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The SARS-CoV-2 Omicron Variant

06-Feb-2022

On 26 November 2021, the WHO designated the SARS-CoV-2 variant B.1.1.529 to be the fifth Variant of Concern (VOC) and assigned it the name “Omicron”. Of the more than 50 mutations in its genome, at least 32 are in the spike protein with fifteen point mutations in the RBD (Figure 1), including several found in other VOCs linked to increased transmissibility and immune evasion. Like other VOCs, mutations are also found in Omicron’s nucleocapsid protein (Figure 2). Omicron is widely distributed and is outcompeting Delta. Though it appears to cause more mild disease, it nevertheless has driven increased hospitalizations.

The SARS-CoV-2 Omicron Variant Spike Mutation Sites

Figure 1. Spike mutation sites found in Omicron are A67V, Δ69-70, T95I, G142D/Δ143-145, Δ211/L212I, ins214EPE, G339D, S371L, S373P, S375F, K417N, N440K, G446S, S477N, T478K, E484A, Q493K, G496S, Q498R, N501Y, Y505H, T547K, D614G, H655Y, N679K, P681H, N764K, D796Y, N856K, Q954H, N969K, L981F.

 

SARS-CoV-2 Omicron Variant Nucleocapsid Mutation Sites

SARS-CoV-2 Delta Variant Nucleocapsid Mutation Sites

Figure 2. Nucleocapsid protein mutation sites found in Omicron are P13L, Δ31-33, R203K, G204R, and in Delta are D63G, R203M, G215C, D377Y.

 

GeneTex has a wide range of recombinant antibody and protein reagents for Omicron research. Notably, nucleocapsid antibodies whose immunogens do not contain any Omicron mutation sites are shown in Figure 2.

 

Highlighted Products
 
Spike RBD Protein, B.1.1.529 / Omicron variant, His tag

Spike RBD Protein, B.1.1.529 / Omicron variant, His tag
(GTX136716-pro)

Spike RBD Protein, BA.2 / Omicron variant, His tag

Spike RBD Protein, BA.2 / Omicron variant, His tag
(GTX136905-pro)

Spike RBD antibody [HL257]

Spike RBD antibody [HL257]
(GTX635692)

Spike RBD antibody [HL1014]

Spike RBD antibody [HL1014]
(GTX635807)

Lateral Flow Assay (Recommended Nucleocapsid Antibody Pairs)
Recombinant Abs Citation Support Orthogonal Validation

 

Antibody Pair   Product Name Clonality EC50 Cat. No.
Pair I   Orthogonal Validation Nucleocapsid antibody [HL5511] Rb recAb 14 pM GTX635689
 Orthogonal Validation Nucleocapsid antibody [HL448] Rb recAb 11 pM GTX635686
Pair II  Orthogonal Validation Nucleocapsid antibody [HL5410] Rb recAb 9 pM GTX635685
 Orthogonal Validation Nucleocapsid antibody [HL455] Rb recAb 6 pM GTX635688

 

 

Omicron Spike and Nucleocapsid Recombinant Proteins
 
Product Name Expression System Cat. No.
Spike (ECD) Protein, B.1.1.529 / Omicron variant, His tag HEK293 GTX136780-pro
Spike RBD Protein, B.1.1.529 / Omicron variant, His tag HEK293 GTX136716-pro
Nucleocapsid protein, B.1.1.529 / Omicron variant, His tag HEK293 GTX136779-pro
Nucleocapsid protein, B.1.1.529 / Omicron variant, His tag E. coli GTX03400-pro

 

 

Reagents that detect Omicron
Recombinant Abs Citation Support  Orthogonal Validation

 

Product Name Applications Cat. No.  
Spike RBD Protein Sandwich ELISA Kit ELISA|Sandwich ELISA GTX536267  
Spike RBD antibody [HL1014] ICC/IF|ELISA|Sandwich ELISA GTX635807  
Spike RBD antibody [HL1003] ICC/IF|ELISA|Neutralizing/Inhibition|Sandwich ELISA GTX635792  
Spike RBD antibody [HL1003] (HRP) ELISA|Sandwich ELISA GTX635792-01  
Spike RBD antibody [HL257] WB|ICC/IF|IHC-P|ELISA|IHC-P (cell pellet) GTX635692
Spike S2 antibody [HL237] WB|ICC/IF|ELISA|Sandwich ELISA|IHC-P (cell pellet) GTX635693  
Spike antibody [1A9] WB|ICC/IF|IHC-P|FACS|IP|ELISA|Sandwich ELISA|IHC-P (cell pellet)|EM GTX632604 Citation Support  
Nucleocapsid antibody [HL5511] WB|ICC/IF|ELISA|Lateral Flow|Sandwich ELISA|IHC-P (cell pellet) GTX635689  Citation Support Orthogonal Validation
Nucleocapsid antibody [HL5410] WB|ICC/IF|ELISA|Lateral Flow|Sandwich ELISA|IHC-P (cell pellet) GTX635685  Orthogonal Validation
Nucleocapsid antibody [HL448] WB|ICC/IF|IHC-P|ELISA|Lateral Flow|Sandwich ELISA|IHC-P (cell pellet) GTX635686  Citation Support Orthogonal Validation
Nucleocapsid antibody [HL455] WB|ICC/IF|ELISA|Lateral Flow|Sandwich ELISA|IHC-P (cell pellet) GTX635688  Orthogonal Validation
Nucleocapsid antibody [HL448] (HRP) WB|ELISA|Sandwich ELISA GTX635686-01  Citation Support