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Virus genomes were generated by two different approaches, (i) using commercial sequencing kit of BGI (ATOPlex 1000021625) and sequencing on the BGI MGISEQ-2000 (number of sample = 12, number of sequencing = 12), and (ii) using version 3 of the ARTIC COVID-19 multiplex PCR primers (https://artic.network/ncov-2019) for genome amplification, followed by library construction with Illumina Nextera XT DNA Library Preparation Kit and sequencing with PE150 (number of sample = 76, number of sequencing = 91) or SE100 (number of sample = 38, number of sequencing = 38) |
AMPLICON |
VIRAL RNA |
PCR |
SINGLE
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