The DOI matches its Crossref record; 34 of the 34 references it cites were found in a registry or an index.
Minimizing treatment-induced emergence of antibiotic resistance in bacterial infections
Open accessAbstract
Treatment of bacterial infections currently focuses on choosing an antibiotic that matches a pathogen’s susceptibility, with less attention paid to the risk that even susceptibility-matched treatments can fail as a result of resistance emerging in response to treatment. Combining whole-genome sequencing of 1113 pre- and posttreatment bacterial isolates with machine-learning analysis of 140,349 urinary tract infections and 7365 wound infections, we found that treatment-induced emergence of resistance could be predicted and minimized at the individual-patient level. Emergence of resistance was common and driven not by de novo resistance evolution but by rapid reinfection with a different strain resistant to the prescribed antibiotic. As most infections are seeded from a patient’s own microbiota, these resistance-gaining recurrences can be predicted using the patient’s past infection history and minimized by machine learning–personalized antibiotic recommendations, offering a means to reduce the emergence and spread of resistant pathogens.
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Cites
SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing
Bankevich, A., Nurk, S., Antipov, D., Gurevich, A. A., Dvorkin, M., Kulikov, A. S., Lesin, V. M., Nikolenko, S. I., Pham, S., Prjibelski, A. D., et al. (2012) · Journal of Computational Biology · doi:10.1089/cmb.2012.0021 · Cited by 25,987
Identification of acquired antimicrobial resistance genes
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Urinary tract infections: epidemiology, mechanisms of infection and treatment options
Flores-Mireles, A. L., Walker, J. N., Caparon, M., & Hultgren, S. J. (2015) · Nature Reviews Microbiology · doi:10.1038/nrmicro3432 · Cited by 4,213
Mash: fast genome and metagenome distance estimation using MinHash
Ondov, B. D., Treangen, T. J., Melsted, P., Mallonee, A. B., Bergman, N. H., Koren, S., & Phillippy, A. M. (2016) · Genome biology · doi:10.1186/s13059-016-0997-x · Cited by 3,373
Outpatient antibiotic use in Europe and association with resistance: a cross-national database study
Goossens, H., Ferech, M., Vander Stichele, R., & Elseviers, M. (2005) · The Lancet · doi:10.1016/s0140-6736(05)17907-0 · Cited by 3,359
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Cited by
Antibiotic perturbations to the gut microbiome
Fishbein, S. R. S., Mahmud, B., & Dantas, G. (2023) · Nature Reviews Microbiology · doi:10.1038/s41579-023-00933-y · Cited by 440
“Notably, the presence of ARG-encoding pathobionts in the gut is a risk factor for recurrent resistant infections post-treatment 30 .”
BackgroundGood microbes, bad genes? The dissemination of antimicrobial resistance in the human microbiome
Crits-Christoph, A., Hallowell, H. A., Koutouvalis, K., & Suez, J. (2022) · Gut Microbes · doi:10.1080/19490976.2022.2055944 · Cited by 156
Stimuli‐Responsive Hydrogels for Antibacterial Applications
Hao, Z., Li, X., Zhang, R., & Zhang, L. (2024) · Advanced Healthcare Materials · doi:10.1002/adhm.202400513 · Cited by 135
Optimal antibiotic use in the intensive care unit
Micek, S. T., Vazquez Guillamet, M. C., Reynolds, D., Matuszak, S., Kolodziej, L., & Kollef, M. H. (2025) · Critical Care · doi:10.1186/s13054-025-05653-8 · Cited by 11
Confidence-based prediction of antibiotic resistance at the patient level
Inda-Díaz, J. S., Johnning, A., Hessel, M., Sjöberg, A., Lokrantz, A., Helldal, L., Jirstrand, M., Svensson, L., & Kristiansson, E. (2026) · mBio · doi:10.1128/mbio.03431-25 · Cited by 7
Metadata
- Authors
- Stracy, M., Snitser, O., Yelin, I., Amer, Y., Parizade, M., Katz, R., Rimler, G., Wolf, T., Herzel, E., Koren, G., Kuint, J., Foxman, B., Chodick, G., Shalev, V., & Kishony, R.
- Venue
- Science
- Published
- 2022-02-25
- Volume
- 375
- Issue
- 6583
- Pages
- 889-894
- ISSN
- 0036-8075 (ISSN-L)
- 1095-9203
- OpenAlex
- W4213420153
- Cited by
- 304
- References
- 34
- FWCI
- 24.86
- Type
- journal article
- Language
- en
- Open access
- green
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- Stracy, M., Snitser, O., Yelin, I., Amer, Y., Parizade, M., Katz, R., Rimler, G., Wolf, T., Herzel, E., Koren, G., Kuint, J., Foxman, B., Chodick, G., Shalev, V., & Kishony, R. (2022). Minimizing treatment-induced emergence of antibiotic resistance in bacterial infections. Science. https://doi.org/10.1126/science.abg9868
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