IDEAS home Printed from https://ideas.repec.org/a/nat/nature/v578y2020i7795d10.1038_s41586-020-1957-x.html
   My bibliography  Save this article

Giant virus diversity and host interactions through global metagenomics

Author

Listed:
  • Frederik Schulz

    (Lawrence Berkeley National Laboratory)

  • Simon Roux

    (Lawrence Berkeley National Laboratory)

  • David Paez-Espino

    (Lawrence Berkeley National Laboratory)

  • Sean Jungbluth

    (Lawrence Berkeley National Laboratory)

  • David A. Walsh

    (Concordia University)

  • Vincent J. Denef

    (University of Michigan)

  • Katherine D. McMahon

    (University of Wisconsin-Madison
    University of Wisconsin-Madison)

  • Konstantinos T. Konstantinidis

    (Georgia Institute of Technology)

  • Emiley A. Eloe-Fadrosh

    (Lawrence Berkeley National Laboratory)

  • Nikos C. Kyrpides

    (Lawrence Berkeley National Laboratory)

  • Tanja Woyke

    (Lawrence Berkeley National Laboratory)

Abstract

Our current knowledge about nucleocytoplasmic large DNA viruses (NCLDVs) is largely derived from viral isolates that are co-cultivated with protists and algae. Here we reconstructed 2,074 NCLDV genomes from sampling sites across the globe by building on the rapidly increasing amount of publicly available metagenome data. This led to an 11-fold increase in phylogenetic diversity and a parallel 10-fold expansion in functional diversity. Analysis of 58,023 major capsid proteins from large and giant viruses using metagenomic data revealed the global distribution patterns and cosmopolitan nature of these viruses. The discovered viral genomes encoded a wide range of proteins with putative roles in photosynthesis and diverse substrate transport processes, indicating that host reprogramming is probably a common strategy in the NCLDVs. Furthermore, inferences of horizontal gene transfer connected viral lineages to diverse eukaryotic hosts. We anticipate that the global diversity of NCLDVs that we describe here will establish giant viruses—which are associated with most major eukaryotic lineages—as important players in ecosystems across Earth’s biomes.

Suggested Citation

  • Frederik Schulz & Simon Roux & David Paez-Espino & Sean Jungbluth & David A. Walsh & Vincent J. Denef & Katherine D. McMahon & Konstantinos T. Konstantinidis & Emiley A. Eloe-Fadrosh & Nikos C. Kyrpid, 2020. "Giant virus diversity and host interactions through global metagenomics," Nature, Nature, vol. 578(7795), pages 432-436, February.
  • Handle: RePEc:nat:nature:v:578:y:2020:i:7795:d:10.1038_s41586-020-1957-x
    DOI: 10.1038/s41586-020-1957-x
    as

    Download full text from publisher

    File URL: https://www.nature.com/articles/s41586-020-1957-x
    File Function: Abstract
    Download Restriction: Access to the full text of the articles in this series is restricted.

    File URL: https://libkey.io/10.1038/s41586-020-1957-x?utm_source=ideas
    LibKey link: if access is restricted and if your library uses this service, LibKey will redirect you to where you can use your library subscription to access this item
    ---><---

    As the access to this document is restricted, you may want to search for a different version of it.

    Citations

    Citations are extracted by the CitEc Project, subscribe to its RSS feed for this item.
    as


    Cited by:

    1. Sofia Rigou & Sébastien Santini & Chantal Abergel & Jean-Michel Claverie & Matthieu Legendre, 2022. "Past and present giant viruses diversity explored through permafrost metagenomics," Nature Communications, Nature, vol. 13(1), pages 1-13, December.
    2. Xinzhu Yi & Jie-Liang Liang & Ping Wen & Pu Jia & Shi-wei Feng & Shen-yan Liu & Yuan-yue Zhuang & Yu-qian Guo & Jing-li Lu & Sheng-ji Zhong & Bin Liao & Zhang Wang & Wen-sheng Shu & Jin-tian Li, 2024. "Giant viruses as reservoirs of antibiotic resistance genes," Nature Communications, Nature, vol. 15(1), pages 1-15, December.
    3. Lulu Li & Hehong Zhang & Zihang Yang & Chen Wang & Shanshan Li & Chen Cao & Tongsong Yao & Zhongyan Wei & Yanjun Li & Jianping Chen & Zongtao Sun, 2022. "Independently evolved viral effectors convergently suppress DELLA protein SLR1-mediated broad-spectrum antiviral immunity in rice," Nature Communications, Nature, vol. 13(1), pages 1-16, December.
    4. Jianhua Wang & Guan-Zhu Han, 2023. "Genome mining shows that retroviruses are pervasively invading vertebrate genomes," Nature Communications, Nature, vol. 14(1), pages 1-11, December.
    5. Lingjie Meng & Tom O. Delmont & Morgan Gaïa & Eric Pelletier & Antonio Fernàndez-Guerra & Samuel Chaffron & Russell Y. Neches & Junyi Wu & Hiroto Kaneko & Hisashi Endo & Hiroyuki Ogata, 2023. "Genomic adaptation of giant viruses in polar oceans," Nature Communications, Nature, vol. 14(1), pages 1-12, December.
    6. Patrick Arthofer & Florian Panhölzl & Vincent Delafont & Alban Hay & Siegfried Reipert & Norbert Cyran & Stefanie Wienkoop & Anouk Willemsen & Ines Sifaoui & Iñigo Arberas-Jiménez & Frederik Schulz & , 2024. "A giant virus infecting the amoeboflagellate Naegleria," Nature Communications, Nature, vol. 15(1), pages 1-13, December.
    7. Zongzhi Wu & Tang Liu & Qian Chen & Tianyi Chen & Jinyun Hu & Liyu Sun & Bingxue Wang & Wenpeng Li & Jinren Ni, 2024. "Unveiling the unknown viral world in groundwater," Nature Communications, Nature, vol. 15(1), pages 1-12, December.
    8. Shaojun Pan & Chengkai Zhu & Xing-Ming Zhao & Luis Pedro Coelho, 2022. "A deep siamese neural network improves metagenome-assembled genomes in microbiome datasets across different environments," Nature Communications, Nature, vol. 13(1), pages 1-12, December.

    More about this item

    Statistics

    Access and download statistics

    Corrections

    All material on this site has been provided by the respective publishers and authors. You can help correct errors and omissions. When requesting a correction, please mention this item's handle: RePEc:nat:nature:v:578:y:2020:i:7795:d:10.1038_s41586-020-1957-x. See general information about how to correct material in RePEc.

    If you have authored this item and are not yet registered with RePEc, we encourage you to do it here. This allows to link your profile to this item. It also allows you to accept potential citations to this item that we are uncertain about.

    We have no bibliographic references for this item. You can help adding them by using this form .

    If you know of missing items citing this one, you can help us creating those links by adding the relevant references in the same way as above, for each refering item. If you are a registered author of this item, you may also want to check the "citations" tab in your RePEc Author Service profile, as there may be some citations waiting for confirmation.

    For technical questions regarding this item, or to correct its authors, title, abstract, bibliographic or download information, contact: Sonal Shukla or Springer Nature Abstracting and Indexing (email available below). General contact details of provider: http://www.nature.com .

    Please note that corrections may take a couple of weeks to filter through the various RePEc services.

    IDEAS is a RePEc service. RePEc uses bibliographic data supplied by the respective publishers.