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Large-scale survey reveals pervasiveness and potential function of endogenous geminiviral sequences in plants

Sharma Vikas, Lefeuvre Pierre, Roumagnac Philippe, Filloux Denis, Teycheney Pierre-Yves, Martin Darren Patrick, Maumus Florian. 2020. Large-scale survey reveals pervasiveness and potential function of endogenous geminiviral sequences in plants. Virus Evolution, 6 (2):veaa071, 13 p.

Journal article ; Article de recherche ; Article de revue à facteur d'impact
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Abstract : The family Geminiviridae contains viruses with single-stranded DNA genomes that have been found infecting a wide variety of angiosperm species. The discovery within the last 25 years of endogenous geminivirus-like (EGV) elements within the nuclear genomes of several angiosperms has raised questions relating to the pervasiveness of EGVs and their impacts on host biology. Only a few EGVs have currently been characterized and it remains unclear whether any of these have influenced, or are currently influencing, the evolutionary fitness of their hosts. We therefore undertook a large-scale search for evidence of EGVs within 134 genome and 797 transcriptome sequences of green plant species. We detected homologues of geminivirus replication-associated protein (Rep) genes in forty-two angiosperm species, including two monocots, thirty-nine dicots, and one ANITA-grade basal angiosperm species (Amborella trichopoda). While EGVs were present in the members of many different plant orders, they were particularly common within the large and diverse order, Ericales, with the highest copy numbers of EGVs being found in two varieties of tea plant (Camellia sinensis). Phylogenetic and clustering analyses revealed multiple highly divergent previously unknown geminivirus Rep lineages, two of which occur in C.sinensis alone. We find that some of the Camellia EGVs are likely transcriptionally active, sometimes co-transcribed with the same host genes across several Camellia species. Overall, our analyses expand the known breadths of both geminivirus diversity and geminivirus host ranges, and strengthens support for the hypothesis that EGVs impact the biology of their hosts.

Mots-clés Agrovoc : Virus des végétaux, ssDNA viruses [EN], Géminivirus, Camellia sinensis, Phylogénie

Mots-clés complémentaires : Geminiviridae, Amborella trichopoda, transcriptome

Mots-clés libres : Geminiviridae, Endogenous virus, Viridiplantae, Genomes, Transcriptomes, Phylogeny, Paleovirology

Classification Agris : H20 - Plant diseases
F30 - Plant genetics and breeding

Champ stratégique Cirad : CTS 4 (2019-) - Santé des plantes, des animaux et des écosystèmes

Auteurs et affiliations

  • Sharma Vikas, INRAE (FRA)
  • Lefeuvre Pierre, CIRAD-BIOS-UMR PVBMT (REU)
  • Roumagnac Philippe, CIRAD-BIOS-UMR BGPI (FRA) ORCID: 0000-0001-5002-6039
  • Filloux Denis, CIRAD-BIOS-UMR BGPI (FRA)
  • Teycheney Pierre-Yves, CIRAD-BIOS-UMR AGAP (GLP) ORCID: 0000-0002-9754-0745
  • Martin Darren Patrick, UCT (ZAF)
  • Maumus Florian, INRAE (FRA) - auteur correspondant

Source : Cirad-Agritrop (https://agritrop.cirad.fr/597931/)

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