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Diverse genomoviruses representing twenty-nine species identified associated with plants

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Abstract

Genomoviruses (family Genomoviridae) are circular single-stranded DNA viruses that have been mainly identified through metagenomics studies in a wide variety of samples from various environments. Here, we describe 98 genomes of genomoviruses found associated with members of 19 plant families from Australia, Brazil, France, South Africa and the USA. These 98 genomoviruses represent 29 species, 26 of which are new, in the genera Gemykolovirus (n = 37), Gemyduguivirus (n = 9), Gemygorvirus (n = 8), Gemykroznavirus (n = 6), Gemycircularvirus (n = 21) and Gemykibivirus (n = 17).

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Acknowledgements

This research was partially funded by grants from Embrapa, CNPq and FAPDF (Brazil). We thank CNPq for the fellowships to NSL and ALML, and to CAPES for the scholarships to RAA and GBB. This research was partially funded by a Student and Early Career Grant awarded to RSF by the Next Generation Sonoran Desert Researchers (N-Gen).

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Authors and Affiliations

  1. The Biodesign Center for Fundamental and Applied Microbiomics and Center for Evolution and Medicine, Arizona State University, Tempe, AZ, 85287-5001, USA

    Rafaela S. Fontenele, Simona Kraberger & Arvind Varsani

  2. School of Life sciences, Arizona State University, Tempe, AZ, 85287-5001, USA

    Rafaela S. Fontenele, Martin F. Wojciechowski & Arvind Varsani

  3. CIRAD, BGPI, 34398, Montpellier, France

    Philippe Roumagnac, Cécile Richet, Denis Filloux & Pauline Bernardo

  4. BGPI, INRAE, CIRAD, Institut Agro, Univ Montpellier, 34398, Montpellier, France

    Philippe Roumagnac, Cécile Richet, Denis Filloux & Pauline Bernardo

  5. Department of Entomology and Plant Pathology, Division of Agriculture, University of Arkansas System, Fayetteville, AR, 72701, USA

    Daisy Stainton

  6. School of Environmental and Life Sciences, The University of Newcastle, Callaghan, NSW, 2308, Australia

    Maketalena Aleamotu‘a

  7. Enza Zaden, Haling 1-E, 1602 DB, Enkhuizen, The Netherlands

    Pauline Bernardo

  8. South African MRC Bioinformatics Unit, South African National Bioinformatics Institute, University of the Western Cape, Bellville, South Africa

    Gordon W. Harkins

  9. Manaaki Whenua, Landcare Research, Lincoln, 7640, New Zealand

    James McCarthy

  10. Department of Botany and Plant Sciences, University of California, Riverside, CA, 92507, USA

    Lachlan S. Charles

  11. Embrapa Recursos Genéticos e Biotecnologia, Brasília, DF, Brazil

    Natalia S. Lamas, Emanuel F. M. Abreu, Rayane A. Abreu, Graciete B. Batista, Ana L. M. Lacerda & Simone G. Ribeiro

  12. PPG Ciências Naturais e Biotecnologia, Universidade Federal de Campina Grande, Cuité, PB, Brazil

    Rayane A. Abreu, Graciete B. Batista & Simone G. Ribeiro

  13. Desert Botanical Garden, Phoenix, AZ, 85008, USA

    Andrew Salywon

  14. Florida Museum of Natural History, University of Florida, Gainesville, FL, 32611, USA

    Lucas C. Majure

  15. Computational Biology Division, Department of Integrative Biomedical Sciences, Institute of Infectious Diseases and Molecular Medicine, University of Cape Town, Observatory, 7925, South Africa

    Darren P. Martin

  16. CIRAD, UMR PVBMT, St. Pierre, 97410, La Réunion, France

    Pierre Lefeuvre

  17. Structural Biology Research Unit, Department of Clinical Laboratory Sciences, University of Cape Town, Observatory, 7925, Cape Town, South Africa

    Arvind Varsani

Authors
  1. Rafaela S. Fontenele
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  2. Philippe Roumagnac
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  3. Cécile Richet
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  4. Simona Kraberger
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  6. Maketalena Aleamotu‘a
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  7. Denis Filloux
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  8. Pauline Bernardo
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  9. Gordon W. Harkins
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  10. James McCarthy
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  12. Natalia S. Lamas
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  13. Emanuel F. M. Abreu
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  15. Graciete B. Batista
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  16. Ana L. M. Lacerda
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  18. Martin F. Wojciechowski
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  19. Lucas C. Majure
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  20. Darren P. Martin
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  21. Simone G. Ribeiro
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  22. Pierre Lefeuvre
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  23. Arvind Varsani
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Corresponding author

Correspondence to Arvind Varsani.

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The research did not involve human participants or animals.

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Electronic supplementary material

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705_2020_4801_MOESM1_ESM.docx

Supplementary Table 1 Pairwise identities of the complete genome nucleotide sequences and amino acid sequences of the Rep and CP amino acid sequences encoded by known genomoviruses (DOCX 42 kb)

705_2020_4801_MOESM2_ESM.docx

Supplementary Table 2 Summary of the isolate and sample names from which the 98 genomovirus genomes were recovered (DOCX 107 kb)

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Fontenele, R.S., Roumagnac, P., Richet, C. et al. Diverse genomoviruses representing twenty-nine species identified associated with plants. Arch Virol 165, 2891–2901 (2020). https://doi.org/10.1007/s00705-020-04801-5

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  • DOI: https://doi.org/10.1007/s00705-020-04801-5

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