| Test Methodology |
āWhole Genome Sequencing on Illumina Platform and Data Analysis
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Reflex Testing
Criteria |
Healthcare-associated organisms are routed to MDL for Whole Genome Sequencing (WGS) and data generated is used for public health surveillance and epidemiologic investigations only. Sequence data is uploaded to NCBI. Reports released by MDL is used for surveillance and epidemiologic investigations only.
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Pre-Approval Required |
Yes. Consultation with the Molecular Characterization Unit is required prior to submission of specimens
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Supplemental
Information and Required Form(s) |
Request for WGS testing is submitted using LWP. Submitters that do not have an account on ETOR, contact
MDL.Submissions@CDPH.ca.gov for requesting WGSR form.
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Required Specimen Type(s)
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Pure isolate
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Minimum Volume Required |
Not Applicable
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Specimen Stability
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Room Temp: Store at ambient temperature (15Ā°Cāāā28Ā°C)
Frozen: -20Ā°C in storage media
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Rejection Criteria
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- Specimen submitted without submission form.
- Mixed culture and not pure isolate.
- Cracked and leaking specimen tube.
- Isolates received on plates are not acceptable. Agar slants and motility tubes acceptable.
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Storage/Transport Conditions
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Room Temp: Store at ambient temperature. Ship at ambient temperature.
Frozen: -20Ā°C in storage media. Ship frozen using dry ice |
Transport Medium,
if applicable
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Ship or transport cultures on nonselective nutrient or similar agar in tubes with leak-proof screw cap closures.
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Specimen Labeling |
Two identifiers, including patient full name, and at least one other identifier (specimen accession number, DOB, MRN); date and time of collection as noted for specific tests, if applicable.
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Shipping Instructions and Specimen Handling Requirements
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Ship [cold pack / frozen / ambient temperature] using appropriate DOT/IATA approved shipping procedures.
Ensure that culture isolates are sent in media flask or tubes containing a screw-top cap that is additionally sealed with parafilm or tape for additional protection against leaking.
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Specimen Collection Instructions, if applicable
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Not Applicable |
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Turnaround Time |
21 days
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Interferences & Limitations |
None
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Reference Range |
Not Applicable
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Additional Information |
None
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MDL Point of Contact |
For questions regarding submissions, please email MDL.Submissions@cdph.ca.gov (and/or Section-specific inbox, if established) or call the Molecular Characterization Unit at 510-412-3940, MāF, PST (510) 412-3940
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