A new phenotyping pipeline reveals three types of lateral roots and a random branching pattern in two cereals
| Autor: | Bertrand Muller, Daniel Moukouanga, Yann Guédon, Sixtine Passot, Laurent Laplaze, Beatriz Moreno-Ortega, Crispulo Balsera, Soazig Guyomarc'h, Guillaume Lobet, Mikaël Lucas |
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| Přispěvatelé: | UCL - SST/ELI/ELIA - Agronomy, Amélioration génétique et adaptation des plantes méditerranéennes et tropicales (UMR AGAP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut National de la Recherche Agronomique (INRA)-Centre international d'études supérieures en sciences agronomiques (Montpellier SupAgro)-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro), Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro), Université de Montpellier (UM), Diversité, adaptation, développement des plantes (UMR DIADE), Institut de Recherche pour le Développement (IRD [France-Sud])-Centre National de la Recherche Scientifique (CNRS)-Université de Montpellier (UM)-Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad), Écophysiologie des Plantes sous Stress environnementaux (LEPSE), Institut National de la Recherche Agronomique (INRA)-Centre international d'études supérieures en sciences agronomiques (Montpellier SupAgro)-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro), Institut de Recherche pour le Développement (IRD), Institut de recherche pour le développement (IRD [Sénégal]), Earth and Life Institute [Louvain-La-Neuve] (ELI), Université Catholique de Louvain = Catholic University of Louvain (UCL), Agrosphere, IBG-3, Forschungszentrum Jülich GmbH | Centre de recherche de Juliers, Helmholtz-Gemeinschaft = Helmholtz Association-Helmholtz-Gemeinschaft = Helmholtz Association, NewPearl project in the frame of the CERES initiative (Agropolis Fondation AF 1301-015 as part of the 'Investissement d'avenir' ANR-l0-LABX-0001-0l and 49 Fondazione Cariplo FC 2013-0891)., ANR-10-LABX-0001,AGRO,Agricultural Sciences for sustainable Development(2010), European Project: 289300,KBBE,FP7-KBBE-2011-5,EUROOT(2012), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud]) |
| Jazyk: | angličtina |
| Rok vydání: | 2018 |
| Předmět: |
0106 biological sciences
0301 basic medicine Pennisetum Physiology Pipeline (computing) variabilité génétique Plant Science Root system racine laterale Models Biological Plant Roots F50 - Anatomie et morphologie des plantes 01 natural sciences modèle de markov F30 - Génétique et amélioration des plantes Branching (linguistics) zea mays 03 medical and health sciences Botany Image Processing Computer-Assisted Genetics [SDV.BV]Life Sciences [q-bio]/Vegetal Biology Genetic variability 2. Zero hunger Models Statistical Vegetal Biology Indoleacetic Acids biology auxine U10 - Informatique mathématiques et statistiques Lateral root Breakthrough Technologies biology.organism_classification Markov Chains Intermediate type plateforme de phénotypage croissance racinaire 030104 developmental biology ddc:580 pennisetum glaucum Shading Biologie végétale 010606 plant biology & botany |
| Zdroj: | Plant Physiology, p. 1-48 (2018) Plant Physiology 3 (177), 896-910. (2018) Plant physiology 01648.2017, pp.01648.2017-(2018). doi:10.1104/pp.17.01648 Plant Physiology Plant Physiology, American Society of Plant Biologists, 2018, 177 (3), pp.896-910. ⟨10.1104/pp.17.01648⟩ Plant Physiology, 2018, 177 (3), pp.896-910. ⟨10.1104/pp.17.01648⟩ |
| ISSN: | 0032-0889 1532-2548 |
| DOI: | 10.1104/pp.17.01648 |
| Popis: | International audience; Recent progress in root phenotyping has focused mainly on increasing throughput for genetic studies while identifying root developmental patterns has been comparatively underexplored. We introduce a new phenotyping pipeline for producing high-quality spatio-temporal root system development data and identifying developmental patterns within these data. The SmartRoot image analysis system and temporal and spatial statistical models were applied to two cereals, pearl millet (Pennisetum glaucum) and maize (Zea mays). Semi-Markov switching linear models were used to cluster lateral roots based on their growth rate profiles. These models revealed three types of lateral roots with similar characteristics in both species. The first type corresponds to fast and accelerating roots, the second to rapidly arrested roots, and the third to an intermediate type where roots cease elongation after a few days. These types of lateral roots were retrieved in different proportions in a maize mutant affected in auxin signaling, while the first most vigorous type was absent in maize plants exposed to severe shading. Moreover, the classification of growth rate profiles was mirrored by a ranking of anatomical traits in pearl millet. Potential dependencies in the succession of lateral root types along the primary root were then analyzed using variable-order Markov chains. The lateral root type was not influenced by the shootward neighbor root type or by the distance from this root. This random branching pattern of primary roots was remarkably conserved, despite the high variability of root systems in both species. Our phenotyping pipeline opens the door to exploring the genetic variability of lateral root developmental patterns. |
| Databáze: | OpenAIRE |
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