2.3. Phylogeny analysis

Md. Marufur Rahman; Shirmin Bintay Kader; S.M. Shahriar Rizvi

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2.3. Phylogeny analysis

MR Md. Marufur Rahman

SK Shirmin Bintay Kader

SR S.M. Shahriar Rizvi

This method is extracted from research article: Heliyon, Aug 2021

Molecular characterization of SARS-CoV-2 from Bangladesh: implications in genetic diversity, possible origin of the virus, and functional significance of the mutations

DOI: 10.1016/j.heliyon.2021.e07866

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We have used open source bioinformatics visualization platform Nextstrain (nextstrain.org) for phylogeny analysis of our sequences (Hadfield et al., 2018). Pairwise sequence alignment and clade assignment was done using web based Nextstrain tool Nextclade beta version 0.4.9 (Nextclade, 2020). The GISAID clade identification of the sequences was done using GISAID CoVsurver tool. Further detailed information of different clusters was derived from a preformed interactive web-based tree developed from a subsample of global sequences (~5000) by neighbour joining method in Nextstrain web interface (https://nextstrain.org/ncov/global, date accessed on 30 August, 2020).

This is an open access article under the CC BY license (http://creativecommons.org/licenses/by/4.0/).

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