Cartography of opportunistic pathogens and antibiotic resistance genes in a tertiary hospital environment

摘要

, Diagram showing the various sites that were sampled, including cardiac tables (A), bed rails (B), pulse oximeters (C), bedside lockers (D), sink aerators (E), sink traps (F) and door handles (G). Each ward (MDRO and standard) had five beds (sites A–D individually sampled), one sink (E,F) and no doors, while isolation rooms had one bed (A–D), one sink (E,F) and a door (G). , Diagram showing the analysis workflow for the four swabs that were collected from each site in terms of culturing, DNA extraction and sequencing. Samples from each site were analyzed with shotgun metagenomic sequencing on the Illumina platform and multiple (  = 6) culture-enriched quasi-metagenomics on a GridION system.