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CoronaHiT: high-throughput sequencing of SARS-CoV-2 genomes #MMPMID33563320
Baker DJ; Aydin A; Le-Viet T; Kay GL; Rudder S; de Oliveira Martins L; Tedim AP; Kolyva A; Diaz M; Alikhan NF; Meadows L; Bell A; Gutierrez AV; Trotter AJ; Thomson NM; Gilroy R; Griffith L; Adriaenssens EM; Stanley R; Charles IG; Elumogo N; Wain J; Prakash R; Meader E; Mather AE; Webber MA; Dervisevic S; Page AJ; O'Grady J
Genome Med 2021[Feb]; 13 (1): 21 PMID33563320show ga
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.