Combining quantitative trait Loci analysis and an ecophysiological model to analyze the genetic variability of the responses of maize leaf growth to temperature and water deficit
Open accessAbstract
Ecophysiological models predict quantitative traits of one genotype in any environment, whereas quantitative trait locus (QTL) models predict the contribution of alleles to quantitative traits under a limited number of environments. We have combined both approaches by dissecting into effects of QTLs the parameters of a model of maize (Zea mays) leaf elongation rate (LER; H. Ben Haj Salah, F. Tardieu [1997] Plant Physiol 114: 893–900). Response curves of LER to meristem temperature, water vapor pressure difference, and soil water status were established in 100 recombinant inbred lines (RILs) of maize in six experiments carried out in the field or in the greenhouse. All responses were linear and common to different experiments, consistent with the model. A QTL analysis was carried out on the slopes of these responses by composite interval mapping confirmed by bootstrap analysis. Most QTLs were specific of one response only. QTLs of abscisic acid concentration in the xylem sap colocalized with QTLs of response to soil water deficit and conferred a low response. Each parameter of the ecophysiological model was computed as the sum of QTL effects, allowing calculation of parameters for 11 new RILs and two parental lines. LERs were simulated and compared with measurements in a growth chamber experiment. The combined model accounted for 74% of the variability of LER, suggesting that it has a general value for any RIL under any environment.
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Component physiological traits may be realistically modeled based on a relatively simple genetic architecture, and for such traits QTL explaining a sizable proportion of genetic variance can be mapped and characterized.
“In contrast to the complex trait of interest, component physiological traits may be realistically modeled based on a relatively simple genetic architecture, and for such traits, QTL explaining a sizable proportion of genetic variance can be mapped and characterized [71, 93–96].”
From Integrating Crop Growth Models with Whole Genome Prediction through Approximate Bayesian Computation (2015) · cites this paper as [93]
In “QTLs of Intrinsic LER” (page unavailable), the paper models a component of maize leaf growth and reports that its QTL model explains 55% of phenotypic variability. This supports the feasibility of modeling and mapping component traits, but the model includes nine significant QTLs, six detected through epistatic interactions; it does not establish the relatively simple genetic architecture asserted in the claim. (LLM, conf=0.82)
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Cites
Empirical threshold values for quantitative trait mapping.
Churchill, G. A., & Doerge, R. W. (1994) · Genetics · doi:10.1093/genetics/138.3.963 · Cited by 4,950 · see citing works
Precision mapping of quantitative trait loci.
Zeng, Z. B. (1994) · Genetics · doi:10.1093/genetics/136.4.1457 · Cited by 3,182 · see citing works
Haley, C. S., & Knott, S. A. (1992) · Heredity · doi:10.1038/hdy.1992.131 · Cited by 1,991 · see citing works
Iuchi, S., Kobayashi, M., Taji, T., Naramoto, M., Seki, M., Kato, T., Tabata, S., Kakubari, Y., Yamaguchi‐Shinozaki, K., & Shinozaki, K. (2001) · The Plant Journal · doi:10.1046/j.1365-313x.2001.01096.x · Cited by 1,312 · see citing works
ABSCISIC ACID SIGNAL TRANSDUCTION
Leung, J., & Giraudat, J. (1998) · Annual Review of Plant Physiology and Plant Molecular Biology · doi:10.1146/annurev.arplant.49.1.199 · Cited by 1,204 · see citing works
Seki, M., Narusaka, M., Abe, H., Kasuga, M., Yamaguchi‐Shinozaki, K., Carninci, P., Hayashizaki, Y., & Shinozaki, K. (2001) · The Plant Cell · doi:10.1105/tpc.13.1.61 · Cited by 1,105 · see citing works
Specific Oxidative Cleavage of Carotenoids by VP14 of Maize
Schwartz, S. H., Tan, B. C., Gage, D. A., Zeevaart, J. A. D., & McCarty, D. R. (1997) · Science · doi:10.1126/science.276.5320.1872 · Cited by 909 · see citing works
Interval mapping of multiple quantitative trait loci.
Jansen, R. C. (1993) · Genetics · doi:10.1093/genetics/135.1.205 · Cited by 850 · see citing works
Genomic approaches to plant stress tolerance
Cushman, J. C., & Bohnert, H. J. (2000) · Current Opinion in Plant Biology · doi:10.1016/s1369-5266(99)00052-7 · Cited by 722 · see citing works
Modelling Potential Crop Growth Processes
Goudriaan, J., & van Laar, H. H. (1994) · Current issues in production ecology · doi:10.1007/978-94-011-0750-1 · Cited by 641 · see citing works
Qin, X., & Zeevaart, J. A. D. (1999) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.96.26.15354 · Cited by 621 · see citing works
Confidence Intervals in QTL Mapping by Bootstrapping
Visscher, P. M., Thompson, R., & Haley, C. (1996) · Genetics · doi:10.1093/genetics/143.2.1013 · Cited by 571 · see citing works
Hirel, B. J., Bertin, P., Quilleré, I., Bourdoncle, W., Attagnant, C., Dellay, C., Gouy, A., Cadiou, S., Retailliau, C., Falque, M., et al. (2001) · PLANT PHYSIOLOGY · doi:10.1104/pp.125.3.1258 · Cited by 532 · see citing works
Tardieu, F., & Davies, W. J. (1993) · Plant Cell & Environment · doi:10.1111/j.1365-3040.1993.tb00880.x · Cited by 499 · see citing works
Self-citationABA, ethylene and the control of shoot and root growth under water stress
Sharp, R. E., & LeNoble, M. E. (2002) · Journal of Experimental Botany · doi:10.1093/jexbot/53.366.33 · Cited by 489 · see citing works
Expansive growth of plant cell walls
Cosgrove, D. J. (2000) · Plant Physiology and Biochemistry · doi:10.1016/s0981-9428(00)00164-9 · Cited by 462 · see citing works
Quarrie, S. A., Whitford, P. N., Appleford, N. E. J., et al. (1988) · Planta · doi:10.1007/bf00401020 · Cited by 452 · see citing works
Ribaut, J., Jiang, C., González-de-León, D., Edmeades, G. O., & Hoisington, D. A. (1997) · Theoretical and Applied Genetics · doi:10.1007/s001220050492 · Cited by 437 · see citing works
Sharp, R. E., LeNoble, M. E., Else, M. A., Thorne, E. T., & Gherardi, F. (2000) · Journal of Experimental Botany · doi:10.1093/jexbot/51.350.1575 · Cited by 318 · see citing works
Ribaut, J., Hoisington, D. A., Deutsch, J. A., Jiang, C., & González-de-León, D. (1996) · Theoretical and Applied Genetics · doi:10.1007/bf00221905 · Cited by 315 · see citing works
Lebreton, C. M., Lazić-Jančić, V., Steed, A., Pekic, S., & Quarrie, S. A. (1995) · Journal of Experimental Botany · doi:10.1093/jxb/46.7.853 · Cited by 274 · see citing works
Milborrow, B. V. (2001) · Journal of Experimental Botany · doi:10.1093/jexbot/52.359.1145 · Cited by 252 · see citing works
Tardieu, F., Reymond, M., Hamard, P., et al. (2000) · Journal of Experimental Botany · doi:10.1093/jexbot/51.350.1505 · Cited by 248 · see citing works
Self-citationTardieu, F., Granier, C., & Muller, B. (1999) · New Phytologist · doi:10.1046/j.1469-8137.1999.00433.x · Cited by 224 · see citing works
Self-citationORYZA 1 : an ecophysiological model for irrigated rice production
Kropff, M. J., van Laar, H. H., & Matthews, R. (1994) · Socio-Environmental Systems Modeling · Cited by 198 · see citing works
Ben-Haj-Salah, H., & Tardieu, F. (1995) · PLANT PHYSIOLOGY · doi:10.1104/pp.109.3.861 · Cited by 195 · see citing works
Self-citationEffects of Xylem pH on Transpiration from Wild-Type and flacca Tomato Leaves1
Wilkinson, S., Corlett, J. E., Oger, L., et al. (1998) · PLANT PHYSIOLOGY · doi:10.1104/pp.117.2.703 · Cited by 187 · see citing works
Quantitative trait loci for lodging resistance in a segregating wheat×spelt population
Keller, M., Karutz, C., Schmid, J. E., et al. (1999) · Theoretical and Applied Genetics · doi:10.1007/s001220051182 · Cited by 179 · see citing works
Several QTLs involved in osmotic-adjustment trait variation in barley (Hordeum vulgare L.)
Teulat, B., This, D., Khairallah, M., et al. (1998) · Theoretical and Applied Genetics · doi:10.1007/s001220050790 · Cited by 176 · see citing works
Salah, H., & Tardieu, F. (1997) · PLANT PHYSIOLOGY · doi:10.1104/pp.114.3.893 · Cited by 155 · see citing works
Self-citationTuberosa, R., Sanguineti, M. C., Landi, P., Salvi, S., Casarini, E., & Conti, S. (1998) · Theoretical and Applied Genetics · doi:10.1007/s001220050951 · Cited by 142 · see citing works
A Fungal Endoglucanase with Plant Cell Wall Extension Activity
Yuan, S., Wu, Y., & Cosgrove, D. J. (2001) · PLANT PHYSIOLOGY · doi:10.1104/pp.127.1.324 · Cited by 129 · see citing works
The role of ecophysiological models in QTL analysis: the example of specific leaf area in barley
Yin, X., Kropff, M. J., & Stam, P. (1999) · Heredity · doi:10.1038/sj.hdy.6885030 · Cited by 118 · see citing works
Yin, X., Stam, P., Dourleijn, C. J., & Kropff, M. J. (1999) · Theoretical and Applied Genetics · doi:10.1007/s001220051230 · Cited by 110 · see citing works
Sanguineti, M. C., Tuberosa, R., Landi, P., Salvi, S., Maccaferri, M., Casarini, E., & Conti, S. (1999) · Journal of Experimental Botany · doi:10.1093/jxb/50.337.1289 · Cited by 109 · see citing works
de Vienne, D., Leonardi, A., Damerval, C., & Zivy, M. (1999) · Journal of Experimental Botany · doi:10.1093/jxb/50.332.303 · Cited by 102 · see citing works
Self-citationQTLs and Epistasis Associated with Vernalization Responses in Oat
Holland, J. B., Moser, H. S., O’Donoughue, L. S., et al. (1997) · Crop Science · doi:10.2135/cropsci1997.0011183x003700040047x · Cited by 100 · see citing works
Interpretation of Genotype × Environment Interactions for Early Maize Hybrids over 12 Years
Signor, C. E.-L., Dousse, S., Lorgeou, J., et al. (2001) · Crop Science · doi:10.2135/cropsci2001.413663x · Cited by 94 · see citing works
A composite map of expressed sequences in maize
Causse, M., Santoni, S., Damerval, C., Maurice, A., Charcosset, A., Deatrick, J., & de Vienne, D. (1996) · Genome · doi:10.1139/g96-053 · Cited by 93 · see citing works
Self-citationMuller, B., Reymond, M., & Tardieu, F. (2001) · Journal of Experimental Botany · doi:10.1093/jexbot/52.359.1259 · Cited by 75 · see citing works
Self-citationBhella, R. S., & MacKenzie, S. L. (1995) · PLANT PHYSIOLOGY · doi:10.1104/pp.108.2.861 · Cited by 30 · see citing works
Similarity of QTLs detected for in vitro and greenhouse development of potato plants
Šimko, I., Vreugdenhil, D., Jung, C. S., & May, G. D. (1999) · Molecular Breeding · doi:10.1023/a:1009686220862 · Cited by 27 · see citing works
Differential expression of XET‐related genes in the leaf elongation zone of F. pratensis
Reidy, B., Nösberger, J., & Fleming, A. J. (2001) · Journal of Experimental Botany · doi:10.1093/jexbot/52.362.1847 · Cited by 18 · see citing works
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Improving drought tolerance in maize: a view from industry
Campos, H., Cooper, M., Habben, J. E., Edmeades, G. O., & Schussler, J. R. (2004) · Field Crops Research · doi:10.1016/j.fcr.2004.07.003 · Cited by 646 · see citing works
Quantitative Trait Loci and Crop Performance under Abiotic Stress: Where Do We Stand?: Table I.
Collins, N. C., Tardieu, F., & Tuberosa, R. (2008) · PLANT PHYSIOLOGY · doi:10.1104/pp.108.118117 · Cited by 559 · see citing works
Self-citationHeslot, N., Akdemir, D., Sorrells, M. E., & Jannink, J.-L. (2014) · Theoretical and Applied Genetics · doi:10.1007/s00122-013-2231-5 · Cited by 409 · see citing works
Models for navigating biological complexity in breeding improved crop plants
Hammer, G., Cooper, M., Tardieu, F., Welch, S., Walsh, B., van Eeuwijk, F., Chapman, S., & Podlich, D. (2006) · Trends in Plant Science · doi:10.1016/j.tplants.2006.10.006 · Cited by 415 · see citing works
Self-citationAdapting APSIM to model the physiology and genetics of complex adaptive traits in field crops
Hammer, G. L., van Oosterom, E., McLean, G., Chapman, S. C., Broad, I., Harland, P., & Muchow, R. C. (2010) · Journal of Experimental Botany · doi:10.1093/jxb/erq095 · Cited by 367 · see citing works
Towards a multiscale crop modelling framework for climate change adaptation assessment
Peng, B., Guan, K., Tang, J., Ainsworth, E. A., Asseng, S., Bernacchi, C. J., Cooper, M., Delucia, E. H., Elliott, J. W., Ewert, F., et al. (2020) · Nature Plants · doi:10.1038/s41477-020-0625-3 · Cited by 322 · see citing works
Integrating Crop Growth Models with Whole Genome Prediction through Approximate Bayesian Computation
Technow, F., Messina, C. D., Totir, L. R., & Cooper, M. (2015) · PLOS ONE · doi:10.1371/journal.pone.0130855 · Cited by 265 · see citing works
“…traits may be realistically modeled based on a relatively simple genetic architecture, and for such traits, QTL explaining a sizable proportion of genetic variance can be mapped and characterized (Reymond et al. [77]; Bogard et al. [78]; Yin et al. [79]; Welcker et al. [80]; Tardieu et al. [81]).”
BackgroundMessina, C. D., Podlich, D., Dong, Z., Samples, M., & Cooper, M. (2011) · Journal of Experimental Botany · doi:10.1093/jxb/erq329 · Cited by 233 · see citing works
Chenu, K., Chapman, S. C., Tardieu, F., McLean, G., Welcker, C., & Hammer, G. L. (2009) · Genetics · doi:10.1534/genetics.109.105429 · Cited by 237 · see citing works
Self-citationvan Eeuwijk, F. A., Bustos-Korts, D., Millet, E. J., Boer, M. P., Kruijer, W., Thompson, A., Malosetti, M., Iwata, H., Quiroz, R., Kuppe, C., et al. (2019) · Plant Science · doi:10.1016/j.plantsci.2018.06.018 · Cited by 217 · see citing works
Self-citationWelcker, C., Boussuge, B., Bencivenni, C., Ribaut, J.-M., & Tardieu, F. (2006) · Journal of Experimental Botany · doi:10.1093/jxb/erl227 · Cited by 174 · see citing works
Self-citationA gene-based model to simulate soybean development and yield responses to environment
Messina, C. D., Jones, J. W., Boote, K. J., & Vallejos, C. E. (2006) · Crop Science · doi:10.2135/cropsci2005.04-0372 · Cited by 145 · see citing works
CHENU, K., CHAPMAN, S. C., HAMMER, G. L., MCLEAN, G., SALAH, H. B. H., & TARDIEU, F. (2008) · Plant, Cell & Environment · doi:10.1111/j.1365-3040.2007.01772.x · Cited by 144 · see citing works
Self-citationQTL analysis and QTL-based prediction of flowering phenology in recombinant inbred lines of barley
Yin, X. (2005) · Journal of Experimental Botany · doi:10.1093/jxb/eri090 · Cited by 139 · see citing works
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Messina, C., Hammer, G., Dong, Z., Podlich, D., & Cooper, M. (2009) · Crop Physiology · doi:10.1016/b978-0-12-374431-9.00010-4 · Cited by 121 · see citing works
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Hammer, G., Messina, C., Wu, A., & Cooper, M. (2019) · in silico Plants · doi:10.1093/insilicoplants/diz010 · Cited by 108 · see citing works
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Cooper, M., Podlich, D. W., & Smith, O. S. (2005) · Australian Journal of Agricultural Research · doi:10.1071/ar05154 · Cited by 104 · see citing works
Post-GWAS: where next? More samples, more SNPs or more biology?
Marjoram, P., Zubair, A., & Nuzhdin, S. V. (2014) · Heredity · doi:10.1038/hdy.2013.52 · Cited by 74 · see citing works
Zhang, F., Lu, X., Lv, Z., Zhang, L., Zhu, M., Jiang, W., Wang, G., Sun, X., & Tang, K. (2013) · PLoS ONE · doi:10.1371/journal.pone.0056697 · Cited by 73 · see citing works
Tardieu, F., Reymond, M., Muller, B., Granier, C., Simonneau, T., Sadok, W., & Welcker, C. (2005) · Australian Journal of Agricultural Research · doi:10.1071/ar05156 · Cited by 71 · see citing works
Self-citationWashburn, J. D., Burch, M. B., & Franco, J. A. V. (2020) · Crop Science · doi:10.1002/csc2.20052 · Cited by 65 · see citing works
- Authors
- Reymond, M., Muller, B., Leonardi, A., Charcosset, A., & Tardieu, F.
- Affiliations
- Institut National de Recherche pour l'Agriculture, l'Alimentation et l'Environnement (FR)
- Station de Génétique Végétale (Institut National de la Recherche Agronomique/Université de Paris-Sud/Institut National Agronomique Paris-Grignon) Ferme du Moulon, 91190 Gif-sur-Yvette, France (A.L., A.C.)
- Institut National de la Recherche Agronomique (FR)
- Laboratoire d'Ecophysiologie des Plantes sous Stress Environnementaux, (Institut National de la Recherche Agronomique-Ecole Nationale Supérieure d'Agronomie de Montpellier) 2, Place Viala, F–34060 Montpellier cedex, France (M.R., B.M., F.T.); and
- Venue
- Plant Physiology
- Publisher
- Oxford University Press (OUP)
- Published
- 2003-02-01
- Volume
- 131
- Issue
- 2
- Pages
- 664-675
- ISSN
- 0032-0889 (ISSN-L)
- 1532-2548
- PMC
- PMC166842
- OpenAlex
- W2148634166
- Cited by
- 428
- References
- 43
- Citations by year
- 2026: 8 · 2025: 6 · 2024: 8 · 2023: 9 · 2022: 12 · 2021: 19 · 2020: 19 · 2019: 15 · 2018: 21 · 2017: 15 · 2016: 28 · 2015: 20 · 2014: 25 · 2013: 21 · 2012: 22
- FWCI
- 9.69
- Type
- journal article
- Language
- en
- Open access
- bronze
- doi.org
- Licence
- academic.oup.com/journals/pages/open_access/funder_policies/chorus/standard_publication_model (vor)
- Locations
- PLANT PHYSIOLOGY (publishedVersion)
- PubMed Central (publishedVersion)
- PubMed (publishedVersion)
- Funders
- Université de Montpellier
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Genetic Mapping and Diversity in Plants and Animals
- Life Sciences › Agricultural and Biological Sciences › Plant Science › Genetics and Plant Breeding
- Life Sciences › Agricultural and Biological Sciences › Agronomy and Crop Science › Crop Yield and Soil Fertility
- Keywords
- maize, leaf elongation rate, quantitative trait loci, ecophysiological model, drought stress, temperature effects, recombinant inbred lines, abscisic acid, xylem sap, soil water status, vapor pressure deficit, QTL mapping, composite interval mapping, genetic variation
- MeSH terms
- Abscisic Acid, Zea mays, Crosses, Genetic, Ecology, Models, Biological, Recombination, Genetic, Soil, Temperature, Genetic Variation, Water, Plant Leaves, Meristem, Quantitative Trait Loci
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