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. 2023 Aug 31;24:508. doi: 10.1186/s12864-023-09597-7

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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 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/. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated in a credit line to the data.

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Fig. 2 — Rarefaction curves of pan and core gene numbers and summary statistics for the pangenome of Halorubrum. (a) Rarefaction curve for the accumulation of pan genes. (b) Rarefaction curve for the reduction of core genes. (c) Summary statistics for the 20,482 pan genes of Halorubrum. Cloud genes, 0% ≤ strains < 15%; shell genes, 15% ≤ strains < 95%; strict core genes, strains = 100%; soft core genes, 95% ≤ strains < 99%. The curves were fitted to median values of 1,000 permutations. The dark lines in (a) and (b) indicate median values, and the ‘shadows’ indicate the 95% confidence intervals. α = 0.564 ± 0.004 in (a) and α = 0.201 ± 0.011 in (b), indicating an open pangenome and core genome of Halorubrum. (d) Functional distribution of core genes (strict core genes plus soft core genes), shell genes and cloud genes for Halorubrum