2019-04-11

Outbreak Analysis Using 1928 - Escherichia coli

cgMLST UPGMA-clustering of a Escherichia coli outbreak using the 1928 platform

The tree is created using UPGMA and distances shown are computed based on pairwise allelic differences (hamming distance). Missing genes are not included in the count.

Validation of Whole-Genome Sequencing for Identification and Characterization of Shiga Toxin-Producing Escherichia coli To Produce Standardized Data To Enable Data Sharing

Holmes A, Dallman TJ, Shabaan S, Hanson M, Allison L.

pmid: 29263202

The 1928D Escherichia coli cgMLST schema is created from 622 reference genomes giving the scheme 2500 core genes. All genes included in the schema are present in at least 95% of reference genomes.