Preprint Article Version 1 Preserved in Portico This version is not peer-reviewed

Rapid Design of a Bait Capture Platform for Culture- and Amplification-Free Next-Generation Sequencing of SARS-CoV-2

Jalees A. Nasir
ORCID logo ,
David J. Speicher
ORCID logo ,
Robert A. Kozak
,
Hendrik N. Poinar
,
Matthew S. Miller
ORCID logo ,
Andrew G. McArthur
*
Version 1 : Received: 25 February 2020 / Approved: 26 February 2020 / Online: 26 February 2020 (02:27:21 CET)

How to cite: Nasir, J.A.; Speicher, D.J.; Kozak, R.A.; Poinar, H.N.; Miller, M.S.; McArthur, A.G. Rapid Design of a Bait Capture Platform for Culture- and Amplification-Free Next-Generation Sequencing of SARS-CoV-2. Preprints.org 2020, 2020020385. https://doi.org/10.20944/preprints202002.0385.v1 Nasir, J.A.; Speicher, D.J.; Kozak, R.A.; Poinar, H.N.; Miller, M.S.; McArthur, A.G. Rapid Design of a Bait Capture Platform for Culture- and Amplification-Free Next-Generation Sequencing of SARS-CoV-2. Preprints.org 2020, 2020020385. https://doi.org/10.20944/preprints202002.0385.v1

Abstract

SARS-CoV-2 is a novel betacoronavirus and the aetiological agent of the current COVID-19 outbreak that originated in Hubei Province, China. While polymerase chain reaction is the front-line tool for SARS-CoV-2 surveillance, application of amplification-free and culture-free methods for isolation of SARS-CoV-2 RNA, partnered with next-generation sequencing, would provide a useful tool for both surveillance and research of SARS-CoV-2. We here release into the public domain a set of bait capture hybridization probe sequences for enrichment of SARS-CoV-2 RNA from complex biological samples. These probe sequences have been designed using rigorous bioinformatics methods to provide sensitivity, accuracy, and minimal off-target hybridization. Probe design was based on existing, validated approaches for detecting antimicrobial resistance genes in complex samples and it is our hope that this SARS-CoV-2 bait capture platform, once validated by those with samples in hand, will be of aid in combating the current outbreak.

Supplementary and Associated Material

https://github.com/jaleezyy/covid-19-baits: Software and Sequence Files

Keywords

Coronavirus; SARS-CoV-2; enrichment; next-generation sequencing

Subject

Biology and Life Sciences, Virology

Copyright: This is an open access article distributed under the Creative Commons Attribution License which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

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