Rapid Genomic Characterization of SARS-CoV-2 by Direct Amplicon-Based Sequencing Through Comparison of MinION and Illumina iSeq100TM System - Institut Pasteur Access content directly
Journal Articles Frontiers in Microbiology Year : 2020

Rapid Genomic Characterization of SARS-CoV-2 by Direct Amplicon-Based Sequencing Through Comparison of MinION and Illumina iSeq100TM System

Abstract

Global human health is increasingly challenged by emerging viral threats, especially those observed over the last 20 years with coronavirus-related human diseases, such as the Severe Acute Respiratory Syndrome (SARS) and the Middle East Respiratory Syndrome (MERS). Recently, in late December 2019, a novel Betacoronavirus, SARS-CoV-2, originating from the Chinese city of Wuhan, emerged and was then identified as the causative agent of a new severe form of pneumonia, COVID-19. Real-time genome sequencing in such viral outbreaks is a key issue to confirm identification and characterization of the involved pathogen and to help establish public health measures. Here, we implemented an amplicon-based sequencing approach combined with easily deployable next-generation sequencers, the small and hand-held MinION sequencer and the latest most compact Illumina sequencer, the iSeq100TM system. Our results highlighted the great potential of the amplicon-based approach to obtain consensus genomes of SARS-CoV-2 from clinical samples in just a few hours. Both these mobile next-generation sequencers are proven to be efficient to obtain viral sequences and easy to implement, with a minimal laboratory environment requirement, providing useful opportunities in the field and in remote areas.
Fichier principal
Vignette du fichier
fmicb-11-571328.pdf (1.64 Mo) Télécharger le fichier
Loading...

Dates and versions

pasteur-02976015 , version 1 (23-10-2020)

Licence

Attribution

Identifiers

Cite

Véronique Hourdel, Aurelia Kwasiborski, Charlotte Balière, Séverine Matheus, Christophe Frédéric Batéjat, et al.. Rapid Genomic Characterization of SARS-CoV-2 by Direct Amplicon-Based Sequencing Through Comparison of MinION and Illumina iSeq100TM System. Frontiers in Microbiology, 2020, 11, pp.571328. ⟨10.3389/fmicb.2020.571328⟩. ⟨pasteur-02976015⟩

Collections

PASTEUR
53 View
92 Download

Altmetric

Share

Gmail Facebook X LinkedIn More