Virion-Associated Nucleic Acid-Based Metagenomics: A Decade of Advances in Molecular Characterization of Plant Viruses.

Autor:	Moubset O; CIRAD, UMR PHIM, 34090 Montpellier, France.; PHIM Plant Health Institute, Univ Montpellier, CIRAD, INRAE, Institut Agro, IRD, Montpellier, France., François S; Department of Zoology, University of Oxford, U.K., Maclot F; Plant Pathology Laboratory, Terra, Gembloux Agro-Bio Tech, Liège University, Gembloux, Belgium., Palanga E; Institut Togolais de Recherche Agronomique (ITRA-CRASS), B.P. 129, Kara, Togo., Julian C; CIRAD, UMR PHIM, 34090 Montpellier, France.; PHIM Plant Health Institute, Univ Montpellier, CIRAD, INRAE, Institut Agro, IRD, Montpellier, France., Claude L; CIRAD, UMR PHIM, 34090 Montpellier, France.; PHIM Plant Health Institute, Univ Montpellier, CIRAD, INRAE, Institut Agro, IRD, Montpellier, France., Fernandez E; CIRAD, UMR PHIM, 34090 Montpellier, France.; PHIM Plant Health Institute, Univ Montpellier, CIRAD, INRAE, Institut Agro, IRD, Montpellier, France., Rott P; CIRAD, UMR PHIM, 34090 Montpellier, France.; PHIM Plant Health Institute, Univ Montpellier, CIRAD, INRAE, Institut Agro, IRD, Montpellier, France., Daugrois JH; CIRAD, UMR PHIM, 34090 Montpellier, France.; PHIM Plant Health Institute, Univ Montpellier, CIRAD, INRAE, Institut Agro, IRD, Montpellier, France., Antoine-Lorquin A; INRA-Université de Montpellier UMR DGIMI 34095 Montpellier, France., Bernardo P; Enza Zaden, Haling 1-E, 1602 DB Enkhuizen, The Netherlands., Blouin AG; Plant Pathology Laboratory, Terra, Gembloux Agro-Bio Tech, Liège University, Gembloux, Belgium.; Plant Protection Department, Agroscope, 1260, Nyon, Switzerland., Temple C; Plant Pathology Laboratory, Terra, Gembloux Agro-Bio Tech, Liège University, Gembloux, Belgium., Kraberger S; The Biodesign Center for Fundamental and Applied Microbiomics, Center for Evolution and Medicine, School of Life Sciences, Arizona State University, Tempe, AZ, U.S.A., Fontenele RS; The Biodesign Center for Fundamental and Applied Microbiomics, Center for Evolution and Medicine, School of Life Sciences, Arizona State University, Tempe, AZ, U.S.A., Harkins GW; South African Medical Research Council Capacity Development Unit, South African National Bioinformatics, Institute, University of the Western Cape, South Africa., Ma Y; Univ. Bordeaux, INRAE, UMR BFP, 33140 Villenave d'Ornon, France., Marais A; Univ. Bordeaux, INRAE, UMR BFP, 33140 Villenave d'Ornon, France., Candresse T; Univ. Bordeaux, INRAE, UMR BFP, 33140 Villenave d'Ornon, France., Chéhida SB; CIRAD, UMR PVBMT, F-97410 St Pierre, La Réunion, France., Lefeuvre P; CIRAD, UMR PVBMT, F-97410 St Pierre, La Réunion, France., Lett JM; CIRAD, UMR PVBMT, F-97410 St Pierre, La Réunion, France., Varsani A; The Biodesign Center for Fundamental and Applied Microbiomics, Center for Evolution and Medicine, School of Life Sciences, Arizona State University, Tempe, AZ, U.S.A.; Structural Biology Research Unit, Department of Integrative Biomedical Sciences, University of Cape Town, Observatory, Cape Town, South Africa., Massart S; Plant Pathology Laboratory, Terra, Gembloux Agro-Bio Tech, Liège University, Gembloux, Belgium., Ogliastro M; Department of Zoology, University of Oxford, U.K., Martin DP; Division of Computational Biology, Department of Integrative Biomedical Sciences, Institute of Infectious Diseases and Molecular Medicine, University of Cape Town, Cape Town, South Africa., Filloux D; CIRAD, UMR PHIM, 34090 Montpellier, France.; PHIM Plant Health Institute, Univ Montpellier, CIRAD, INRAE, Institut Agro, IRD, Montpellier, France., Roumagnac P; CIRAD, UMR PHIM, 34090 Montpellier, France.; PHIM Plant Health Institute, Univ Montpellier, CIRAD, INRAE, Institut Agro, IRD, Montpellier, France.
Jazyk:	angličtina
Zdroj:	Phytopathology [Phytopathology] 2022 Nov; Vol. 112 (11), pp. 2253-2272.
DOI:	10.1094/PHYTO-03-22-0096-RVW
Abstrakt:	Over the last decade, viral metagenomic studies have resulted in the discovery of thousands of previously unknown viruses. These studies are likely to play a pivotal role in obtaining an accurate and robust understanding of how viruses affect the stability and productivity of ecosystems. Among the metagenomics-based approaches that have been developed since the beginning of the 21st century, shotgun metagenomics applied specifically to virion-associated nucleic acids (VANA) has been used to disentangle the diversity of the viral world. We summarize herein the results of 24 VANA-based studies, focusing on plant and insect samples conducted over the last decade (2010 to 2020). Collectively, viruses from 85 different families were reliably detected in these studies, including capsidless RNA viruses that replicate in fungi, oomycetes, and plants. Finally, strengths and weaknesses of the VANA approach are summarized and perspectives of applications in detection, epidemiological surveillance, environmental monitoring, and ecology of plant viruses are provided. [Formula: see text] Copyright © 2022 The Author(s). This is an open access article distributed under the CC BY-NC-ND 4.0 International license.
Databáze:	MEDLINE
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