PT  - JOURNAL ARTICLE
AU  - Tao Li
AU  - Hye Kyung Chung
AU  - Papa K. Pireku
AU  - Brett F. Beitzel
AU  - Mark A. Sanborn
AU  - Cynthia Y. Tang
AU  - Richard Hammer
AU  - Detlef Ritter
AU  - XiuFeng Wan
AU  - Irina Maljkovic Berry
AU  - Jun Hang
TI  - Rapid High Throughput Whole Genome Sequencing of SARS-CoV-2 by using One-step RT-PCR Amplification with Integrated Microfluidic System and Next-Gen Sequencing
AID  - 10.1101/2020.11.04.369165
DP  - 2020 Jan 01
TA  - bioRxiv
PG  - 2020.11.04.369165
4099  - http://biorxiv.org/content/early/2020/11/05/2020.11.04.369165.short
4100  - http://biorxiv.org/content/early/2020/11/05/2020.11.04.369165.full
AB  - The long-lasting global COVID-19 pandemic demands timely genomic investigation of SARS-CoV-2 viruses. Here we report a simple and efficient workflow for whole genome sequencing utilizing one-step RT-PCR amplification on a microfluidic platform, followed by MiSeq amplicon sequencing. The method uses Fluidigm IFC and instruments to amplify 48 samples with 39 pairs of primers in a single step. Application of this method on RNA samples from both viral isolate and clinical specimens demonstrate robustness and efficiency of this method in obtaining the full genome sequence of SARS-CoV-2.