. We were able to identify at least three new classes of ciprofloxacin-resistance mutations that cause collateral sensitivity to multiple antibiotics. However, these mutations incur significant fitness costs and are absent in ciprofloxacin-resistant clinical isolates. Our further analysis showed that the development of collateral effects differed significantly between the tested species. Most species showed development of collateral sensitivity to gentamicin during ciprofloxacin-resistance evolution but Acinetobacter baumanii developed collateral resistance instead. Overall, Pseudomonas aeruginosa showed the most consistent development of collateral sensitivity among the tested species, highlighting it as a promising candidate for the use of collateral-sensitivity-based treatment strategies. Our findings provide insights into the potential of collateral sensitivity as a therapeutic strategy and contribute to the development of more effective antibiotic treatment regimens.

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Brandis, G., Chauhan, V., Enkvist, L., Chukhareva, Y., Damell, C., Cruz Davila, E., Islam, T. M., Melander, G., Paulsson, E., Sundell, A., Zweifel, E., Knöppel, A.. 2025-06-04. Evolutionary trajectories determine the feasibility of collateral sensitivity based antibiotic treatment strategies in critical bacterial pathogens. https://doi.org/10.1101/2025.06.03.657621

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