PUBLICATION

Chromatin accessibility established by Pou5f3, Sox19b and Nanog primes genes for activity during zebrafish genome activation

Authors
Pálfy, M., Schulze, G., Valen, E., Vastenhouw, N.L.
ID
ZDB-PUB-200116-10
Date
2020
Source
PLoS Genetics   16: e1008546 (Journal)
Registered Authors
Vastenhouw, Nadine
Keywords
none
Datasets
GEO:GSE130944
MeSH Terms
  • Animals
  • Chromatin/genetics
  • Chromatin Assembly and Disassembly*
  • Embryo, Nonmammalian/metabolism
  • Gene Expression Regulation, Developmental*
  • Genomic Imprinting
  • Nanog Homeobox Protein/metabolism*
  • Octamer Transcription Factor-3/metabolism*
  • SOX Transcription Factors/metabolism*
  • Zebrafish
  • Zebrafish Proteins/metabolism*
PubMed
31940339 Full text @ PLoS Genet.
Abstract
In many organisms, early embryonic development is driven by maternally provided factors until the controlled onset of transcription during zygotic genome activation. The regulation of chromatin accessibility and its relationship to gene activity during this transition remain poorly understood. Here, we generated chromatin accessibility maps with ATAC-seq from genome activation until the onset of lineage specification. During this period, chromatin accessibility increases at regulatory elements. This increase is independent of RNA polymerase II-mediated transcription, with the exception of the hypertranscribed 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 genome activation, results in decreased accessibility at regulatory elements. Importantly, the accessibility of regulatory regions, especially when established by Pou5f3, Sox19b and Nanog, is predictive for future transcription. Our results show that the maternally provided transcription factors Pou5f3, Sox19b, and Nanog open up chromatin and prime genes for activity during zygotic genome activation in zebrafish.
Genes / Markers
Figures
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Expression
Phenotype
Mutations / Transgenics
Human Disease / Model
Sequence Targeting Reagents
Fish
Antibodies
Orthology
Engineered Foreign Genes
Mapping