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Temporal transcriptome in Pou5f3 and Sox19b mutant zebrafish embryos

ABSTRACT: Temporal transcriptome in Pou5f3 and Sox19b mutant zebrafish embryos

PROVIDER: PRJNA565416 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR10117511.fastq.gz	Fastqsanger.gz
	SRR10117512.fastq.gz	Fastqsanger.gz
	SRR10117513.fastq.gz	Fastqsanger.gz
	SRR10117514.fastq.gz	Fastqsanger.gz
	SRR10117515.fastq.gz	Fastqsanger.gz

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Temporal transcriptome in Pou5f3, Nanog and Sox19b mutant zebrafish embryos

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Regulation of chromatin accessibility in early zebrafish embryos by Pou5f3 and Sox19b transcription factors.

Project description:Pou5f3 and Sox19b transcription factors promote chromatin accessibility and activate zygotic transcription in zebrafish embryos. It is poorly understood how two transcription factors act together on chromatin. To answer this question, we performed Omni-ATAC-seq on the zebrafish embryos, single and double mutants by Pou5f3 and Sox19b, as well as the wild-type, at two blastula developmental stages, oblong and dome. We report, that chromatin accessibility on 48% of all putative enhancers depends on Pou5f3 and Sox19b. Out of them, accessibility on 33% enhancers is reduced in the double mutant and of 15% is increased. Enhancers with reduced and increased chromatin accessibility differ in GC content and transcription factors binding motif frequency, and are linked to early and late developmental regulatory genes, respectively. Our results indicate that Pou5f3 and Sox19b not only activate early zygotic genes, but also prevent premature activation of late developmental enhancers.

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Pou5f3 and Sox19b select gene expression repertoire at zebrafish Zygotic Genome Activation

Project description:In zebrafish embryos, the maternal transcription factors (TFs) Pou5f3 and Sox19b activate the early zygotic gene expression. To evaluate the unique and common roles of Pou5f3 and Sox19b, we examined the changes in H3K27ac and H3K4me3 chromatin modifications in the embryos mutant by each TF.

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Project description:In many organisms, early embryonic development is driven by maternally provided transcription factors until the controlled onset of transcription during zygotic genome activation (ZGA). The regulation of chromatin accessibility and its relationship to gene activity during this transition remains poorly understood. Here, we generated chromatin accessibility maps for the early stages of zebrafish development spanning genome activation and the onset of lineage specification. We find that during this period, chromatin accessibility increases at regulatory elements. This is independent of RNA pol II-mediated transcription, with the exception of the miR-430 locus. Instead, accessibility often precedes the transcription of associated genes. Loss of the maternal transcription factors pou5f3, sox19b, and nanog, which are known to be required for zebrafish ZGA, results in decreased accessibility at regulatory elements. Finally, we show that accessibility of regulatory regions, especially when established by Pou5f3, Sox19b and Nanog, is predictive for future transcription. Together, our results suggest that maternally provided transcription factors prime genes for activity during zygotic genome activation.

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Regulation of chromatin accessibility in early zebrafish embryos by Pou5f3 and Sox19b transcription factors.

Project description:Regulation of chromatin accessibility in early zebrafish embryos by Pou5f3 and Sox19b transcription factors.

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