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Facilitating the adoption of high‐throughput sequencing technologies as a plant pest diagnostic test in laboratories: A step‐by‐step description

hal.structure.identifierGembloux Agro-Bio Tech [Gembloux]
dc.contributor.authorLEBAS, Benedicte
hal.structure.identifierFera Science Ltd
dc.contributor.authorADAMS, Ian
hal.structure.identifierUniversity of California [Davis] [UC Davis]
dc.contributor.authorAL RWAHNIH, Maher
hal.structure.identifierResearch Institute for Agricultural, Fisheries and Food [ILVO]
dc.contributor.authorBAEYEN, Steve
hal.structure.identifierCanadian Food Inspection Agency [CFIA]
dc.contributor.authorBILODEAU, Guillaume J.
hal.structure.identifierGembloux Agro-Bio Tech [Gembloux]
dc.contributor.authorBLOUIN, Arnaud
hal.structure.identifierNewcastle University [Newcastle]
dc.contributor.authorBOONHAM, Neil
hal.structure.identifierBiologie du fruit et pathologie [BFP]
dc.contributor.authorCANDRESSE, Thierry
hal.structure.identifier1Walloon Agricultural Research Centre, Gembloux, Belgium 2The Research Institute of Organic Agriculture (FIBL), Frick, Switzerland
dc.contributor.authorCHANDELIER, Anne
hal.structure.identifierResearch Institute for Agricultural, Fisheries and Food [ILVO]
dc.contributor.authorDE JONGHE, Kris
hal.structure.identifierFera Science Ltd
dc.contributor.authorFOX, Adrian
hal.structure.identifierInstitute for Epidemiology and Pathogen Diagnostics
dc.contributor.authorGAAFAR, Yahya
hal.structure.identifierLaboratoire de santé des végétaux [LSV Angers]
dc.contributor.authorGENTIT, Pascal
hal.structure.identifierResearch Institute for Agricultural, Fisheries and Food [ILVO]
dc.contributor.authorHAEGEMAN, Annelies
hal.structure.identifierMinistry for Primary Industries
dc.contributor.authorHO, Wellcome
hal.structure.identifierAnimal Plant Health Inspection Service, APHIS-USDA, Humble, Texas, 77338, USA.
dc.contributor.authorHURTADO-GONZALES, Oscar
dc.contributor.authorJONKERS, Wilfried
hal.structure.identifierWorld Agroforestry Center [CGIAR, Pérou] [ICRAF]
dc.contributor.authorKREUZE, Jan
hal.structure.identifierNational Institute of Biology [Ljubljana] [NIB]
dc.contributor.authorKUTJNAK, Denis
hal.structure.identifierCentro de Investigaciones Biológicas [CSIC]
dc.contributor.authorLANDA, Blanca
hal.structure.identifierUniversity of Tasmania [Hobart, Australia] [UTAS]
dc.contributor.authorLIU, Mingxin
hal.structure.identifierGembloux Agro-Bio Tech [Gembloux]
dc.contributor.authorMACLOT, François
hal.structure.identifierAnimal Plant Health Inspection Service, APHIS-USDA, Humble, Texas, 77338, USA.
dc.contributor.authorMALAPI-WIGHT, Martha
hal.structure.identifierStellenbosch University
hal.structure.identifierCitrus Research International
dc.contributor.authorMAREE, Hano
hal.structure.identifierAgriculture Victoria [AgriBio]
dc.contributor.authorMARTONI, Francesco
hal.structure.identifierNational Institute of Biology [Ljubljana] [NIB]
dc.contributor.authorMEHLE, Natasha
hal.structure.identifierCNR Istituto per la Protezione Sostenibile delle Piante [Torino, Italia] [IPSP]
dc.contributor.authorMINAFRA, Angelantonio
hal.structure.identifierHorticultural Crops Research Unit
dc.contributor.authorMOLLOV, Dimitre
hal.structure.identifierInternational Plant Protection Convention
dc.contributor.authorMOREIRA, Adriana
hal.structure.identifierAnimal Plant Health Inspection Service, APHIS-USDA, Humble, Texas, 77338, USA.
dc.contributor.authorNAKHLA, Mark
hal.structure.identifierEuropean and Mediterranean Plant Protection Organization - Organisation Européenne et Méditerranéenne pour la Protection des Plantes [EPPO]
dc.contributor.authorPETTER, Françoise
hal.structure.identifierAgriculture Victoria [AgriBio]
dc.contributor.authorPIPER, Alexander
hal.structure.identifierGembloux Agro-Bio Tech [Gembloux]
dc.contributor.authorPONCHART, Julien
hal.structure.identifierLiverpool John Moores University [LJMU]
dc.contributor.authorRAE, Robbie
hal.structure.identifierLaboratoire de santé des végétaux [LSV Angers]
dc.contributor.authorREMENANT, Benoit
hal.structure.identifierAnimal Plant Health Inspection Service, APHIS-USDA, Humble, Texas, 77338, USA.
dc.contributor.authorRIVERA, Yazmin
hal.structure.identifierAgriculture Victoria [AgriBio]
dc.contributor.authorRODONI, Brendan
hal.structure.identifierNetherlands Food and Consumer Product Safety Authority [NVWA]
dc.contributor.authorROENHORST, Johanna W.
hal.structure.identifierGembloux Agro-Bio Tech [Gembloux]
dc.contributor.authorROLLIN, Johan
hal.structure.identifierCNR Istituto per la Protezione Sostenibile delle Piante [Torino, Italia] [IPSP]
dc.contributor.authorSALDARELLI, Pasquale
hal.structure.identifierFinnish Food Authority
dc.contributor.authorSANTALA, Johanna
hal.structure.identifierInternational Seed Federation [ISF]
dc.contributor.authorSOUZA-RICHARDS, Rose
hal.structure.identifierUniversità degli studi di Torino = University of Turin [UNITO]
dc.contributor.authorSPADARO, Davide
hal.structure.identifierUniversity of Exeter
dc.contributor.authorSTUDHOLME, David
hal.structure.identifierCanadian Food Inspection Agency [CFIA]
dc.contributor.authorSULTMANIS, Stefanie
hal.structure.identifierWageningen University and Research [Wageningen] [WUR]
dc.contributor.authorVAN DER VLUGT, René
hal.structure.identifierGembloux Agro-Bio Tech [Gembloux]
dc.contributor.authorTAMISIER, Lucie
hal.structure.identifierEuropean and Mediterranean Plant Protection Organization - Organisation Européenne et Méditerranéenne pour la Protection des Plantes [EPPO]
dc.contributor.authorTRONTIN, Charlotte
hal.structure.identifierFera Science Ltd
dc.contributor.authorVAZQUEZ-IGLESIAS, Ines
hal.structure.identifierInstituto Nacional de Investigação Agrária e Veterinária = National Institute for Agrarian and Veterinary Research [Oeiras, Portugal] [INIAV]
dc.contributor.authorVICENTE, Claudia
hal.structure.identifierNetherlands Food and Consumer Product Safety Authority [NVWA]
dc.contributor.authorVOSSENBERG, Bart
hal.structure.identifierDienstleistungszentrum Ländlicher Raum DLR Rheinpfalz [DLR Rheinpfalz]
dc.contributor.authorWETZEL, Thierry
hal.structure.identifierJulius Kühn-Institute
dc.contributor.authorZIEBELL, Heiko
hal.structure.identifierGembloux Agro-Bio Tech [Gembloux]
dc.contributor.authorMASSART, Sebastien
dc.date.issued2022
dc.identifier.issn0250-8052
dc.description.abstractEnHigh-throughput sequencing (HTS) is a powerful tool that enables the simultaneous detection and potential identification of any organisms present in a sample. The growing interest in the application of HTS technologies for routine diagnostics in plant health laboratories is triggering the development of guidelines on how to prepare laboratories for performing HTS testing. This paper describes general and technical recommendations to guide laboratories through the complex process of preparing a laboratory for HTS tests within existing quality assurance systems. From nucleic acid extractions to data analysis and interpretation, all of the steps are covered to ensure reliable and reproducible results. These guidelines are relevant for the detection and identification of any plant pest (e.g. arthropods, bacteria, fungi, nematodes, invasive plants or weeds, protozoa, viroids, viruses), and from any type of matrix (e.g. pure microbial culture, plant tissue, soil, water), regardless of the HTS technology (e.g. amplicon sequencing, shotgun sequencing) and of the application (e.g. surveillance programme, phytosanitary certification, quarantine, import control). These guidelines are written in general terms to facilitate the adoption of HTS technologies in plant pest routine diagnostics and enable broader application in all plant health fields, including research. A glossary of relevant terms is provided among the Supplementary Material.
dc.language.isoen
dc.publisherWiley
dc.subject.enhigh-throughput sequencing
dc.subject.enplant pest diagnostic test
dc.title.enFacilitating the adoption of high‐throughput sequencing technologies as a plant pest diagnostic test in laboratories: A step‐by‐step description
dc.typeArticle de revue
dc.identifier.doi10.1111/epp.12863
dc.subject.halSciences du Vivant [q-bio]
dc.subject.halSciences du Vivant [q-bio]/Biologie végétale/Phytopathologie et phytopharmacie
dc.description.sponsorshipEuropeValidation of diagnostic tests to support plant health
bordeaux.journalEPPO Bulletin
bordeaux.page394-418
bordeaux.volume52
bordeaux.issue2
bordeaux.peerReviewedoui
hal.identifierhal-03753454
hal.version1
hal.popularnon
hal.audienceInternationale
hal.origin.linkhttps://hal.archives-ouvertes.fr//hal-03753454v1
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