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Fig. 4 | BMC Biology

Fig. 4

From: Symmetric subgenomes and balanced homoeolog expression stabilize the establishment of allopolyploidy in cyprinid fish

Fig. 4

DNA methylation changes accompanying allopolyploidization. A The methylation ratios between subgenomes R and C in the four periods were observed in “up 2k” (2 kb upstream of TSS), gene body, and “down 2k” (2 kb downstream of TTS) regions. B Comparative analyses of DMRs among the inbred parents (goldfish and common carp), F1, and F22. In subgenome R, dark red represents the number of genes with higher methylation levels in the first group, while light red represents those with higher methylation levels in the second group. In subgenome C, dark blue represents the number of genes with higher methylation levels in the first group, while light blue represents those with higher methylation levels in the second group. The “BL to H” represents the four embryo development stages in order of BL, G, S, and H periods. C Differential methylation (DM) analysis between the two inbred parents revealed hyper-DMGs (DM > 0.6) and hypo-DMGs (DM < 0.6). Some of these genes (black box) exhibit inherited methylation changes during allopolyploidization. Some genes (yellow box) exhibit hybridization-induced and polyploidization-recovered methylation changes. Some genes (white box) show polyploidization-induced methylation changes. Brackets indicate no DM between the two inbred parents and the two hybrids

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