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. 2021 Jul 29;3:53. doi: 10.1186/s42523-021-00113-4

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© The Author(s) 2021

Open AccessThis 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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Fig. 6 — Summary of detected pathogens. Number of positive samples for different pathogen species detected by mNGS in a 27 non SPF fecal samples (sample set A) and in b additional 15 non SPF fecal samples (sample set B). c Comparison between metagenomic data (dark gray bars) and results from health monitoring assays (light gray bars) employed for pathogens detection in all 42 non-SPF mice. x axis: number of samples positive for the indicated pathogen. y axis: pathogen species. All data were confirmed by PCR and sequencing