This file contains the source data for Extended Data Figure 5a-f.a,b, Boxplots (a) and heatmaps (b) showing ChIP-seq signal changes of H3K27me3 and H3K27ac at different types of 4C regions (gained, lost and unchanged 4C loops) in EV and DKO cells. The same 4C regions are connected by gray lines in the boxplot. c,d, Boxplots (c) and heatmaps (d) of ChIP-seq signal changes of H3K27me3 and H3K27ac at different types of 4C regions (gained, lost and unchanged 4C loops) in S1KO and DKO cells. The same 4C regions are connected by gray lines in the boxplot. e,f, Boxplots (e) and heatmaps (f) showing ChIP-seq signal changes of H3K27me3 and H3K27ac at different types of 4C regions (gained, lost and unchanged 4C loops) in EV and S1KO cells. The same 4C regions are connected by gray lines in the boxplot. Box and whisker plot: whiskers were extended to the furthest value that is no more than 1.5 times the inter-quartile range. The boxes represent the 25th percentile, median, and 75th percentile. The boxes represent the 25th percentile, median, and 75th percentile (a,c,e); n = 2 biologically independent replicates (a-f); two-sided Wilcoxon Signed-Rank paired test (a,c,e).

mRNA expression of proline synthesis-related genes (n=6/group)) (H) Aldh18a1 and (I) Pycr1 at P150 box plots of mRNA expressions represent quartiles, minimum, and maximum value (relative fold change "FC&qu Statistics for graph one-way ANOVA followed by Tukey"s. List of tagged entities: Aldh18a1 (ncbigene:56454), Pycr1 (ncbigene:209027), Bcs1l (ncbigene:66821), LOC108950628 (ncbigene:108950628), gene expression assay (bao:BAO_0002785), GRAC

(I) Cell death area ratio calculated in base 1 for the genotypes indicated. Box plots show maximum-minimum range (whiskers), upper and lower quartiles (open rectangles), and median value (horizontal black line), each dot representing the cell death area ratio from a different imaginal disc. Gray dots: a disc of each genotype is shown in (A-H); Black dots: a disc of each genotype in EV1. One way ANOVA test was used for multiple comparisons between all groups: n.s.=not significant, **p=0.0002, ****p<0.0001.. List of tagged entities: , ,

E. macularius (n = 68), E. angramainyu (n = 15), their hybrids of the first filial generation (F1; n = 27), and its reciprocal backcrosses of F1 males or females to the E.macularius (B1M; the individuals with the father F1 hybrid are denoted as MxMA, while those with the mother F1 hybrid as MAxM; n = 10 and 17, respectively). Median, quartiles and ranges are provided.