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Dynamic landscape and regulation of RNA editing in mammals

Author

Listed:
  • Meng How Tan

    (Stanford University School of Medicine
    School of Chemical and Biomedical Engineering, Nanyang Technological University
    Genome Institute of Singapore, Agency for Science Technology and Research)

  • Qin Li

    (Stanford University School of Medicine)

  • Raghuvaran Shanmugam

    (School of Chemical and Biomedical Engineering, Nanyang Technological University
    Genome Institute of Singapore, Agency for Science Technology and Research)

  • Robert Piskol

    (Stanford University School of Medicine)

  • Jennefer Kohler

    (Stanford University School of Medicine)

  • Amy N. Young

    (Stanford University School of Medicine)

  • Kaiwen Ivy Liu

    (Genome Institute of Singapore, Agency for Science Technology and Research)

  • Rui Zhang

    (Stanford University School of Medicine)

  • Gokul Ramaswami

    (Stanford University School of Medicine)

  • Kentaro Ariyoshi

    (The Wistar Institute)

  • Ankita Gupte

    (St Vincent’s Institute of Medical Research)

  • Liam P. Keegan

    (MRC Human Genetics Unit, Institute of Genetics and Molecular Medicine, University of Edinburgh
    Central European Institute of Technology, Masaryk University)

  • Cyril X. George

    (Cellular and Developmental Biology, University of California-Santa Barbara)

  • Avinash Ramu

    (Washington University School of Medicine
    Washington University School of Medicine)

  • Ni Huang

    (Washington University School of Medicine
    Washington University School of Medicine)

  • Elizabeth A. Pollina

    (Stanford University School of Medicine)

  • Dena S. Leeman

    (Stanford University School of Medicine)

  • Alessandra Rustighi

    (University of Trieste, 34127 Trieste, Italy and National Laboratory CIB (LNCIB))

  • Y. P. Sharon Goh

    (Cardiovascular Research Institute, University of California-San Francisco)

  • Ajay Chawla

    (Cardiovascular Research Institute, University of California-San Francisco)

  • Giannino Del Sal

    (University of Trieste, 34127 Trieste, Italy and National Laboratory CIB (LNCIB))

  • Gary Peltz

    (Stanford University School of Medicine)

  • Anne Brunet

    (Stanford University School of Medicine)

  • Donald F. Conrad

    (Washington University School of Medicine
    Washington University School of Medicine)

  • Charles E. Samuel

    (Cellular and Developmental Biology, University of California-Santa Barbara)

  • Mary A. O’Connell

    (MRC Human Genetics Unit, Institute of Genetics and Molecular Medicine, University of Edinburgh
    Central European Institute of Technology, Masaryk University)

  • Carl R. Walkley

    (St Vincent’s Institute of Medical Research
    St. Vincent’s Hospital, University of Melbourne)

  • Kazuko Nishikura

    (The Wistar Institute)

  • Jin Billy Li

    (Stanford University School of Medicine)

Abstract

Using the GTEx data and others, a comprehensive analysis of adenosine-to-inosine RNA editing in mammals is presented; targets of the various ADAR enzymes are identified, as are several potential regulators of editing, such as AIMP2.

Suggested Citation

  • Meng How Tan & Qin Li & Raghuvaran Shanmugam & Robert Piskol & Jennefer Kohler & Amy N. Young & Kaiwen Ivy Liu & Rui Zhang & Gokul Ramaswami & Kentaro Ariyoshi & Ankita Gupte & Liam P. Keegan & Cyril , 2017. "Dynamic landscape and regulation of RNA editing in mammals," Nature, Nature, vol. 550(7675), pages 249-254, October.
    • Handle: RePEc:nat:nature:v:550:y:2017:i:7675:d:10.1038_nature24041
    DOI: 10.1038/nature24041
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    Cited by:

    1. Celina Tretter & Niklas Andrade Krätzig & Matteo Pecoraro & Sebastian Lange & Philipp Seifert & Clara Frankenberg & Johannes Untch & Gabriela Zuleger & Mathias Wilhelm & Daniel P. Zolg & Florian S. Dr, 2023. "Proteogenomic analysis reveals RNA as a source for tumor-agnostic neoantigen identification," Nature Communications, Nature, vol. 14(1), pages 1-22, December.
    2. Yuta Noda & Shunpei Okada & Tsutomu Suzuki, 2022. "Regulation of A-to-I RNA editing and stop codon recoding to control selenoprotein expression during skeletal myogenesis," Nature Communications, Nature, vol. 13(1), pages 1-16, December.
    3. Jianheng Liu & Tao Huang & Wanying Chen & Chenhui Ding & Tianxuan Zhao & Xueni Zhao & Bing Cai & Yusen Zhang & Song Li & Ling Zhang & Maoguang Xue & Xiuju He & Wanzhong Ge & Canquan Zhou & Yanwen Xu &, 2022. "Developmental mRNA m5C landscape and regulatory innovations of massive m5C modification of maternal mRNAs in animals," Nature Communications, Nature, vol. 13(1), pages 1-13, December.
    4. Karthika Devi Kiran Kumar & Shubhangi Singh & Stella Maria Schmelzle & Paul Vogel & Carolin Fruhner & Alfred Hanswillemenke & Adrian Brun & Jacqueline Wettengel & Yvonne Füll & Lukas Funk & Valentin M, 2024. "An improved SNAP-ADAR tool enables efficient RNA base editing to interfere with post-translational protein modification," Nature Communications, Nature, vol. 15(1), pages 1-16, December.
    5. Yiyi Ma & Eric B. Dammer & Daniel Felsky & Duc M. Duong & Hans-Ulrich Klein & Charles C. White & Maotian Zhou & Benjamin A. Logsdon & Cristin McCabe & Jishu Xu & Minghui Wang & Thomas S. Wingo & James, 2021. "Atlas of RNA editing events affecting protein expression in aged and Alzheimer’s disease human brain tissue," Nature Communications, Nature, vol. 12(1), pages 1-16, December.
    6. Orshay Gabay & Yoav Shoshan & Eli Kopel & Udi Ben-Zvi & Tomer D. Mann & Noam Bressler & Roni Cohen‐Fultheim & Amos A. Schaffer & Shalom Hillel Roth & Ziv Tzur & Erez Y. Levanon & Eli Eisenberg, 2022. "Landscape of adenosine-to-inosine RNA recoding across human tissues," Nature Communications, Nature, vol. 13(1), pages 1-17, December.
    7. Caroline B. Albertin & Sofia Medina-Ruiz & Therese Mitros & Hannah Schmidbaur & Gustavo Sanchez & Z. Yan Wang & Jane Grimwood & Joshua J. C. Rosenthal & Clifton W. Ragsdale & Oleg Simakov & Daniel S. , 2022. "Genome and transcriptome mechanisms driving cephalopod evolution," Nature Communications, Nature, vol. 13(1), pages 1-14, December.
    8. Marlon S. Zambrano-Mila & Monika Witzenberger & Zohar Rosenwasser & Anna Uzonyi & Ronit Nir & Shay Ben-Aroya & Erez Y. Levanon & Schraga Schwartz, 2023. "Dissecting the basis for differential substrate specificity of ADAR1 and ADAR2," Nature Communications, Nature, vol. 14(1), pages 1-14, December.
    9. Amir Dailamy & Weiqi Lyu & Sami Nourreddine & Michael Tong & Joseph Rainaldi & Daniella McDonald & Rebecca Panwala & Alysson Muotri & Michael S. Breen & Kun Zhang & Prashant Mali, 2024. "Charting and probing the activity of ADARs in human development and cell-fate specification," Nature Communications, Nature, vol. 15(1), pages 1-16, December.

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