Approaches for characterizing and tracking hospital-associated multidrug-resistant bacteria

Details

• Alternative Title:
  Cell Mol Life Sci
• Personal Author:
  Blake, Kevin S. ; Choi, JooHee ; Dantas, Gautam
• Description:
  Hospital-associated infections are a major concern for global public health. Infections with antibiotic-resistant pathogens can cause empiric treatment failure, and for infections with multidrug-resistant bacteria which can overcome antibiotics of "last resort" there exists no alternative treatments. Despite extensive sanitization protocols, the hospital environment is a potent reservoir and vector of antibiotic-resistant organisms. Pathogens can persist on hospital surfaces and plumbing for months to years, acquire new antibiotic resistance genes by horizontal gene transfer, and initiate outbreaks of hospital-associated infections by spreading to patients via healthcare workers and visitors. Advancements in next-generation sequencing of bacterial genomes and metagenomes have expanded our ability to (1) identify species and track distinct strains, (2) comprehensively profile antibiotic resistance genes, and (3) resolve the mobile elements that facilitate intra- and intercellular gene transfer. This information can, in turn, be used to characterize the population dynamics of hospital-associated microbiota, track outbreaks to their environmental reservoirs, and inform future interventions. This review provides a detailed overview of the approaches and bioinformatic tools available to study isolates and metagenomes of hospital-associated bacteria, and their multi-layered networks of transmission.
• Subjects:
  Anti-Bacterial Agents Bacteria Cross Infection Drug Resistance, Multiple, Bacterial Gene Transfer, Horizontal Humans Metagenomics Plasmids RNA, Ribosomal, 16S Whole Genome Sequencing
• Keywords:
  Antibiotic Resistance Hospital ICU Microbiome Mobilome Next-generation Sequencing Resistome
• Source:
  Cell Mol Life Sci. 78(6):2585-2606
• Pubmed ID:
  33582841
• Pubmed Central ID:
  PMC8005480
• Document Type:
  Journal Article
• Funding:
  R01OH011578/OH/NIOSH CDC HHSUnited States/ ; T32 DK007130/DK/NIDDK NIH HHSUnited States/ ; R01 AI123394/AI/NIAID NIH HHSUnited States/ ; R01 HD092414/HD/NICHD NIH HHSUnited States/ ; R01 AT009741/AT/NCCIH NIH HHSUnited States/ ; R01 OH011578/OH/NIOSH CDC HHSUnited States/ ; R01AT009741/AT/NCCIH NIH HHSUnited States/
• Volume:
  78
• Issue:
  6
• Collection(s):
  CDC Public Access
• Main Document Checksum:
  urn:sha256:b8b21e638840dc0fbdbbf763fda3d328c04350c2f582fb6d0ab10f60651dbc92
• Download URL:
  https://stacks.cdc.gov/view/cdc/104624/cdc_104624_DS1.pdf
• File Type:
  [PDF - 688.67 KB ]