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. 2021 Dec 30;7(1):87–96. doi: 10.1038/s41564-021-01021-8

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© The Author(s) 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 — All species detected within the CGC cohort and present in the PhyloPhlAn default database are shown; species profiled using StrainPhlAn are shown in red. Branches are coloured by phylum (Actinobacteria, red; Archaea, green; Bacteroidetes, yellow; Firmicutes, dark green; Proteobacteria, blue; Verrucomicrobia, pink), with the outer circles representing scaled prevalence (blue), relative abundance (percentage, pink) and pTRs (yellow). The number of genotypes recovered for each species is represented by bar plots (green).