Multi-scale high-throughput phenotyping of apple architectural and functional traits in orchard reveals genotypic variability under contrasted watering regimes
Despite previous reports on the genotypic variation of architectural and functional traits in fruit trees, phenotyping large populations in the field remains challenging. In this study, we used high-throughput phenotyping methods on an apple tree core-collection (1000 individuals) grown under contrasted watering regimes. First, architectural phenotyping was achieved using T-LiDAR scans for estimating convex and alpha hull volumes and the silhouette to total leaf area ratio (STAR). Second, a semi-empirical index (IPL) was computed from chlorophyll fluorescence measurements, as a proxy for leaf photosynthesis. Last, thermal infrared and multispectral airborne imaging was used for computing canopy temperature variations, water deficit, and vegetation indices. All traits estimated by these methods were compared to low-throughput in planta measurements. Vegetation indices and alpha hull volumes were significantly correlated with tree leaf area and trunk cross sectional area, while IPL values showed strong correlations with photosynthesis measurements collected on an independent leaf dataset. By contrast, correlations between stomatal conductance and canopy temperature estimated from airborne images were lower, emphasizing discrepancies across measurement scales. High heritability values were obtained for almost all the traits except leaf photosynthesis, likely due to large intra-tree variation. Genotypic means were used in a clustering procedure that defined six classes of architectural and functional combinations. Differences between groups showed several combinations between architectural and functional traits, suggesting independent genetic controls. This study demonstrates the feasibility and relevance of combining multi-scale high-throughput methods and paves the way to explore the genetic bases of architectural and functional variations in woody crops in field conditions.
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dig-cirad-fr-5929392024-01-29T02:06:19Z http://agritrop.cirad.fr/592939/ http://agritrop.cirad.fr/592939/ Multi-scale high-throughput phenotyping of apple architectural and functional traits in orchard reveals genotypic variability under contrasted watering regimes. Coupel-Ledru Aude, Pallas Benoît, Delalande Magalie, Boudon Frédéric, Carrie Emma, Martinez Sébastien, Regnard Jean-Luc, Costes Evelyne. 2019. Horticulture Research, 6:52, 15 p.https://doi.org/10.1038/s41438-019-0137-3 <https://doi.org/10.1038/s41438-019-0137-3> Multi-scale high-throughput phenotyping of apple architectural and functional traits in orchard reveals genotypic variability under contrasted watering regimes Coupel-Ledru, Aude Pallas, Benoît Delalande, Magalie Boudon, Frédéric Carrie, Emma Martinez, Sébastien Regnard, Jean-Luc Costes, Evelyne eng 2019 Horticulture Research F30 - Génétique et amélioration des plantes F50 - Anatomie et morphologie des plantes U30 - Méthodes de recherche Malus arrosage intéraction génotype environnement variation phénotypique surface foliaire photosynthèse héritabilité génotypique fluorescence http://aims.fao.org/aos/agrovoc/c_4553 http://aims.fao.org/aos/agrovoc/c_8332 http://aims.fao.org/aos/agrovoc/c_24577 http://aims.fao.org/aos/agrovoc/c_903c4959 http://aims.fao.org/aos/agrovoc/c_16110 http://aims.fao.org/aos/agrovoc/c_5812 http://aims.fao.org/aos/agrovoc/c_1373982832607 http://aims.fao.org/aos/agrovoc/c_10935 Languedoc-Roussillon Poitou-Charentes France http://aims.fao.org/aos/agrovoc/c_4188 http://aims.fao.org/aos/agrovoc/c_6054 http://aims.fao.org/aos/agrovoc/c_3081 Despite previous reports on the genotypic variation of architectural and functional traits in fruit trees, phenotyping large populations in the field remains challenging. In this study, we used high-throughput phenotyping methods on an apple tree core-collection (1000 individuals) grown under contrasted watering regimes. First, architectural phenotyping was achieved using T-LiDAR scans for estimating convex and alpha hull volumes and the silhouette to total leaf area ratio (STAR). Second, a semi-empirical index (IPL) was computed from chlorophyll fluorescence measurements, as a proxy for leaf photosynthesis. Last, thermal infrared and multispectral airborne imaging was used for computing canopy temperature variations, water deficit, and vegetation indices. All traits estimated by these methods were compared to low-throughput in planta measurements. Vegetation indices and alpha hull volumes were significantly correlated with tree leaf area and trunk cross sectional area, while IPL values showed strong correlations with photosynthesis measurements collected on an independent leaf dataset. By contrast, correlations between stomatal conductance and canopy temperature estimated from airborne images were lower, emphasizing discrepancies across measurement scales. High heritability values were obtained for almost all the traits except leaf photosynthesis, likely due to large intra-tree variation. Genotypic means were used in a clustering procedure that defined six classes of architectural and functional combinations. Differences between groups showed several combinations between architectural and functional traits, suggesting independent genetic controls. This study demonstrates the feasibility and relevance of combining multi-scale high-throughput methods and paves the way to explore the genetic bases of architectural and functional variations in woody crops in field conditions. article info:eu-repo/semantics/article Journal Article info:eu-repo/semantics/publishedVersion http://agritrop.cirad.fr/592939/1/Coupel-Ledru_Pallas_et_al_HORTRES_2019.pdf text cc_by info:eu-repo/semantics/openAccess https://creativecommons.org/licenses/by/4.0/ https://doi.org/10.1038/s41438-019-0137-3 10.1038/s41438-019-0137-3 info:eu-repo/semantics/altIdentifier/doi/10.1038/s41438-019-0137-3 info:eu-repo/semantics/altIdentifier/purl/https://doi.org/10.1038/s41438-019-0137-3 info:eu-repo/grantAgreement/EC/FP7/609398//(EU) AgreenSkills+/AGREENSKILLSPLUS |
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F30 - Génétique et amélioration des plantes F50 - Anatomie et morphologie des plantes U30 - Méthodes de recherche Malus arrosage intéraction génotype environnement variation phénotypique surface foliaire photosynthèse héritabilité génotypique fluorescence http://aims.fao.org/aos/agrovoc/c_4553 http://aims.fao.org/aos/agrovoc/c_8332 http://aims.fao.org/aos/agrovoc/c_24577 http://aims.fao.org/aos/agrovoc/c_903c4959 http://aims.fao.org/aos/agrovoc/c_16110 http://aims.fao.org/aos/agrovoc/c_5812 http://aims.fao.org/aos/agrovoc/c_1373982832607 http://aims.fao.org/aos/agrovoc/c_10935 http://aims.fao.org/aos/agrovoc/c_4188 http://aims.fao.org/aos/agrovoc/c_6054 http://aims.fao.org/aos/agrovoc/c_3081 F30 - Génétique et amélioration des plantes F50 - Anatomie et morphologie des plantes U30 - Méthodes de recherche Malus arrosage intéraction génotype environnement variation phénotypique surface foliaire photosynthèse héritabilité génotypique fluorescence http://aims.fao.org/aos/agrovoc/c_4553 http://aims.fao.org/aos/agrovoc/c_8332 http://aims.fao.org/aos/agrovoc/c_24577 http://aims.fao.org/aos/agrovoc/c_903c4959 http://aims.fao.org/aos/agrovoc/c_16110 http://aims.fao.org/aos/agrovoc/c_5812 http://aims.fao.org/aos/agrovoc/c_1373982832607 http://aims.fao.org/aos/agrovoc/c_10935 http://aims.fao.org/aos/agrovoc/c_4188 http://aims.fao.org/aos/agrovoc/c_6054 http://aims.fao.org/aos/agrovoc/c_3081 |
spellingShingle |
F30 - Génétique et amélioration des plantes F50 - Anatomie et morphologie des plantes U30 - Méthodes de recherche Malus arrosage intéraction génotype environnement variation phénotypique surface foliaire photosynthèse héritabilité génotypique fluorescence http://aims.fao.org/aos/agrovoc/c_4553 http://aims.fao.org/aos/agrovoc/c_8332 http://aims.fao.org/aos/agrovoc/c_24577 http://aims.fao.org/aos/agrovoc/c_903c4959 http://aims.fao.org/aos/agrovoc/c_16110 http://aims.fao.org/aos/agrovoc/c_5812 http://aims.fao.org/aos/agrovoc/c_1373982832607 http://aims.fao.org/aos/agrovoc/c_10935 http://aims.fao.org/aos/agrovoc/c_4188 http://aims.fao.org/aos/agrovoc/c_6054 http://aims.fao.org/aos/agrovoc/c_3081 F30 - Génétique et amélioration des plantes F50 - Anatomie et morphologie des plantes U30 - Méthodes de recherche Malus arrosage intéraction génotype environnement variation phénotypique surface foliaire photosynthèse héritabilité génotypique fluorescence http://aims.fao.org/aos/agrovoc/c_4553 http://aims.fao.org/aos/agrovoc/c_8332 http://aims.fao.org/aos/agrovoc/c_24577 http://aims.fao.org/aos/agrovoc/c_903c4959 http://aims.fao.org/aos/agrovoc/c_16110 http://aims.fao.org/aos/agrovoc/c_5812 http://aims.fao.org/aos/agrovoc/c_1373982832607 http://aims.fao.org/aos/agrovoc/c_10935 http://aims.fao.org/aos/agrovoc/c_4188 http://aims.fao.org/aos/agrovoc/c_6054 http://aims.fao.org/aos/agrovoc/c_3081 Coupel-Ledru, Aude Pallas, Benoît Delalande, Magalie Boudon, Frédéric Carrie, Emma Martinez, Sébastien Regnard, Jean-Luc Costes, Evelyne Multi-scale high-throughput phenotyping of apple architectural and functional traits in orchard reveals genotypic variability under contrasted watering regimes |
description |
Despite previous reports on the genotypic variation of architectural and functional traits in fruit trees, phenotyping large populations in the field remains challenging. In this study, we used high-throughput phenotyping methods on an apple tree core-collection (1000 individuals) grown under contrasted watering regimes. First, architectural phenotyping was achieved using T-LiDAR scans for estimating convex and alpha hull volumes and the silhouette to total leaf area ratio (STAR). Second, a semi-empirical index (IPL) was computed from chlorophyll fluorescence measurements, as a proxy for leaf photosynthesis. Last, thermal infrared and multispectral airborne imaging was used for computing canopy temperature variations, water deficit, and vegetation indices. All traits estimated by these methods were compared to low-throughput in planta measurements. Vegetation indices and alpha hull volumes were significantly correlated with tree leaf area and trunk cross sectional area, while IPL values showed strong correlations with photosynthesis measurements collected on an independent leaf dataset. By contrast, correlations between stomatal conductance and canopy temperature estimated from airborne images were lower, emphasizing discrepancies across measurement scales. High heritability values were obtained for almost all the traits except leaf photosynthesis, likely due to large intra-tree variation. Genotypic means were used in a clustering procedure that defined six classes of architectural and functional combinations. Differences between groups showed several combinations between architectural and functional traits, suggesting independent genetic controls. This study demonstrates the feasibility and relevance of combining multi-scale high-throughput methods and paves the way to explore the genetic bases of architectural and functional variations in woody crops in field conditions. |
format |
article |
topic_facet |
F30 - Génétique et amélioration des plantes F50 - Anatomie et morphologie des plantes U30 - Méthodes de recherche Malus arrosage intéraction génotype environnement variation phénotypique surface foliaire photosynthèse héritabilité génotypique fluorescence http://aims.fao.org/aos/agrovoc/c_4553 http://aims.fao.org/aos/agrovoc/c_8332 http://aims.fao.org/aos/agrovoc/c_24577 http://aims.fao.org/aos/agrovoc/c_903c4959 http://aims.fao.org/aos/agrovoc/c_16110 http://aims.fao.org/aos/agrovoc/c_5812 http://aims.fao.org/aos/agrovoc/c_1373982832607 http://aims.fao.org/aos/agrovoc/c_10935 http://aims.fao.org/aos/agrovoc/c_4188 http://aims.fao.org/aos/agrovoc/c_6054 http://aims.fao.org/aos/agrovoc/c_3081 |
author |
Coupel-Ledru, Aude Pallas, Benoît Delalande, Magalie Boudon, Frédéric Carrie, Emma Martinez, Sébastien Regnard, Jean-Luc Costes, Evelyne |
author_facet |
Coupel-Ledru, Aude Pallas, Benoît Delalande, Magalie Boudon, Frédéric Carrie, Emma Martinez, Sébastien Regnard, Jean-Luc Costes, Evelyne |
author_sort |
Coupel-Ledru, Aude |
title |
Multi-scale high-throughput phenotyping of apple architectural and functional traits in orchard reveals genotypic variability under contrasted watering regimes |
title_short |
Multi-scale high-throughput phenotyping of apple architectural and functional traits in orchard reveals genotypic variability under contrasted watering regimes |
title_full |
Multi-scale high-throughput phenotyping of apple architectural and functional traits in orchard reveals genotypic variability under contrasted watering regimes |
title_fullStr |
Multi-scale high-throughput phenotyping of apple architectural and functional traits in orchard reveals genotypic variability under contrasted watering regimes |
title_full_unstemmed |
Multi-scale high-throughput phenotyping of apple architectural and functional traits in orchard reveals genotypic variability under contrasted watering regimes |
title_sort |
multi-scale high-throughput phenotyping of apple architectural and functional traits in orchard reveals genotypic variability under contrasted watering regimes |
url |
http://agritrop.cirad.fr/592939/ http://agritrop.cirad.fr/592939/1/Coupel-Ledru_Pallas_et_al_HORTRES_2019.pdf |
work_keys_str_mv |
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