Project

Whole genome sequencing is revolutionizing the surveillance of foodborne and waterborne bacterial pathogens. The speed with which public health laboratories obtain information after the onset of symptoms and the regular sharing of this information between public health laboratories and epidemiologists are critical for the successful use of information to detect outbreaks early and to identify their source. For this purpose, this project aims at providing the most relevant bacterial genomic information in a timely-manner by integrating different validated in silico tools (core genome MLST, CRISPR, O and H molecular serotype, ....) into a single automated analysis pipeline.