Temporospatial hierarchy and allele-specific expression of zygotic genome activation revealed by distant interspecific urochordate hybrids

Jiankai Wei, Wei Zhang, An Jiang, Hongzhe Peng, Quanyong Zhang, Yuting Li, Jianqing Bi, Linting Wang, Penghui Liu, Jing Wang, Yonghang Ge, Liya Zhang, Haiyan Yu, Lei Li, Shi Wang, Liang Leng (), Kai Chen () and Bo Dong ()
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Jiankai Wei: Ocean University of China
Wei Zhang: Ocean University of China
An Jiang: Ocean University of China
Hongzhe Peng: Ocean University of China
Quanyong Zhang: Kunming University of Science and Technology
Yuting Li: Ocean University of China
Jianqing Bi: Ocean University of China
Linting Wang: Chinese Academy of Sciences
Penghui Liu: Ocean University of China
Jing Wang: Ocean University of China
Yonghang Ge: Ocean University of China
Liya Zhang: Kunming University of Science and Technology
Haiyan Yu: Ocean University of China
Lei Li: Chinese Academy of Sciences
Shi Wang: Ocean University of China
Liang Leng: Chengdu University of Traditional Chinese Medicine
Kai Chen: Kunming University of Science and Technology
Bo Dong: Ocean University of China

Nature Communications, 2024, vol. 15, issue 1, 1-11

Abstract: Abstract Zygotic genome activation (ZGA) is a universal process in early embryogenesis of metazoan, when the quiescent zygotic nucleus initiates global transcription. However, the mechanisms related to massive genome activation and allele-specific expression (ASE) remain not well understood. Here, we develop hybrids from two deeply diverged (120 Mya) ascidian species to symmetrically document the dynamics of ZGA. We identify two coordinated ZGA waves represent early developmental and housekeeping gene reactivation, respectively. Single-cell RNA sequencing reveals that the major expression wave exhibits spatial heterogeneity and significantly correlates with cell fate. Moreover, allele-specific expression occurs in a species- rather than parent-related manner, demonstrating the divergence of cis-regulatory elements between the two species. These findings provide insights into ZGA in chordates.

Date: 2024
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DOI: 10.1038/s41467-024-46780-0

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