xGen SARS-CoV-2 Amplicon Panels, previously known as Swift Normalase™ Amplicon Panel (SNAP) SARS-CoV-2 enables researchers to identify SARS-CoV-2 strains, including variants, by creating next generation sequencing (NGS) libraries. The sequencing data can
then answer research questions, such as:
- Which viral strains account for most infections within a local population?
- What new strains are emerging?
IDT’s predesigned amplicon panels for COVID research can aid in identifying the extent and pattern of viral spread within a population and allow researchers to quantify the effectiveness of intervention measures.
The xGen SARS-CoV-2 Amplicon Panel enables identification of SARS-CoV-2 variants from a wide array of research sample types such as nasopharyngeal/oropharyngeal swabs, sputa, stool, and wastewater. This panel covers 99.7% of the SARS-CoV-2 genome for identification of mutations from Alpha and Delta strains (see Product Data).
The xGen SARS-CoV-2 Sgene Amplicon Panel provides 100% coverage of the gene which encodes for the spike protein in the virus that causes COVID-19. Identify the presence of emerging viral strains which contain mutations in the Sgene and model potential changes in transmission patterns based upon those mutations.
The xGen ACE2 Gene Amplicon Panel contains 41 amplicons with an average size of 150 bp that provides comprehensive coverage of all coding regions of ACE2. Sequencing ACE2 has the potential to provide insight into disease outcome and facilitate further epidemiological investigations.
cDNA-to-sequencer in 3 hours
To sequence SARS-CoV-2 viral genomic material, first prepare first- or second-strand cDNA from samples such as nasopharyngeal/oropharyngeal swabs, sputa, stool, or wastewater (Figure 1). Generate an NGS library using tiled primer pairs in a single tube to target the 29.9 kb viral genome. Primers were designed against the NCBI Reference Sequence NC_045512.2 (severe acute respiratory syndrome coronavirus 2 isolate Wuhan-Hu-1, complete genome) (Table 1). Following a positive result by qPCR, use excess cDNA to perform variant calling and identify the viral strain.