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The evolutionary history of vertebrate RNA viruses

Author

Listed:
  • Mang Shi

    (Chinese Center for Disease Control and Prevention
    Fudan University
    The University of Sydney)

  • Xian-Dan Lin

    (Wenzhou Center for Disease Control and Prevention)

  • Xiao Chen

    (South China Agricultural University)

  • Jun-Hua Tian

    (Wuhan Center for Disease Control and Prevention)

  • Liang-Jun Chen

    (Chinese Center for Disease Control and Prevention)

  • Kun Li

    (Chinese Center for Disease Control and Prevention)

  • Wen Wang

    (Chinese Center for Disease Control and Prevention)

  • John-Sebastian Eden

    (The University of Sydney)

  • Jin-Jin Shen

    (Yancheng Center for Disease Control and Prevention)

  • Li Liu

    (South China Agricultural University)

  • Edward C. Holmes

    (Chinese Center for Disease Control and Prevention
    Fudan University
    The University of Sydney)

  • Yong-Zhen Zhang

    (Chinese Center for Disease Control and Prevention
    Fudan University)

Abstract

Our understanding of the diversity and evolution of vertebrate RNA viruses is largely limited to those found in mammalian and avian hosts and associated with overt disease. Here, using a large-scale meta-transcriptomic approach, we discover 214 vertebrate-associated viruses in reptiles, amphibians, lungfish, ray-finned fish, cartilaginous fish and jawless fish. The newly discovered viruses appear in every family or genus of RNA virus associated with vertebrate infection, including those containing human pathogens such as influenza virus, the Arenaviridae and Filoviridae families, and have branching orders that broadly reflected the phylogenetic history of their hosts. We establish a long evolutionary history for most groups of vertebrate RNA virus, and support this by evaluating evolutionary timescales using dated orthologous endogenous virus elements. We also identify new vertebrate-specific RNA viruses and genome architectures, and re-evaluate the evolution of vector-borne RNA viruses. In summary, this study reveals diverse virus–host associations across the entire evolutionary history of the vertebrates.

Suggested Citation

  • Mang Shi & Xian-Dan Lin & Xiao Chen & Jun-Hua Tian & Liang-Jun Chen & Kun Li & Wen Wang & John-Sebastian Eden & Jin-Jin Shen & Li Liu & Edward C. Holmes & Yong-Zhen Zhang, 2018. "The evolutionary history of vertebrate RNA viruses," Nature, Nature, vol. 556(7700), pages 197-202, April.
  • Handle: RePEc:nat:nature:v:556:y:2018:i:7700:d:10.1038_s41586-018-0012-7
    DOI: 10.1038/s41586-018-0012-7
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    Cited by:

    1. S. A. Riesle-Sbarbaro & G. Wibbelt & A. Düx & V. Kouakou & M. Bokelmann & K. Hansen-Kant & N. Kirchoff & M. Laue & N. Kromarek & A. Lander & U. Vogel & A. Wahlbrink & D. M. Wozniak & D. P. Scott & J. , 2024. "Selective replication and vertical transmission of Ebola virus in experimentally infected Angolan free-tailed bats," Nature Communications, Nature, vol. 15(1), pages 1-15, December.
    2. Teressa M. Shaw & Devra Huey & Makky Mousa-Makky & Jared Compaleo & Kylie Nennig & Aadit P. Shah & Fei Jiang & Xueer Qiu & Devon Klipsic & Raymond R. R. Rowland & Igor I. Slukvin & Meagan E. Sullender, 2024. "The neonatal Fc receptor (FcRn) is a pan-arterivirus receptor," Nature Communications, Nature, vol. 15(1), pages 1-14, December.
    3. Gábor Kemenesi & Gábor E. Tóth & Martin Mayora-Neto & Simon Scott & Nigel Temperton & Edward Wright & Elke Mühlberger & Adam J. Hume & Ellen L. Suder & Brigitta Zana & Sándor A. Boldogh & Tamás Görföl, 2022. "Isolation of infectious Lloviu virus from Schreiber’s bats in Hungary," Nature Communications, Nature, vol. 13(1), pages 1-11, December.
    4. Guha Asthagiri Arunkumar & Disha Bhavsar & Tiehai Li & Shirin Strohmeier & Veronika Chromikova & Fatima Amanat & Mehman Bunyatov & Patrick C. Wilson & Ali H. Ellebedy & Geert-Jan Boons & Viviana Simon, 2021. "Functionality of the putative surface glycoproteins of the Wuhan spiny eel influenza virus," Nature Communications, Nature, vol. 12(1), pages 1-12, December.

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