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. 2019 May 29;569(7758):655–662. doi: 10.1038/s41586-019-1237-9

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© The Author(s) 2019

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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Extended Data Fig. 4 — a, Alpha diversity (Gini–Simpson) as a function of the dysbiosis score for the sample (Pearson correlation –0.60; P < 2.2 × 10⁻¹⁶). n = 1,595 samples from 130 subjects. b, Seven (chosen for space constraints) most differentially abundant species not shown elsewhere in this manuscript (n = 1,595 samples from 130 subjects; Wald test; see Methods; full results in Supplementary Table 15). c, Top 10 differentially abundant acylcarnitines in dysbiosis (n = 546 samples from 106 subjects; Wald test). Carnitine and acylcarnitines are more abundant in dysbiotic CD, whereas C20:4 carnitine is significantly depleted (Supplementary Table 16). d, Top 10 differentially abundant metabolites during dysbiosis not shown elsewhere in this manuscript (n = 546 samples from 106 subjects; Wald test; full results in Supplementary Table 16).