Bogdanovic, O., Fernandez-Minan, A., Tena, J.J., de Lacalle-Mustienes, E., Hidalgo, C., van Kruysbergen, I., van Heeringen, S.J., Veenstra, G.J., and Gomez-Skarmeta, J.L. (2012) Dynamics of enhancer chromatin signatures mark the transition from pluripotency to cell specification during embryogenesis. Genome research. 22(10):2043-2053.
The generation of distinctive cell types that form different tissues and organs requires precise, temporal and spatial control
of gene expression. This depends on specific cis-regulatory elements distributed in the non-coding DNA surrounding their target
genes. Studies performed on mammalian embryonic stem cells and Drosophila embryos suggest that active enhancers form part
of a defined chromatin landscape marked by histone H3 lysine 4 mono-methylation (H3K4me1) and histone H3 lysine 27 acetylation
(H3K27ac). Nevertheless, little is known about the dynamics and the potential roles of these marks during vertebrate embryogenesis.
Here we provide genomic maps of H3K4me1/me3 and H3K27ac at four developmental time-points of zebrafish embryogenesis and analyze
embryonic enhancer activity. We find that: (i) changes in H3K27ac enrichment at enhancers accompany the shift from pluripotency
to tissue-specific gene expression; (ii) in early embryos, the peaks of H3K27ac enrichment are bound by pluripotent factors
such as Nanog; (iii) the degree of evolutionary conservation is higher for enhancers that become marked by H3K27ac at the
end of gastrulation suggesting their implication in the establishment of the most conserved (phylotypic) transcriptome that
is known to occur later at the pharyngula stage.