An integrated chromatin accessibility and transcriptome landscape of human pre-implantation embryos

Longqi Liu, Lizhi Leng, Chuanyu Liu, Changfu Lu, Yue Yuan, Liang Wu, Fei Gong, Shuoping Zhang, Xiaoyu Wei, Mingyue Wang, Lei Zhao, Liang Hu, Jian Wang, Huanming Yang, Shida Zhu, Fang Chen, Guangxiu Lu, Zhouchun Shang () and Ge Lin ()
Additional contact information
Longqi Liu: BGI-Shenzhen
Lizhi Leng: Central South University
Chuanyu Liu: BGI-Shenzhen
Changfu Lu: Central South University
Yue Yuan: BGI-Shenzhen
Liang Wu: BGI-Shenzhen
Fei Gong: Central South University
Shuoping Zhang: Central South University
Xiaoyu Wei: BGI-Shenzhen
Mingyue Wang: BGI-Shenzhen
Lei Zhao: Reproductive & Genetic Hospital of CITIC-Xiangya
Liang Hu: Central South University
Jian Wang: BGI-Shenzhen
Huanming Yang: BGI-Shenzhen
Shida Zhu: BGI-Shenzhen
Fang Chen: BGI-Shenzhen
Guangxiu Lu: Central South University
Zhouchun Shang: BGI-Shenzhen
Ge Lin: Central South University

Nature Communications, 2019, vol. 10, issue 1, 1-11

Abstract: Abstract Human pre-implantation embryonic development involves extensive changes in chromatin structure and transcriptional activity. Here, we report on LiCAT-seq, a technique that enables simultaneous profiling of chromatin accessibility and gene expression with ultra-low input of cells, and map the chromatin accessibility and transcriptome landscapes for human pre-implantation embryos. We observed global difference in chromatin accessibility between sperm and all stages of embryos, finding that the accessible regions in sperm tend to occur in gene-poor genomic regions. Integrative analyses between the two datasets reveals strong association between the establishment of accessible chromatin and embryonic genome activation (EGA), and uncovers transcription factors and endogenous retrovirus (ERVs) specific to EGA. In particular, a large proportion of the early activated genes and ERVs are bound by DUX4 and become accessible as early as the 2- to 4-cell stages. Our results thus offer mechanistic insights into the molecular events inherent to human pre-implantation development.

Date: 2019
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Persistent link: https://EconPapers.repec.org/RePEc:nat:natcom:v:10:y:2019:i:1:d:10.1038_s41467-018-08244-0

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DOI: 10.1038/s41467-018-08244-0

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