Development and validation of a high throughput SARS-CoV-2 whole genome sequencing workflow in a clinical laboratory.

ABSTRACT: Monitoring new mutations in SARS-CoV-2 provides crucial information for identifying diagnostic and therapeutic targets and important insights to achieve a more effective COVID-19 control strategy. Next generation sequencing (NGS) technologies have been widely used for whole genome sequencing (WGS) of SARS-CoV-2. While various NGS methods have been reported, one chief limitation has been the complexity of the workflow, limiting the scalability. Here, we overcome this limitation by designing a laboratory workflow optimized for high-throughput studies. The workflow utilizes modified ARTIC network v3 primers for SARS-CoV-2 whole genome amplification. NGS libraries were prepared by a 2-step PCR method, similar to a previously reported tailed PCR method, with further optimizations to improve amp

SUBMITTER: Rosenthal SH 

PROVIDER: S-EPMC8826425 | biostudies-literature | 2022 Feb

REPOSITORIES: biostudies-literature