The chromatin accessibility dynamics during cell fate specifications in zebrafish early embryogenesis.
Qiushi XuYunlong ZhangWei XuDong LiuWenfei JinXi ChenNi HongPublished in: Nucleic acids research (2024)
Chromatin accessibility plays a critical role in the regulation of cell fate decisions. Although gene expression changes have been extensively profiled at the single-cell level during early embryogenesis, the dynamics of chromatin accessibility at cis-regulatory elements remain poorly studied. Here, we used a plate-based single-cell ATAC-seq method to profile the chromatin accessibility dynamics of over 10 000 nuclei from zebrafish embryos. We investigated several important time points immediately after zygotic genome activation (ZGA), covering key developmental stages up to dome. The results revealed key chromatin signatures in the first cell fate specifications when cells start to differentiate into enveloping layer (EVL) and yolk syncytial layer (YSL) cells. Finally, we uncovered many potential cell-type specific enhancers and transcription factor motifs that are important for the cell fate specifications.
Keyphrases
- cell fate
- transcription factor
- gene expression
- single cell
- genome wide
- dna damage
- induced apoptosis
- rna seq
- dna methylation
- cell cycle arrest
- genome wide identification
- high throughput
- dna binding
- multidrug resistant
- endoplasmic reticulum stress
- signaling pathway
- cell death
- cell proliferation
- risk assessment
- climate change
- mass spectrometry
- single molecule