Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Danio rerio

ABSTRACT: Zygotic gene activatory network in zebrafish is globally controlled by Pou5f1 SoxB1 enhancers

PROVIDER: PRJNA171706 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR530641.fastq.gz	Fastqsanger.gz
	SRR530642.fastq.gz	Fastqsanger.gz
	SRR530643.fastq.gz	Fastqsanger.gz
	SRR530644.fastq.gz	Fastqsanger.gz
	SRR908306.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 5

Similar Datasets

Nanog, SoxB1 and Pou5f1/Oct4 regulate widespread zygotic gene activation during the maternal-to-zygotic transition

Project description:Upon fertilization, maternal factors direct development in a transcriptionally silent embryo. At the maternal-to-zygotic transition (MZT), a universal step in animal development, unknown maternal factors trigger zygotic genome activation (ZGA). In zebrafish, ZGA is required for gastrulation and clearance of maternal mRNAs, which is achieved in part by the conserved microRNA miR-430. However, the precise factors that activate the zygotic program remain largely unknown. Here we show that Nanog, Pou5f1 and SoxB1 are required for genome activation in zebrafish. We identified several hundred genes directly activated by maternal factors, thus constituting the first wave of zygotic transcription in zebrafish. Ribosome profiling in the pre-MZT embryo revealed that nanog, sox19b and pou5f1 are the most highly translated transcription factor mRNAs. Combined loss of function for Nanog, SoxB1 and Pou5f1 resulted in developmental arrest prior to gastrulation, and a failure to activate >75% of zygotic genes. Furthermore, we found that Nanog binds the miR-430 locus and together with Pou5f1 and SoxB1 initiate miR-430 expression and activity. Our results demonstrate that maternal Nanog, Pou5f1 and SoxB1 are required to initiate the zygotic developmental program and in turn trigger the clearance of the maternal program by activating miR-430 expression. Wild type and loss-of-function total mRNA sequencing of embryonic transcriptomes pre- and post-MZT; ribosome profiling pre-MZT

2013-09-22 | E-GEOD-47558 | biostudies-arrayexpress

Danio rerio

Project description:Nanog, SoxB1 and Pou5f1/Oct4 regulate widespread zygotic gene activation during the maternal-to-zygotic transition

| PRJNA206070 | ENA

Nanog, SoxB1 and Pou5f1/Oct4 regulate widespread zygotic gene activation during the maternal-to-zygotic transition

2013-09-22 | GSE47558 | GEO

Zygotic gene activatory network in zebrafish is globally controlled by Pou5f1 SoxB1 enhancers

Project description:Genetic control of pluripotent mammalian ES cells is determined by a transcriptional network, with a "central core" of transcription factors, Pou5f1, Sox2 and Nanog. Zebrafish homologues of the "core pluripotency factors" Pou5f1, SoxB1 and Nanog-like are also crucially involved in early development. However, the degree of functional similarity of the network between mammals and non-mammals is a matter of debate. To identify the components of Pou5f1-dependent transcriptional networks, we determined the genomic binding sites for Pou5f1 and Sox2 in late blastula stage zebrafish embryos using ChIP-seq. We found that Sox2 and Pou5f1 are co-binding to the regulatory regions of Sox2, Pou5f1, and Nanog-like, as well as to multiple orthologues of mammalian plutipotency network components. Deep sequencing was performed using the Illumina GAIIx on DNA samples obtained from Sox2 ChIP, Pou5f1-Flag ChIP and Input Control. Pou5f1 was analysed in technical duplicates to obtain higher sequencing depth.

2013-08-10 | E-GEOD-39780 | biostudies-arrayexpress

Zygotic gene activatory network in zebrafish is globally controlled by Pou5f1 SoxB1 enhancers

2013-08-10 | GSE39780 | GEO

Danio rerio

Project description:Dynamic RNA-protein interactions underlie the zebrafish maternal-to-zygotic transition

| PRJNA306648 | ENA

Danio rerio

Project description:RNAseq of wild type and maternal-zygotic Nanog mutant (MZnanog) zebrafish embryos

| PRJNA350823 | ENA

Danio rerio

Project description:Differential transcript isoform usage pre- and post-zygotic genome activation in zebrafish

| PRJNA174427 | ENA