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Circular RNA profiling reveals an abundant circHIPK3 that regulates cell growth by sponging multiple miRNAs

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  • Qiupeng Zheng

    (Fudan University Shanghai Cancer Center and Institutes of Biomedical Sciences, Shanghai Medical College, Fudan University
    Department of Oncology, Shanghai Medical College, Fudan University
    State Key Laboratory of Oncogenes and Related Genes, Shanghai Cancer Institute, Renji Hospital, Shanghai Jiao Tong University School of Medicine)

  • Chunyang Bao

    (Fudan University Shanghai Cancer Center and Institutes of Biomedical Sciences, Shanghai Medical College, Fudan University
    Department of Oncology, Shanghai Medical College, Fudan University)

  • Weijie Guo

    (Fudan University Shanghai Cancer Center and Institutes of Biomedical Sciences, Shanghai Medical College, Fudan University
    Department of Oncology, Shanghai Medical College, Fudan University
    State Key Laboratory of Oncogenes and Related Genes, Shanghai Cancer Institute, Renji Hospital, Shanghai Jiao Tong University School of Medicine)

  • Shuyi Li

    (Fudan University Shanghai Cancer Center and Institutes of Biomedical Sciences, Shanghai Medical College, Fudan University
    Department of Oncology, Shanghai Medical College, Fudan University
    State Key Laboratory of Oncogenes and Related Genes, Shanghai Cancer Institute, Renji Hospital, Shanghai Jiao Tong University School of Medicine)

  • Jie Chen

    (Fudan University Shanghai Cancer Center and Institutes of Biomedical Sciences, Shanghai Medical College, Fudan University
    Department of Oncology, Shanghai Medical College, Fudan University)

  • Bing Chen

    (Fudan University Shanghai Cancer Center and Institutes of Biomedical Sciences, Shanghai Medical College, Fudan University
    Department of Oncology, Shanghai Medical College, Fudan University)

  • Yanting Luo

    (Fudan University Shanghai Cancer Center and Institutes of Biomedical Sciences, Shanghai Medical College, Fudan University
    Department of Oncology, Shanghai Medical College, Fudan University)

  • Dongbin Lyu

    (Fudan University Shanghai Cancer Center and Institutes of Biomedical Sciences, Shanghai Medical College, Fudan University
    Department of Oncology, Shanghai Medical College, Fudan University)

  • Yan Li

    (Fudan University Shanghai Cancer Center and Institutes of Biomedical Sciences, Shanghai Medical College, Fudan University
    Department of Oncology, Shanghai Medical College, Fudan University)

  • Guohai Shi

    (Fudan University Shanghai Cancer Center and Institutes of Biomedical Sciences, Shanghai Medical College, Fudan University
    Department of Oncology, Shanghai Medical College, Fudan University)

  • Linhui Liang

    (Fudan University Shanghai Cancer Center and Institutes of Biomedical Sciences, Shanghai Medical College, Fudan University
    Department of Oncology, Shanghai Medical College, Fudan University)

  • Jianren Gu

    (State Key Laboratory of Oncogenes and Related Genes, Shanghai Cancer Institute, Renji Hospital, Shanghai Jiao Tong University School of Medicine)

  • Xianghuo He

    (Fudan University Shanghai Cancer Center and Institutes of Biomedical Sciences, Shanghai Medical College, Fudan University
    Department of Oncology, Shanghai Medical College, Fudan University)

  • Shenglin Huang

    (Fudan University Shanghai Cancer Center and Institutes of Biomedical Sciences, Shanghai Medical College, Fudan University
    Department of Oncology, Shanghai Medical College, Fudan University)

Abstract

Circular RNAs (circRNAs) represent a class of widespread and diverse endogenous RNAs that may regulate gene expression in eukaryotes. However, the regulation and function of human circRNAs remain largely unknown. Here we generate ribosomal-depleted RNA sequencing data from six normal tissues and seven cancers, and detect at least 27,000 circRNA candidates. Many of these circRNAs are differently expressed between the normal and cancerous tissues. We further characterize one abundant circRNA derived from Exon2 of the HIPK3 gene, termed circHIPK3. The silencing of circHIPK3 but not HIPK3 mRNA significantly inhibits human cell growth. Via a luciferase screening assay, circHIPK3 is observed to sponge to 9 miRNAs with 18 potential binding sites. Specifically, we show that circHIPK3 directly binds to miR-124 and inhibits miR-124 activity. Our results provide evidence that circular RNA produced from precursor mRNA may have a regulatory role in human cells.

Suggested Citation

  • Qiupeng Zheng & Chunyang Bao & Weijie Guo & Shuyi Li & Jie Chen & Bing Chen & Yanting Luo & Dongbin Lyu & Yan Li & Guohai Shi & Linhui Liang & Jianren Gu & Xianghuo He & Shenglin Huang, 2016. "Circular RNA profiling reveals an abundant circHIPK3 that regulates cell growth by sponging multiple miRNAs," Nature Communications, Nature, vol. 7(1), pages 1-13, September.
    • Handle: RePEc:nat:natcom:v:7:y:2016:i:1:d:10.1038_ncomms11215
    DOI: 10.1038/ncomms11215
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    Cited by:

    1. Shaomin Yang & Di Cao & Dabbu Kumar Jaijyan & Mei Wang & Jian Liu & Ruth Cruz-cosme & Songbin Wu & Jiabin Huang & Mulan Zeng & Xiaolian Liu & Wuping Sun & Donglin Xiong & Qiyi Tang & Lizu Xiao & Hua Z, 2024. "Identification and characterization of Varicella Zoster Virus circular RNA in lytic infection," Nature Communications, Nature, vol. 15(1), pages 1-16, December.
    2. Zhanar Yeszhanova & Nazym Zaitenova, 2023. "Food Security of the Republic of Kazakhstan: Assessment of Public Satisfaction with Locally Produced Food," Economic Studies journal, Bulgarian Academy of Sciences - Economic Research Institute, issue 5, pages 16-31.

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