Fig. 2

Spatial distribution of replication origins relative to the TADs in the G1 and G1/S phases. a A scheme of replication in TAD1 and TAD2. The top profile represents the replication landscape obtained by OK-seq. (−0.776–0.78) was the threshold of OK-seq [40]. The middle black peaks represent the dynamic replication profile, which was obtained by 10-min BrdU pulse labeling at 0 min, 30 min, 3 h, and 6 h into the S phase. (0–50) or (0–150) is the range of normalized BrdU-seq data. The gray bars represent the TAD boundaries in the RDs. The small red bars at the bottom represent the ORC1 and H2A.Z binding sites indicating the potential replication origins. Representative high-efficiency and low-efficiency replication origins defined by the BrdU-seq data and the OK-seq profile are marked with vertical rectangles. Yellow rectangle: high-efficiency replication origin (ORI1) at the TAD boundary. Red rectangles: high-efficiency replication origins in TAD1 (ORI2 and ORI3) and TAD2 (ORI6 and ORI7). Black rectangles: low-efficiency replication origins in TAD1 (ORI4 and ORI5). b Representative STORM images of TADs (green) and their origins (purple) labeled by FISH with oligoprobes in the G1 and G1/S phases. Upper, TADs and origins labeled at the G1/S transition. Lower, TADs and origins labeled at approximately 5 h into the G1 phase. Portions of the two signals that overlap are shown in white. The corresponding conventional images are shown in the inset. c Barycenter distances between origins and TADs in b (n ≥ 10 cells). To reduce the number of groups, the barycenter distance of each ORI was measured separately and displayed as four groups. d Radii of TAD1 and TAD2 in the G1 or G1/S phase (n ≥ 10 cells). For lines and statistics in c and d, see the description in the legend of Fig. 1. 3D results are shown in Fig. S11