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. 2022 Sep 15;7(10):1516–1524. doi: 10.1038/s41564-022-01221-w

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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 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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Extended Data Fig. 7 — Sub-strain variations over time for other individuals (E. coli). Selected figures were plotted for subjects with >3 consecutive single-strain timepoints. Coloured lines depict clusters of SNVs that were identified. Timepoints are shaded based on whether they were determined to be CPE colonized (red) or not (green). Note that while a cluster of SNVs typically tends to be dominant in a subject across timepoints (coloured in dark blue, except for 0504-F1), they can drop in frequency at some timepoints, and this does not necessarily coincide with the CPE decolonization event as was observed for 1674-T (for example, V08 for 0528-T).

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