DNA spike-ins enable confident interpretation of SARS-CoV-2 genomic data from amplicon-based sequencing.

ABSTRACT: The rapid global spread and continued evolution of SARS-CoV-2 has highlighted an unprecedented need for viral genomic surveillance and clinical viral sequencing. Amplicon-based sequencing methods provide a sensitive, low-cost and rapid approach but suffer a high potential for contamination, which can undermine lab processes and results. This challenge will only increase with expanding global production of sequences by diverse research groups for epidemiological and clinical interpretation. We present an approach which uses synthetic DNA spike-ins (SDSIs) to track samples and detect inter-sample contamination through a sequencing workflow. Applying this approach to the ARTIC Consortium's amplicon design, we define a series of best practices for Illumina-based sequencing and provide a detail

SUBMITTER: Lagerborg KA 

PROVIDER: S-EPMC7987014 | biostudies-literature | 2021 Mar

REPOSITORIES: biostudies-literature