Identification of Shiga Toxin-Producing Escherichia coli Outbreaks Using Whole Genome Sequencing.
Today, whole genome sequencing (WGS)-based typing is the gold standard approach to detect outbreaks of Shiga toxin-producing Escherichia coli (STEC) and to differentiate them from sporadic cases. Here, we describe an optimized protocol to efficiently determine the genome sequences of STEC using short read Illumina technology and provide information on helpful tools for the subsequent bioinformatic analysis.
['Bletz|Stefan|S|', 'Mellmann|Alexander|A|', 'Middendorf-Bauchart|Barbara|B|']
D019295:Computational Biology D004196:Disease Outbreaks D004927:Escherichia coli Infections D016680:Genome, Bacterial D006801:Humans D054323:Shiga-Toxigenic Escherichia coli D000073336:Whole Genome Sequencing
Shiga toxin-producing Escherichia coli Outbreak Whole genome sequencing STEC Subtyping WGS