Baker, Dave J, Aydin, Alp, Le-Viet, Thanh, Kay, Gemma L 
ORCID: 0000-0002-1176-8459, Rudder, Steven, de Oliveira Martins, Leonardo ORCID: 0000-0001-5247-1320, Tedim, Ana P ORCID: 0000-0003-1016-7173, Kolyva, Anastasia, Diaz, Maria ORCID: 0000-0003-3423-9872, Alikhan, Nabil-Fareed et al (show 19 more authors)
(2021)
CoronaHiT: high-throughput sequencing of SARS-CoV-2 genomes.
Genome medicine, 13 (1).
21-.
ISSN 1756-994X, 1756-994X
Abstract
We present CoronaHiT, a platform and throughput flexible method for sequencing SARS-CoV-2 genomes (≤ 96 on MinION or > 96 on Illumina NextSeq) depending on changing requirements experienced during the pandemic. CoronaHiT uses transposase-based library preparation of ARTIC PCR products. Method performance was demonstrated by sequencing 2 plates containing 95 and 59 SARS-CoV-2 genomes on nanopore and Illumina platforms and comparing to the ARTIC LoCost nanopore method. Of the 154 samples sequenced using all 3 methods, ≥ 90% genome coverage was obtained for 64.3% using ARTIC LoCost, 71.4% using CoronaHiT-ONT and 76.6% using CoronaHiT-Illumina, with almost identical clustering on a maximum likelihood tree. This protocol will aid the rapid expansion of SARS-CoV-2 genome sequencing globally.
| Item Type: | Article |
|---|---|
| Uncontrolled Keywords: | Humans, RNA, Viral, Genome, Viral, Pandemics, High-Throughput Nucleotide Sequencing, Whole Genome Sequencing, COVID-19, SARS-CoV-2 |
| Divisions: | Faculty of Health and Life Sciences Faculty of Health and Life Sciences > Institute of Infection, Veterinary and Ecological Sciences |
| Depositing User: | Symplectic Admin |
| Date Deposited: | 19 May 2022 07:53 |
| Last Modified: | 07 Dec 2024 20:25 |
| DOI: | 10.1186/s13073-021-00839-5 |
| Open Access URL: | https://doi.org/10.1186/s13073-021-00839-5 |
| Related URLs: | |
| URI: | https://livrepository.liverpool.ac.uk/id/eprint/3155103 |
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