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Genome characterization and diversity of trifolium virus 1: identification of a novel legume-infecting capulavirus

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Abstract

A novel geminivirus was identified in France and Spain in asymptomatic plants of white clover (Trifolium repens) and shrub medick (Medicago arborea). Its genome has the hallmarks of a capulavirus, and its relationship to other capulaviruses was confirmed by phylogenetic analysis. White clover isolates formed a tight cluster in the phylogenetic tree, while shrub medick isolates formed two distinct, more divergent groups with sequence identity values close to the species cutoff. These three groups have likely participated in recombination events involving alfalfa leaf curl virus and French bean severe leaf curl virus. The name "trifolium virus 1" (TrV1) is proposed for this new Capulavirus. Three TrV1 genotypes (TrV1-A, TrV1-B, and TrV1-C) were clearly distinguished.

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Acknowledgements

The authors thank the INRAE GenoToul Platform (Toulouse, France) for HTS. We are grateful to the Genotoul bioinformatics platform Toulouse Occitanie (Bioinfo Genotoul, https://doi.org/10.15454/1.5572369328961167E12) for providing computing resources. YM was supported by a PhD grant from the China Scholarship Council.

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Authors and Affiliations

  1. Univ. Bordeaux, INRAE, UMR BFP, 33140, Villenave d’Ornon, France

    Yuxin Ma, Laurence Svanella-Dumas, Marie Lefebvre & Thierry Candresse

  2. CIRAD, UMR PHIM, 34090, Montpellier, France

    Charlotte Julian, Serge Galzi, Emmanuel Fernandez, Denis Filloux & Philippe Roumagnac

  3. PHIM Plant Health Institute, University of Montpellier, CIRAD, INRAE, Institut Agro, IRD, Montpellier, France

    Charlotte Julian, Serge Galzi, Emmanuel Fernandez, Michel Yvon, Elodie Pirolles, Denis Filloux & Philippe Roumagnac

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  1. Yuxin Ma
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  2. Laurence Svanella-Dumas
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  3. Charlotte Julian
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  4. Serge Galzi
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  5. Emmanuel Fernandez
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  6. Michel Yvon
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  7. Elodie Pirolles
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  8. Marie Lefebvre
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  9. Denis Filloux
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  10. Philippe Roumagnac
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  11. Thierry Candresse
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Correspondence to Thierry Candresse.

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Ma, Y., Svanella-Dumas, L., Julian, C. et al. Genome characterization and diversity of trifolium virus 1: identification of a novel legume-infecting capulavirus. Arch Virol 166, 2573–2578 (2021). https://doi.org/10.1007/s00705-021-05135-6

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  • DOI: https://doi.org/10.1007/s00705-021-05135-6

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