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. 2021 Jan 28;31(4):404–414. doi: 10.1038/s41422-020-00465-7

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© Center for Excellence in Molecular Cell Science, CAS 2021

Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.

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Fig. 2 — a Sequence comparison is performed by python with Biopython package. The EPI_ISL_424359 (blue) is set as the reference sequence. The contemporary SARS-CoV-2 strains used in this study are labeled in black and red. Variations are presented in accordance with their locations in viral genome. b The sample distribution of 289 strains with mutations at m⁶A modification site 1, 3, 4 and 6, each point represents one sample and plotted by R with ggplot2 package. Most of the mutant strains were found distributed in Europe and North America. c The maximum likelihood phylogenetic tree estimated using IQ-TREE. The final result is visualized by ggtree. Conserved nucleotide changes are inferred using the EPI_ISL_424359 strain as the reference strain. Virus sequences selected from 7 GISAID clade (L, S, G, GH, GR, O, V) and the continent information is shown in different colors. The positions of mutant strains of m⁶A sites are indicated with arrows colored by green (Site 1), purple (Site 3), yellow (Site 4) and blue (Site 6). The details of the tree are shown in Supplementary information, Table S4.