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. 2023 Jan 19;14:303. doi: 10.1038/s41467-023-35813-9

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© The Author(s) 2023

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 maximum likelihood phylogeny of 471 tuberculosis isolates from Lineage 4 inferred from a multiple sequence alignment of 9966 SNPs and rooted on three sub-lineage 4.8 samples from this study. Branch lengths are in units of substitutions per site. Branches are colored by sub-lineage. From the inside, rings are colored by antimicrobial resistance; city of sampling; and incarceration status at the time of TB notification. Other isoniazid includes isoniazid mono-resistant isolates without an ahpC promoter mutation. Rifampicin indicates rifampicin mono-resistant isolates. Other resistance includes isolates with mutations associated with resistance to pyrazinamide, streptomycin, or fluoroquinolones and not isoniazid or rifampicin. Source data are provided as a Source Data file.