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. 2020 Sep 2;10:14428. doi: 10.1038/s41598-020-71344-9

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© The Author(s) 2020

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 licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence 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 licence, visit http://creativecommons.org/licenses/by/4.0/.

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Pan-genome of 87 bovine- and human-associated S. Typhimurium isolates from New York State, 1999–2016. All plots were constructed using Roary version 3.11.0 and associated scripts. Panels display (A) the number of total (dotted line) and conserved (solid line) orthologous clusters detected in all 87 isolates as genomes were added randomly (constructed using Roary’s create_pan_genome_plots.R script), and (B) the number of orthologous clusters (y-axis) detected per number of genomes (x-axis; constructed using Roary’s roary_plots.py script).