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The SARS-CoV-2 Omicron Variant

08-Aug-2022

The SARS-CoV-2 Omicron variant (B.1.1.529) was designated the fifth variant of concern (VOC) by the WHO in November, 2021 (1). Its genome contains more than 50 mutations, including at least fifteen mutations in the spike protein receptor-binding domain (RBD). Omicron subvariants have replaced the previous VOCs and have become dominant across the planet due to enhanced transmissibility and immune evasion. Of the original five recognized Omicron subvariant designations (i.e., BA.1, BA.2, BA.3, BA.4, and BA.5), new lineages derived primarily from BA.2 and BA.4/5 are increasing in prevalence in different world regions.

Omicron BA.4/5 Subvariants BQ.1 and BF.7

BA.4/5 lineage subvariants account for about 77.1% of all Omicron-related lineages. BQ.1 and BF.7 are two of several BA.4/5 subvariants that are of particular concern, due primarily to their increased immune evasion and monoclonal antibody resistance capabilities. BF.7 acquired the R346T, and BQ.1 both the K444T and N460K, spike mutations. Recent work indicates that the N460K mutation plays a significant role in the enhanced neutralization resistance of BQ.1 (2). In addition, variant splintering, where distinct subvariants rise to dominance in different world regions, undermines unified vaccine design and treatment regimen plans.

GeneTex continues to expand its inventory of antibodies and recombinant proteins to support SARS-CoV-2 research. New additions are Omicron spike and nucleocapsid recombinant proteins for the BQ.1 and BF.7 lineages described above. The recombinant spike proteins are available in RBD only or ECD (Extracellular Domain) formats, with the ECD versions being trimeric. The His tag is located at the C-terminus. To learn more about these and other GeneTex reagents for Omicron research, please see the highlighted products below and visit our website at www.genetex.com.

 

The SARS-CoV-2 Omicron Variant Spike Mutation Sites

Figure 1. Spike mutation sites in Omicron subvariants

 

SARS-CoV-2 Omicron Variant Nucleocapsid Mutation Sites

Figure 2. Nucleocapsid protein mutation sites in Omicron subvariants

 

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.

 

Targeted Region of Spike
Antibody Cat. No.
Clone
BA.1
(GTX136780-pro)
BA.2
(GTX137037-pro)
BA.2.12.1
(GTX137114-pro)
BA.4 / BA.5
(GTX137113-pro)
RBD GTX635807 HL1014
RBD GTX635792 HL1003 X
RBD GTX635793 HL1004 X
RBD GTX637591 HL1866
RBD GTX637592 HL1867 X
S2 GTX632604 1A9
S2 GTX635693 HL237

 

Recombinant spike proteins (trimer) derived from different SARS-CoV-2 variants were assayed by indirect ELISA using the specified GeneTex monoclonal antibodies.

  Strong detection. Defined as OD450 value >1 when 1μg/ml protein was used.
  Weak detection. Defined as OD450 value >1 when 4μg/ml protein was used.
X   No detection. Defined as OD450 value <1 when 4μg/ml protein was used.

 

Highlighted Products
  
SARS-CoV-2 (COVID-19) Spike RBD Protein, Omicron / BF.7 variant, His tag (GTX137878-pro)

SARS-CoV-2 (COVID-19) Spike RBD Protein, Omicron / BF.7 variant, His tag (GTX137878-pro)

 
SARS-CoV-2 (COVID-19) Spike RBD Protein, Omicron / BQ.1 variant, His tag (GTX137879-pro)

SARS-CoV-2 (COVID-19) Spike RBD Protein, Omicron / BQ.1 variant, His tag (GTX137879-pro)

 
SARS-CoV-2 (COVID-19) Spike (ECD) Protein, Omicron / BF.7 variant, His tag (GTX137880-pro)

SARS-CoV-2 (COVID-19) Spike (ECD) Protein, Omicron / BF.7 variant, His tag (GTX137880-pro)

 
SARS-CoV-2 (COVID-19) Nucleocapsid protein, Omicron / BQ.1 variant, His tag (GTX137883-pro)

SARS-CoV-2 (COVID-19) Nucleocapsid protein, Omicron / BQ.1 variant, His tag (GTX137883-pro)

 
SARS-CoV-2 (COVID-19) Spike (ECD) Protein, Omicron / BA.4 / BA.5 variant, His tag

SARS-CoV-2 (COVID-19) Spike (ECD) Protein, Omicron / BA.4 / BA.5 variant, His tag
(GTX137113-pro)

SARS-CoV-2 (COVID-19) Spike RBD Protein, Omicron / BA.4 / BA.5 variant, His tag

SARS-CoV-2 (COVID-19) Spike RBD Protein, Omicron / BA.4 / BA.5 variant, His tag
(GTX137098-pro)

SARS-CoV-2 (COVID-19) Spike RBD antibody [HL1014]

SARS-CoV-2 (COVID-19) Spike RBD antibody [HL1014]
(GTX635807)

SARS-CoV-2 (COVID-19) Spike RBD antibody [HL1004]

SARS-CoV-2 (COVID-19) Spike RBD antibody [HL1004]
(GTX635793)

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.
SARS-CoV-2 (COVID-19) Spike (ECD) Protein, Omicron / BQ.1 variant, His tag HEK293 cells GTX137881-pro
SARS-CoV-2 (COVID-19) Spike (ECD) Protein, Omicron / BF.7 variant, His tag HEK293 cells GTX137880-pro
SARS-CoV-2 (COVID-19) Spike (ECD) Protein, Omicron / BA.4 / BA.5 variant, His tag HEK293 cells GTX137113-pro
SARS-CoV-2 (COVID-19) Spike (ECD) Protein, Omicron / BA.2.12.1 variant, His tag HEK293 cells GTX137114-pro
SARS-CoV-2 (COVID-19) Spike (ECD) Protein, Omicron / BA.2.75 variant, His tag HEK293 cells GTX137533-pro
SARS-CoV-2 (COVID-19) Spike (ECD) Protein, Omicron / BA.2 variant, His tag HEK293 cells GTX137037-pro
SARS-CoV-2 (COVID-19) Spike (ECD) Protein, Omicron / BA.1 variant, His tag HEK293 cells GTX136780-pro
SARS-CoV-2 (COVID-19) Spike RBD Protein, Omicron / BQ.1 variant, His tag HEK293 cells GTX137879-pro
SARS-CoV-2 (COVID-19) Spike RBD Protein, Omicron / BF.7 variant, His tag HEK293 cells GTX137878-pro
SARS-CoV-2 (COVID-19) Spike RBD Protein, Omicron / BA.4 / BA.5 variant, His tag HEK293 cells GTX137098-pro
SARS-CoV-2 (COVID-19) Spike RBD Protein, Omicron / BA.2.75 variant, His tag HEK293 cells GTX137422-pro
SARS-CoV-2 (COVID-19) Spike RBD Protein, Omicron / BA.2.12.1 variant, His tag HEK293 cells GTX137249-pro
SARS-CoV-2 (COVID-19) Spike RBD Protein, Omicron / BA.2 variant, His tag HEK293 cells GTX136905-pro
SARS-CoV-2 (COVID-19) Spike RBD Protein, Omicron / BA.1 variant, His tag HEK293 cells GTX136716-pro
SARS-CoV-2 (COVID-19) Nucleocapsid protein, Omicron / BQ.1 variant, His tag HEK293 cells GTX137883-pro
SARS-CoV-2 (COVID-19) Nucleocapsid protein, Omicron / BF.7 variant, His tag HEK293 cells GTX137882-pro
SARS-CoV-2 (COVID-19) Nucleocapsid protein, Omicron / BA.2 / BA.5 variant, His tag HEK293 cells GTX137219-pro
SARS-CoV-2 (COVID-19) Nucleocapsid protein, Omicron / BA.1 variant, His tag HEK293 cells GTX136779-pro
SARS-CoV-2 (COVID-19) 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.  
SARS-CoV-2 (COVID-19) Spike RBD antibody [HL257] WB, ICC/IF, IHC-P, ELISA, IHC-P (cell pellet) GTX635692  Recombinant Abs
SARS-CoV-2 (COVID-19) Spike RBD ELISA Pair [HL1014 / HL1003] ELISA, Sandwich ELISA GTX500046  
SARS-CoV-2 (COVID-19) Spike RBD Protein Sandwich ELISA Kit ELISA, Sandwich ELISA GTX536267  
SARS-CoV-2 (COVID-19) Spike RBD Omicron antibody [HL1866] ELISA, Sandwich ELISA, Neutralizing/Inhibition GTX637591  Recombinant Abs
SARS-CoV-2 (COVID-19) Spike RBD Omicron antibody [HL1867] ELISA, Sandwich ELISA, Neutralizing/Inhibition GTX637592 Recombinant Abs
SARS-CoV-2 (COVID-19) Spike RBD antibody WB, ICC/IF, FACS, ELISA, Neutralizing/Inhibition, Sandwich ELISA, IHC-P (cell pellet) GTX135709  
SARS-CoV-2 (COVID-19) Spike RBD antibody [HL1002] ELISA, Lateral Flow, Neutralizing/Inhibition, Sandwich ELISA GTX635791  Recombinant Abs Citation Support 
SARS-CoV-2 (COVID-19) Spike RBD antibody [HL1003] ICC/IF, ELISA, Neutralizing/Inhibition, Sandwich ELISA GTX635792  Recombinant Abs Citation Support 
SARS-CoV-2 (COVID-19) Spike RBD antibody [HL1003] (HRP) ELISA, Sandwich ELISA GTX635792-01  Recombinant Abs 
SARS-CoV-2 (COVID-19) Spike RBD antibody [HL1004] ICC/IF, ELISA, Neutralizing/Inhibition, Sandwich ELISA GTX635793  Recombinant Abs 
SARS-CoV-2 (COVID-19) Spike RBD antibody [HL1004] (HRP) ELISA, Sandwich ELISA GTX635793-01  Recombinant Abs
SARS-CoV-2 (COVID-19) Spike RBD antibody [HL1014] ICC/IF, ELISA, Sandwich ELISA GTX635807  Recombinant Abs 
SARS-CoV-2 (COVID-19) Spike RBD antibody [GT5449] WB, ELISA, Sandwich ELISA GTX636042  
SARS-CoV / SARS-CoV-2 (COVID-19) spike antibody [1A9] WB, ICC/IF, IHC-P, FACS, IP, ELISA, EM, Sandwich ELISA, IHC-P (cell pellet) GTX632604  Citation Support 
SARS-CoV-2 (COVID-19) Nucleocapsid ELISA Pair [HL5511 / HL448] ELISA, Sandwich ELISA GTX500045  
SARS-CoV-2 (COVID-19) Nucleocapsid antibody [HL344] WB, ICC/IF, IHC-P, IHC-Fr, ELISA, Sandwich ELISA, IHC-P (cell pellet) GTX635679  Recombinant Abs Citation Support Orthogonal Validation
SARS-CoV-2 (COVID-19) Nucleocapsid antibody [HL5410] WB, ICC/IF, ELISA, Lateral Flow, Sandwich ELISA, IHC-P (cell pellet) GTX635685  Recombinant Abs Orthogonal Validation
SARS-CoV-2 (COVID-19) Nucleocapsid antibody [HL448] WB, ICC/IF, IHC-P, ELISA, Lateral Flow, Sandwich ELISA, IHC-P (cell pellet) GTX635686  Recombinant Abs Citation Support Orthogonal Validation
SARS-CoV-2 (COVID-19) Nucleocapsid antibody [HL448] (HRP) WB, ELISA, Sandwich ELISA GTX635686-01  Recombinant Abs Citation Support
SARS-CoV-2 (COVID-19) Nucleocapsid antibody [HL453] WB, ICC/IF, ELISA, IHC-P (cell pellet) GTX635687  Recombinant Abs Orthogonal Validation
SARS-CoV-2 (COVID-19) Nucleocapsid antibody [HL455] WB, ICC/IF, ELISA, Lateral Flow, Sandwich ELISA, IHC-P (cell pellet) GTX635688  Recombinant Abs Orthogonal Validation
SARS-CoV-2 (COVID-19) Nucleocapsid antibody [HL5511] WB, ICC/IF, ELISA, Lateral Flow, Sandwich ELISA, IHC-P (cell pellet) GTX635689  Recombinant Abs Citation Support Orthogonal Validation
SARS-CoV-2 (COVID-19) Nucleocapsid antibody [HL455-MS] WB, ICC/IF, ELISA, Sandwich ELISA, IHC-P (cell pellet) GTX635712  Recombinant Abs Citation Support Orthogonal Validation
SARS-CoV-2 (COVID-19) Nucleocapsid antibody [GT113] WB, ICC/IF, ELISA, Sandwich ELISA GTX635808  Orthogonal Validation
SARS-CoV-2 (COVID-19) Spike S1 antibody [GT263] WB, ICC/IF, ELISA, Sandwich ELISA, IHC-P (cell pellet) GTX635708  
SARS-CoV-2 (COVID-19) Spike S1 antibody [HL13402] WB, ICC/IF, ELISA, Sandwich ELISA GTX635713  Recombinant Abs 
SARS-CoV-2 (COVID-19) Spike S2 antibody [HL237] WB, ICC/IF, ELISA, Sandwich ELISA, IHC-P (cell pellet) GTX635693  Recombinant Abs 
SARS-CoV-2 (COVID-19) Spike S2 antibody [HL1038] WB, ICC/IF, ELISA, Sandwich ELISA, IHC-P (cell pellet) GTX635910  Recombinant Abs
SARS-CoV-2 (COVID-19) Spike S2 / S2' antibody [HL1039] WB, ICC/IF, ELISA, Sandwich ELISA, IHC-P (cell pellet) GTX635911  Recombinant Abs
SARS-CoV-2 (COVID-19) Spike S2 antibody [GT745] WB, ELISA, Sandwich ELISA, IHC-P (cell pellet) GTX636037  
SARS-CoV-2 (COVID-19) Spike S2 antibody [GT8110] WB, ELISA, Sandwich ELISA, IHC-P (cell pellet) GTX636038  

 

 

Omicron Cell Pellet Block
   
Product Name Cat. No.  
SARS-CoV-2 (COVID-19) Spike (Omicron BA.4 / BA.5) FFPE 293T Cell Pellet Block GTX437396  

 

 

Omicron ELISA Kit
   
Product Name Cat. No.  
SARS-CoV-2 Neutralizing Antibody ELISA Kit (Omicron BA.1 / BA.2 / BA.4 / BA.5) GTX537233  

 

References:

  1. World Health Organization
  2. bioRxiv. 2022 Oct 20;2022.10.19.512891. doi: 10.1101/2022.10.19.512891. Preprint