from boots on the ground to nucleotides in the sequencer: Advances in the study of plant virus ecology using plant virus metagenomics

Fritz Matthieu, Reggiardo Bérénice, Filloux Denis, Claude Lisa, Fernandez Emmanuel, Mahe Frédéric, Kraberger Simona, Custer Joy M., Becquart Pierre, Ndong Mebaley Telstar, Bohou Kombila Linda, Lenguiya Léadisaelle H., Boundenga Larson, Mombo Illich M., Maganda Gael D., Niama Fabien R., Koumba Jean-Sylvain, Ogliastro Mylène, Yvon Michel, Martin Darren Patrick, Blanc Stéphane, Varsani Arvind, Leroy Eric M., Roumagnac Philippe. 2023. from boots on the ground to nucleotides in the sequencer: Advances in the study of plant virus ecology using plant virus metagenomics. In : 12th International Congress of Plant Pathology (ICPP 2023): One health for all plants, crops and trees. Book of abstracts. ISPP, SFP. Lyon : ISPP, Résumé, p. 1081 International Conference on Plant Pathology (ICPP 2023). 12, Lyon, France, 20 Août 2023/25 Août 2023.

Résumé : Plant virus ecology began to be explored at the end of the 19th century. Since then, major advances have revealed complex virus–host–vector interactions in a variety of environments. These advances have been accelerated by development of new technologies for virus detection and characterization, the latest of which being high-throughput sequencing (HTS). HTS technologies have proved to be effective for non-targeted characterization of all or nearly all viruses present in a sample without requiring prior information about virus identity, as would be needed for virus-targeted tests. Plant virus metagenomics studies have thus made important advances, including characterization of the complex interactions between phytovirus dynamics and the structure of multi-species host communities, and documentation of the effects of anthropogenic ecosystem simplification on plant virus emergence and diversity. However, such studies must overcome challenges at every stage, from plant sampling to bioinformatics analysis. Results of two recent studies will be presented. While the first study aimed at systematically evaluate plant-associated viromes across broad agroecological interfaces, the second study aimed at using a predator-enabled metagenomics strategy to sample the virome of a remote and difficult to access densely forested African tropical region.

Auteurs et affiliations

• Fritz Matthieu, IRD (FRA)
• Reggiardo Bérénice
• Filloux Denis, CIRAD-BIOS-UMR PHIM (FRA)
• Claude Lisa
• Fernandez Emmanuel, CIRAD-BIOS-UMR PHIM (FRA)
• Mahe Frédéric, CIRAD-BIOS-UMR PHIM (FRA) ORCID: 0000-0002-2808-0984
• Kraberger Simona, Arizona State University (USA)
• Custer Joy M., Arizona State University (USA)
• Becquart Pierre, IRD (FRA)
• Ndong Mebaley Telstar, Centre Interdisciplinaire de Recherches Médicales de Franceville (GAB)
• Bohou Kombila Linda, Centre Interdisciplinaire de Recherches Médicales de Franceville (GAB)
• Lenguiya Léadisaelle H., Laboratoire national de santé publique (GNB)
• Boundenga Larson, Centre Interdisciplinaire de Recherches Médicales de Franceville (GAB)
• Mombo Illich M., Centre Interdisciplinaire de Recherches Médicales de Franceville (GAB)
• Maganda Gael D., Centre Interdisciplinaire de Recherches Médicales de Franceville (GAB)
• Niama Fabien R., Laboratoire national de santé publique (GNB)
• Koumba Jean-Sylvain, Centre Interdisciplinaire de Recherches Médicales de Franceville (GAB)
• Ogliastro Mylène, INRAE (FRA)
• Yvon Michel, INRAE (FRA)
• Martin Darren Patrick, UCT (ZAF)
• Blanc Stéphane, INRAE (FRA)
• Varsani Arvind, Arizona State University (USA)
• Leroy Eric M., IRD (FRA)
• Roumagnac Philippe, CIRAD-BIOS-UMR PHIM (FRA) ORCID: 0000-0001-5002-6039

Source : Cirad-Agritrop (https://agritrop.cirad.fr/609892/)

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