APMAdvances in Precision Medicine2424-85922424-9106WHIOCE PUBLISHING PTE. LTD.10.18063/apm.v6i1.234ArticleA Case of Whole Genome Analysis of SARS-CoV-2  Using Oxford Nanopore MinION Systemhttps://artdesignp.com/journal/APM/6/1/10.18063/apm.v6i1.234KimJae-Seok,ChungSung Hee,KimJung-Min,KimHyun Soo,KimHan-Sung,SongWonkeun2021612021-07-25The application of whole genome sequencing on the SARS-CoV-2 viral genome is  essential for our understanding of the molecular epidemiology and spread of viruses  in the community. The portable whole genome sequencer MinION (Oxford Nanopore  Technologies, ONT, UK) could be feasibly used in a clinical microbiology laboratory  without the need for vast resources or stringent operating conditions. We used the  MinION sequencer to analyze the viral genome sequence of one SARS-CoV-2 strain. In  June 2020, a nasopharyngeal specimen from one patient was subjected to whole-genome  analysis using the nCoV-2019 sequencing protocol ARTIC V2 using the MinION  sequencer. The ONT MinKNOW software, RAMPART tool, and Genome Workbench  were used. We identified 11 nucleotide variants using the Wuhan-Hu-1 isolate  (NC_045512.2) as the reference sequence. There were six nucleotide variants (T265I,  F924, Y3884L, P4715L, L5462, and Q6804L) in the ORF1ab region, one variant (D614G)  in the S gene, one variant (Q57H) in ORF3a, one variant (P302) in the N gene, and two  variants in each the 5’-UTR and 3’-UTR. In this prolonged coronavirus disease 2019  (COVID-19) pandemic season, the MinION system that operates an amplicon-based  whole-genome sequencing protocol could be a rapid and reliable sequencer without the  need for cumbersome viral cultivation.Nanopore sequencing,SARS-CoV-2,COVID-19,Whole genome sequencing

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