“…After whole-mount immunofluorescence, embryos were unfolded with forceps from the lateral side, placed onto a pre-treated glass slide with their ventral side (node/notochord) facing up, mounted with a drop of mounting medium (Thermo Scientific Shandon, 9990402), then sealed with a coverslip ( Xiao et al., 2018 ). Z-stack images were acquired with a Zeiss LSM 880 inverted confocal microscope (Carl Zeiss), using a Plan-Apochromat 10X/0.45 objective for node/notochord 5hmC imaging for embryo E4 (embryo from Figure 6 G), a Plan-Apochromat 20X/0.8 objective for embryos in Figure 6 B and embryo E1, E2, E3, and E5 in Figure 6 G. Z-stacks with a thickness that ranged approximately 15-22 μm made up of 16-25 images were collected.…”