Fig. 2.
TE changes accompanying allopolyploidization and their correlation with structural variation and DNA methylation. A The density of TEs in OCPs between common carp (the former in each pair) and goldfish (the latter in each pair). B The percentage represents the differences in TEs between the two inbred parents of hybrids (left figure). TE differences were detected in each OCP (right figure). C Repeat sequence lengths among the allotetraploid, goldfish, and common carp. Red numbers represent a higher percentage (> 50%) in the allotetraploid than in the combination of the two inbred parents, while black numbers represent a lower percentage (< 50%). D Structural variation frequency in regions of TEs (< 1 kb) and no-TE. Correlation relationship between the distribution of TEs and structural variations in the allotetraploid (p < 0.001, t test). E Methylation levels (MLs) of homoeologs around TE regions in four developmental stages of goldfish, common carp, F1, and F22. “Up 2k” represents the 2 kb upstream region. “Down 2k” represents the 2 kb downstream region.