Genomic subtyping

Genomic subtyping of Escherichia coli.

Isolate from urine, stool, blood, environmental, food, other.

Isolate provided on appropriate culture medium for E. coli.

Send as growth on appropriate culture medium or in appropriate transport medium.  Culture vessel should be leak-proof or sealed appropriately.

Shipping of specimens shall be done by a TDG certified individual in accordance with TDG regulations. For additional information regarding classification of specimens for the purposes of shipping, consult either Part 2 Appendix 3 of the TDG Regulations or section 3.6.2 of the IATA Dangerous Goods Regulations as applicable.

Gastroenteritis, septicemia, infection, other.

Completed Enteric Diseases Program requisition form.

N/A

Whole Genome MLST analysis

Whole Genome SNV analysis

Whole genome sequencing data is uploaded to the PulseNet Canada national databases for interpretation according to PulseNet Canada guidelines. Please contact us using the information below for further information on interpretation guidelines.

Testing is performed, in whole or in part, using a “Research Use Only” testing kit which has not been fully validated/verified.

21 calendar days for specimens received at NML. 5 calendar days for analysis of WGS data received at NML. Note: Turnaround times for routine isolates may be extended during major foodborne outbreak activities or due to limited availability of resources.