Heuristic exploration of theoretical margins for improving adaptation of rice through crop-model assisted phenotyping
Crop modeling in support of breeders' decisions on selection criteria can benefit from the new global focus on phenomics because it provides new information on existing genetic diversity for useful traits. This study attempted an in silico prediction of margins for genetic improvements of early vigor (biomass produced during vegetative growth) and drought resistance combined, based on virtual recombination of several traits (here syn. model parameters) within ranges of trait variation observed in a panel of diverse rice genotypes. The Ecomeristem model was parameterized by multi-parameter optimization procedures applied to observed datasets for 136 rice genotypes. The traits within the observed ranges were then recombined in silico to generate a virtual population of 9000 individuals. Simulations of real and virtual phenotypes under three water treatments, using finite water resources during stress cycles, indicated strong and similar trade-offs between constitutive vigor and drought resistance in both real and virtual, recombinant populations. A substantial margin for potential genetic improvement of vigor with unchanged drought resistance was predicted, drawing chiefly from structural growth and development traits that would increase internal demand for assimilates (larger and thicker leaves, increased leaf appearance rates). Increased vigor would not necessarily require greater photosynthetic potential per se. However, improved drought resistance with unchanged constitutive vigor would require greater water economy (increased photosynthetic potential and limited water use, therefore higher transpiration efficiency) and greater tolerance of leaf extension and gas exchange rates to drought, while tillering ability should be limited in favor of larger and thicker leaves. These results carry significant uncertainty because they predict virtual genotypes and their phenotypes, based on simple assumptions in the model (namely on gas exchange) and in genetics (free, additive trait combinability). But the approach is innovative and may eventually help developing ideotypes drawing from information of existing diversity and integrative modeling of phenotypes.
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F30 - Génétique et amélioration des plantes F62 - Physiologie végétale - Croissance et développement U10 - Informatique, mathématiques et statistiques H50 - Troubles divers des plantes Oryza sativa modélisation des cultures modèle mathématique modèle de simulation amélioration des plantes génotype résistance à la sécheresse vigueur régime hydrique du sol morphogénèse développement biologique stress dû à la sécheresse analyse en composantes (statistique) http://aims.fao.org/aos/agrovoc/c_5438 http://aims.fao.org/aos/agrovoc/c_9000024 http://aims.fao.org/aos/agrovoc/c_24199 http://aims.fao.org/aos/agrovoc/c_24242 http://aims.fao.org/aos/agrovoc/c_5956 http://aims.fao.org/aos/agrovoc/c_3225 http://aims.fao.org/aos/agrovoc/c_2392 http://aims.fao.org/aos/agrovoc/c_37512 http://aims.fao.org/aos/agrovoc/c_7211 http://aims.fao.org/aos/agrovoc/c_4943 http://aims.fao.org/aos/agrovoc/c_921 http://aims.fao.org/aos/agrovoc/c_24993 http://aims.fao.org/aos/agrovoc/c_28846 http://aims.fao.org/aos/agrovoc/c_5783 F30 - Génétique et amélioration des plantes F62 - Physiologie végétale - Croissance et développement U10 - Informatique, mathématiques et statistiques H50 - Troubles divers des plantes Oryza sativa modélisation des cultures modèle mathématique modèle de simulation amélioration des plantes génotype résistance à la sécheresse vigueur régime hydrique du sol morphogénèse développement biologique stress dû à la sécheresse analyse en composantes (statistique) http://aims.fao.org/aos/agrovoc/c_5438 http://aims.fao.org/aos/agrovoc/c_9000024 http://aims.fao.org/aos/agrovoc/c_24199 http://aims.fao.org/aos/agrovoc/c_24242 http://aims.fao.org/aos/agrovoc/c_5956 http://aims.fao.org/aos/agrovoc/c_3225 http://aims.fao.org/aos/agrovoc/c_2392 http://aims.fao.org/aos/agrovoc/c_37512 http://aims.fao.org/aos/agrovoc/c_7211 http://aims.fao.org/aos/agrovoc/c_4943 http://aims.fao.org/aos/agrovoc/c_921 http://aims.fao.org/aos/agrovoc/c_24993 http://aims.fao.org/aos/agrovoc/c_28846 http://aims.fao.org/aos/agrovoc/c_5783 |
spellingShingle |
F30 - Génétique et amélioration des plantes F62 - Physiologie végétale - Croissance et développement U10 - Informatique, mathématiques et statistiques H50 - Troubles divers des plantes Oryza sativa modélisation des cultures modèle mathématique modèle de simulation amélioration des plantes génotype résistance à la sécheresse vigueur régime hydrique du sol morphogénèse développement biologique stress dû à la sécheresse analyse en composantes (statistique) http://aims.fao.org/aos/agrovoc/c_5438 http://aims.fao.org/aos/agrovoc/c_9000024 http://aims.fao.org/aos/agrovoc/c_24199 http://aims.fao.org/aos/agrovoc/c_24242 http://aims.fao.org/aos/agrovoc/c_5956 http://aims.fao.org/aos/agrovoc/c_3225 http://aims.fao.org/aos/agrovoc/c_2392 http://aims.fao.org/aos/agrovoc/c_37512 http://aims.fao.org/aos/agrovoc/c_7211 http://aims.fao.org/aos/agrovoc/c_4943 http://aims.fao.org/aos/agrovoc/c_921 http://aims.fao.org/aos/agrovoc/c_24993 http://aims.fao.org/aos/agrovoc/c_28846 http://aims.fao.org/aos/agrovoc/c_5783 F30 - Génétique et amélioration des plantes F62 - Physiologie végétale - Croissance et développement U10 - Informatique, mathématiques et statistiques H50 - Troubles divers des plantes Oryza sativa modélisation des cultures modèle mathématique modèle de simulation amélioration des plantes génotype résistance à la sécheresse vigueur régime hydrique du sol morphogénèse développement biologique stress dû à la sécheresse analyse en composantes (statistique) http://aims.fao.org/aos/agrovoc/c_5438 http://aims.fao.org/aos/agrovoc/c_9000024 http://aims.fao.org/aos/agrovoc/c_24199 http://aims.fao.org/aos/agrovoc/c_24242 http://aims.fao.org/aos/agrovoc/c_5956 http://aims.fao.org/aos/agrovoc/c_3225 http://aims.fao.org/aos/agrovoc/c_2392 http://aims.fao.org/aos/agrovoc/c_37512 http://aims.fao.org/aos/agrovoc/c_7211 http://aims.fao.org/aos/agrovoc/c_4943 http://aims.fao.org/aos/agrovoc/c_921 http://aims.fao.org/aos/agrovoc/c_24993 http://aims.fao.org/aos/agrovoc/c_28846 http://aims.fao.org/aos/agrovoc/c_5783 Luquet, Delphine Rebolledo, Maria Camila Rouan, Lauriane Soulie, Jean-Christophe Dingkuhn, Michael Heuristic exploration of theoretical margins for improving adaptation of rice through crop-model assisted phenotyping |
description |
Crop modeling in support of breeders' decisions on selection criteria can benefit from the new global focus on phenomics because it provides new information on existing genetic diversity for useful traits. This study attempted an in silico prediction of margins for genetic improvements of early vigor (biomass produced during vegetative growth) and drought resistance combined, based on virtual recombination of several traits (here syn. model parameters) within ranges of trait variation observed in a panel of diverse rice genotypes. The Ecomeristem model was parameterized by multi-parameter optimization procedures applied to observed datasets for 136 rice genotypes. The traits within the observed ranges were then recombined in silico to generate a virtual population of 9000 individuals. Simulations of real and virtual phenotypes under three water treatments, using finite water resources during stress cycles, indicated strong and similar trade-offs between constitutive vigor and drought resistance in both real and virtual, recombinant populations. A substantial margin for potential genetic improvement of vigor with unchanged drought resistance was predicted, drawing chiefly from structural growth and development traits that would increase internal demand for assimilates (larger and thicker leaves, increased leaf appearance rates). Increased vigor would not necessarily require greater photosynthetic potential per se. However, improved drought resistance with unchanged constitutive vigor would require greater water economy (increased photosynthetic potential and limited water use, therefore higher transpiration efficiency) and greater tolerance of leaf extension and gas exchange rates to drought, while tillering ability should be limited in favor of larger and thicker leaves. These results carry significant uncertainty because they predict virtual genotypes and their phenotypes, based on simple assumptions in the model (namely on gas exchange) and in genetics (free, additive trait combinability). But the approach is innovative and may eventually help developing ideotypes drawing from information of existing diversity and integrative modeling of phenotypes. |
format |
book_section |
topic_facet |
F30 - Génétique et amélioration des plantes F62 - Physiologie végétale - Croissance et développement U10 - Informatique, mathématiques et statistiques H50 - Troubles divers des plantes Oryza sativa modélisation des cultures modèle mathématique modèle de simulation amélioration des plantes génotype résistance à la sécheresse vigueur régime hydrique du sol morphogénèse développement biologique stress dû à la sécheresse analyse en composantes (statistique) http://aims.fao.org/aos/agrovoc/c_5438 http://aims.fao.org/aos/agrovoc/c_9000024 http://aims.fao.org/aos/agrovoc/c_24199 http://aims.fao.org/aos/agrovoc/c_24242 http://aims.fao.org/aos/agrovoc/c_5956 http://aims.fao.org/aos/agrovoc/c_3225 http://aims.fao.org/aos/agrovoc/c_2392 http://aims.fao.org/aos/agrovoc/c_37512 http://aims.fao.org/aos/agrovoc/c_7211 http://aims.fao.org/aos/agrovoc/c_4943 http://aims.fao.org/aos/agrovoc/c_921 http://aims.fao.org/aos/agrovoc/c_24993 http://aims.fao.org/aos/agrovoc/c_28846 http://aims.fao.org/aos/agrovoc/c_5783 |
author |
Luquet, Delphine Rebolledo, Maria Camila Rouan, Lauriane Soulie, Jean-Christophe Dingkuhn, Michael |
author_facet |
Luquet, Delphine Rebolledo, Maria Camila Rouan, Lauriane Soulie, Jean-Christophe Dingkuhn, Michael |
author_sort |
Luquet, Delphine |
title |
Heuristic exploration of theoretical margins for improving adaptation of rice through crop-model assisted phenotyping |
title_short |
Heuristic exploration of theoretical margins for improving adaptation of rice through crop-model assisted phenotyping |
title_full |
Heuristic exploration of theoretical margins for improving adaptation of rice through crop-model assisted phenotyping |
title_fullStr |
Heuristic exploration of theoretical margins for improving adaptation of rice through crop-model assisted phenotyping |
title_full_unstemmed |
Heuristic exploration of theoretical margins for improving adaptation of rice through crop-model assisted phenotyping |
title_sort |
heuristic exploration of theoretical margins for improving adaptation of rice through crop-model assisted phenotyping |
publisher |
Springer International Publishing |
url |
http://agritrop.cirad.fr/578857/ http://agritrop.cirad.fr/578857/1/Luquet%20et%20al%202015.pdf |
work_keys_str_mv |
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_version_ |
1792498961886478336 |
spelling |
dig-cirad-fr-5788572024-01-28T23:10:23Z http://agritrop.cirad.fr/578857/ http://agritrop.cirad.fr/578857/ Heuristic exploration of theoretical margins for improving adaptation of rice through crop-model assisted phenotyping. Luquet Delphine, Rebolledo Maria Camila, Rouan Lauriane, Soulie Jean-Christophe, Dingkuhn Michael. 2016. In : Crop systems biology: narrowing the gaps between crop modelling and genetics. Yin Xinyou (ed.), Struik Paul C. (ed.). Cham : Springer International Publishing, 105-127. ISBN 978-3-319-20561-8https://doi.org/10.1007/978-3-319-20562-5_5 <https://doi.org/10.1007/978-3-319-20562-5_5> Heuristic exploration of theoretical margins for improving adaptation of rice through crop-model assisted phenotyping Luquet, Delphine Rebolledo, Maria Camila Rouan, Lauriane Soulie, Jean-Christophe Dingkuhn, Michael eng 2016 Springer International Publishing Crop systems biology: narrowing the gaps between crop modelling and genetics F30 - Génétique et amélioration des plantes F62 - Physiologie végétale - Croissance et développement U10 - Informatique, mathématiques et statistiques H50 - Troubles divers des plantes Oryza sativa modélisation des cultures modèle mathématique modèle de simulation amélioration des plantes génotype résistance à la sécheresse vigueur régime hydrique du sol morphogénèse développement biologique stress dû à la sécheresse analyse en composantes (statistique) http://aims.fao.org/aos/agrovoc/c_5438 http://aims.fao.org/aos/agrovoc/c_9000024 http://aims.fao.org/aos/agrovoc/c_24199 http://aims.fao.org/aos/agrovoc/c_24242 http://aims.fao.org/aos/agrovoc/c_5956 http://aims.fao.org/aos/agrovoc/c_3225 http://aims.fao.org/aos/agrovoc/c_2392 http://aims.fao.org/aos/agrovoc/c_37512 http://aims.fao.org/aos/agrovoc/c_7211 http://aims.fao.org/aos/agrovoc/c_4943 http://aims.fao.org/aos/agrovoc/c_921 http://aims.fao.org/aos/agrovoc/c_24993 http://aims.fao.org/aos/agrovoc/c_28846 Philippines http://aims.fao.org/aos/agrovoc/c_5783 Crop modeling in support of breeders' decisions on selection criteria can benefit from the new global focus on phenomics because it provides new information on existing genetic diversity for useful traits. This study attempted an in silico prediction of margins for genetic improvements of early vigor (biomass produced during vegetative growth) and drought resistance combined, based on virtual recombination of several traits (here syn. model parameters) within ranges of trait variation observed in a panel of diverse rice genotypes. The Ecomeristem model was parameterized by multi-parameter optimization procedures applied to observed datasets for 136 rice genotypes. The traits within the observed ranges were then recombined in silico to generate a virtual population of 9000 individuals. Simulations of real and virtual phenotypes under three water treatments, using finite water resources during stress cycles, indicated strong and similar trade-offs between constitutive vigor and drought resistance in both real and virtual, recombinant populations. A substantial margin for potential genetic improvement of vigor with unchanged drought resistance was predicted, drawing chiefly from structural growth and development traits that would increase internal demand for assimilates (larger and thicker leaves, increased leaf appearance rates). Increased vigor would not necessarily require greater photosynthetic potential per se. However, improved drought resistance with unchanged constitutive vigor would require greater water economy (increased photosynthetic potential and limited water use, therefore higher transpiration efficiency) and greater tolerance of leaf extension and gas exchange rates to drought, while tillering ability should be limited in favor of larger and thicker leaves. These results carry significant uncertainty because they predict virtual genotypes and their phenotypes, based on simple assumptions in the model (namely on gas exchange) and in genetics (free, additive trait combinability). But the approach is innovative and may eventually help developing ideotypes drawing from information of existing diversity and integrative modeling of phenotypes. book_section info:eu-repo/semantics/bookPart Chapter info:eu-repo/semantics/publishedVersion http://agritrop.cirad.fr/578857/1/Luquet%20et%20al%202015.pdf text Cirad license info:eu-repo/semantics/restrictedAccess https://agritrop.cirad.fr/mention_legale.html https://doi.org/10.1007/978-3-319-20562-5_5 10.1007/978-3-319-20562-5_5 http://catalogue-bibliotheques.cirad.fr/cgi-bin/koha/opac-detail.pl?biblionumber=218344 info:eu-repo/semantics/altIdentifier/doi/10.1007/978-3-319-20562-5_5 info:eu-repo/semantics/altIdentifier/purl/https://doi.org/10.1007/978-3-319-20562-5_5 |