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Managing the deluge of newly discovered plant viruses and viroids: an optimized scientific and regulatory framework for their characterization and risk analysis

Lookup NU author(s): Ferran Salavert Pamblanco, Professor Neil Boonham

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This work is licensed under a Creative Commons Attribution 4.0 International License (CC BY 4.0).


Abstract

Copyright © 2023 Fontdevila, Khalili, Maachi, Rivarez, Rollin, Salavert, Temple, Aranda, Boonham, Botermans, Candresse, Fox, Hernando, Kutnjak, Marais, Petter, Ravnikar, Selmi, Tahzima, Trontin, Wetzel and Massart.The advances in high-throughput sequencing (HTS) technologies and bioinformatic tools have provided new opportunities for virus and viroid discovery and diagnostics. Hence, new sequences of viral origin are being discovered and published at a previously unseen rate. Therefore, a collective effort was undertaken to write and propose a framework for prioritizing the biological characterization steps needed after discovering a new plant virus to evaluate its impact at different levels. Even though the proposed approach was widely used, a revision of these guidelines was prepared to consider virus discovery and characterization trends and integrate novel approaches and tools recently published or under development. This updated framework is more adapted to the current rate of virus discovery and provides an improved prioritization for filling knowledge and data gaps. It consists of four distinct steps adapted to include a multi-stakeholder feedback loop. Key improvements include better prioritization and organization of the various steps, earlier data sharing among researchers and involved stakeholders, public database screening, and exploitation of genomic information to predict biological properties.


Publication metadata

Author(s): Fontdevila Pareta N, Khalili M, Maachi A, Rivarez MPS, Rollin J, Salavert F, Temple C, Aranda MA, Boonham N, Botermans M, Candresse T, Fox A, Hernando Y, Kutnjak D, Marais A, Petter F, Ravnikar M, Selmi I, Tahzima R, Trontin C, Wetzel T, Massart S

Publication type: Article

Publication status: Published

Journal: Frontiers in Microbiology

Year: 2023

Volume: 14

Online publication date: 30/05/2023

Acceptance date: 25/04/2023

Date deposited: 03/07/2023

ISSN (electronic): 1664-302X

Publisher: Frontiers Media S.A.

URL: https://doi.org/10.3389/fmicb.2023.1181562

DOI: 10.3389/fmicb.2023.1181562


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Funding

Funder referenceFunder name
813542Commission of the European Communities
773139
CGIAR Genbank platform
European Union Horizon 2020 Research and Innovation Program
Germplasm Health Unit (GHU)

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