Next generation variety testing for improved cropping on European farmland

Informazioni relative al progetto

InnoVar

ID dell’accordo di sovvenzione: 818144

DOI

10.3030/818144

Progetto chiuso

Data della firma CE 7 Maggio 2019

Data di avvio 1 Ottobre 2019

Data di completamento 31 Dicembre 2024

Finanziato da

• SOCIETAL CHALLENGES - Food security, sustainable agriculture and forestry, marine, maritime and inland water research, and the bioeconomy

Costo totale

€ 8 044 690,00

Contributo UE

€ 7 999 540,00

Coordinato da

AGRIFOOD AND BIOSCIENCES INSTITUTE
United Kingdom

CORDIS fornisce collegamenti ai risultati finali pubblici e alle pubblicazioni dei progetti ORIZZONTE.

I link ai risultati e alle pubblicazioni dei progetti del 7° PQ, così come i link ad alcuni tipi di risultati specifici come dataset e software, sono recuperati dinamicamente da .OpenAIRE .

Risultati finali

Documents, reports (7)

Revised VCU protocols to include new methods (genomics, phenomics) and characters

Revised wheat VCU protocols will be summarised in a report. Included will be genomic markers and thresholds, phenomic markers, and enviro-genomic models, as appropriate, for the assessment of variety performance.

Emerging technologies review and roadmap [M51]

A high level review and roadmap will be developed for policy level use.

Classification of trial sites in years 1-3 - Final summary

Historic weather, soil and variety data in the InnoVar database will be used to describe types and degree of stresses across EU including Innovar trial sites - Update M50 - Final summary

A variety x HPLR category (growing scenario) matirx with values on the HPLR scale assigned to each variety for each category at the end of each trial year - M48

Update of 4.6

Emerging ‘omics' technology review and roadmap

High level review of areas of emerging 'omics' and breakthroughs can be incorporated in DUS and VCU testing for policy development and road maps.

Road map reports detailing how new methods could be applied to each selected crop type

This report will provide a road map on how new methods could be applied to the crop sub-set. Collaboration with INVITE is anticipated in the task relating to this report.

Assessment of the value of genetic profiles and GSVs for selection of reference varieties for DUS

This relates to task 3.3 and a protocol will be produced for the use of genetic profiles and GSV threshold values for augmenting DUS protocols (reference variety selection).

Other (4)

Final workshop/conference

Final project workshop/conference.

Final dissemination materials for end-users made available

Final dissemination materials will be made available to end-users.

InnoVar App and supporting interfaces

Developed App for growers to select varieties based on HPLR categories.

Farmer feedback on InnoVar recommendation system and App

This will be a summary of the feedback from grower groups on the InnoVar HPLR App.

Websites, patent fillings, videos etc. (2)

Researcher focussed website established - M30

LESP will develop a researcher-focused website that will allow researchers to query, modify and update variety data and information - Month 30.

Researcher focussed website update - M54

LESP will develop a researcher-focused website that will allow researchers to query, modify and update variety data and information - Month 54.

Pubblicazioni

Peer reviewed articles (28)

Analysis of the chromosomal clustering of Fusarium-responsive wheat genes uncovers new players in the defence against head blight disease

Autori: Alexandre Perochon, Harriet R. Benbow, Katarzyna Ślęczka-Brady, Keshav B. Malla, Fiona M. Doohan
Pubblicato in: Scientific Reports, Numero 11/1, 2021, ISSN 2045-2322
Editore: Nature Publishing Group
DOI: 10.1038/s41598-021-86362-4

TrainSel: An R Package for Selection of Training Populations

Autori: Deniz Akdemir, Simon Rio, Julio Isidro y Sánchez
Pubblicato in: Frontiers in Genetics, Numero 12, 2021, ISSN 1664-8021
Editore: Frontiers Media
DOI: 10.3389/fgene.2021.655287

Genotype by Environment Interaction Analysis of Agronomic Spring Barley Traits in Iceland Using AMMI, Factorial Regression Model and Linear Mixed Model

Autori: Hrannar Smári Hilmarsson, Simon Rio, Julio Isidro y Sánchez
Pubblicato in: Agronomy, Numero 11/3, 2021, Pagina/e 499, ISSN 2073-4395
Editore: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/agronomy11030499

Optimal age-specific vaccination control for COVID-19: An Irish case study

Autori: Eleni Zavrakli, Andrew Parnell, David Malone, Ken Duffy, Subhrakanti Dey
Pubblicato in: PLOS ONE, Numero 18, 2023, Pagina/e e0290974, ISSN 1932-6203
Editore: Public Library of Science
DOI: 10.1371/journal.pone.0290974

Dissecting the genetic basis of resistance to Soil-borne cereal mosaic virus (SBCMV) in durum wheat by bi-parental mapping and GWAS

Autori: Martina Bruschi, Matteo Bozzoli, Claudio Ratti, Giuseppe Sciara, Ellen Goudemand, Pierre Devaux, Danara Ormanbekova, Cristian Forestan, Simona Corneti, Sandra Stefanelli, Sara Castelletti, Elena Fusari, Jad B Novi, Elisabetta Frascaroli, Silvio Salvi, Dragan Perovic, Agata Gadaleta, Concepcion Rubies-Autonell, Maria Corinna Sanguineti, Roberto Tuberosa, Marco Maccaferri
Pubblicato in: Theoretical and Applied Genetics, Numero 137, 2024, ISSN 0040-5752
Editore: Springer Verlag
DOI: 10.1007/s00122-024-04709-7

Genome‐wide analysis of salicylic acid and jasmonic acid signalling marker gene families in wheat

Autori: A. Heckmann, A. Perochon, F. M. Doohan
Pubblicato in: Plant Biology, Numero 26, 2024, Pagina/e 691-704, ISSN 1435-8603
Editore: Georg Thieme Verlag
DOI: 10.1111/plb.13659

Modelling Excess Zeros in Count Data: A New Perspective on Modelling Approaches

Autori: John Haslett; Andrew C. Parnell; John Hinde; Rafael de Andrade Moral
Pubblicato in: International Statistical Review, Numero 2, 2021, ISSN 0306-7734
Editore: International Statistical Institute
DOI: 10.1111/insr.12479

Evaluation of the susceptibility of modern, wild, ancestral, and mutational wheat lines to Septoria tritici blotch disease

Autori: Sobia Ajaz, Harriet R. Benbow, Thalia Christodoulou, Cristobal Uauy, Fiona M. Doohan
Pubblicato in: Plant Pathology, Numero 70/5, 2021, Pagina/e 1123-1137, ISSN 0032-0862
Editore: Blackwell Publishing Inc.
DOI: 10.1111/ppa.13369

Assessing the Opportunities and Risks of DUS and VCU Variety Testing for Sustainable Production through SWOT Analysis Results

Autori: Nóra Mendler-Drienyovszki, Katalin Magyar-Tábori, Roberto Mancinelli, Lisa Black, Hazel Brown, Mohamed Allam, Sripada M. Udupa, Mariam Atait, Elena Novarina, Tommaso Bardelli, Preben Klarskov Hansen, Paul Cottney, Anna Giulini
Pubblicato in: Agriculture, Numero 14, 2024, Pagina/e 1817, ISSN 2077-0472
Editore: MDPI
DOI: 10.3390/agriculture14101817

Comprehensive analysis of pathogen-responsive wheat NAC transcription factors: new candidates for crop improvement

Autori: Monika Vranic, Alexandre Perochon, Harriet Benbow, Fiona M Doohan
Pubblicato in: G3 Genes|Genomes|Genetics, 2022, ISSN 2160-1836
Editore: Genetics Society of America
DOI: 10.1093/g3journal/jkac247

Vector time series modelling of turbidity in Dublin Bay

Autori: Amin Shoari Nejad, Gerard D. McCarthy, Brian Kelleher, Anthony Grey, Andrew Parnell
Pubblicato in: Journal of Applied Statistics, 2024, Pagina/e 1-16, ISSN 0266-4763
Editore: Routledge
DOI: 10.1080/02664763.2024.2315470

Bayesian multi-species N-mixture models for unmarked animal communities

Autori: Niamh Mimnagh, Andrew Parnell, Estevão Prado, Rafael de Andrade Moral
Pubblicato in: Environmental and Ecological Statistics, Numero 29, 2022, Pagina/e 755-778, ISSN 1352-8505
Editore: Kluwer Academic Publishers
DOI: 10.1007/s10651-022-00542-7

Genomic prediction and training set optimization in a structured Mediterranean oat population.

Autori: Simon Rio; Luis M. Gallego-Sánchez; Gracia Montilla-Bascón; Francisco José Canales; Julio Isidro y Sánchez; Elena Prats
Pubblicato in: Theoretical and Applied Genetics volume, Numero 134, 2021, ISSN 0040-5752
Editore: Springer Verlag
DOI: 10.1007/s00122-021-03916-w

Transcriptional Profiling Reveals the Wheat Defences against Fusarium Head Blight Disease Regulated by a NAC Transcription Factor

Autori: Monika Vranić; Alexandre Perochon; Fiona M. Doohan
Pubblicato in: Plants, Numero 12, 2023, ISSN 2223-7747
Editore: MDPI
DOI: 10.3390/plants12142708

Training Set Optimization for Sparse Phenotyping in Genomic Selection: A Conceptual Overview

Autori: Julio Isidro y Sánchez, Deniz Akdemir
Pubblicato in: Frontiers in Plant Science, Numero 12, 2021, ISSN 1664-462X
Editore: Frontiers Media S. A.
DOI: 10.3389/fpls.2021.715910

GP-BART: A novel Bayesian additive regression trees approach using Gaussian processes

Autori: Mateus Maia, Keefe Murphy, Andrew C. Parnell
Pubblicato in: Computational Statistics & Data Analysis, Numero 190, 2024, Pagina/e 107858, ISSN 0167-9473
Editore: Elsevier BV
DOI: 10.1016/j.csda.2023.107858

Accounting for shared covariates in semi-parametric Bayesian additive regression trees

Autori: Batista Do Prado, Estevao; Parnell, Andrew; de Andrade Moral, Rafael; McJames, Nathan; O'Shea, Ann; Murphy, Keefe
Pubblicato in: Annals of Applied Statistics, Numero 1, 2024, ISSN 1932-6157
Editore: Institute of Mathematical Statistics
DOI: 10.48550/arxiv.2108.07636

Assessment of genomic prediction reliability and optimization of experimental designs in multi-environment trials

Autori: Simon Rio; Deniz Akdemir; Tiago Carvalho; Julio Isidro y Sánchez
Pubblicato in: Theoretical and Applied Genetics, Numero 2, 2022, ISSN 0040-5752
Editore: Springer Verlag
DOI: 10.1007/s00122-021-03972-2

Revisiting superiority and stability metrics of cultivar performances using genomic data: derivations of new estimators

Autori: Humberto Fanelli Carvalho, Simon Rio, Julian García-Abadillo, Julio Isidro y Sánchez
Pubblicato in: Plant Methods, Numero 20, 2024, ISSN 1746-4811
Editore: BioMed Central
DOI: 10.1186/s13007-024-01207-1

Visualizing Variable Importance and Variable Interaction Effects in Machine Learning Models

Autori: Alan Inglis; Andrew C. Parnell; Catherine B. Hurley
Pubblicato in: Journal of Computational and Graphical Statistics, Numero 2, 2021, ISSN 1061-8600
Editore: American Statistical Association
DOI: 10.48550/arxiv.2108.04310

Bayesian additive regression trees for genotype by environment interaction models

Autori: Danilo A. Sarti, Estevão B. Prado, Alan N. Inglis, Antônia A. L. dos Santos, Catherine B. Hurley, Rafael A. Moral, Andrew C. Parnell
Pubblicato in: The Annals of Applied Statistics, Numero 17, 2023, ISSN 1932-6157
Editore: Institute of Mathematical Statistics
DOI: 10.1214/22-aoas1698

Changes in the Rhizosphere Biome Depending on the Variety of Wheat, Timing of Its Growing Season, and Agrochemical Components in the Soils of Italy

Autori: Tommaso Bardelli, Flavio Fornasier, Elena Novarina, Antonella Donniacuo, Elio Romano, Pier Giacomo Bianchi, Anna Pia Maria Giulini
Pubblicato in: Agronomy, Numero 14, 2024, Pagina/e 832, ISSN 2073-4395
Editore: MDPI
DOI: 10.3390/agronomy14040832

Pollen Geochronology from the Atlantic Coast of the United States during the Last 500 Years

Autori: Margaret Christie, Christopher Bernhardt, Andrew Parnell, Timothy Shaw, Nicole Khan, D. Corbett, Ane García-Artola, Jennifer Clear, Jennifer Walker, Jeffrey Donnelly, Tobias Hasse, Benjamin Horton
Pubblicato in: Water, Numero 13/3, 2021, Pagina/e 362, ISSN 2073-4441
Editore: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/w13030362

A Bayesian time series model for reconstructing hydroclimate from multiple proxies

Autori: Niamh Cahill, Jacky Croke, Micheline Campbell, Kate Hughes, John Vitkovsky, Jack Eaton Kilgallen, Andrew Parnell
Pubblicato in: Environmetrics, Numero 34, 2023, ISSN 1180-4009
Editore: John Wiley & Sons Inc.
DOI: 10.1002/env.2786

Dissecting the complex genetic basis of pre- and post-harvest traits in <i>Vitis vinifera L</i>. using genome-wide association studies

Autori: Julian García-Abadillo, Paola Barba, Tiago Carvalho, Viviana Sosa-Zuñiga, Roberto Lozano, Humberto Fanelli Carvalho, Miguel Garcia-Rojas, Erika Salazar, Julio Isidro y Sánchez
Pubblicato in: Horticulture Research, Numero 11, 2024, ISSN 2052-7276
Editore: Oxford University Press
DOI: 10.1093/hr/uhad283

Bayesian additive regression trees with model trees

Autori: Estevão B. Prado, Rafael A. Moral, Andrew C. Parnell
Pubblicato in: Statistics and Computing, Numero 31, 2024, ISSN 0960-3174
Editore: Kluwer Academic Publishers
DOI: 10.1007/s11222-021-09997-3

Towards a Digital Twin of the Earth System: Geo-Soft-CoRe, a Geoscientific Software & Code Repository

Autori: Irene DeFelipe; Juan Alcalde; Eldar Baykiev; Isabel Bernal; Kittiphon Boonma; Ramon Carbonell; Stephanie Flude; Arnau Folch; Javier Fullea; Daniel García-Castellanos; Adelina Geyer; Santiago Giralt; Armand Hernández; Ivone Jiménez-Munt; Ajay Kumar; Maria-Gema Llorens; Joan Martí; Cecilia Molina; Andrés Olivar-Castaño; Andrew Parnell; Martin Schimmel; Montserrat Torné; Sergi Ventosa
Pubblicato in: Frontiers in Earth Science, Numero 10, 2022, ISSN 2296-6463
Editore: Frontiers Media S.A.
DOI: 10.3389/feart.2022.828005

Visualisations for Bayesian Additive Regression Trees

Autori: Alan Inglis, Andrew Parnell, Catherine Hurley
Pubblicato in: Journal of Data Science, Statistics, and Visualisation, Numero 4, 2024, ISSN 2773-0689
Editore: IASC
DOI: 10.52933/jdssv.v4i1.79

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