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Joint single-cell multiomic analysis in Wnt3a induced asymmetric stem cell division

Author

Listed:
  • Zhongxing Sun

    (Zhejiang University)

  • Yin Tang

    (Zhejiang University)

  • Yanjun Zhang

    (Zhejiang University)

  • Yuan Fang

    (Zhejiang University)

  • Junqi Jia

    (Zhejiang University)

  • Weiwu Zeng

    (Zhejiang University)

  • Dong Fang

    (Zhejiang University
    The Second Affiliated Hospital, Zhejiang University School of Medicine)

Abstract

Wnt signaling usually functions through a spatial gradient. Localized Wnt3a signaling can induce the asymmetric division of mouse embryonic stem cells, where proximal daughter cells maintain self-renewal and distal daughter cells acquire hallmarks of differentiation. Here, we develop an approach, same cell epigenome and transcriptome sequencing, to jointly profile the epigenome and transcriptome in the same single cell. Utilizing this method, we profiled H3K27me3 and H3K4me3 levels along with gene expression in mouse embryonic stem cells with localized Wnt3a signaling, revealing the cell type-specific maps of the epigenome and transcriptome in divided daughter cells. H3K27me3, but not H3K4me3, is correlated with gene expression changes during asymmetric cell division. Furthermore, cell clusters identified by H3K27me3 recapitulate the corresponding clusters defined by gene expression. Our study provides a convenient method to jointly profile the epigenome and transcriptome in the same cell and reveals mechanistic insights into the gene regulatory programs that maintain and reset stem cell fate during differentiation.

Suggested Citation

  • Zhongxing Sun & Yin Tang & Yanjun Zhang & Yuan Fang & Junqi Jia & Weiwu Zeng & Dong Fang, 2021. "Joint single-cell multiomic analysis in Wnt3a induced asymmetric stem cell division," Nature Communications, Nature, vol. 12(1), pages 1-19, December.
    • Handle: RePEc:nat:natcom:v:12:y:2021:i:1:d:10.1038_s41467-021-26203-0
    DOI: 10.1038/s41467-021-26203-0
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    1. Ian Chambers & Jose Silva & Douglas Colby & Jennifer Nichols & Bianca Nijmeijer & Morag Robertson & Jan Vrana & Ken Jones & Lars Grotewold & Austin Smith, 2007. "Nanog safeguards pluripotency and mediates germline development," Nature, Nature, vol. 450(7173), pages 1230-1234, December.
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