VIROME NGS ANALYSIS OF PESTS AND PATHOGENS FOR PLANT PROTECTION

Deliverables

Documents, reports (34)

Collection of new bacterial isolates and phages from Psa, R. solanacearum, Psm, Pss, Agrobacterium biovar 1 and Pph

Collection of new bacterial isolates and phages from Psa R solanacearum Psm Pss Agrobacterium biovar 1 and Pph

Market demand and product requirements

Report on intergenerational surveys about virus-based PPP acceptance

Report on intergenerational surveys about virusbased PPP acceptance

A final report on the possibility of exploitation of VIROPLANT WP outputs

Description of the influence of a mitovirus on the plant performance under biotic and abiotic stresses

Report on the ability of the viral RNA genome to establish an infection in the insect host, and of the infectious clone of EVV1 to replicate in the plant

Report on the ability of the viral RNA genome to establish an infection in the insect host and of the infectious clone of EVV1 to replicate in the plant

Summary of existing regulatory frameworks for bacteriophages and virus-based plant protection products in OECD countries

Summary of existing regulatory frameworks for bacteriophages and virusbased plant protection products in OECD countries

Dissemination/Communication draft plan

The DisseminationCommunication draft plan is a continuous activity and reports will be edited on M3 12 30 41

Final report

Final report on perceived acceptance of virus based PPP based on literature and experts and on intergenerational surveys about virusbased PPP acceptance

Optimized phage cocktail against Psa in kiwi vines, Agrobacterium biovar 1, Psm and Pss

Optimized phage cocktail against Psa in kiwi vines Agrobacterium biovar 1 Psm and Pss

Report on bioinformatic pipeline for virus identification.

Advisory Board Reports

Advisory Board Reports at M19 M42

Report on the importance of microbial community analyses for the environmental risk assessment of plant protection products

Draft report on perceived acceptance of virus based PPP based on literature and experts

First batch of practice abstracts for end-users

"The resulting innovative knowledge and easy accessible end-user material from this project will feed into the EIP-AGRI (The agricultural European Innovation Partnership) website for broad dissemination. The end-user material to be produced contains a substantial number of summaries for practitioners in the EIP common format (""practice abstracts""), including the characteristics of the project (e.g. contact details of partners, etc). A full package of practice abstracts will be produced by the project, containing all the outcomes/recommendations which are ready for practice. A ""practice abstract"" is a short summary of around 1000-1500 characters (word count – no spaces; see below) which describes the main information/recommendation/practice that can serve the end-users in their daily practice. Guidance and templates for these practice abstracts are available on the EIP-AGRI web site: http://ec.europa.eu/eip/agriculture/en/content/eip-agri-common-format. A total target number of 10 practice abstracts is foreseen for the project. Half of them are expected to be delivered in the first batch. "

Case study fact sheets

Report on risk assessment

Second batch of practice abstract for end-users

The resulting innovative knowledge and easy accessible enduser material from this project will feed into the EIPAGRI The agricultural European Innovation Partnership website for broad dissemination The enduser material to be produced contains a substantial number of summaries for practitioners in the EIP common format practice abstracts including the characteristics of the project eg contact details of partners etc A full package of practice abstracts will be produced by the project containing all the outcomesrecommendations which are ready for practiceA practice abstract is a short summary of around 10001500 characters word count no spaces see below which describes the main informationrecommendationpractice that can serve the endusers in their daily practice Guidance and templates for these practice abstracts are available on the EIPAGRI web site httpeceuropaeueipagricultureencontenteipagricommonformat A total target number of 10 practice abstracts is foreseen for the project

Report on bacterial resistance development of Psm and Pss to phage infections

A report on the virome of obligatory biotrophs

Optimized delivery method for Psa phage therapy in kiwi vines

Factors influencing market adoption and strategies to increase likelihood of industrial application

Initial data information packages for approval

Report on the standardization of the methods for identification of viruses from NGS virome analyses of insects

Comprehensive report on technical feasibility of phage therapy for Psa on kiwi vines, halo blight in beans, R. solanacearum in tomato, bacterial canker in Prunus trees and crazy roots in tomato and cucumber

Comprehensive report on technical feasibility of phage therapy for Psa on kiwi vines halo blight in beans R solanacearum in tomato bacterial canker in Prunus trees and crazy roots in tomato and cucumber

Techno-economic system analysis of novel pest control strategies

Comprehensive report of the effect of R. solanacearum phages on the host virulence traits and of their sensitivity to nanoparticles

Comprehensive report of the effect of R solanacearum phages on the host virulence traits and of their sensitivity to nanoparticles

Final data information packages for approval and roadmaps for additional data

Description of the role of a selected insect virus on pests (H. armigera and S. exigua) susceptibility to biological control agents

Description of the role of a selected insect virus on pests H armigera and S exigua susceptibility to biological control agents

Feasible business model configurations for the commercialization of the pest control strategies

Non-virulent P. syringae pathovar as carrier of Psa phage therapy

Nonvirulent P syringae pathovar as carrier of Psa phage therapy

Description of the role of persistent viruses in insect pest/plant interactions

Description of the role of persistent viruses in insect pestplant interactions

Table for the characterization of pathogen transmission parameters of insect vector populations following inoculation with selected viruses

Periodic Activity-Report on Project Dissemination/Communication events

Periodic ActivityReport on Project DisseminationCommunication events three reports will be edited M12 30 42

Websites, patent fillings, videos etc. (1)

Dissemination/Communication contents for different targets

DisseminationCommunication contents for different targets two release of the report will be edited M3 41

Publications

Peer reviewed articles (31)

Putative new plant viruses associated with Plasmopara viticola-infected grapevine samples

Author(s): Chiapello, Marco; Rodriguez-Romero, Julio; Nerva, Luca; Forgia, Marco; Chitarra, Walter; Ayllon, Maria; Massimo Turina
Published in: Annals of applied biology, 5, 2021, ISSN 1744-7348
Publisher: Wiley
DOI: 10.5281/zenodo.5810545

Bacteriophage-Host Association in the Phytoplasma Insect Vector Euscelidius variegatus

Author(s): Marta Vallino, Marika Rossi, Sara Ottati, Gabriele Martino, Luciana Galetto, Cristina Marzachì, Simona Abbà
Published in: Pathogens, 2021, ISSN 2076-0817
Publisher: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/pathogens10050612

Characterisation of the Viral Community Associated with the Alfalfa Weevil (Hypera postica) and Its Host Plant, Alfalfa (Medicago sativa)

Author(s): François, Sarah; Antoine-Lorquin, Aymeric; Kulikowski, Maximilien; Frayssinet, Marie; Filloux, Denis; Fernandez, Emmanuel; Roumagnac, Philippe; Froissart, Remy; Ogliastro, Mylene
Published in: Viruses, 13, 2021, ISSN 1999-4915
Publisher: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/v13050791

Complexity and Local Specificity of the Virome Associated withTospovirus-Transmitting Thrips Species

Author(s): Chiapello Marco, Bosco Lara, Ciuffo Marina, Ottati Sara, Salem Nida, Rosa Cristina, Tavella Luciana, Turina Massimo
Published in: Journal of Virology, 2021, ISSN 1098-5514
Publisher: ASM
DOI: 10.1128/jvi.00597-21

The future of phage biocontrol in integrated plant protection for sustainable crop production

Author(s): Dominique Holtappels, Kiandro Fortuna, Rob Lavigne and Jeroen Wagemans
Published in: Current Opinion in Biotechnology, 2021, ISSN 0958-1669
Publisher: Elsevier BV
DOI: 10.1016/j.copbio.2020.08.016

Preparing for the KIL: Receptor Analysis of Pseudomonas syringae Pv. porri Phages and Their Impact on Bacterial Virulence

Author(s): Dominique Holtappels, Alison Kerremans, Yoni Busschots, Johan Van Vaerenbergh, Martine Maes, Rob Lavigne, Jeroen Wagemans
Published in: International Journal of Molecular Science, 2020, ISSN 1422-0067
Publisher: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/ijms21082930

Silencing of ATP synthase β reduces phytoplasma multiplication in a leafhopper vector

Author(s): Galetto, Luciana; Abbà, Simona; Rossi, Marika; Ripamonti, Matteo; Palmano, Sabrina; Bosco, Domenico; Marzachì, Cristina
Published in: Journal of Insect Physiology, 128, 2020, ISSN 0022-1910
Publisher: Pergamon Press Ltd.
DOI: 10.1016/j.jinsphys.2020.104176

Novel Mycoviruses Discovered in the Mycovirome of a Necrotrophic Fungus

Author(s): Ana Ruiz-Padilla, Julio Rodríguez-Romero, Irene Gómez-Cid, Davide Pacifico, María A Ayllón
Published in: mBIO, 2021, ISSN 2150-7511
Publisher: ASM
DOI: 10.1128/mbio.03705-20

Seeing the forest for the trees: Use of phages to treat bacterial tree diseases.

Author(s): Emily R. Grace, Mojgan Rabiey, Ville-Petri Friman, Robert W. Jackson
Published in: Plant Pathology, 2021, ISSN 1365-3059
Publisher: British Society for Plant Pathology
DOI: 10.1111/ppa.13465

Viruses of fungi and oomycetes in the soil environment

Author(s): Sutela S., Poimala A., Vainio E. J.
Published in: FEMS Microbiology Ecology, 2019, ISSN 0168-6496
Publisher: Blackwell
DOI: 10.1093/femsec/fiz119

Putative new plant viruses associated with Plasmopara viticola-infected grapevine samples

Author(s): Chiapello, Marco; Rodriguez-Romero, Julio; Nerva, Luca; Forgia, Marco; Chitarra, Walter; Ayllon, Maria; Massimo Turina
Published in: Annals of Applied Biology, 2020, ISSN 1744-7348
Publisher: Wiley
DOI: 10.1111/aab.12563

Molecular Characterization and Taxonomic Assignment of three Phage Isolates from a Collection Infecting Pseudomonas syringae pv. actinidiae and P. syringae pv. phaseolicola from Northern Italy

Author(s): Gabriele Martino; Dominique Holtappels; Marta Vallino; Marco Chiapello; Massimo Turina; Rob Lavigne; Jeroen Wagemans; Marina Ciuffo
Published in: Viruses, 1, 2021, ISSN 1999-4915
Publisher: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/v13102083

Phage biocontrol to combat Pseudomonas syringae pathogens causing disease in cherry

Author(s): Mojgan Rabiey, Shyamali R. Roy, Dominique Holtappels, Linda Franceschetti, Billy J. Quilty, Ryan Creeth, George W. Sundin, Jeroen Wagemans, Rob Lavigne, Robert W. Jackson
Published in: Microbial Biotechnology, 2020, ISSN 1751-7915
Publisher: John Wiley & Sons Ltd and Society for Applied Microbiology
DOI: 10.1111/1751-7915.13585

Influence of Diet, Sex, and Viral Infections on the Gut Microbiota Composition of Spodoptera exigua Caterpillars

Author(s): Martínez Solís, María; Collado, María Carmen; Herrero, Salvador
Published in: Frontiers in Microbiology, Vol 11 (2020), 12, 2020, ISSN 1664-302X
Publisher: Frontiers Media
DOI: 10.3389/fmicb.2020.00753

Viral diversity in Phytophthora cactorum population infecting strawberry

Author(s): Anna Poimala; Päivi Parikka; Jarkko Hantula; Eeva J. Vainio
Published in: Environmental Microbiology, 5, 2021, ISSN 1462-2920
Publisher: Society for Applied Microbiology and John Wiley & Sons Ltd
DOI: 10.1111/1462-2920.15519

Analysis of the virome associated to grapevine downy mildew lesions reveals new mycovirus lineages

Author(s): M Chiapello, J Rodríguez-Romero, M A Ayllón, M Turina
Published in: Virus Evolution, 2020, ISSN 2057-1577
Publisher: Oxford Academic
DOI: 10.1093/ve/veaa058

Molecular Characterization and Taxonomic Assignment of Three Phage Isolates from a Collection Infecting Pseudomonas syringae pv. actinidiae and P. syringae pv. phaseolicola from Northern Italy

Author(s): Martino, Gabriele; Holtappels, Dominique; Vallino, Marta; Chiapello, Marco; Turina Massimo; Lavigne, Rob; Wagemans, Jeroen; Ciuffo, Marina
Published in: Viruses, 1, 2021, ISSN 1999-4915
Publisher: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/v13102083

Presence of a Mitovirus Is Associated with Alteration of theMitochondrial Proteome, as Revealed by Protein-ProteinInteraction (PPI) and Co-Expression Network Models inChenopodium quinoa Plants

Author(s): Di Silvestre, D.; Passignani, G.; Rossi, R.; Ciuffo, M.; Turina, M.; Vigani, G.; Mauri, P.
Published in: Biology, 2022, ISSN 2079-7737
Publisher: MDPI
DOI: 10.3390/biology11010095

Genomic Characterisation of Mushroom Pathogenic Pseudomonads and Their Interaction with Bacteriophages

Author(s): Nathaniel Storey, Mojgan Rabiey, Benjamin W. Neuman, Robert W. Jackson and Geraldine Mulley
Published in: Viruses, 2020, ISSN 1999-4915
Publisher: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/v12111286

Biological characterization of Euscelidius variegatus iflavirus 1

Author(s): Sara Ottati; Alberto Persico; Marika Rossi; Domenico Bosco; Marta Vallino; Simona Abbà; Giulia Molinatto; Sabrina Palmano; Raffaella Balestrini; Luciana Galetto; Cristina Marzachì
Published in: Journal of Invertebrate Pathology, 5, 2020, ISSN 0022-2011
Publisher: Academic Press
DOI: 10.1101/2020.03.31.018010

A New Prevalent Densovirus Discovered in Acari. Insight from Metagenomics in Viral Communities Associated with Two-Spotted Mite (Tetranychus urticae) Populations

Author(s): Sarah François, Doriane Mutuel, Alison Duncan, Leonor Rodrigues, Celya Danzelle, Sophie Lefevre, Inês Santos, Marie Frayssinet, Emmanuel Fernandez, Denis Filloux, Philippe Roumagnac, Rémy Froissart, Mylène Ogliastro
Published in: Viruses, 11/3, 2019, Page(s) 233, ISSN 1999-4915
Publisher: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/v11030233

Protection of Phage Applications in Crop Production: A Patent Landscape

Author(s): Dominique Holtappels, Rob Lavigne, Isabelle Huys, Jeroen Wagemans
Published in: Viruses, 11/3, 2019, Page(s) 277, ISSN 1999-4915
Publisher: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/v11030277

Biological and Molecular Characterization of Chenopodium quinoa Mitovirus 1 Reveals a Distinct Small RNA Response Compared to Those of Cytoplasmic RNA Viruses

Author(s): L. Nerva, G. Vigani, D. Di Silvestre, M. Ciuffo, M. Forgia, W. Chitarra, M. Turina
Published in: Journal of Virology, 93/7, 2019, ISSN 0022-538X
Publisher: American Society for Microbiology
DOI: 10.1128/jvi.01998-18

Interaction of a Densovirus with Glycans of the Peritrophic Matrix Mediates Oral Infection of the Lepidopteran Pest Spodoptera frugiperda

Author(s): Laetitia Pigeyre, Malvina Schatz, Marc Ravallec, Leila Gasmi, Nicolas Nègre, Cécile Clouet, Martial Seveno, Khadija El Koulali, Mathilde Decourcelle, Yann Guerardel, Didier Cot, Thierry Dupressoir, Anne-Sophie Gosselin-Grenet, Mylène Ogliastro
Published in: Viruses, 11/9, 2019, Page(s) 870, ISSN 1999-4915
Publisher: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/v11090870

Making Viruses More Socially Acceptable: A Sociological Framework For Virus-based Plant Protection Products

Author(s): Carradore, R
Published in: TEORIJA IN PRAKSA, 1, 2019, ISSN 0040-3598
Publisher: Univerza Edvarda Kardelja v Ljubljani, Fakulteta za Sociologija Politicne Vede in Novinarstvo

"New viral sequences identified in the flavescence dorée phytoplasma vector scaphoideus titanus"

Author(s): Ottati, S.; Chiapello, M.; Galetto, L.; Bosco, D.; Marzachi, C.; Abba, S.
Published in: Viruses, 2, 2020, ISSN 1999-4915
Publisher: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/v12030287

Viral diversity in Phytophthora cactorum population infecting strawberry

Author(s): Anna Poimala, Päivi Parikka, Jarkko Hantula, Eeva J. Vainio
Published in: Environmental Microbiology, 23, 2021, ISSN 1462-2920
Publisher: Wiley
DOI: 10.1111/1462-2920.15519

Viroplant in a Nutshell

Author(s): Rob Lavigne, Massimo Turina, Jeroen Wagemans
Published in: Phage, 2020, ISSN 2641-6530
Publisher: Mary Ann Liebert, Inc
DOI: 10.1089/phage.2020.0045

Characterisation of the Viral Community Associated with the Alfalfa Weevil (Hypera postica) and Its Host Plant, Alfalfa (Medicago sativa)

Author(s): Sarah François; Aymeric Antoine-Lorquin; Maximilien Kulikowski; Marie Frayssinet; Denis Filloux; Emmanuel Fernandez; Philippe Roumagnac; Rémy Froissart; Mylène Ogliastro
Published in: Viruses, 7, 2021, ISSN 1999-4915
Publisher: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/v13050791

Silencing of ATP Synthase β Impairs Egg Development in the Leafhopper Scaphoideus titanus, Vector of the Phytoplasma Associated with Grapevine Flavescence Dorée

Author(s): Matteo Ripamonti, Luca Cerone, Simona Abbà, Marika Rossi, Sara Ottati, Sabrina Palmano, Cristina Marzachì and Luciana Galetto
Published in: International Journal of Molecular Sciences, 2022, ISSN 1422-0067
Publisher: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/ijms23020765

Complete genome sequence of a novel toti-like virus from the plant-pathogenic oomycete Phytophthora cactorum.

Author(s): Anna Poimala; Eeva J. Vainio
Published in: Archives of Virology, 7, 2020, ISSN 0304-8608
Publisher: Springer Verlag
DOI: 10.1007/s00705-020-04642-2