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. 2022 Dec 6;12:21098. doi: 10.1038/s41598-022-25636-x

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© The Author(s) 2022

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 licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence 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 licence, visit http://creativecommons.org/licenses/by/4.0/.

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Phylogenetic tree based on core-genome alignment of P. vulgatus strains and genomic differences between strains clustered in one developmental line. Strains isolated from donors 1 and 2 are highlighted in grey and blue, respectively. Pairwise distances of the core genomes of bacterial strains in one developmental line is expressed as single nucleotide polymorphisms (SNPs) and shown in the corresponding matrix. Phylogenetic trees of B. uniformis, B. ovatus and B. thetaiotaomicron strains are presented in Supplementary Fig. 2.