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dc.contributor.authorMongodin, E.F.
dc.contributor.authorSchriml, L.M.
dc.contributor.authorMetaSUB Consortium
dc.date.accessioned2020-06-16T19:54:29Z
dc.date.available2020-06-16T19:54:29Z
dc.date.issued2020
dc.identifier.urihttps://www.scopus.com/inward/record.uri?eid=2-s2.0-85086157299&doi=10.1038%2fs41591-020-0894-4&partnerID=40&md5=fe735467fad1814dc1d9435943b1b7f8
dc.identifier.urihttp://hdl.handle.net/10713/13112
dc.description.abstractAlthough 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. Copyright 2020, The Author(s).en_US
dc.description.urihttps://doi.org/10.1038/s41591-020-0894-4en_US
dc.language.isoen_USen_US
dc.publisherNature Researchen_US
dc.relation.ispartofNature Medicine
dc.subjectopportunistic pathogensen_US
dc.subject.meshDrug Resistance, Microbialen_US
dc.subject.meshGenomicsen_US
dc.subject.meshSpatio-Temporal Analysisen_US
dc.subject.meshTertiary Care Centersen_US
dc.titleCartography of opportunistic pathogens and antibiotic resistance genes in a tertiary hospital environmenten_US
dc.typeArticleen_US
dc.identifier.doi10.1038/s41591-020-0894-4
dc.identifier.pmid32514171


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