Tools and methods for extended plant PHENotyping and EnviroTyping services of European Research Infrastructures

CORDIS provides links to public deliverables and publications of HORIZON projects.

Links to deliverables and publications from FP7 projects, as well as links to some specific result types such as dataset and software, are dynamically retrieved from OpenAIRE .

Deliverables

Modelling use case design and data

Modelling UC design and data: Direct result of both tasks reports the design of services to be deployed for digital twins & hybrid learning. For each UC it details the experimentation framework and (historical) data.

Beta version of code that automatically provides the distribution of EO variables in a geographical perimeter arount a field of interest, implemented on a PHENET site where SIGEC information is readily available

Work plan for the UCs
Communication, Dissemination and Exploitation Plan

Communication, Dissemination and Exploitation Plan.

Policy Brief

Policy brief

Draft of specification for phenotyping devices
Update on the progress of the UCs

Update on the progress of the Use Cases

Publications

Hybrid Phenology Modeling for Predicting Temperature Effects on Tree Dormancy

Author(s): Ron Van Bree, Diego Marcos, Ioannis N. Athanasiadis
Published in: Proceedings of the AAAI Conference on Artificial Intelligence, Issue 39, 2025, ISSN 2374-3468
Publisher: Association for the Advancement of Artificial Intelligence (AAAI)
DOI: 10.1609/AAAI.V39I27.35068

Soil-Gradient-Derived Bacterial Synthetic Communities Enhance Drought Tolerance in Quercus pubescens and Sorbus domestica Seedlings

Author(s): Ivan Aleksieienko, Mariana Fernandes Hertel, Jérôme Reilhan, Marie de Castro, Bertrand Légeret, Halley Caixeta Oliveira, Ilja M. Reiter, Catherine Santaella
Published in: Plants, Issue 14, 2025, ISSN 2223-7747
Publisher: MDPI AG
DOI: 10.3390/PLANTS14111659

The future role of regional research infrastructures and networks toward the global plant phenotyping community

Author(s): Stijn Dhondt, Richard Dickmann, Sven Fahrner, Roland Pieruschka, Valerio Hoyos‐Villegas, Susie Robinson, Philipp von Gillhaussen
Published in: The Plant Phenome Journal, Issue 8, 2025, ISSN 2578-2703
Publisher: Wiley
DOI: 10.1002/PPJ2.70048

Structured multimodal deep learning improves genomic prediction in future environments

Author(s): Aike Potze, Fred van Eeuwijk, Ioannis N Athanasiadis
Published in: GENETICS, Issue 234, 2026, ISSN 1943-2631
Publisher: Oxford University Press (OUP)
DOI: 10.1093/GENETICS/IYAG204

A review of the journey of field crop phenotyping: From trait stamp collections and fancy robots to phenomics-informed crop performance predictions

Author(s): Lukas Roth, Afef Marzougui, Achim Walter
Published in: Journal of Plant Physiology, Issue 311, 2025, ISSN 0176-1617
Publisher: Elsevier BV
DOI: 10.1016/J.JPLPH.2025.154542

The benefits and struggles of FAIR data: the case of reusing plant phenotyping data

Author(s): Papoutsoglou, E.A., Athanasiadis, I.N., Visser, R.G.F., Finkers, R.
Published in: Scientific Data, Issue 10, 2023, ISSN 2052-4463
Publisher: Nature
DOI: 10.1038/s41597-023-02364-z

The benefits and struggles of FAIR data: the case of reusing plant phenotyping data

Author(s): Evangelia A. Papoutsoglou, Ioannis N. Athanasiadis, Richard G. F. Visser, Richard Finkers
Published in: Scientific Data, Issue 10, 2023, ISSN 2052-4463
Publisher: Springer Science and Business Media LLC
DOI: 10.1038/S41597-023-02364-Z

Intercropping in Europe: a meta-analysis

Author(s): Madhuri Paul
Published in: ARPHA Conference Abstracts, Issue 8, 2025, ISSN 2603-3925
Publisher: Pensoft Publishers
DOI: 10.3897/ACA.8.E152342

Computers and Electronics in Agriculture

Author(s): Jingye Han, Liangsheng Shi, Qi Yang, Jin Yu, Ioannis N. Athanasiadis
Published in: Computers and Electronics in Agriculture, 2026, ISSN 0168-1699
Publisher: Elsevier BV
DOI: 10.1016/J.FCR.2025.109912

Soil-Gradient-Derived Bacterial Synthetic Communities Enhance Drought Tolerance in Quercus pubescens and Sorbus domestica Seedlings

Assessment of Fusarium Head Blight on wheat using near infrared hyperspectral imaging under field conditions

Author(s): Damien Vincke, Damien Eylenbosch, Anne Chandelier, Vincent Baeten, Benoît Mercatoris, Philippe Vermeulen
Published in: Smart Agricultural Technology, Issue 12, 2026, ISSN 2772-3755
Publisher: Elsevier BV
DOI: 10.1016/J.ATECH.2025.101426

Individual Segmentation of Intertwined Apple Trees in a Row via Prompt Engineering

Author(s): Herearii Metuarea, François Laurens, Walter Guerra, Lidia Lozano, Andrea Patocchi, Shauny Van Hoye, Helin Dutagaci, Jeremy Labrosse, Pejman Rasti, David Rousseau
Published in: Sensors, Issue 25, 2025, ISSN 1424-8220
Publisher: MDPI AG
DOI: 10.3390/S25154721

Implementing AI in Meta-analysis: Can domain-specific paper selection and data extraction be done effectively?

Author(s): Madhuri Paul, Wopke van der Werf, Thomas Döring
Published in: 4th BioHackathon, de.NBI, 2026
Publisher: 4th BioHackathon, de.NBI

Low-cost multispectral IoT sensors for in situ canopy reflectance measurements

Author(s): Thomas, M., Mullens, V., Maes, A., Kenda, T., Defourny, P., Draye, X.
Published in: Phenet Annual Meeting, 2026
Publisher: UCLouvain

Developing machine learning based models for soil parameters prediction and mapping using Vis-NIR spectroscopic data

Author(s): Akos-Etele Csibi, Hans Sanden, Pavel Baykalov, Ruth Pereira, Anabel Cachada, Boris Rewald, David Perry
Published in: 2025
Publisher: Copernicus GmbH
DOI: 10.5194/EGUSPHERE-EGU25-12259

Smart data for smart crops: Predicting performance with high-throughput phenotyping and modeling.

Author(s): Martre, P
Published in: European Plant Phenotyping Symposium 2025, Bonn, Germany, July 13-14, 2025
Publisher: EPPN

Leveraging on foundation deep neural models for individual apple tree segmentation in dense orchards via prompt engineering in RGB images

Author(s): Herearii Metuarea, Julien Garnier, Kévin Guerif, Frédérique Didelot, François Laurens, Ludovic Bervas, Pejman Rasti, Helin Dutagaci, David Rousseau
Published in: 9th Workshop on Computer Vision in Plant Phenotyping and Agriculture (CVPPA), ECCV 2024 — Extended Abstracts, 2024
Publisher: Springer Nature

Within-field Spatial Heterogeneity of Crop Growth from Multi-year Green Area Index Time Series Analysis

Author(s): Kenda, T., Champagne, C., Draye, X., Defourny, P.
Published in: EO FOR AGRICULTURE UNDER PRESSURE, 2024
Publisher: UCLouvain

Multi-frequency SAR time series for the detection of sowing events and early-season crop classification

Author(s): Boland, B., Kenda, T., Bouchat, J., Defourny, P.
Published in: Living Planet Symposium 2025, 2025
Publisher: Living Planet Symposium 2025

Phenotyping From Space: Evaluating Very High-Resolution Satellite-Based Trait Estimation in Winter Wheat Microplot Trials

Author(s): Kenda, T., McAneny, R., Lopez-Lozano, R., Quesney, A., Weiss, M., Draye, X., Defourny, P.
Published in: European Plant Phenotyping Symposium, 2025
Publisher: UCLouvain

Foreground-Aware Zero-Shot Plant Trait Segmentation in Trellised Crops Using Side View Monocular RGB Images

Author(s): Abdoul Djalil Ousseini Hamza, Herearii Metuarea, Corentin Lothodé, Morgane Roth, Eric Duchêne, Lionel Ley, David Allétru, David Marc Rousseau
Published in: 11th Workshop on Computer Vision in Plant Phenotyping and Agriculture (CVPPA), ECCV 2026 — Extended Abstract, 2026
Publisher: Open Review

A Layer-wise Analysis of Plant-Specialized Vision Transformers

Author(s): Simon Ravé, Jean-Christophe Lombardo, Pejman Rasti, Alexis Joly, David Rousseau
Published in: RFIAP 2026 – Reconnaissance des Formes, Image, Apprentissage et Perception, 2026
Publisher: University of Angers

OpenAlea 3.0: from ecophysiological models to community-driven use cases

Author(s): Arsouze, Bauget, Besnier, Acker, Barillot, Bozonnet, Boudon, Boursiac, Bertheloot, Braud, Chelle, Delivoras, Durand, Fernandez, Gawinowski, Gérault, Godin, Maurel, Jullien, Louarn, Muller, Pallas, Pacitti, Perthame, Rees, Richard-Molard, Robert, Saudreau,
Published in: 11th International Conference on Functional-Structural Plant Models (FSPM), Issue 116-117
Publisher: Christian Fournier, Christophe Pradal & Jean-Baptiste Durand.

Can plant traits explain the performance of an intercropping system? A wheat-pea field experiment

Author(s): Timaeus Johannes, Weedon Odette, Finckh Maria
Published in: Mitteilungen der Gesellschaft für Pflanzenbauwissenschaften, 2023
Publisher: Gesellschaft für Pflanzenbauwissenschaften (German Society for Crop Science).

Can wheat architectural organ traits be estimated from field data with a Plant Model approach ?

Author(s): Besnier, Lopez Lozano, Fournier, Pradal
Published in: 11th International Conference on Functional-Structural Plant Models (FSPM), Issue 112-113, 2026
Publisher: Christian Fournier, Christophe Pradal & Jean-Baptiste Durand.

Intercropping in Europe: a systematic mapping study of arable grain crops

Author(s): Johannes Timaeus, Wopke van der Werf, Thomas Döring
Published in: "18th Congress of the European Society for Agronomy: ""Synergies for a resilient future: from knowledge to action"", Book of Abstracts (pp. 196–197). Rennes, France: The Couvent des Jacobins. Presenter: Madhuri Paul (mpaul1@uni-bonn.de).", 2024
Publisher: 18th Congress of the European Society for Agronomy

Modeling Branching Processes Along Axes in Fruit Tree FSPMs: From Markov Chains to Transformers

Author(s): Leclerc, Davenne, Costes, Durand, Beurier, Pradal, Boudon
Published in: 11th International Conference on Functional-Structural Plant Models (FSPM), Issue 71-72, 2026
Publisher: Christian Fournier, Christophe Pradal & Jean-Baptiste Durand.

MPM: Mutual Pair Merging for Efficient Vision Transformers

Author(s): Simon Ravé, Pejman Rasti, David Rousseau
Published in: Proceedings of the IEEE/CVF Conference on Computer Vision and Pattern Recognition (CVPR) Findings, Issue 2998–3008, 2026
Publisher: IEEE / Computer Vision Foundation

How Merge-Tolerant Are Vision Transformers for Wheat Phenotyping?

Author(s): Simon Ravé, Pejman Rasti, David Rousseau
Published in: 11th Workshop on Computer Vision in Plant Phenotyping and Agriculture (CVPPA), ECCV 2026, 2026
Publisher: Springer

Multispectral Imagery for Forest Conditions Monitoring of a Pilot Watershed in the Vosges, France

Author(s): Wijesingha, J. – Supervisors: P. Defourny, M. Thomas, T. Kenda
Published in: UCLouvain – Master's thesis
Publisher: UCLouvain

Quelle plus-value agronomique pour la pratique culturale de l'intercropping en Wallonie ? Analyse statistique pluriannuelle fondée sur les données de télédétection et du SIGeC

Author(s): Loriau, M.-H. – Supervisors: X. Draye, P. Defourny
Published in: UCLouvain – Master's thesis, 2025
Publisher: UCLouvain

Are differences between intercropping and monoculture practices reflected in satellite imagery data ? The Wallonia case

Author(s): Blondel, A. – Supervisors: X. Draye, P. Defourny
Published in: UCLouvain – Master's thesis, 2025
Publisher: UCLouvain

Soil tillage detection performances using Sentinel time series and Copernicus product in Wallonia

Author(s): Baladi, M. – Supervisors: P. Defourny, T. Kenda
Published in: UCLouvain – Master's thesis, 2025
Publisher: UCLouvain

Premiers tests d'un système IoT autonome et low-cost pour le phénotypage en parcelle d'agriculteur

Author(s): Evrard, C. – Supervisors: P. Defourny, X. Draye
Published in: UCLouvain – Master's thesis, 2025
Publisher: UCLouvain

Calibration procedure and metrological evaluation of a low-cost, multispectral IoT sensor for canopy reflectance measurements

Author(s): Mullens, V. – Supervisors: P. Defourny, X. Draye
Published in: UCLouvain – Master's thesis, 2026
Publisher: UCLouvain

Near-real time GAI retrieval for yield-predictive stages in winter wheat in Wallonia using optical and radar Sentinel products

Author(s): Guamán Viveros, A. – Supervisors: P. Defourny, T. Kenda, Q. Deffense
Published in: UCLouvain – Master's thesis, 2025
Publisher: UCLouvain

MixINN: Accelerating plant breeding by combining mixed models and deep learning for interaction prediction

Author(s): Aike Potze, Fred van Eeuwijk, Ioannis N. Athanasiadis
Published in: arXiv, 2026
Publisher: arXiv
DOI: 10.48550/ARXIV.2605.04744

Soil in ecological & agroecological settings

Author(s): Ilja M. Reiter
Published in: PHENET webinar 4 : Digging into the complexity of soil components, Issue 13.12.2024, 2024
Publisher: Zenodo
DOI: 10.5281/ZENODO.15194201

Sustainable Funding in EMPHASIS as a Distributed Research Infrastructure

Author(s): Sven Fahrner, Roland Pieruschka
Published in: Management for Professionals, Research Infrastructure Management, 2026
Publisher: Springer Nature Switzerland
DOI: 10.1007/978-3-032-20373-1_9

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