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. 2019 Nov 22;2:428. doi: 10.1038/s42003-019-0678-x

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© The Author(s) 2019

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. 3 — Genetic relatedness between clinical and environmental isolates from households. a Boxplot summarises pairwise SNPs distance between each clinical and its closest environmental isolate from each monophyletic group after removing recombination signals. A pairwise SNP distance between two clinical isolates cultured from the same patient were included as a threshold. b Correlation between pairwise SNP distance and geographical distance of clinical and its closest environmental isolates. c–g Geographical distance between clinical and its closest environmental isolates by monophyletic group. Red and blue dots represent clinical and environmental isolates, respectively. Colour shade of the links indicates the pairwise SNP distance between the pair. Source data used to plot (a) and (b) is available in Supplementary Datas 12 and 13, respectively.