@article{Wike01062021,
author = {Wike, Candice L. and Guo, Yixuan and Tan, Mengyao and Nakamura, Ryohei and Shaw, Dana Klatt and Díaz, Noelia and Whittaker-Tademy, Aneasha F. and Durand, Neva C. and Aiden, Erez Lieberman and Vaquerizas, Juan M. and Grunwald, David and Takeda, Hiroyuki and Cairns, Bradley R.}, 
title = {Chromatin architecture transitions from zebrafish sperm through early embryogenesis},
volume = {31}, 
number = {6}, 
pages = {981-994}, 
year = {2021}, 
doi = {10.1101/gr.269860.120}, 
abstract ={Chromatin architecture mapping in 3D formats has increased our understanding of how regulatory sequences and gene expression are connected and regulated in a genome. The 3D chromatin genome shows extensive remodeling during embryonic development, and although the cleavage-stage embryos of most species lack structure before zygotic genome activation (pre-ZGA), zebrafish has been reported to have structure. Here, we aimed to determine the chromosomal architecture in paternal/sperm zebrafish gamete cells to discern whether it either resembles or informs early pre-ZGA zebrafish embryo chromatin architecture. First, we assessed the higher-order architecture through advanced low-cell in situ Hi-C. The structure of zebrafish sperm, packaged by histones, lacks topological associated domains and instead displays “hinge-like” domains of ∼150 kb that repeat every 1–2 Mbs, suggesting a condensed repeating structure resembling mitotic chromosomes. The pre-ZGA embryos lacked chromosomal structure, in contrast to prior work, and only developed structure post-ZGA. During post-ZGA, we find chromatin architecture beginning to form at small contact domains of a median length of ∼90 kb. These small contact domains are established at enhancers, including super-enhancers, and chemical inhibition of Ep300a (p300) and Crebbpa (CBP) activity, lowering histone H3K27ac, but not transcription inhibition, diminishes these contacts. Together, this study reveals hinge-like domains in histone-packaged zebrafish sperm chromatin and determines that the initial formation of high-order chromatin architecture in zebrafish embryos occurs after ZGA primarily at enhancers bearing high H3K27ac.}, 
URL = {http://genome.cshlp.org/content/31/6/981.abstract}, 
eprint = {http://genome.cshlp.org/content/31/6/981.full.pdf+html}, 
journal = {Genome Research} 
}