Origins and Effects of Mutations in SARS-CoV-2 Genome

Stefan Dvoretskii, Christian Mertes, Julien Gagneur

Published: 15 Sept 2020, Last Modified: 04 May 2026ZenodoEveryoneRevisionsCC BY-SA 4.0
Abstract: Variants in the SARS-CoV-2 genome could moreover be indicative ofthe path, both geographic, temporal and phylogenetic, laid back by the virus bearingthe genome. To analyse the variants, as well as their development history and potentialimpact, I have designed a genomic pipeline operating on SARS-CoV-2 next generationsequencing reads. I show that this pipeline is useful for finding potentially pathogenicvariants or spatial and temporal relationships of viral genomes assembled from patientswab probes. This information is first and foremost proposed to be used in clinicalsettings, for instance as preliminary information for drug treatment adjustments orclinical arrangments of patients.