Amplicon based MinION sequencing of SARS-CoV-2 and metagenomic characterisation of nasopharyngeal swabs from patients with COVID-19

Authors:

Shona C Moore, Rebekah Penrice-Randal, Muhannad Alruwaili, Xiaofeng Dong, Steven T Pullan, Daniel Carter, Kevin Bewley, Qin Zhao, Yani Sun, Catherine Hartley, En-min Zhou, Tom Solomon, Michael B. J. Beadsworth, James Cruise, Debby Bogaert, Derrick W T Crook, View ORCID ProfileDavid A Matthews, Andrew D. Davidson, Zana Mahmood, Waleed Aljabr, Julian Druce, Richard T Vipond, Lisa Ng, Laurent Renia, Peter Openshaw, View ORCID ProfileJ Kenneth Baillie, Miles W Carroll, Calum Semple, Lance Turtle, Julian Alexander Hiscox

Abstract:

COVID-19 is a complex disease phenotype where the underlying microbiome could influence morbidity and mortality. Amplicon and metagenomic MinION based sequencing was used to rapidly (within 8 hours) identify SARS-CoV-2 and assess the microbiome in nasopharyngeal swabs obtained from patients with COVID-19 by the ISARIC 4C consortium.

Journal:

medRxiv

Year:

2020

Hyperlink:

http://www.medrxiv.org/content/10.1101/2020.03.05.20032011v1