UltraStrain: An NGS-Based Ultra Sensitive Strain Typing Method for Salmonella enterica.

ABSTRACT: In the last few years, advances in next-generation sequencing (NGS) technology for whole genome sequencing (WGS) of foodborne pathogens have provided drastic improvements in food pathogen outbreak surveillance. WGS of foodborne pathogen enables identification of pathogens from food or environmental samples, including difficult-to-detect pathogens in culture-negative infections. Compared to traditional low-resolution methods such as the pulsed-field gel electrophoresis (PFGE), WGS provides advantages to differentiate even closely related strains of the same species, thus enables rapid identification of food-source associated with pathogen outbreak events for a fast mitigation plan. In this paper, we present UltraStrain, which is a fast and ultra sensitive pathogen detection and strain typin

SUBMITTER: Yang W 

PROVIDER: S-EPMC6456706 | biostudies-literature | 2019

REPOSITORIES: biostudies-literature