Fig. 3

Transcriptomic analysis of dnmt3ba-deficient HECs.

A Schematic representation of the strategy used for cell preparation and RNA-seq in kdrl⁺runx1⁺ HECs in the VDA region of control and dnmt3ba morphants at 36 hpf. B Volcano plots showing the differentially expressed genes in HECs between control and dnmt3ba morphants with |log₂FC | ≥ 1 and q-value < 0.05. C The number of upregulated and downregulated genes in HECs in dnmt3ba morphants compared to controls at 36 hpf. D KEGG analysis for the downregulated genes in dnmt3ba morphants. E KEGG analysis for the upregulated genes in dnmt3ba morphants. F TUNEL assay showing the apoptotic HECs (yellow arrowheads) in the VDA region of control and dnmt3ba mutants with Tg(kdrl:mCherry/runx1:en-GFP) background at 36 hpf. White arrowheads indicate HECs. Three independent experiments were conducted. G Quantification of the percentage of apoptotic HECs relative to total viable HECs (apoptotic HECs/total viable HECs × 100%) (n = 16 (dnmt3ba^+/+), 18 (dnmt3ba^−/−) embryos). Scale bars, 50 µm. In (G), statistical significance was determined by a Two-tailed Student’s t-test.