FSIG group photo 2018, with Dr. Katz and Dr. den Bakker's team
We are microbiologists dedicated to improving microbial food safety.
We work in the interdisciplinary areas among microbiology, public health and agriculture.
We play with computers and food.
We deal with thousands of genomes in silico as well as few bacterial cells in situ.
NEWS AND EVENTS
Salmonella population genomics and source attribution study published in Emerging Infectious Diseases, highlighted by a CDC podcast, reported by The Verge, referred to as
"a new era of smarter food safety and epidemiology" by FDA Deputy Commissioner,
and featured by Nature Reviews Microbiology.
Anna and Yan successfully defended and their thesis and dissertation! Congrats!
Dr. Deng awarded 2020 Center for Produce Safety grant on sanitizer resistance in Listeria monocytogenes.
Dr. Deng delivered talks on zoonotic source tracking of Salmonella by WGS and machine learning at FDA CFSAN, CIFSQ 2019, bioMerieux Annual Food Safety Symposium, Mars Global Food Safety Center, and Institute of Microbiology, Chinese Academy of Sciences. (Slides)
Dual papers (Salmonella MGE, SeqSero2)published in Applied and Environmental Microbiology. SeqSero2 paper featured by AEM spotlight.
Serotyping forms the basis of Salmonella surveillance and becomes an integral part of Salmonella nomenclature. SeqSero provides a push-button solution to serotype prediction from WGS data. So easy that you can run it on a cell phone. SeqSero is used worldwide for public health surveillance of Salmonella.
Our quasi-metagenomics approach combines pathogen detection and subtyping (fingerprinting) in a single workflow. It shortens the turnaround from contaminated food to strain-level pathogen ID from weeks to hours, particularly using Oxford nanopore for sequencing.