SARS-CoV-2 Emerging Variants Panel Add-on v2

CleanPlex amplicon-based SARS-CoV-2 NGS panels are designed for Coronavirus research and surveillance, enabling complete genome sequencing of the SARS-CoV-2 virus responsible for the COVID-19 pandemic. The Add-on v2 primers are used in conjunction with the original SARS-CoV-2 Panel or FLEX Panel and serve to add on to the initial Emerging Variants Add-on with even more robust coverage of emerging variants such as delta, mu, and the most recent omicron variant for confident calling as the virus mutates.

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Product Description

CleanPlex® SARS-CoV-2 Emerging Variants Panel Add-on v2 for robust whole-genome coverage

The new variants of concern, particularly the recently discovered Omicron variant from South Africa contain mutations in the receptor-binding domain (RBD) of the spike protein, which have been shown to significantly increase infection rates and can negatively impact the efficacy of the recently developed vaccines and current COVID-19 qPCR mass testing methods. Thus, a robust detection method and continued screening and surveillance are more critical than ever in our continued global efforts to control this pandemic.

The Emerging Variants Panel Add-on v2 has been specifically optimized from the initial product to address the emerging variants by targeting the unique mutations in the S gene, and by cross-referencing the FLEX panel design for uniform coverage and confident identification of their defining mutations. EVA v2 has been confirmed in-silico to cover all defining and characteristic mutations of the sub-lineages of omicron: BA.1, BA.2, BA. 2.12.1, BA.3, BA. 4, and BA.5. 

The CleanPlex SARS-CoV-2 Panel has repeatedly demonstrated consistently high coverage of multiple variants. Read more about how the panel has been used around the globe for surveillance and research.

Highlights of the Add-on v2 Panel

    • Robust Coverage
      Added primers for enhanced coverage of newly discovered variants and their sub-lineages such as Omicron, Delta, Mu, Beta, and Alpha 
    • Additional Confidence in Variant Calling
      Optimized for identifying existing and new mutations for surveillance and tracking, especially with ”super-amplicon” formation in base panels
    • Easy Spike-in Workflow
      Directly add to existing CleanPlex SARS-CoV-2 and FLEX panels for ease of use and flexible future updates.

The SARS-CoV-2 Emerging Variant Panel Add-on v2 is designed to be used with the existing CleanPlex SARS-CoV-2 products to maintain high coverage for variant calling and identification as the virus evolves. Follow the links here to learn more about the Original CleanPlex SARS-CoV-2 and FLEX Panels. The CleanPlex SARS-CoV-2 Panels contains the CleanPlex Multiplex PCR Primers and CleanPlex Targeted Library Kit with RT components. CleanPlex Indexed PCR Primers for sample pooling and CleanMag® Magnetic Beads for bead purification and size selection are ordered separately to complete the workflow from input RNA to sequencing-ready NGS libraries.

For a complete solution, please use the following indexed PCR primers and magnetic beads SKUs.

Pack Size (Reactions)Main Panel & Kits Required with Add-on PrimersSKUs
96/384CleanPlex SARS-CoV-2 FLEX Panel918014/ 918015
96/384CleanPlex SARS-CoV-2 Panel918011/ 918012
Pack Size (Reactions)SKUs for Indexed PCR PrimersSKUs for Magnetic Beads
961 x SKU#716006 – CleanPlex Dual-Indexed PCR Primers for Illumina® Set A (12 x 8 indexes, 96 reactions)1 x SKU#718005 – CleanMag Magnetic Beads (20 mL, ~100 reactions for CleanPlex 2-pool panels)
3841 x SKU#716017 – CleanPlex Dual-Indexed PCR Primers for Illumina® Set A (12 x 8 indexes, 384 reactions)1 x SKU#718003 – CleanMag Magnetic Beads (60 mL, ~300 reactions for CleanPlex 2-pool panels)

1 x SKU#718005 – CleanMag Magnetic Beads (20 mL, ~100 reactions for CleanPlex 2-pool panels)

4 X 961 x Each of SKU#716037 to 716040  – CleanPlex Unique Dual-Indexed PCR Primers for Illumina Set C, D, E, F 96-well Plated (96 reactions)

*Note: Use 8 sets of 384 on NovaSeq dual S4 flow cell sequencing for maximum 3072 sample multiplexing.

1 x SKU#718003 – CleanMag Magnetic Beads (60 mL, ~300 reactions for CleanPlex 2-pool panels)

1 x SKU#718005 – CleanMag Magnetic Beads (20 mL, ~100 reactions for CleanPlex 2-pool panels)

Storage Temperature

Store at -20 °C.

For Research Use Only. Not for use in diagnostic procedures.

Additional Information

Weight10 g
Pack Size (Reactions)

8, 96, 384

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