Evaluation of shotgun metagenomics as a diagnostic tool for infectious gastroenteritis

In this study, we evaluated metagenomics shotgun sequencing in comparison to PCR as a diagnostic tool for detecting gastrointestinal pathogens in a clinical hospital laboratory. We sequenced a total of 55 samples, including clinical faecal samples, spiked faecal samples, and control samples, and tested various bioinformatics approaches for pathogen and virulence gene detection.