Viral Instant Mutation Viewer (VIMVer) : a tool to speed up the identification and analysis of new SARS-CoV2 emerging variant and beyond - Archive ouverte HAL Access content directly
Journal Articles Viruses Year : 2023

Viral Instant Mutation Viewer (VIMVer) : a tool to speed up the identification and analysis of new SARS-CoV2 emerging variant and beyond

Abstract

The appearance of genetic variants impacts vaccination efficiency and therapeutic options, generating a need to map and relate mutations observed in the proteome and the genome. We develop an user-friendly web-service software (Viral Instant Mutation Viewer or VIMVer) which allows a direct identification of mutations in the genome and its counterpart in the viral proteome. Since its emergence in 2019, the severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2), responsible for the COVID-19 pandemic, has generated an overwhelming amount of data while becoming one of the most studied viruses of the Nidovirales family. We originally develop this tool during the COVID pandemic, thus for any SARS-CoV-2 nucleotide sequence the web-service gives a fast identification, mapping, and display of new mutations simultaneously at the nucleotide and amino acid level in comparison to a reference sequence (Wuhan-1). Furthermore, the lineage or the relative position to known lineage of the variant of interest is available on the link to Phylogenetic Assignment of Named Global Outbreak LINeages (Pangolin COVID-19). The workflow presented here is available through a web service (https://vimver.afmb.univ-mrs.fr/). The source code is released under public license and can be easily adapted for further development to other viruses.
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Dates and versions

hal-04149011 , version 1 (03-07-2023)

Identifiers

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Vincent Wilde, Bruno Canard, François Ferron. Viral Instant Mutation Viewer (VIMVer) : a tool to speed up the identification and analysis of new SARS-CoV2 emerging variant and beyond. Viruses, 2023, 15 (8), pp.1628. ⟨10.3390/v15081628⟩. ⟨hal-04149011⟩
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