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. 2020 Jul 3;11:3363. doi: 10.1038/s41467-020-17094-8

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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 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. 4 — a Heatmap illustrating pathways enriched in differentially expressed genes. All illustrated categories are more highly expressed in Karp. FDR-corrected p-values were calculated using the fry gene set enrichment test in the edgeR R package. b Volcano plot showing the differential expression of bacterial genes in Karp and UT176. Bacterial surface genes (red) and ankyrin-repeat-containing effector proteins (blue) with log fold change ≥1 are highlighted. Gray dots represent RAGE (rickettsial-amplified genetic element) genes. FDR-corrected two-sided p-values were calculated using the quasi-likelihood F-test in the edgeR R package.