The landscape of accessible chromatin in mammalian preimplantation   embryos

doi:10.1038/nature18606

CORC > 北京大学 > 生命科学学院

	The landscape of accessible chromatin in mammalian preimplantation embryos
	Wu, Jingyi ; Huang, Bo ; Chen, He ; Yin, Qiangzong ; Liu, Yang ; Xiang, Yunlong ; Zhang, Bingjie ; Liu, Bofeng ; Wang, Qiujun ; Xia, Weikun ; Li, Wenzhi ; Li, Yuanyuan ; Ma, Jing ; Peng, Xu ; Zheng, Hui ; Ming, Jia ; Zhang, Wenhao ; Zhang, Jing ; Tian, Geng ; Xu, Feng ; Chang, Zai ; Na, Jie ; Yang, Xuerui ; Xie, Wei
刊名	NATURE
	2016
关键词	GENE-EXPRESSION MOUSE EMBRYO STEM-CELLS RNA-SEQ VISCERAL ENDODERM TRANSCRIPTION DIFFERENTIATION DYNAMICS REVEALS GENOME
DOI	10.1038/nature18606
英文摘要	In mammals, extensive chromatin reorganization is essential for reprogramming terminally committed gametes to a totipotent state during preimplantation development. However, the global chromatin landscape and its dynamics in this period remain unexplored. Here we report a genome-wide map of accessible chromatin in mouse preimplantation embryos using an improved assay for transposase-accessible chromatin with high throughput sequencing (ATAC-seq) approach with CRISPR/Cas9-assisted mitochondrial DNA depletion. We show that despite extensive parental asymmetry in DNA methylomes, the chromatin accessibility between the parental genomes is globally comparable after major zygotic genome activation (ZGA). Accessible chromatin in early embryos is widely shaped by transposable elements and overlaps extensively with putative cis-regulatory sequences. Unexpectedly, accessible chromatin is also found near the transcription end sites of active genes. By integrating the maps of cis-regulatory elements and single-cell transcriptomes, we construct the regulatory network of early development, which helps to identify the key modulators for lineage specification. Finally, we find that the activities of cis-regulatory elements and their associated open chromatin diminished before major ZGA. Surprisingly, we observed many loci showing non-canonical, large open chromatin domains over the entire transcribed units in minor ZGA, supporting the presence of an unusually permissive chromatin state. Together, these data reveal a unique spatiotemporal chromatin configuration that accompanies early mammalian development.; National Basic Research Program of China (973 program) [2015CB856201]; National Natural Science Foundation of China [31422031, 31171381, 81472855]; National Basic Research Program of China [2012CB966701]; Beijing Natural Science Foundation [5152014]; Tsinghua University Initiative Scientific Research Program [20131089278, 2014z21046]; THU-PKU Center for Life Sciences; Youth Thousand Scholar Program of China; SCI(E); PubMed; ARTICLE; xiewei121@tsinghua.edu.cn; 7609; 652-+; 534
语种	英语
内容类型	期刊论文
源URL	[http://ir.pku.edu.cn/handle/20.500.11897/433331]
专题	生命科学学院
推荐引用方式 GB/T 7714	Wu, Jingyi,Huang, Bo,Chen, He,et al. The landscape of accessible chromatin in mammalian preimplantation embryos[J]. NATURE,2016.
APA	Wu, Jingyi.,Huang, Bo.,Chen, He.,Yin, Qiangzong.,Liu, Yang.,...&Xie, Wei.(2016).The landscape of accessible chromatin in mammalian preimplantation embryos.NATURE.
MLA	Wu, Jingyi,et al."The landscape of accessible chromatin in mammalian preimplantation embryos".NATURE (2016).