960 x 350_41

SARS-CoV-2 Viral Genome NGS Testing

A highly sensitive targeted amplicon NGS solution facilitating comprehensive profiling of the SARS-CoV-2 genome

Complete genome characterization of SARS-CoV-2 is instrumental in the understanding of the COVID-19 pandemic. The emergence of variants of concern has placed a greater importance in monitoring changes to the SARS-CoV-2 genome through NGS. Gain a deeper understanding of underlying influences affecting vaccine and therapeutic efficacy by monitoring changes in the viral genome over time with our SARS-CoV-2 viral genome assay. We utilize the Ion Ampliseq SARS-CoV-2 Research Panel, a targeted amplicon sequencing chemistry, to provide complete genome coverage and accurate variant calling at low viral loads allowing for flexibility to a range of sample types. This panel consists of 2 primer pools providing redundant coverage minimizing any potential coverage dropout as a result of mutational changes in the viral genome. Using a comprehensive data analysis solution, we are able to deliver a complete SARS-CoV-2 viral genome sequence with accurate variant calling and informed annotation.


NGS Workflow


  Nasopharyngeal Swab
  • NGS assay designed to test wide range of viral loads
  • On-going development expanding acceptable sample types
  Viral Load Quantitation
  • Quantitative SARS-CoV-2 Viral Load Assay
  • NGS Library optimized based on viral load  
  Viral RNA Isolation
  • High-Throughput Automated Isolation
  • Magnetic bead based viral RNA isolation protocol
  Ion Genestudio S5 Sequencing
  • High-Throughput Ion AmpliSeq Technology
  • Complete viral genome coverage with great sensitivity



Thermo Fisher Ion Ampliseq SARS-CoV-2 Research Panel

Reference sequence: MN908947.3

Covers >99% of the SARS-CoV-2 genome, all serotypes included

100% Accuracy and Sensitivity for SNVs and Indels above LoD

Data Deliverables:

  • Assembled SAR-CoV-2 Viral Genome (FASTA)
  • Variant Calls against viral reference genome (VCF)
  • Annotated Variants (TSV)

Related Thought Leaders Insights

The Journey from Discovery to Therapy Begins with a Single Cell

The path from research discovery to effective immune cell therapies requires innovative approaches to match the challenges we face. Examining the full richness of biological complexity —moving from...

Clinical Genomics Laboratory Services

Our industry-leading genomic, molecular, and bioinformatics services provide globally harmonized testing solutions to support clinical research and precision medicine from early discovery and...

Bioanalytical Immunoassay Laboratory

Our new facility, in theworld-renowned Research Triangle Park, is the flagship laboratory for Q2 Solutions. This custom-designed, 160,000-square-foot facility houses a suite of scientific solutions...