ArticleNature medicine2020
Cartography of opportunistic pathogens and antibiotic resistance genes in a tertiary hospital environment.
Article in Nature medicine, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 133 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
133 citing papers in PubMed, 247 citations in OpenAlex.
- Alterations of human skin microbiome and expansion of antimicrobial resistance after systemic antibiotics.Science translational medicine · 2021Trial
- "Swab-and-Stain" Nanoparticle Assay for Detection of PBP2a-Expressing Methicillin-ResistantMicroorganisms · 2026Article
- Pepholin, a bacteriophage holin-derived antimicrobial peptide with membrane-disruptive activity and therapeutic efficacy in MDRRSC advances · 2026Article
- Citywide metagenomics reveals microbial community and resistome dynamics in urban wastewater.Nature communications · 2026Article
- Review
- Rapid Identification of Infections Directly from Isolates and Clinical Specimens with the MasSpec Pen Technology.bioRxiv : the preprint server for biology · 2026Article
- CRISPR-based gene editing for antimicrobial resistance control in human medicine.Archives of microbiology · 2026Review
- Comparison of Environmental Microbiomes, Resistomes and Plasmidomes from a Human Tertiary Hospital and Companion Animal Veterinary Hospital in London, UK.Antibiotics (Basel, Switzerland) · 2026Article
- Unveiling hidden microbial diversity in Mars 2020 mission assembly cleanrooms with molecular insights into the persistence and perseverance of novel species defying metagenome sequencing.Microbiology spectrum · 2026Article
- Article
- Durable antimicrobial coatings for hospital sink surfaces using hydrophobized TEMPO-oxidised cellulose nanofibre Pickering emulsions.Scientific reports · 2026Article
- Investigating the distribution of antibiotic resistance genes in relation to bacterial, fungal, and functional diversity in a hay field.Microbiology spectrum · 2026Article
- Review
- Using electronic health records to assess the relationship between colonization pressure and nosocomial pathogen acquisition.Nature communications · 2026Article
- Strain-level metagenomic profiling using pangenome graphs with PanTax.Genome research · 2026Article
- Biofilm removal in hospital sink drains drives unintended surges in antibiotic resistance.npj antimicrobials and resistance · 2026Article
- Real-life impact of clinical metagenomics in the intensive care unit: a multicenter retrospective study in greater paris area hospitals.Critical care (London, England) · 2026Article
- Surgical Site Infections and Antimicrobial Resistance: Six Years of Data from a Western Romanian Hospital.Medicina (Kaunas, Lithuania) · 2026Article
- Environmental surveillance of bacteria in a new intensive care unit using plate sweeps.Microbial genomics · 2026Article
- Evaluation of Fourier transform infrared spectroscopy as a first-line surveillance typing tool forFrontiers in antibiotics · 2026Article
73 more citing papers are in PubMed but not listed here.
Corrections and comments
- Commented on by
Authors and funding
22 authors at 20 institutions in 29 countries.
Funding
Abstract
Although disinfection is key to infection control, the colonization patterns and resistomes of hospital-environment microbes remain underexplored. We report the first extensive genomic characterization of microbiomes, pathogens and antibiotic resistance cassettes in a tertiary-care hospital, from repeated sampling (up to 1.5 years apart) of 179 sites associated with 45 beds. Deep shotgun metagenomics unveiled distinct ecological niches of microbes and antibiotic resistance genes characterized by biofilm-forming and human-microbiome-influenced environments with corresponding patterns of spatiotemporal divergence. Quasi-metagenomics with nanopore sequencing provided thousands of high-contiguity genomes, phage and plasmid sequences (>60% novel), enabling characterization of resistome and mobilome diversity and dynamic architectures in hospital environments. Phylogenetics identified multidrug-resistant strains as being widely distributed and stably colonizing across sites. Comparisons with clinical isolates indicated that such microbes can persist in hospitals for extended periods (>8 years), to opportunistically infect patients. These findings highlight the importance of characterizing antibiotic resistance reservoirs in hospitals and establish the feasibility of systematic surveys to target resources for preventing infections.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.