ArticleAntimicrobial agents and chemotherapy2015
Antibiotic Selection Pressure Determination through Sequence-Based Metagenomics.
Article in Antimicrobial agents and chemotherapy, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 26 papers, 1 of them a synthesis that pooled it.
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Who cites it
26 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Systematic review of human gut resistome studies revealed variable definitions and approaches.Gut microbes · 2020Pooled it
- Distinct impact of antibiotics on the gut microbiome and resistome: a longitudinal multicenter cohort study.BMC biology · 2019Trial
- The expansion of culturable opportunistic pathogens and antibiotic resistance in mouse gut following antibiotic exposure.Microbiology spectrum · 2026Article
- The relationship between catheter-related bloodstream infection and multi-drug resistant bacteria: a five-year retrospective study.BMC infectious diseases · 2025Article
- Profiling of Pharmaceutical Sludge Microbiome, Resistome and Secondary Metabolites Using Metagenomics.Indian journal of microbiology · 2025Article
- Article
- Serotype Distribution and Antimicrobial Resistance ofAntibiotics (Basel, Switzerland) · 2024Article
- Antibiotic perturbations to the gut microbiome.Nature reviews. Microbiology · 2023Review
- CRISPR-Cas-Based Antimicrobials: Design, Challenges, and Bacterial Mechanisms of Resistance.ACS infectious diseases · 2023Review
- Prevalence and Characterization ofPathogens (Basel, Switzerland) · 2023Article
- Ecological and Evolutionary responses to Antibiotic Treatment in the Human Gut Microbiota.FEMS microbiology reviews · 2021Review
- Dispersal strategies shape persistence and evolution of human gut bacteria.Cell host & microbe · 2021Article
- Endogenous Enzymes Enable Antimicrobial Activity.ACS chemical biology · 2021Article
- Antibiotic prophylaxis and the gastrointestinal resistome in paediatric patients with acute lymphoblastic leukaemia: a cohort study with metagenomic sequencing analysis.The Lancet. Microbe · 2021Article
- High Acquisition Rate of Gram-Negative Multi-Drug Resistant Organism Colonization During Hospitalization: A Perspective from a High Endemic Setting.Infection and drug resistance · 2021Article
- Effects of enrofloxacin treatment on the bacterial microbiota of milk from goats with persistent mastitis.Scientific reports · 2020Article
- Second-Generation Sequencing with Deep Reinforcement Learning for Lung Infection Detection.Journal of healthcare engineering · 2020Article
- Quantifying the impact of treatment history on plasmid-mediated resistance evolution in human gut microbiota.Proceedings of the National Academy of Sciences of the United States of America · 2019Article
- Annotated bacterial chromosomes from frame-shift-corrected long-read metagenomic data.Microbiome · 2019Article
- Critical steps in clinical shotgun metagenomics for the concomitant detection and typing of microbial pathogens.Scientific reports · 2018Article
Corrections and comments
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Authors and funding
7 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The human gut forms a dynamic reservoir of antibiotic resistance genes (ARGs). Treatment with antimicrobial agents has a significant impact on the intestinal resistome and leads to enhanced horizontal transfer and selection of resistance. We have monitored the development of intestinal ARGs over a 6-day course of ciprofloxacin (Cp) treatment in two healthy individuals by using sequenced-based metagenomics and different ARG quantification methods. Fixed- and random-effect models were applied to determine the change in ARG abundance per defined daily dose of Cp as an expression of the respective selection pressure. Among various shifts in the composition of the intestinal resistome, we found in one individual a strong positive selection for class D beta-lactamases which were partly located on a mobile genetic element. Furthermore, a trend to a negative selection has been observed with class A beta-lactamases (-2.66 hits per million sample reads/defined daily dose; P = 0.06). By 4 weeks after the end of treatment, the composition of ARGs returned toward their initial state but to a different degree in both subjects. We present here a novel analysis algorithm for the determination of antibiotic selection pressure which can be applied in clinical settings to compare therapeutic regimens regarding their effect on the intestinal resistome. This information is of critical importance for clinicians to choose antimicrobial agents with a low selective force on their patients' intestinal ARGs, likely resulting in a diminished spread of resistance and a reduced burden of hospital-acquired infections with multidrug-resistant pathogens.
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