Advanced molecular detection methods including whole genome sequencing have already had a major impact on how outbreaks are investigated. Whole-genome based real-time surveillance for Listeria monocytogenes began in the United States during 2013 and is increasingly used in near real time for other pathogens in multistate foodborne disease outbreak investigations. This workshop will focus on understanding the basics of whole genome sequencing as it applies to investigating foodborne disease outbreaks and how epidemiologic methods and approaches are being adapted to incorporate this new technology. Presentations will include real world examples and include discussion of the practical aspects that epidemiologists need to know about using whole genome sequencing during foodborne disease outbreak investigations.

LEARNING OBJECTIVES

• Learn the underlying principles of whole genome sequence-based subtyping methods

• Understand how WGS methods are used in enteric disease outbreaks to assist in identifying a source

• Develop awareness of anticipated developments in WGS that will influence outbreak investigations