SARS-CoV-2 Whole Genome Sequencing Assay – Strain typing and resistance testing

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General Information

Lab Name
SARS-CoV-2 NGS Variant Analysis
Lab Code
SARSEQ
Epic Ordering
SARS-CoV-2 NGS Variant Analysis
Description

This assay recovers the whole genome sequence of SARS-CoV-2 and reports the SARS-CoV-2 strain, including variants of concern, as well as specific coding mutations found in the SARS-CoV-2 spike protein relative to the Wuhan-Hu1 isolate SARS-CoV-2 reference sequence. The limit of detection of the assay is Ct 33.

Synonyms
SARS CoV 2 Spike Mutations, SARS CoV 2 Variant Mutations, SARS CoV 2 Variants, SARS CoV 2 Variant Sequencing
Components

Interpretation

Reference Range
See individual components

Ordering & Collection

Specimen Type
Swab
Collection

Instructions for Nasopharyngeal Swab: Gently insert mini-tipped flocked nasopharyngeal swab (swab on flexible plastic shaft) through the nostril and into the nasopharynx, reaching the posterior nasopharynx. Leave swab in place for 2-3 seconds then rotate completely around for 10-15 seconds. Remove swab and repeat the same process in the other nostril with the same swab.
After the second swab is completed, immediately place into the sterile vial containing media (UTM is preferred). Make sure that the swab is fully immersed in media, and that the shaft is short enough to completely tighten the cap. Obtaining columnar epithelial cells will enhance reliability of viral detection.

Handling Instructions

Send to the laboratory as soon as possible. Sample may be stored at 2-8°C for up to 72 hours of collection. Ship immediately to lab at 2-8°C (ice pack). If collection to receipt in the lab will exceed 72 hours freeze at -10°C or colder and ship on dry ice. Do not freeze/thaw.

Quantity
requested: 0.5mL
minimum: 0.5mL

Processing

Processing

Sample must be positive for SARS-CoV-2 by PCR to proceed with testing. Transport and store tube at 2 to 25°C for up to 48 hours. Send to UW Virology Lab via courier.

Transport Temperature

Performance

LIS Dept Code
Virology, Eastlake (EVIR)
Performing Location(s)
Other Virology, Eastlake

Tel: 206-685-0109 option 8

Performing location for COVID-19 Antibody (IgG)

Frequency
Available STAT?
No

Billing & Coding

CPT codes
U0002
LOINC
96741-4