High-throughput sequencing for outbreak tracking in 100 words (Julien)
When at least two people become sick with similar symptoms because a foodborne bacteria, it’s called an outbreak.
To recall the produces that are contaminated with these bacteria and prevent other cases, public health agency have to determine where the original pathological bacterium are located in the food distribution chain.
To do that, they compared the similarity between different strains from patient stool and environmental samples from the food distribution chain.
The gold-standard traditional methods are being replaced by high-throughput sequencing due to its decreasing prince and high sensibility. However, this method need to be validate to assure quality to authorities.
During 3 months, I will work on this validation in the «Laboratoire de sécurité alimentaire » of ANSES. I will make bibliography, propose solution and coordinate workgroups of the different steps of the workflow.