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Bogdanovic O.,Centro Andaluz Of Biologia Del Desarrollo Cabd Csic Upo Ja | Fernandez-Minan A.,Centro Andaluz Of Biologia Del Desarrollo Cabd Csic Upo Ja | Tena J.J.,Centro Andaluz Of Biologia Del Desarrollo Cabd Csic Upo Ja | de la Calle-Mustienes E.,Centro Andaluz Of Biologia Del Desarrollo Cabd Csic Upo Ja | Gomez-Skarmeta J.L.,Centro Andaluz Of Biologia Del Desarrollo Cabd Csic Upo Ja
Methods | Year: 2013

Genome-wide profiling of DNA methylation and histone modifications answered many questions as to how the genes are regulated on a global scale and what their epigenetic makeup is. Yet, little is known about the function of these marks during early vertebrate embryogenesis. Here we provide detailed protocols for ChIP-seq and MethylCap-seq procedures applied to zebrafish (Danio rerio) embryonic material at four developmental stages. As a proof of principle, we have profiled on a global scale a number of post-translational histone modifications including H3K4me1, H3K4me3 and H3K27ac. We demonstrate that these marks are dynamic during early development and that such developmental transitions can be detected by ChIP-seq. In addition, we applied MethylCap-seq to show that developmentally-regulated DNA methylation remodeling can be detected by such a procedure. Our MethylCap-seq data concur with previous DNA methylation studies of early zebrafish development rendering this method highly suitable for the global assessment of DNA methylation in early vertebrate embryos. © 2013 Elsevier Inc. Source

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