| Literature DB >> 33563320 |
Dave J Baker1, Alp Aydin1, Andrew J Page2, Justin O'Grady3,4, Thanh Le-Viet1, Gemma L Kay1, Steven Rudder1, Leonardo de Oliveira Martins1, Ana P Tedim1,5, Anastasia Kolyva1,6, Maria Diaz1, Nabil-Fareed Alikhan1, Lizzie Meadows1, Andrew Bell1, Ana Victoria Gutierrez1, Alexander J Trotter1,7, Nicholas M Thomson1, Rachel Gilroy1, Luke Griffith7, Evelien M Adriaenssens1, Rachael Stanley6, Ian G Charles1,7, Ngozi Elumogo1,6, John Wain1,7, Reenesh Prakash6, Emma Meader6, Alison E Mather1,7, Mark A Webber1,7, Samir Dervisevic6.
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.Entities:
Keywords: ARTIC; Genetic; Genome; Multiplexing; NGS; Nanopore; SARS-CoV-2; Sequencing
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Year: 2021 PMID： 33563320 PMCID： PMC7871948 DOI： 10.1186/s13073-021-00839-5
Source DB: PubMed Journal: Genome Med ISSN： 1756-994X Impact factor: 11.117