期刊
NATURE COMMUNICATIONS
卷 13, 期 1, 页码 -出版社
NATURE PORTFOLIO
DOI: 10.1038/s41467-022-30635-7
关键词
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资金
- Ramon Areces Postdoctoral Fellowship
- Ministerio de Ciencia, Innovacion y Universidades/FEDER (Spain/UE) [PGC2018-098186-B-I00, PID2019-109320GB-I00]
- EPSRC Mathematics for Healthcare UK Hub [EP/T017856/1]
- ERC [647292]
- BBSRC [BB/M02623X/1]
- David Phillips Fellowship
- National Health and Medical Research Council Fellowship [2020/GNT1197534]
- European Research Council (ERC) [647292] Funding Source: European Research Council (ERC)
- BBSRC [BB/M02623X/1] Funding Source: UKRI
- EPSRC [EP/T017856/1] Funding Source: UKRI
This study explores the trends in antibiotic resistance using the global database ATLAS and compares the results with other surveillance data.
Antibiotic resistance represents a growing medical concern where raw, clinical datasets are under-exploited as a means to track the scale of the problem. We therefore sought patterns of antibiotic resistance in the Antimicrobial Testing Leadership and Surveillance (ATLAS) database. ATLAS holds 6.5M minimal inhibitory concentrations (MICs) for 3,919 pathogen-antibiotic pairs isolated from 633k patients in 70 countries between 2004 and 2017. We show most pairs form coherent, although not stationary, timeseries whose frequencies of resistance are higher than other databases, although we identified no systematic bias towards including more resistant strains in ATLAS. We sought data anomalies whereby MICs could shift for methodological and not clinical or microbiological reasons and found artefacts in over 100 pathogen-antibiotic pairs. Using an information-optimal clustering methodology to classify pathogens into low and high antibiotic susceptibilities, we used ATLAS to predict changes in resistance. Dynamics of the latter exhibit complex patterns with MIC increases, and some decreases, whereby subpopulations' MICs can diverge. We also identify pathogens at risk of developing clinical resistance in the near future. Pathogens are typically classified as 'antibiotic-resistant' for clinical purposes based on cut-off values of minimum inhibitory concentrations (MICs). In this study, the authors explore quantitative values of MICs using the global 'ATLAS' database of pathogen-antibiotic pairs, describe trends in resistance, and compare results to other antibiotic resistance surveillance data.
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