Long-term anthropogenic management and associated loss of plant diversity deeply impact virome richness and composition of Poaceae communities

Maclot François, Debue Virginie, Malmstrom Carolyn M., Filloux Denis, Roumagnac Philippe, Eck Mathilde, Tamisier Lucie, Blouin Arnaud G., Candresse Thierry, Massart Sébastien. 2023. Long-term anthropogenic management and associated loss of plant diversity deeply impact virome richness and composition of Poaceae communities. Microbiology Spectrum, 11 (2), 17 p.

https://doi.org/10.1128/spectrum.04850-22

Article de revue ; Article de recherche ; Article de revue à facteur d'impact Revue en libre accès total

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Url - jeu de données - Entrepôt autre : https://www.ncbi.nlm.nih.gov/bioproject/PRJNA882095 / Url - jeu de données - Entrepôt autre : https://www.ncbi.nlm.nih.gov/nuccore/OL330737

Résumé : Modern agriculture has influenced plant virus emergence through ecosystem simplification, introduction of new host species, and reduction in crop genetic diversity. Therefore, it is crucial to better understand virus distributions across cultivated and uncultivated communities in agro-ecological interfaces, as well as virus exchange among them. Here, we advance fundamental understanding in this area by characterizing the virome of three co-occurring replicated Poaceae community types that represent a gradient of grass species richness and management intensity, from highly managed crop monocultures to little-managed, species-rich grasslands. We performed a large-scale study on 950 wild and cultivated Poaceae over 2 years, combining untargeted virome analysis down to the virus species level with targeted detection of three plant viruses. Deep sequencing revealed (i) a diversified and largely unknown Poaceae virome (at least 51 virus species or taxa), with an abundance of so-called persistent viruses; (ii) an increase of virome richness with grass species richness within the community; (iii) stability of virome richness over time but a large viral intraspecific variability; and (iv) contrasting patterns of virus prevalence, coinfections, and spatial distribution among plant communities and species. Our findings highlight the complex structure of plant virus communities in nature and suggest the influence of anthropogenic management on viral distribution and prevalence.

Mots-clés Agrovoc : virus des végétaux, Poaceae, phylogénie, distribution géographique, biodiversité, communauté végétale, facteur anthropogène

Mots-clés libres : Virus ecology, Wild and cultivated Poaceae, High-throughput sequencing, Virome, Virus richness, Virus prevalence

Classification Agris : H20 - Maladies des plantes
F30 - Génétique et amélioration des plantes

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

Agences de financement hors UE : Fonds De La Recherche Scientifique - FNRS

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