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. 2021 Sep 30;53(10):1493–1503. doi: 10.1038/s41588-021-00933-9

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© The Author(s) 2021

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. 3 — a, Boxplots of the Ka:Ks ratio distribution of homoeologs from 2,096 septuplets in each tetraploid (except the genes in the scaffolds or having no Ka:Ks ratios). The blue, gray, pink and purple boxplots indicate Ka:Ks distributions from the common-carp-hosted subA genes in the A subgenome, common-carp-hosted subB genes in the B subgenome, goldfish-hosted subA genes in the A subgenome and goldfish-hosted subB genes in the B subgenome, respectively. The P. guichenoti orthologs were served as references. The boxplots show the 25th, 50th and 75th percentiles; the upper and lower whiskers correspond to the third quartile + 1.5× the interquartile ratio and the first quartile + 1.5× the interquartile ratio, respectively. The P values were calculated using the two-sided Mann–Whitney U-test. The n values in the brackets represent the gene numbers of four types on the chromosomes. b, The distribution of AS ratios of 2,096 pairs (listed in the brackets) between two compared genomes. The definitions of the boxplots and whiskers were the same as those in a. c, Heatmap of 2,096 sextuplets, clustered into 10 groups based on the AS number. The color bar at the right indicates the different clusters. d, Circos plot distribution of all TS events in two tetraploid genomes. Red lines and blue lines represent intra-A subgenome and intra-B subgenome TS events, respectively. Orange lines join two separate mRNAs from the A and B subgenomes.