ZFIN ID: ZDB-FIG-190910-28
Bonkhofer et al., 2019 - Blood stem cell-forming haemogenic endothelium in zebrafish derives from arterial endothelium. Nature communications   10:3577 Full text @ Nat. Commun.
ADDITIONAL FIGURES
EXPRESSION / LABELING:
Genes:
Fish:
Anatomical Term:
Stage Range: Prim-5 to Prim-15
PHENOTYPE:
Fish:
Observed In:
Stage Range: Prim-5 to Prim-15

Fig. 4

Identification of Runx1-regulated genes within the aortic HE. a Experimental scheme to identify Runx1-regulated genes in the HE (DP-R1hi). Highlighted cell populations (DP-R1hi and DN) from un-injected (control) and runx1 MO-injected double transgenic TgBAC(runx1P2:Citrine);Tg(kdrl:mCherry) embryos (28–30 hpf) were used for differential gene expression analysis (DEG) by RNA-seq similar to Fig. 3b Multidimensional scaling plot (MDS-plot) analysis of the cell populations depicted in (a). cGene list intersection between ARE-specific and Runx1-repressed genes. d Gene list intersection between HE-specific and Runx1-activated genes. e Experimental strategy to analyse potential HE-specific Runx1 target genes by qRT-PCR in runx1+/+(WT) and runx1−/− mutant (MUT) embryos. f Timeline highlighting the time-points (red circles) used for subsequent qRT-PCR analysis. g qRT-PCR gene expression analysis of potential Runx1 targets (dnmt3baangpt1irf1b and pik3cd) in the HE and ARE of runx1+/+ (WT) and the HE of runx1−/− mutant (MUT) embryos at the time-points depicted in (f). Graphs show the mean of detected expression levels relative to the geometric mean (GM) of the two housekeeping genes eef1a1l and rpl13an = 5 independent biological experiments for WT embryos and n = 6 independent biological experiments for MUT embryos. Error bars represent the SEM. 2-way ANOVA; *p < 0.05; **p < 0.01; ***p < 0.001. h ISH analysis for the same genes analysed in (g) performed in runx1+/+ and runx1−/− embryos

Gene Expression Details
Gene Antibody Fish Conditions Stage Anatomy Assay
angpt1 WT standard conditions Prim-5 ventral wall of dorsal aorta ISH
runx1hg1/hg1 standard conditions Prim-5 ventral wall of dorsal aorta ISH
dnmt3ba WT standard conditions Prim-15 ventral wall of dorsal aorta ISH
runx1hg1/hg1 standard conditions Prim-15 ventral wall of dorsal aorta ISH
irf1b WT standard conditions Prim-15 ventral wall of dorsal aorta ISH
runx1hg1/hg1 standard conditions Prim-15 ventral wall of dorsal aorta ISH
pik3cd WT standard conditions Prim-15 ventral wall of dorsal aorta ISH
runx1hg1/hg1 standard conditions Prim-15 ventral wall of dorsal aorta ISH
Antibody Labeling Details No data available
Phenotype Details
Fish Conditions Stage Phenotype
runx1hg1/hg1 standard conditions Prim-5 ventral wall of dorsal aorta angpt1 expression decreased amount, abnormal
Prim-15 ventral wall of dorsal aorta dnmt3ba expression decreased amount, abnormal
Prim-15 ventral wall of dorsal aorta irf1b expression decreased amount, abnormal
Prim-15 ventral wall of dorsal aorta pik3cd expression decreased amount, abnormal
Acknowledgments:
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