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Fig. 8 | BMC Biology

Fig. 8

From: Lineage-specific, fast-evolving GATA-like gene regulates zygotic gene activation to promote endoderm specification and pattern formation in the Theridiidae spider

Fig. 8

Effect of fuchi knockdown on chromatin accessibility in specific genomic regions in stage-3 embryos. A Distributions of differentially accessible genomic regions identified by comparisons between ATAC-seq datasets from fuchi (upper) or Pt-hh (lower) pRNAi and wild-type embryos. MA-plots represent log2 fold-change (FC) versus log2 average ATAC signal abundance (CPM). Two biological replicates were obtained from each sample type and analyzed. Significant differentially accessible regions (FDR < 0.05) are highlighted in red. Blue lines are loess fits to each distribution with 95% confidence intervals shaded in gray. Asterisks indicate positive peaks at the same genomic region. Detection of this region might not be specific to fuchi activity. B Heat maps showing chromatin accessibilities in the 316 genomic regions identified as fuchi-dependent (sorted by FDR values). The intensity of ATAC-seq signals is color-coded. The mid position of each identified peak region is centered. Data from the biological replicates are individually shown. Some of the identified regions are located close t o or within the loci of DEGs identified by the RNA-seq analyses, as shown on the left side. C Motif sequences enriched in the fuchi-dependent peaks, as revealed by a motif discovery tool STREME [104]. Peak regions containing detected motif sequences, RNWGATAAGAVW, are indicated in B (red dots)

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