Rapid identification of respiratory pathogens with Oxford Nanopore metagenomics

Overview

Metagenomic sequencing is a key technique for the identification of potential pathogens without the need for prior knowledge of microbial sample composition, providing important insights for outbreak surveillance to inform public health measures. Oxford Nanopore technology can sequence any fragment length, enabling thorough characterisation of mixed microbial samples.

This workflow overview introduces how to rapidly identify bacterial, fungal, and viral pathogens from respiratory samples using metagenomic sequencing on a MinION or GridION.

In this workflow overview, you will:

• Find out how streamlined Oxford Nanopore metagenomic sequencing delivers rapid access to data that has the potential to be critical for outbreak control

• Discover best-practice guidance for the identification of bacterial, fungal, and viral pathogens from respiratory research samples

• Learn about the end-to-end pathogen metagenomics workflow — from extraction, to library preparation with the Ligation Sequencing Kit, to sequencing on a MinION or GridION, to data analysis for all levels of experience using the EPI2ME platform