Optimization of source-sink dynamics in plant growth for ideotype breeding: A case study on maize

The objective of this work is to illustrate how a mathematical model of plant growth could be possibly used to design ideotypes and thus leads to new breeding strategies based on the guidance from optimization techniques. As a test case, maize (Zea mays L., cv. DEA), which is one of the most widely cultivated cereals all over the world, is selected for this study. The experimental data reported in a previous study are used to estimate parameters of a functional-structural plant growth model, namely, ''GreenLab''. As the corn cob and its leaves and stem can be benefited from economically, a single objective optimization problem (maximization of cob weight) and a multi-objective optimization problem (maximization of cob weight, maximization of leaf and stem weight) are formulated, respectively. The Particle Swarm Optimization approach is applied to solve these two kinds of optimization problems based on the GreenLab model. The optimized variables are specific parameters of the GreenLab model, which are the cob sink strength and the coefficients of the cob sink variation function. The optimization results revealed that to achieve breeding objectives, the optimal trade-offs of source-sink dynamics should be considered. Moreover, the optimization results of the multi-objective optimization problem revealed that the harvest index may not be the evaluation factor for yield improvement. The work described in this paper showed that such optimization approaches relying on plant growth models may help improve breeding strategies and design ideotypes of high-yield maize, especially in the current agricultural context with the increasing importance of co-products when designing cultivation practices.

[1]  F. Tardieu Virtual plants: modelling as a tool for the genomics of tolerance to water deficit. , 2003, Trends in plant science.

[2]  Jonathan P Lynch,et al.  Optimization modeling of plant root architecture for water and phosphorus acquisition. , 2004, Journal of theoretical biology.

[3]  M. Dingkuhn,et al.  Improvement of rice plant type concepts: systems research enables interaction of physiology and breeding , 1993 .

[4]  A. de Gelder,et al.  Toward an optimal control strategy for sweet pepper cultivation : a dynamic crop model , 2006 .

[5]  P. de Reffye,et al.  Parameter optimization and field validation of the functional-structural model GREENLAB for maize at different population densities. , 2007, Annals of botany.

[6]  R. Pearce,et al.  An ideotype of maize , 1975, Euphytica.

[7]  V. Sadras,et al.  Reproductive Allometry in Soybean, Maize and Sunflower , 2000 .

[8]  S. Dencic Designing a Wheat Ideotype with Increased Sink Capacity , 1994 .

[9]  Paul-Henry Cournède,et al.  Parametric identification of a functional-structural tree growth model and application to beech trees (Fagus sylvatica). , 2008, Functional plant biology : FPB.

[10]  Mengzhen Kang,et al.  The derivation of sink functions of wheat organs using the GREENLAB model. , 2007, Annals of botany.

[11]  J R Saunders,et al.  A particle swarm optimizer with passive congregation. , 2004, Bio Systems.

[12]  J. Weiner,et al.  The influence of competition on plant reproduction. , 1988 .

[13]  Lefteris Angelis,et al.  Multiple objective optimization of sampling designs for forest inventories using random search algorithms , 2004 .

[14]  Mengzhen Kang,et al.  Building Virtual Chrysanthemum Based on Sink-Source Relationships: Preliminary Results , 2006 .

[15]  P. de Reffye,et al.  Parameter optimization and field validation of the functional-structural model GREENLAB for maize. , 2006, Annals of botany.

[16]  Ep Heuvelink,et al.  Plant Growth Models , 2008 .

[17]  B. Walsh,et al.  Models for navigating biological complexity in breeding improved crop plants. , 2006, Trends in plant science.

[18]  M. Cannell,et al.  Trees as Crop Plants. , 1987 .

[19]  M. Herndl,et al.  A Model Based Ideotyping Approach for Wheat under Different Environmental Conditions in North China Plain , 2007 .

[20]  J. I. Lizaso,et al.  Quantitative Relationships between Pollen Shed Density and Grain Yield in Maize , 2003 .

[21]  D. Luquet,et al.  EcoMeristem, a model of morphogenesis and competition among sinks in rice. 1. Concept, validation and sensitivity analysis. , 2006, Functional plant biology : FPB.

[22]  G. Wilkerson Plant growth modeling and applications , 2004 .

[23]  María E. Otegui,et al.  Maize Kernel Weight Response to Postflowering Source–Sink Ratio , 2001 .

[24]  Sid Cass,et al.  The intelligent approach , 2007 .

[25]  Jürgen Teich,et al.  Strategies for finding good local guides in multi-objective particle swarm optimization (MOPSO) , 2003, Proceedings of the 2003 IEEE Swarm Intelligence Symposium. SIS'03 (Cat. No.03EX706).

[26]  Yan Guo,et al.  Parameter stability of the functional-structural plant model GREENLAB as affected by variation within populations, among seasons and among growth stages. , 2007, Annals of botany.

[27]  T. Morimoto,et al.  DYNAMIC OPTIMIZATION USING NEURAL NETWORKS AND GENETIC ALGORITHMS FOR TOMATO COOL STORAGE TO MINIMIZE WATER LOSS , 2003 .

[28]  Hong Guo,et al.  Adaptation of the GreenLab Model for Analyzing Sink-Source Relationships in Chinese Pine Saplings , 2006, 2006 Second International Symposium on Plant Growth Modeling and Applications.

[29]  Jari Perttunen,et al.  LIGNUM: a model combining the structure and the functioning of trees , 1998 .

[30]  Per-Olof Gutman,et al.  Optimal CO2 control in a greenhouse modeled with neural networks , 1998 .

[31]  B. Habekotté Options for increasing seed yield of winter oilseed rape (Brassica napus L.): a simulation study , 1997 .

[32]  Mubarik Ali,et al.  Resource allocation tradeoffs in Manila’s peri-urban vegetable production systems: An application of multiple objective programming , 2006 .

[33]  Paul Teng,et al.  Systems approaches for agricultural development , 1993, Systems Approaches for Sustainable Agricultural Development.

[34]  Inria Futurs Simulation and Visualisation of Functional Landscapes:Effects of the Water Resource Competition Between Plants , 2007 .

[35]  Avner Bar-Hen,et al.  Definition of architectural ideotypes for good yield capacity in Coffea canephora. , 2006, Annals of botany.

[36]  D. Barthélémy,et al.  Computing competition for light in the GREENLAB model of plant growth: a contribution to the study of the effects of density on resource acquisition and architectural development. , 2007, Annals of botany.

[37]  Yasushi Hashimoto,et al.  Growth optimization of plant by means of the hybrid system of genetic algorithm and neural network , 1993, Proceedings of 1993 International Conference on Neural Networks (IJCNN-93-Nagoya, Japan).

[38]  Gerard L'E. Turner,et al.  The Government and the English Optical Glass Industry, 1650-1850 , 2000 .

[39]  Winfried Kurth,et al.  Towards universality of growth grammars: models of Bell, Pagès, and Takenaka revisited. , 2000 .

[40]  James Kennedy,et al.  Particle swarm optimization , 2002, Proceedings of ICNN'95 - International Conference on Neural Networks.

[41]  M. Westgate,et al.  Pollen Production, Pollination Dynamics, and Kernel Set in Maize , 2002 .

[42]  Bao-Gang Hu,et al.  Relevant qualitative and quantitative choices for building an efficient dynamic plant growth model : GreenLab case , 2003 .

[43]  Daniel J. Watts,et al.  The development of multi-objective optimization model for excess bagasse utilization: A case study for Thailand , 2008 .

[44]  P. E. Lauri,et al.  Progress in Whole-Tree Architectural Studies for Apple Cultivar Characterization at INRA, France - Contribution to the Ideotype Approach , 2004 .

[45]  A. J. Haverkort,et al.  Decision support systems in potato production - bringing models to practice , 2004 .

[46]  A. J. Haverkort,et al.  IDEOTYPING-POTATO a modelling approach to genotype performance , 2004 .

[47]  F. K. Evert,et al.  Operational optimization of organic fertilizer application in greenhouse crops , 2006 .

[48]  François Houllier,et al.  Fitting a Functional-Structural growth model with plant architectural data , 2003 .

[49]  Donald C. Rasmusson,et al.  An Evaluation of Ideotype Breeding 1 , 1987 .

[50]  D. S. Nagesh,et al.  Modeling and optimization of parameters of flow rate of paddy rice grains through the horizontal rotating cylindrical drum of drum seeder , 2009 .

[51]  Harri Hakula,et al.  Components of functional-structural tree models , 2000 .

[52]  P. de Reffye,et al.  A dynamic, architectural plant model simulating resource-dependent growth. , 2004, Annals of botany.

[53]  C. Donald The breeding of crop ideotypes , 1968, Euphytica.

[54]  Nick Sigrimis,et al.  Computational intelligence in crop production , 2001 .

[55]  Paul-Henry Cournède,et al.  Quantitative genetics and functional-structural plant growth models: simulation of quantitative trait loci detection for model parameters and application to potential yield optimization. , 2007, Annals of botany.

[56]  J. L. Doust,et al.  Plant reproductive ecology: patterns and strategies. , 1989 .

[57]  Sanghamitra Bandyopadhyay,et al.  Multi-Objective Particle Swarm Optimization with time variant inertia and acceleration coefficients , 2007, Inf. Sci..

[58]  Martin J. Kropff,et al.  Crop modeling, QTL mapping, and their complementary role in plant breeding , 2003 .

[59]  H. Challa,et al.  Towards user accepted optimal control of greenhouse climate , 2000 .

[60]  L. Borrás,et al.  Maize Kernel Composition and Post-Flowering Source-Sink Ratio , 2002 .

[61]  J. Teich,et al.  The role of /spl epsi/-dominance in multi objective particle swarm optimization methods , 2003, The 2003 Congress on Evolutionary Computation, 2003. CEC '03..

[62]  Peter Fritzson,et al.  Modeling and Applications , 2004 .

[63]  G. Graef,et al.  Improving Lives: 50 Years of Crop Breeding, Genetics, and Cytology (C‐1) , 2006 .

[64]  Xinyou Yin,et al.  Role of crop physiology in predicting gene-to-phenotype relationships. , 2004, Trends in plant science.

[65]  D. Kumar,et al.  Multicriterion decision making in irrigation planning , 1999 .

[66]  Gurdev S. Khush,et al.  Progress in ideotype breeding to increase rice yield potential , 2008 .

[67]  Paul-Henry Cournède,et al.  A Water Supply Optimization Problem for Plant Growth Based on GreenLab Model , 2005 .

[68]  Paul-Henry Cournède,et al.  Towards a Continuous Approach of Functional-Structural Plant Growth , 2009, 2009 Third International Symposium on Plant Growth Modeling, Simulation, Visualization and Applications.

[69]  M. Westgate,et al.  Control of kernel weight and kernel water relations by post-flowering source-sink ratio in maize. , 2003, Annals of botany.

[70]  E. Heuvelink,et al.  Calibration of fruit cyclic patterns in cucumber plants as a function of source-sink ratio with the GreenLab model , 2007 .

[71]  Mauro Birattari,et al.  Swarm Intelligence , 2012, Lecture Notes in Computer Science.

[72]  P. de Reffye,et al.  Does the structure-function model GREENLAB deal with crop phenotypic plasticity induced by plant spacing? A case study on tomato. , 2007, Annals of botany.

[73]  Jim Hanan,et al.  Virtual sorghum: visualisation of partitioning and morphogenesis. , 2000 .

[74]  Tetsuo Morimoto,et al.  Optimal control of physiological processes of plants in a green plant factory , 1995 .

[75]  Xiaopeng Zhang,et al.  Plant growth modelling and applications: the increasing importance of plant architecture in growth models. , 2007, Annals of botany.