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. 2023 Jan 19;41(9):1320–1331. doi: 10.1038/s41587-022-01628-0

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© The Author(s) 2023

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. 1 — a, Taxonomic coverage and sources of reconstructed strains. b, Taxonomic distribution of the included 7,302 strains. c, Features of the AGORA2 reconstructions and KBase draft reconstructions. c, cytosol; e, extracellular space; p, periplasm. Growth rates on Western diet (WD) and unlimited medium (UM) are given in h⁻¹ (Methods). ATP production potential on WD is given in mmol per g_{dry weight} per h. Shown are averages across all models ±standard deviations. d, Number of reconstructions with available positive findings from comparative genomics and literature, and percentage of curated and draft reconstructions agreeing with the findings for the respective organism. N/A, not applicable as the pathway was absent in draft reconstructions. CM, chemically defined medium.