Enterovirus Genotype by VP1 NGS | Minnesota Department of Health

Aliases

Enterovirus typing, EV68

Test Name

Enterovirus Genotype by VP1 NGS

Test Code

EVVP1-NGS

Methodology

Next generation sequencing

Overview/Supplementary

This test characterizes enteroviruses, including coxsackieviruses, echoviruses, polioviruses, and rhinoviruses by VP1 gene sequencing on high viral load enterovirus positives tested with the Rhinovirus and Enterovirus Multiplex PCR.

Turn Around Time

1 month

Specimen Requirements

Specimens in DMEM, EMEM, Sterile PBS, Sterile saline, UTM, or VTM: Bronchial wash, Bronchoalveolar lavage/BAL, Dual NP/OP swab, Nasal aspirate, Nasal swab, Nasal wash, Nasopharyngeal swab, Oropharyngeal swab, Sputum, Tracheal aspirate, or Vesicular fluid/skin lesion swabs

Specimens submitted in sterile container: Cerebrospinal fluid/CSF, Dry swabs of vesicular fluid/skin lesions, Skin lesions or scabs, or Stool (Raw or in Cary-Blair)

Isolates: Viral culture isolates

Preferred volume: 3 mL
Minimum volume: 200 µL

Special Considerations

Samples positive for enterovirus on the Rhinovirus and Enterovirus Multiplex PCR are reflexed to this test for characterization.

Transport/Stability

Store and ship stool, respiratory specimens, and vesicle swabs/scabs in VTM/UTM at refrigeration (2°C to 8°C) temperature within 7 days of collection. .

Store and ship cerebrospinal fluid/CSF at refrigeration (2°C to 8°C) temperature within 10 days of collection. Alternatively, ship frozen (< 0°C).

Store and ship dry samples at ambient (8°C to 25°C) temperature.

Interface/Codes

PLT: 2396