Diversity and Pathobiology of an Ilarvirus Unexpectedly Detected in Diverse Plants and Global Sequencing Data.

Ilarvirus; Serratus; Solanaceae; histopathology; phylogenetics; pollen; symptomatology; virion morphology; virus diversity; virus transmission; Phylogeny; Plant Diseases; Nicotiana; Solanum; Tobacco; Agronomy and Crop Science; Plant Science

Abstract :

[en] High-throughput sequencing (HTS) and sequence mining tools revolutionized virus detection and discovery in recent years, and implementing them with classical plant virology techniques results in a powerful approach to characterize viruses. An example of a virus discovered through HTS is Solanum nigrum ilarvirus 1 (SnIV1) (Bromoviridae), which was recently reported in various solanaceous plants from France, Slovenia, Greece, and South Africa. It was likewise detected in grapevines (Vitaceae) and several Fabaceae and Rosaceae plant species. Such a diverse set of source organisms is atypical for ilarviruses, thus warranting further investigation. In this study, modern and classical virological tools were combined to accelerate the characterization of SnIV1. Through HTS-based virome surveys, mining of sequence read archive datasets, and a literature search, SnIV1 was further identified from diverse plant and non-plant sources globally. SnIV1 isolates showed relatively low variability compared with other phylogenetically related ilarviruses. Phylogenetic analyses showed a distinct basal clade of isolates from Europe, whereas the rest formed clades of mixed geographic origin. Furthermore, systemic infection of SnIV1 in Solanum villosum and its mechanical and graft transmissibility to solanaceous species were demonstrated. Near-identical SnIV1 genomes from the inoculum (S. villosum) and inoculated Nicotiana benthamiana were sequenced, thus partially fulfilling Koch's postulates. SnIV1 was shown to be seed-transmitted and potentially pollen-borne, has spherical virions, and possibly induces histopathological changes in infected N. benthamiana leaf tissues. Overall, this study provides information to better understand the diversity, global presence, and pathobiology of SnIV1; however, its possible emergence as a destructive pathogen remains uncertain. [Formula: see text] Copyright © 2023 The Author(s). This is an open access article distributed under the CC BY 4.0 International license.

Disciplines :

Biochemistry, biophysics & molecular biology

Author, co-author :

Rivarez, Mark Paul Selda ; Department of Biotechnology and Systems Biology, National Institute of Biology, Ljubljana, 1000, Slovenia

Faure, Chantal; University of Bordeaux, INRAE, UMR 1332 Biologie du Fruit et Pathologie, Villenave d'Ornon, 33882, France

Svanella-Dumas, Laurence; University of Bordeaux, INRAE, UMR 1332 Biologie du Fruit et Pathologie, Villenave d'Ornon, 33882, France

Pecman, Anja; Department of Biotechnology and Systems Biology, National Institute of Biology, Ljubljana, 1000, Slovenia

Tušek-Žnidaric, Magda; Department of Biotechnology and Systems Biology, National Institute of Biology, Ljubljana, 1000, Slovenia

Schönegger, Deborah; University of Bordeaux, INRAE, UMR 1332 Biologie du Fruit et Pathologie, Villenave d'Ornon, 33882, France

De Jonghe, Kris; Plant Sciences Unit, Flanders Research Institute for Agriculture, Fisheries and Food, Merelbeke, 9820, Belgium

Blouin, Arnaud ; Plant Pathology Laboratory, TERRA-Gembloux Agro-Bio Tech, University of Liège, Gembloux, 5030, Belgium

Rasmussen, David A; Department of Entomology and Plant Pathology, North Carolina State University, Raleigh, 27606, U.S.A

Massart, Sébastien ; Université de Liège - ULiège > TERRA Research Centre > Gestion durable des bio-agresseurs

More authors (4 more)

Language :

English

Title :

Diversity and Pathobiology of an Ilarvirus Unexpectedly Detected in Diverse Plants and Global Sequencing Data.

Publication date :

September 2023

Journal title :

Phytopathology

ISSN :

0031-949X

eISSN :

1943-7684

Publisher :

American Phytopathological Society, United States

Volume :

113

Issue :

Pages :

1729 - 1744

Peer reviewed :

Peer Reviewed verified by ORBi

Additional URL :

https://apsjournals.apsnet.org/doi/pdf/10.1094/PHYTO-12-22-0465-V

Funders :

EU - European Union [BE]
FPS Health Federal Public Service Health, Food Chain Safety and Environment [BE]

Funding text :

Funding: Support for this work was mainly provided by the Horizon 2020 Marie Skłodowska-Curie Actions Innovative Training Network (H2020 MSCA-ITN) project “Innovative Network for Next Generation Training and Sequencing of Virome (INEXTVIR)” (grant GA 813542) under the management of the European Commission-Research Executive Agency and the Administration of the Republic of Slovenia for Food Safety, Veterinary Sector and Plant Protection and Slovenian Research Agency (grants P4-0165, P4-0407, and J4-4553). Support in Belgium was provided by the Belgian FPS Health Food Chain Safety and Environment (Project RT18/3 SEVIPLANT). M. P. S. Rivarez received funding from the Department of Science and Technology–Philippine Council for Agriculture, Aquatic, and Natural Resources Research and Development (DOST–PCAARRD) of the Republic of the Philippines (Balik Scientist Program [Republic Act 11035]).Funding: Support for this work was mainly provided by the Horizon 2020 Marie Skłodowska-Curie Actions Innovative Training Network (H2020 MSCAITN) project “Innovative Network for Next Generation Training and Sequencing of Virome (INEXTVIR)” (grant GA 813542) under the management of the European Commission-Research Executive Agency and the Administration of the Republic of Slovenia for Food Safety, Veterinary Sector and Plant Protection and Slovenian Research Agency (grants P4-0165, P4-0407, and J4-4553). Support in Belgium was provided by the Belgian FPS Health Food Chain Safety and Environment (Project RT18/3 SEVIPLANT). M. P. S. Rivarez received funding from the Department of Science and Technology–Philippine Council for Agriculture, Aquatic, and Natural Resources Research and Development (DOST–PCAARRD) of the Republic of the Philippines (Balik Scientist Program [Republic Act 11035]).

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