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. 2021 Apr 23;22:119. doi: 10.1186/s13059-021-02351-w

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© The Author(s) 2021

Open AccessThis 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. 4 — Comparison of core and variable genes in A and D subgenomes. a Expression levels of core and variable genes in G. hirsutum and G. barbadense. The softcore genes are represented by “Soft.” b Ratio of transposable element (TE) insertion frequency in upstream 2 kb of core and variable genes in the A and D subgenomes. c Ratio of nonsynonymous/synonymous (K_a/K_s) mutations of core and variable genes. d SNP diversity of core and variable genes. The comparison of gene expression, TE, and SNP diversity between core and variable genes were carried out using a two-sided Kolmogorov-Smirnov test (*P < 0.05, **P < 0.01, ***P < 0.001)