Abstract
The SARS-CoV-2 coronavirus pandemic has been an unprecedented challenge to global pandemic response and preparedness. With the continuous appearance of new SARS-CoV-2 variants, it is imperative to implement tools for genomic surveillance and diagnosis in order to decrease viral transmission and prevalence. The ADSSpike workflow was developed with the goal of identifying signature SNPs from the S gene associated with SARS-CoV-2 variants through amplicon deep sequencing. Seventy-two samples were sequenced, and 30 mutations were identified. Among those, signature SNPs were linked to 2 Zeta-VOI (P.2) samples and one to the Alpha-VOC (B.1.17). An average depth of 700 reads was found to properlycorrectly identify all SNPs and deletions pertinent to SARS-CoV-2 mutants. ADSSpike is the first workflow to provide a practical, cost-effective, and scalable solution to diagnose SARS-CoV-2 VOC/VOI in the clinical laboratory, adding a valuable tool to public health measures to fight the COVID-19 pandemic for approximately $41.85 USD/reaction.
Keywords: Amplicon deep sequencing; S gene; SARS-CoV-2; Variants of concern; Variants of interest.
【저자키워드】 SARS-CoV-2, variants of concern, variants of interest, S gene, Amplicon deep sequencing, 【초록키워드】 pandemic, Mutation, COVID-19 pandemic, Genomic surveillance, SARS-CoV-2 variant, Diagnosis, SARS-CoV-2 coronavirus, variants, Laboratory, global pandemic, Prevalence, Surveillance, SARS-CoV-2 variants, Deletion, SNP, P.2, Viral transmission, genomic, diagnose, S gene, deep sequencing, Amplicon, clinical laboratory, public health measure, reaction, average, public health measures, SARS-CoV-2 mutants, deletions, decrease, new SARS-CoV-2, identify, sequenced, imperative, 【제목키워드】 SARS-CoV-2 variant,