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Review
. 2023:2621:279-292.
doi: 10.1007/978-1-0716-2950-5_16.

SARS-CoV-2 Sequencing for Variant Surveillance

Julie Woolworth Hirschhorn  1 , Jaclyn Dunne  2
Affiliations
Review

SARS-CoV-2 Sequencing for Variant Surveillance

Julie Woolworth Hirschhorn et al. Methods Mol Biol. 2023.

Abstract

In this chapter, next-generation sequencing of the entire viral genome of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is described. Successful sequencing of the SARS-CoV-2 virus is dependent upon quality of the specimen, adequate coverage of the entire genome, and up-to-date annotation. Some of the advantages of performing SARS-CoV-2 surveillance using next-generation sequencing are scalability, high-throughput, cost, and full genome analysis. Some of the disadvantages can be expensive instrumentation, large upfront reagent and supply costs, increased time-to-result, computational needs, and complicated bioinformatics. This chapter will provide an overview of a modified FDA Emergency Use Authorization procedure for the genomic sequencing of SARS-CoV-2. The procedure is also referred to as the research use only (RUO) version.

Keywords: COVID-19; Next-generation sequencing; SARS-CoV-2; Variants.

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