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. 2021 Jul 22;11:14993. doi: 10.1038/s41598-021-94418-8

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© The Author(s) 2021

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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(A) Relative abundance in caecal samples of infected and control animals. Prior to overall relative abundance analysis, data undergoes CSS normalisation and abundances were converted into percentages before sorting at species level. OTUs with similar species identification were pooled together for relative abundance analysis. Species with relative abundance < 1.0% were grouped together. (B) Beta diversity using Unweighted UniFrac distance (PERMANOVA of LMM condition P = 0.90, batch effect P < 0.05). Prior to beta diversity analysis, OTUs < 0.01% were judged to be insignificant not included in the overall analysis.