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. 2018 Jun 8;9:2234. doi: 10.1038/s41467-018-04550-9

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© The Author(s) 2018

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 — Heat map of coverage across virulence-associated genes. The virulence potential of RT5 shotgun-sequenced and captured genomes is compared to representative strains from the LNBA lineage, namely, RISE509 (whose virulence profile is identical to that of isolates RK1.001, GEN72, Gyvakarai1 and Kunila2³) and 1343UnTal85 (whose virulence profile is identical to 6Postillionstrasse and RISE505³). In addition it is compared to modern-isolate representatives 0.PE4-Microtus91001, 0.PE2-PestoidesF and 1.OR1-CO92, and to Y. pseudotuberculosis (strain IP32953). The virulence factors inspected were located on the Y. pestis chromosome, as well as on the pMT1, pPCP1 and pCD1 plasmids. The percentage of each gene covered (scale bar) was computed and plotted in the form of a heatmap using the ggplot2⁷⁹ package in R