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. 2020 Feb 25;10:3419. doi: 10.1038/s41598-020-60304-y

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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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Complex representation/delineation of the dependence of the distribution of the core bacteria of broiler (Gallus gallus domesticus) according to different batch-effects of metagenome DNA extraction protocols. Distortions in the observed relative abundances on phylum and class level are shown. (a) Area plots show the relative abundance variations of the protocol variations in the 50% core microbiota compositions in relation to sample homogenization strategies. (b) Estimated log2 values of the proportions (stirring-RS/washing-BS) of abundance values associated with protocol batch-effects of dedicated phyla and classes showing clear distortions. The horizontal line is plotted at a value of 0 corresponding to equal proportions of values associated to differences in sample homogenizations. Box lengths indicate within sample variations.