Interpretation of Whole-Genome Sequencing for Enteric Disease Surveillance and Outbreak Investigation

Details

• Alternative Title:
  Foodborne Pathog Dis
• Personal Author:
  Besser, John M. ; Carleton, Heather A. ; Trees, Eija ; Stroika, Steven G. ; Hise, Kelley ; Wise, Matthew ; Gerner-Smidt, Peter
• Description:
  The routine use of whole-genome sequencing (WGS) as part of enteric disease surveillance is substantially enhancing our ability to detect and investigate outbreaks and to monitor disease trends. At the same time, it is revealing as never before the vast complexity of microbial and human interactions that contribute to outbreak ecology. Since WGS analysis is primarily used to characterize and compare microbial genomes with the goal of addressing epidemiological questions, it must be interpreted in an epidemiological context. In this article, we identify common challenges and pitfalls encountered when interpreting sequence data in an enteric disease surveillance and investigation context, and explain how to address them.
• Subjects:
  Foodborne Disease Epidemiology Foodborne Outbreaks Molecular Epidemiology Original Articles
• Source:
  Foodborne Pathog Dis. 2019; 16(7):504-512
• Pubmed ID:
  31246502
• Pubmed Central ID:
  PMC6653782
• Document Type:
  Journal Article
• Volume:
  16
• Issue:
  7
• Collection(s):
  CDC Public Access
• Main Document Checksum:
  urn:sha256:6286e31502238953af94e5774247261021acd6b0e1c653a53e2b069b79c4ae55
• Download URL:
  https://stacks.cdc.gov/view/cdc/81029/cdc_81029_DS1.pdf
• File Type:
  [PDF - 253.01 KB ]