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European Plant Phenotyping Network 2020

Deliverables

Two Training schools linked to workshop with technology developers

linked to workshop with technology developers held at M18 and M33

Setting up the virtual networking tools for operators, users and developers

(update on databases or repositories to share phenotyping protocols, guidelines, literature, and results; M12)

Searching for OpenAIRE data...

Publications

Dealing with multi-source and multi-scale information in plant phenomics: the ontology-driven Phenotyping Hybrid Information System

Author(s): Pascal Neveu, Anne Tireau, Nadine Hilgert, Vincent Nègre, Jonathan Mineau-Cesari, Nicolas Brichet, Romain Chapuis, Isabelle Sanchez, Cyril Pommier, Brigitte Charnomordic, François Tardieu, Llorenç Cabrera-Bosquet
Published in: New Phytologist, 2018, ISSN 0028-646X
DOI: 10.1111/nph.15385

High-throughput estimation of incident light, light interception and radiation-use efficiency of thousands of plants in a phenotyping platform

Author(s): Llorenç Cabrera-Bosquet, Christian Fournier, Nicolas Brichet, Claude Welcker, Benoît Suard, François Tardieu
Published in: New Phytologist, Issue 212/1, 2016, Page(s) 269-281, ISSN 0028-646X
DOI: 10.1111/nph.14027

Genetic and environmental dissection of biomass accumulation in multi-genotype maize canopies

Author(s): Tsu-Wei Chen, Llorenç Cabrera-Bosquet, Santiago Alvarez Prado, Raphaël Perez, Simon Artzet, Christophe Pradal, Aude Coupel-Ledru, Christian Fournier, François Tardieu
Published in: Journal of Experimental Botany, 2018, ISSN 0022-0957
DOI: 10.1093/jxb/ery309

Modelling strategies for assessing and increasing the effectiveness of new phenotyping techniques in plant breeding

Author(s): Fred A. van Eeuwijk, Daniela Bustos-Korts, Emilie J. Millet, Martin P. Boer, Willem Kruijer, Addie Thompson, Marcos Malosetti, Hiroyoshi Iwata, Roberto Quiroz, Christian Kuppe, Onno Muller, Konstantinos N. Blazakis, Kang Yu, Francois Tardieu, Scott C. Chapman
Published in: Plant Science, 2018, ISSN 0168-9452
DOI: 10.1016/j.plantsci.2018.06.018

A robot-assisted imaging pipeline for tracking the growths of maize ear and silks in a high-throughput phenotyping platform

Author(s): Nicolas Brichet, Christian Fournier, Olivier Turc, Olivier Strauss, Simon Artzet, Christophe Pradal, Claude Welcker, François Tardieu, Llorenç Cabrera-Bosquet
Published in: Plant Methods, Issue 13/1, 2017, ISSN 1746-4811
DOI: 10.1186/s13007-017-0246-7

Nordic research infrastructures for plant phenotyping

Author(s): Erik Alexandersson, Markku Keinänen, Aakash Chawade, Kristiina Himanen
Published in: Agricultural and Food Science, Issue 27/1, 2018, ISSN 1459-6067
DOI: 10.23986/afsci.68870

A transnational and holistic breeding approach is needed for sustainable wheat production in the Baltic Sea region

Author(s): Aakash Chawade, Rita Armoniené, Gunilla Berg, Gintaras Brazauskas, Gunilla Frostgård, Mulatu Geleta, Andrii Gorash, Tina Henriksson, Kristiina Himanen, Anne Ingver, Eva Johansson, Lise Nistrup Jørgensen, Mati Koppel, Reine Koppel, Pirjo Makela, Rodomiro Ortiz, Wieslaw Podyma, Thomas Roitsch, Antanas Ronis, Jan T. Svensson, Pernilla Vallenback, Martin Weih
Published in: Physiologia Plantarum, Issue 164/4, 2018, Page(s) 442-451, ISSN 0031-9317
DOI: 10.1111/ppl.12726

What is cost-efficient phenotyping? Optimizing costs for different scenarios

Author(s): Daniel Reynolds, Frederic Baret, Claude Welcker, Aaron Bostrom, Joshua Ball, Francesco Cellini, Argelia Lorence, Aakash Chawade, Mehdi Khafif, Koji Noshita, Mark Mueller-Linow, Ji Zhou, François Tardieu
Published in: Plant Science, 2018, ISSN 0168-9452
DOI: 10.1016/j.plantsci.2018.06.015

MapMan4: a refined protein classification and annotation framework applicable to multi-omics data analysis

Author(s): Rainer Schwacke, Gabriel Y. Ponce-Soto, Kirsten Krause, Anthony M. Bolger, Borjana Arsova, Asis Hallab, Kristina Gruden, Mark Stitt, Marie E. Bolger, Björn Usadel
Published in: Molecular Plant, 2019, ISSN 1674-2052
DOI: 10.1016/j.molp.2019.01.003

Review: New sensors and data-driven approaches—A path to next generation phenomics

Author(s): Thomas Roitsch, Llorenç Cabrera-Bosquet, Antoine Fournier, Kioumars Ghamkhar, José Jiménez-Berni, Francisco Pinto, Eric S. Ober
Published in: Plant Science, 2019, ISSN 0168-9452
DOI: 10.1016/j.plantsci.2019.01.011

Chlorophyll-depleted wheat mutants are disturbed in photosynthetic electron flow regulation but can retain an acclimation ability to a fluctuating light regime

Author(s): Lorenzo Ferroni, Marek Živčak, Oksana Sytar, Marek Kovár, Nobuyoshi Watanabe, Simonetta Pancaldi, Costanza Baldisserotto, Marián Brestič
Published in: Environmental and Experimental Botany, 2020, Page(s) 104156, ISSN 0098-8472
DOI: 10.1016/j.envexpbot.2020.104156

High throughput in vitro seed germination screen identified new ABA responsive RING-type ubiquitin E3 ligases in Arabidopsis thaliana

Author(s): M. Pavicic, F. Wang, K. Mouhu, K. Himanen
Published in: Plant Cell, Tissue and Organ Culture (PCTOC), Issue 139/3, 2019, Page(s) 563-575, ISSN 0167-6857
DOI: 10.1007/s11240-019-01700-9

Physiological analysis and transcriptome sequencing reveal the effects of combined cold and drought on tomato leaf

Author(s): Rong Zhou, Xiaqing Yu, Tongmin Zhao, Carl-Otto Ottosen, Eva Rosenqvist, Zhen Wu
Published in: BMC Plant Biology, Issue 19/1, 2019, ISSN 1471-2229
DOI: 10.1186/s12870-019-1982-9

Chlorophyll fluorescence and carbohydrate concentration as field selection traits for heat tolerant chickpea genotypes

Author(s): Givemore M. Makonya, John B.O. Ogola, A. Muthama Muasya, Olivier Crespo, Sipho Maseko, Alex J. Valentine, Carl-Otto Ottosen, Eva Rosenqvist, Samson B.M. Chimphango
Published in: Plant Physiology and Biochemistry, Issue 141, 2019, Page(s) 172-182, ISSN 0981-9428
DOI: 10.1016/j.plaphy.2019.05.031

The Phenotyping Dilemma—The Challenges of a Diversified Phenotyping Community

Author(s): Eva Rosenqvist, Dominik K. Großkinsky, Carl-Otto Ottosen, Rick van de Zedde
Published in: Frontiers in Plant Science, Issue 10, 2019, ISSN 1664-462X
DOI: 10.3389/fpls.2019.00163

Physiological response of tomatoes at drought, heat and their combination followed by recovery

Author(s): Rong Zhou, Lingpeng Kong, Zhen Wu, Eva Rosenqvist, Yinlei Wang, Liping Zhao, Tongmin Zhao, Carl-Otto Ottosen
Published in: Physiologia Plantarum, Issue 165/2, 2019, Page(s) 144-154, ISSN 0031-9317
DOI: 10.1111/ppl.12764

Can High Throughput Phenotyping Help Food Security in the Mediterranean Area?

Author(s): Donatella Danzi, Nunzio Briglia, Angelo Petrozza, Stephan Summerer, Giovanni Povero, Alberto Stivaletta, Francesco Cellini, Domenico Pignone, Domenico De Paola, Michela Janni
Published in: Frontiers in Plant Science, Issue 10, 2019, ISSN 1664-462X
DOI: 10.3389/fpls.2019.00015

Identification and Characterization of a Thermotolerant TILLING Allele of Heat Shock Binding Protein 1 in Tomato

Author(s): Dominik Marko, Asmaa El-shershaby, Filomena Carriero, Stephan Summerer, Angelo Petrozza, Rina Iannacone, Enrico Schleiff, Sotirios Fragkostefanakis
Published in: Genes, Issue 10/7, 2019, Page(s) 516, ISSN 2073-4425
DOI: 10.3390/genes10070516

In Vivo Phenotyping for the Early Detection of Drought Stress in Tomato

Author(s): Michela Janni, Nicola Coppede, Manuele Bettelli, Nunzio Briglia, Angelo Petrozza, Stephan Summerer, Filippo Vurro, Donatella Danzi, Francesco Cellini, Nelson Marmiroli, Domenico Pignone, Salvatore Iannotta, Andrea Zappettini
Published in: Plant Phenomics, Issue 2019, 2019, Page(s) 1-10, ISSN 2643-6515
DOI: 10.34133/2019/6168209

Combined high light and heat stress induced complex response in tomato with better leaf cooling after heat priming

Author(s): Rong Zhou, Xiaqing Yu, Xiangnan Li, Thayna Mendanha dos Santos, Eva Rosenqvist, Carl-Otto Ottosen
Published in: Plant Physiology and Biochemistry, Issue 151, 2020, Page(s) 1-9, ISSN 0981-9428
DOI: 10.1016/j.plaphy.2020.03.011

How do cryptochromes and UVR8 interact in natural and simulated sunlight?

Author(s): Neha Rai, Susanne Neugart, Yan Yan, Fang Wang, Sari M Siipola, Anders V Lindfors, Jana Barbro Winkler, Andreas Albert, Mikael Brosché, Tarja Lehto, Luis O Morales, Pedro J Aphalo
Published in: Journal of Experimental Botany, Issue 70/18, 2019, Page(s) 4975-4990, ISSN 0022-0957
DOI: 10.1093/jxb/erz236

Genomic prediction of maize yield across European environmental conditions

Author(s): Emilie J. Millet, Willem Kruijer, Aude Coupel-Ledru, Santiago Alvarez Prado, Llorenç Cabrera-Bosquet, Sébastien Lacube, Alain Charcosset, Claude Welcker, Fred van Eeuwijk, François Tardieu
Published in: Nature Genetics, Issue 51/6, 2019, Page(s) 952-956, ISSN 1061-4036
DOI: 10.1038/s41588-019-0414-y

To clean or not to clean phenotypic datasets for outlier plants in genetic analyses?

Author(s): Santiago Alvarez Prado, Isabelle Sanchez, Llorenç Cabrera-Bosquet, Antonin Grau, Claude Welcker, François Tardieu, Nadine Hilgert
Published in: Journal of Experimental Botany, Issue 70/15, 2019, Page(s) 3693-3698, ISSN 0022-0957
DOI: 10.1093/jxb/erz191

Changes in the vertical distribution of leaf area enhanced light interception efficiency in maize over generations of selection

Author(s): Raphaël P.A. Perez, Christian Fournier, Llorenç Cabrera‐Bosquet, Simon Artzet, Christophe Pradal, Nicolas Brichet, Tsu‐Wei Chen, Romain Chapuis, Claude Welcker, François Tardieu
Published in: Plant, Cell & Environment, Issue 42/7, 2019, Page(s) 2105-2119, ISSN 0140-7791
DOI: 10.1111/pce.13539

Phenomics allows identification of genomic regions affecting maize stomatal conductance with conditional effects of water deficit and evaporative demand

Author(s): Santiago Alvarez Prado, Llorenç Cabrera-Bosquet, Antonin Grau, Aude Coupel-Ledru, Emilie J. Millet, Claude Welcker, François Tardieu
Published in: Plant, Cell & Environment, Issue 41/2, 2018, Page(s) 314-326, ISSN 0140-7791
DOI: 10.1111/pce.13083

Co-occurrence of Mild Salinity and Drought Synergistically Enhances Biomass and Grain Retardation in Wheat

Author(s): Kenny Paul, János Pauk, Ankica Kondic-Spika, Heinrich Grausgruber, Tofig Allahverdiyev, László Sass, Imre Vass
Published in: Frontiers in Plant Science, Issue 10, 2019, ISSN 1664-462X
DOI: 10.3389/fpls.2019.00501

Image-Based Assessment of Drought Response in Grapevines

Author(s): Nunzio Briglia, Kevin Williams, Dan Wu, Yaochen Li, Sha Tao, Fiona Corke, Giuseppe Montanaro, Angelo Petrozza, Davide Amato, Francesco Cellini, John H. Doonan, Wanneng Yang, Vitale Nuzzo
Published in: Frontiers in Plant Science, Issue 11, 2020, ISSN 1664-462X
DOI: 10.3389/fpls.2020.00595

Semantic concept schema of the linear mixed model of experimental observations

Author(s): Hanna Ćwiek-Kupczyńska, Katarzyna Filipiak, Augustyn Markiewicz, Philippe Rocca-Serra, Alejandra N. Gonzalez-Beltran, Susanna-Assunta Sansone, Emilie J. Millet, Fred van Eeuwijk, Agnieszka Ławrynowicz, Paweł Krajewski
Published in: Scientific Data, Issue 7/1, 2020, ISSN 2052-4463
DOI: 10.1038/s41597-020-0409-7

Enabling reusability of plant phenomic datasets with MIAPPE 1.1

Author(s): Evangelia A. Papoutsoglou, Daniel Faria, Daniel Arend, Elizabeth Arnaud, Ioannis N. Athanasiadis, Inês Chaves, Frederik Coppens, Guillaume Cornut, Bruno V. Costa, Hanna Ćwiek‐Kupczyńska, Bert Droesbeke, Richard Finkers, Kristina Gruden, Astrid Junker, Graham J. King, Paweł Krajewski, Matthias Lange, Marie‐Angélique Laporte, Célia Michotey, Markus Oppermann, Richard Ostler, Hendrik Poorte
Published in: New Phytologist, Issue 227/1, 2020, Page(s) 260-273, ISSN 0028-646X
DOI: 10.1111/nph.16544

Omeprazole Treatment Enhances Nitrogen Use Efficiency Through Increased Nitrogen Uptake and Assimilation in Corn

Author(s): Michael James Van Oosten, Emilia Dell’Aversana, Alessandra Ruggiero, Valerio Cirillo, Yves Gibon, Pasqualina Woodrow, Albino Maggio, Petronia Carillo
Published in: Frontiers in Plant Science, Issue 10, 2019, ISSN 1664-462X
DOI: 10.3389/fpls.2019.01507

A Computation Method Based on the Combination of Chlorophyll Fluorescence Parameters to Improve the Discrimination of Visually Similar Phenotypes Induced by Bacterial Virulence Factors

Author(s): Valérian Méline, Chrystelle Brin, Guillaume Lebreton, Lydie Ledroit, Daniel Sochard, Gilles Hunault, Tristan Boureau, Etienne Belin
Published in: Frontiers in Plant Science, Issue 11, 2020, ISSN 1664-462X
DOI: 10.3389/fpls.2020.00213

Role of the acquisition of a type 3 secretion system in the emergence of novel pathogenic strains of Xanthomonas

Author(s): Valérian Meline, Wesley Delage, Chrystelle Brin, Camille Li-Marchetti, Daniel Sochard, Matthieu Arlat, Céline Rousseau, Armelle Darrasse, Martial Briand, Guillaume Lebreton, Perrine Portier, Marion Fischer-Le Saux, Karine Durand, Marie-Agnès Jacques, Etienne Belin, Tristan Boureau
Published in: Molecular Plant Pathology, Issue 20/1, 2019, Page(s) 33-50, ISSN 1464-6722
DOI: 10.1111/mpp.12737

Active Vision and Surface Reconstruction for 3D Plant Shoot Modelling

Author(s): Jonathon Ashley Gibbs, Michael Pound, Andrew French, Darren Wells, Erik Murchie, Tony Pridmore
Published in: IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2019, Page(s) 1-1, ISSN 1545-5963
DOI: 10.1109/tcbb.2019.2896908

Recovering Wind-Induced Plant Motion in Dense Field Environments via Deep Learning and Multiple Object Tracking

Author(s): Jonathon A. Gibbs, Alexandra J. Burgess, Michael P. Pound, Tony P. Pridmore, Erik H. Murchie
Published in: Plant Physiology, Issue 181/1, 2019, Page(s) 28-42, ISSN 0032-0889
DOI: 10.1104/pp.19.00141

Plant Phenotyping: Past, Present, and Future

Author(s): Roland Pieruschka, Uli Schurr
Published in: Plant Phenomics, Issue 2019, 2019, Page(s) 1-6, ISSN 2643-6515
DOI: 10.34133/2019/7507131

Preserving the nutritional quality of crop plants under a changing climate: importance and strategies

Author(s): José C. Soares, Carla S. Santos, Susana M. P. Carvalho, Manuela M. Pintado, Marta W. Vasconcelos
Published in: Plant and Soil, Issue 443/1-2, 2019, Page(s) 1-26, ISSN 0032-079X
DOI: 10.1007/s11104-019-04229-0

High-Throughput Phenotyping in Plant Stress Response: Methods and Potential Applications to Polyamine Field.

Author(s): D. Marko, N. Briglia, S. Summerer, A. Petrozza, F. Cellini, R. Iannacone
Published in: 2018, Page(s) 373-388
DOI: 10.1007/978-1-4939-7398-9_31

Plant phenotyping installations available for EPPN2020 transnational access at the VIB-UGent Center for Plant Systems Biology, Belgium

Author(s): Nathalie Wuyts ; Stijn Dhont
Published in: 2017

IoLT Smart Pot: An IoT-Cloud Solution for Monitoring Plant Growth in Greenhouses

Author(s): J. Hadabas, M. Hovari, I. Vass, A. Kertesz
Published in: Proceedings of the 9th International Conference on Cloud Computing and Services Science, 2019, Page(s) 144-152
DOI: 10.5220/0007755801440152

Revisiting SIFT for plant foliage in RGB images acquired on a turntable

Author(s): DUTAGACI H., BELIN E., ROUSSEAU D.
Published in: 7thInternational Workshop on Image Analysis Methods for the Plant Sciences, 2019

Use of Chlorophyll Fluorescence Imaging to phenotype type 3 effectors impacts of Xanthosmonas on leaves

Author(s): MÉLINE V., BRIN C., LEBRETON G., BELIN E., BOUREAU T
Published in: What lies within: imaging plant microbe interaction - BSPP Presidential meeting, 2019

EMPHASIS - European Infrastructure for Multi-scale Plant Phenomics and Simulation for Food Security in a Chancing Climate

Author(s): Pieruschka, Roland
Published in: CORBEL User Meeting, Heidelberg, Germany, 2019-10-01 - 2019-10-02, Issue 4, 2019

Plant phenotyping landscape in Europe and beyond

Author(s): Pieruschka, Roland
Published in: Botanikertagung, Rostock, Germany, 2019-09-15 - 2019-09-19, Issue 1, 2019

Unlocking the potential of plant phenotyping data through integration and data-driven approaches

Author(s): Frederik Coppens, Nathalie Wuyts, Dirk Inzé, Stijn Dhondt
Published in: Current Opinion in Systems Biology, Issue 4, 2017, Page(s) 58-63, ISSN 2452-3100
DOI: 10.1016/j.coisb.2017.07.002

Phénotypage racinaire haut débit et ses applications à l'étude des interactions plante x microorganisme

Author(s): Salon, C., Baussart, C., Bernard, C., Bourion, V., Jeudy, C., Lamboeuf, M., Martinet, J., Moreau, D., Prudent, M., Voisin, A.-S.
Published in: Sélectionneur Français, 2019, Page(s) 65-75

Unraveling the hidden half of legumes: root phenotyping and microbial interactions

Author(s): Christophe Salon
Published in: Legume Perspectives, 2019, Page(s) 22-25, ISSN 2340-1559

Phenomenal: An automatic open source library for 3D shoot architecture reconstruction and analysis for image-based plant phenotyping

Author(s): Simon Artzet, Tsu-Wei Chen, Jérôme Chopard, Nicolas Brichet, Michael Mielewczik, Sarah Cohen-Boulakia, Llorenç Cabrera-Bosquet, François Tardieu, Christian Fournier, Christophe Pradal
Published in: 2019
DOI: 10.1101/805739

Identification of objects with Uniform Resource Identifier (URI): recommendations for application in plant phenotyping

Author(s): Hollebecq, Jean-Eudes; Cabrera-Bosquet, Llorenç; David, Romain ; Quidoz Marie-Claude; Tardieu François; Tireau Anne; Neveu, Pascal
Published in: 2019
DOI: 10.5281/zenodo.3560629

Understanding the Phenotypic and Genetic Mechanisms of plant-plant Interactions

Author(s): Gina Garzon Martinez
Published in: 2019