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. 2020 Dec 15;6:61. doi: 10.1038/s41522-020-00171-7

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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. 5 — The ForceAtlas algorithm was applied to Spearman’s rank correlation matrices, which were calculated from absolute species abundance tables of shotgun metagenomic sequencing data. Directed networks were generated by including only significant and strong positive correlations (p < 0.05, Spearman’s rank correlation coefficient > 0.60) and all significant negative correlations (p < 0.05), which are represented by grey and yellow nodes, respectively. Coloured edges visualise correlations that involve one of the four genera that explain most of the correlations (Streptococcus, Veillonella, Actinomyces and Neisseria), whereas all other edges are shown in grey. The size of network nodes refers to the corresponding betweenness centrality.