Quantitative Genomic RNA from Severe acute respiratory syndrome-related coronavirus 2 strain USA/GA-EHC-2811C/2021 (Omicron variant)

This isolate is lineage BA.1 (Pango v.3.1.19 2022-01-20), Omicron (BA.1-like) (Scorpio), and GISIAD clade GRA using the Phylogenetic Assignment of Named Global Outbreak lineages (PANGO) tool.  Due to the dynamic nature of lineage determination using PANGO, discrepancies may exist between vial labels and the current lineage assignment.  Previous iterations of PANGO identified this isolate as lineage B.1.1.529.

The complete genome of the clinical isolate of SARS-CoV-2, USA/GA-EHC-2811C/2021 has been sequenced (GISAID: EPI_ISL_7171744). The following mutations are present in the clinical isolate: Spike A67V, Spike D614G, Spike D796Y, Spike E484A, Spike G142D, Spike G339D, Spike G446S, Spike G496S, Spike H69del, Spike H655Y, Spike ins214EPE, Spike K417N, Spike L212I, Spike L981F, Spike N211del, Spike N440K, Spike N501Y, Spike N679K, Spike N764K, Spike N856K, Spike N969K, Spike P681H, Spike Q493R, Spike Q498R, Spike Q954H, Spike S371L, Spike S373P, Spike S375F, Spike S477N, Spike T95I, Spike T478K, Spike T547K, Spike V70del, Spike V143del, Spike Y144del, Spike Y145del, Spike Y505H, E T9I, M A63T, M D3G, M Q19E, N E31del, N G204R, N P13L, N R32del, N R203K, N S33del, NSP3 A1892T, NSP3 K38R, NSP3 L1266I, NSP3 S1265del, NSP4 T492I, NSP5 P132H, NSP6 G107del, NSP6 I189V, NSP6 L105del, NSP6 S106del, NSP12 P323L, NSP14 I42V. It was labelled as variant of concern (VOC) Omicron by the World Health Organization (WHO).

Genomic RNA from SARS-CoV-2 must be handled at BSL-2 containment level.

Acknowledgment for publications should read "The following reagent was deposited by the Centers for Disease Control and Prevention and obtained through BEI Resources, NIAID, NIH: Genomic RNA from SARS-Related Coronavirus 2, Isolate hCoV-19/USA/GA-EHC-2811C/2021 (Lineage B.1.1.529; Omicron Variant), NR-56494."

1. Thaw the vial on ice. Avoid exposing the RNA to repeated freeze-thaw cycles as it may result in degradation.
2. Gently mix the sample to ensure an even distribution of material.
3. Briefly centrifuge the tube before opening to ensure all liquid is at the bottom.

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