Introduction

PolyA- RNAs have not been widely analyzed in human pre-implantation embryos due to the scarcity of materials. In particular, circular RNA (circRNA), a novel type of polyA- RNA, has not been characterized during human pre-implantation development.We systematically analyze polyA+ messenger RNAs (mRNAs) and polyA- RNAs in individual human oocytes and pre-implantation embryos using SUPeR-seq. We de novo identify 10,032 circRNAs from 2974 hosting genes. Most of these circRNAs are developmentally stage-specific and dynamically regulated. Many of them are maternally expressed, implying their potentially important regulatory functions in oogenesis and the formation of totipotent zygotes. Comparison between human and mouse embryos reveals both high conservation and clear distinction between these two species. Human pre-implantation embryos generate more types of circRNA compared with mouse embryos and this is associated with a striking increase of the length of the circRNA flanking introns in humans. We also perform RNA de novo assembly and identify novel transcript units, many of which are potentially novel long non-coding RNAs.This study reports the first analysis of the whole transcriptome comprising both polyA+ mRNAs and polyA- RNAs including circRNAs during human pre-implantation development. It provides an invaluable resource for analyzing the unique function and complex regulatory mechanisms of circRNAs during this process.

Publications

  1. Tracing the expression of circular RNAs in human pre-implantation embryos.
    Cite this
    Dang Y, Yan L, Hu B, Fan X, Ren Y, Li R, Lian Y, Yan J, Li Q, Zhang Y, Li M, Ren X, Huang J, Wu Y, Liu P, Wen L, Zhang C, Huang Y, Tang F, Qiao J, 2016-06-01 - Genome biology
  2. Single-cell RNA-seq transcriptome analysis of linear and circular RNAs in mouse preimplantation embryos.
    Cite this
    Fan X, Zhang X, Wu X, Guo H, Hu Y, Tang F, Huang Y, 2015-01-01 - Genome biology

Credits

  1. Yujiao Dang
    Developer

    Biodynamic Optical Imaging Center & Department of Obstetrics and Gynecology, College of Life Sciences, China

  2. Liying Yan
    Developer

    Key Laboratory of Assisted Reproduction, Ministry of Education, China

  3. Boqiang Hu
    Developer

    Biodynamic Optical Imaging Center & Department of Obstetrics and Gynecology, College of Life Sciences, China

  4. Xiaoying Fan
    Developer

    Biodynamic Optical Imaging Center & Department of Obstetrics and Gynecology, College of Life Sciences, China

  5. Yixin Ren
    Developer

    Key Laboratory of Assisted Reproduction, Ministry of Education, China

  6. Rong Li
    Developer

    Key Laboratory of Assisted Reproduction, Ministry of Education, China

  7. Ying Lian
    Developer

    Key Laboratory of Assisted Reproduction, Ministry of Education, China

  8. Jie Yan
    Developer

    Key Laboratory of Assisted Reproduction, Ministry of Education, China

  9. Qingqing Li
    Developer

    Biodynamic Optical Imaging Center & Department of Obstetrics and Gynecology, College of Life Sciences, China

  10. Yan Zhang
    Developer

    Key Laboratory of Assisted Reproduction, Ministry of Education, China

  11. Min Li
    Developer

    Key Laboratory of Assisted Reproduction, Ministry of Education, China

  12. Xiulian Ren
    Developer

    Key Laboratory of Assisted Reproduction, Ministry of Education, China

  13. Jin Huang
    Developer

    Key Laboratory of Assisted Reproduction, Ministry of Education, China

  14. Yuqi Wu
    Developer

    Key Laboratory of Assisted Reproduction, Ministry of Education, China

  15. Ping Liu
    Developer

    Key Laboratory of Assisted Reproduction, Ministry of Education, China

  16. Lu Wen
    Developer

    Biodynamic Optical Imaging Center & Department of Obstetrics and Gynecology, College of Life Sciences, China

  17. Chen Zhang
    Developer

    Biodynamic Optical Imaging Center & Department of Obstetrics and Gynecology, College of Life Sciences, China

  18. Yanyi Huang
    Developer

    College of Engineering, Peking University

  19. Fuchou Tang
    Developer

    Center for Molecular and Translational Medicine, Peking University Health Science Center

  20. Jie Qiao
    Investigator

    Beijing Key Laboratory of Reproductive Endocrinology and Assisted Reproduction, Beijing

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Summary
AccessionBT006837
Tool TypeApplication
Category
PlatformsLinux/Unix
Technologies
User InterfaceTerminal Command Line
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Submitted ByJie Qiao