Culture-free, strain-level characterisation of foodborne pathogens using targeted nanopore metagenomics
Rapid detection and characterisation of foodborne pathogens is essential in outbreak investigation and food manufacturing quality control monitoring, where the source of the microbial contamination needs to be identified to protect the food supply chain and safeguard public health. Traditionally, food samples suspected of causing illness are subjected to culture isolation and subculturing techniques; however, these methods are time-consuming and can result in delays. Even with the development of modern approaches, such as metagenomic sequencing, culture enrichment of the sample has remained a prerequisite, despite the potential to introduce bias from growth competition. Due to these limitations, in 60% of foodborne outbreaks reported in the EU, the contaminated food source responsible cannot be determined with certainty.
Nanopore sequencing offers real-time data streaming, which provides immediate access to results, and underpins adaptive sampling — an on-device enrichment method unique to Oxford Nanopore, providing the ability to direct sequencing capacity toward sequences of interest in real time. This means that enrichment for potential pathogens in food sources could be done without the time-consuming steps associated with culture-dependent methods.
https://lnkd.in/gD5UKFtg
President at Innovative Crating Solutions
3 周Exciting