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Single-cell CAS-seq reveals a class of short PIWI-interacting RNAs in human oocytes

Author

Listed:
  • Qiyuan Yang

    (University of Chinese Academy of Sciences
    University of Chinese Academy of Sciences)

  • Ronghong Li

    (University of Chinese Academy of Sciences
    University of Chinese Academy of Sciences)

  • Qifeng Lyu

    (Shanghai Jiaotong University School of Medicine)

  • Li Hou

    (University of Chinese Academy of Sciences
    University of Chinese Academy of Sciences)

  • Zhen Liu

    (Chinese Academy of Sciences)

  • Qiang Sun

    (Chinese Academy of Sciences)

  • Miao Liu

    (Shanghai Institute of Planned Parenthood Research (SIPPR)
    Shanghai Jiao Tong University)

  • Huijuan Shi

    (Shanghai Institute of Planned Parenthood Research (SIPPR)
    Shanghai Jiao Tong University)

  • Beiying Xu

    (University of Chinese Academy of Sciences
    University of Chinese Academy of Sciences)

  • Mingru Yin

    (Shanghai Jiaotong University School of Medicine)

  • Zhiguang Yan

    (Shanghai Jiaotong University School of Medicine)

  • Ying Huang

    (University of Chinese Academy of Sciences)

  • Mofang Liu

    (University of Chinese Academy of Sciences
    University of Chinese Academy of Sciences)

  • Yiping Li

    (University of Chinese Academy of Sciences)

  • Ligang Wu

    (University of Chinese Academy of Sciences
    University of Chinese Academy of Sciences)

Abstract

Small RNAs have important functions. However, small RNAs in primate oocytes remain unexplored. Herein, we develop CAS-seq, a single-cell small RNA sequencing method, and profile the small RNAs in human oocytes and embryos. We discover a class of ~20-nt small RNAs that are predominantly expressed in human and monkey oocytes, but not in mouse oocytes. They are specifically associated with HIWI3 (PIWIL3), whereas significantly shorter than the commonly known PIWI-interacting RNAs (piRNAs), designated as oocyte short piRNAs (os-piRNAs). Notably, the os-piRNAs in human oocytes lack 2’-O-methylation at the 3’ end, a hallmark of the classic piRNAs. In addition, the os-piRNAs have a strong 1U/10 A bias and are enriched on the antisense strands of recently evolved transposable elements (TEs), indicating the potential function of silencing TEs by cleavage. Therefore, our study has identified an oocyte-specific piRNA family with distinct features and provides valuable resources for studying small RNAs in primate oocytes.

Suggested Citation

  • Qiyuan Yang & Ronghong Li & Qifeng Lyu & Li Hou & Zhen Liu & Qiang Sun & Miao Liu & Huijuan Shi & Beiying Xu & Mingru Yin & Zhiguang Yan & Ying Huang & Mofang Liu & Yiping Li & Ligang Wu, 2019. "Single-cell CAS-seq reveals a class of short PIWI-interacting RNAs in human oocytes," Nature Communications, Nature, vol. 10(1), pages 1-15, December.
    • Handle: RePEc:nat:natcom:v:10:y:2019:i:1:d:10.1038_s41467-019-11312-8
    DOI: 10.1038/s41467-019-11312-8
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    Cited by:

    1. Xiaolong Lv & Wen Xiao & Yana Lai & Zhaozhen Zhang & Hongdao Zhang & Chen Qiu & Li Hou & Qin Chen & Duanduan Wang & Yun Gao & Yuanyuan Song & Xinjia Shui & Qinghua Chen & Ruixin Qin & Shuang Liang & W, 2023. "The non-redundant functions of PIWI family proteins in gametogenesis in golden hamsters," Nature Communications, Nature, vol. 14(1), pages 1-16, December.
    2. Qing Li & Jiansen Lu & Xidi Yin & Yunjian Chang & Chao Wang & Meng Yan & Li Feng & Yanbo Cheng & Yun Gao & Beiying Xu & Yao Zhang & Yingyi Wang & Guizhong Cui & Luang Xu & Yidi Sun & Rong Zeng & Yixue, 2023. "Base editing-mediated one-step inactivation of the Dnmt gene family reveals critical roles of DNA methylation during mouse gastrulation," Nature Communications, Nature, vol. 14(1), pages 1-19, December.

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