Sorghum Crop Modeling and Its Utility in Agronomy and Breeding

Crop models are simplified mathematical representations of the interacting biological and environmental components of the dynamic soil–plant–environment system. Sorghum crop modeling has evolved in parallel with crop modeling capability in general, since its origins in the 1960s and 1970s. Here we briefly review the trajectory in sorghum crop modeling leading to the development of advanced models. We then (i) overview the structure and function of the sorghum model in the Agricultural Production System sIMulator (APSIM) to exemplify advanced modeling concepts that suit both agronomic and breeding applications, (ii) review an example of use of sorghum modeling in supporting agronomic management decisions, (iii) review an example of the use of sorghum modeling in plant breeding, and (iv) consider implications for future roles of sorghum crop modeling. Modeling and simulation provide an avenue to explore consequences of crop management decision options in situations confronted with risks associated with seasonal climate uncertainties. Here we consider the possibility of manipulating planting configuration and density in sorghum as a means to manipulate the productivity–risk trade-off. A simulation analysis of decision options is presented and avenues for its use with decision-makers discussed. Modeling and simulation also provide opportunities to improve breeding efficiency by either dissecting complex traits to more amenable targets for genetics and breeding, or by trait evaluation via phenotypic prediction in target production regions to help prioritize effort and assess breeding strategies. Here we consider studies on the stay-green trait in sorghum, which confers yield advantage in water-limited situations, to exemplify both aspects. The possible future roles of sorghum modeling in agronomy and breeding are discussed as are opportunities related to their synergistic interaction. The potential to add significant value to the revolution in plant breeding associated with genomic technologies is identified as the new modeling frontier.

[1]  James W. Jones,et al.  Dynamic concepts in biology. , 1969 .

[2]  G. F. Arkin,et al.  A Dynamic Grain Sorghum Growth Model , 1976 .

[3]  G. F. Arkin,et al.  Simulating Accumulation and Distribution of Dry Matter in Grain Sorghum 1 , 1977 .

[4]  J. Monteith Climate and the efficiency of crop production in Britain , 1977 .

[5]  D. Charles-Edwards,et al.  Physiological Determinants of Crop Growth. , 1986 .

[6]  J. Passioura,et al.  Roots and drought resistance , 1983 .

[7]  J. Monteith How do crops manipulate water supply and demand? , 1986, Philosophical Transactions of the Royal Society of London. Series A, Mathematical and Physical Sciences.

[8]  T. Sinclair Water and nitrogen limitations in soybean grain production I. Model development , 1986 .

[9]  J. R. Kiniry,et al.  CERES-Maize: a simulation model of maize growth and development , 1986 .

[10]  H. Keulen,et al.  Simulation of Water Use, Nitrogen Nutrition and Growth of a Spring Wheat Crop , 1987, The Journal of Agricultural Science.

[11]  G. Hammer,et al.  Genotype-by-Environment Interaction in Grain Sorghum. II. Effects of Temperature and Photoperiod on Ontogeny , 1989 .

[12]  Takeshi Horie,et al.  Leaf Nitrogen, Photosynthesis, and Crop Radiation Use Efficiency: A Review , 1989 .

[13]  R. C. Muchow,et al.  Phenology and leaf-area development in a tropical grain sorghum. , 1990 .

[14]  R. C. Muchow,et al.  Development and evaluation of a sorghum model based on CERES-Maize in a semi-arid tropical environment , 1990 .

[15]  R. C. Muchow,et al.  Quantifying climatic risk to sorghum in Australia's semiarid tropics and subtropics: model development and simulation. , 1991 .

[16]  J. Amir,et al.  A model to assess nitrogen limitations on the growth and yield of spring wheat , 1992 .

[17]  D. J. Flower,et al.  Effect of Heat and Drought Stress on Sorghum (Sorghum Bicolor). I. Panicle Development and Leaf Appearance , 1993, Experimental Agriculture.

[18]  Graeme L. Hammer,et al.  Modelling genotypic and environmental control of leaf area dynamics in grain sorghum. I. Whole plant level , 1993 .

[19]  Graeme L. Hammer,et al.  Water extraction by grain sorghum in a sub-humid environment. I. Analysis of the water extraction pattern , 1993 .

[20]  Holger Meinke,et al.  A sunflower simulation model: I. Model development , 1993 .

[21]  Graeme L. Hammer,et al.  Modelling genotypic and environmental control of leaf area dynamics in grain sorghum. II. Individual leaf level , 1993 .

[22]  Graeme L. Hammer,et al.  Assessing climatic risk to sorghum production in water-limited subtropical environments. I.Development and testing of a simulation model , 1994 .

[23]  R. C. Muchow,et al.  Nitrogen Response of Leaf Photosynthesis and Canopy Radiation Use Efficiency in Field-Grown Maize and Sorghum , 1994 .

[24]  R. C. Muchow,et al.  Assessing climatic risk to sorghum production in water-limited subtropical environments II. Effects of planting date, soil water at planting, and cultivar phenology , 1994 .

[25]  Graeme L. Hammer,et al.  APSIM: a novel software system for model development, model testing and simulation in agricultural systems research , 1996 .

[26]  G. L. Hammer,et al.  Synthesis of strategies for crop improvement. , 1996 .

[27]  G. Hammer,et al.  Prediction of global rainfall probabilities using phases of the Southern Oscillation Index , 1996, Nature.

[28]  R. C. Muchow,et al.  Model Analysis of Sorghum Response to Nitrogen in Subtropical and Tropical Environments , 1997 .

[29]  G. Hammer,et al.  On the extent of genetic variation for transpiration efficiency in sorghum , 1997 .

[30]  R. C. Muchow,et al.  Developing guidelines for replanting grain sorghum: II. Improved methods of simulating caryopsis weight and tiller number , 1997 .

[31]  S. Welch,et al.  Developing guidelines for replanting grain sorghum: I. Validation and sensitivity analysis of the SORKAM sorghum growth model , 1997 .

[32]  D. Grindlay REVIEW Towards an explanation of crop nitrogen demand based on the optimization of leaf nitrogen per unit leaf area , 1997, The Journal of Agricultural Science.

[33]  R. Dalal,et al.  APSIM's water and nitrogen modules and simulation of the dynamics of water and nitrogen in fallow systems , 1998 .

[34]  G. Hammer,et al.  Correlation between carbon isotope discrimination and transpiration efficiency in lines of the C-4 species Sorghum bicolor in the glasshouse and the field , 1998 .

[35]  Kaye E. Basford,et al.  Computer simulation of a selection strategy to accommodate genotype environment interactions in a wheat recurrent selection programme , 1999 .

[36]  Graeme L. Hammer,et al.  Modelling plant breeding programs , 1999 .

[37]  R. C. Muchow,et al.  Radiation Use Efficiency , 1999 .

[38]  Graeme L. Hammer,et al.  Genotype by environment interactions affecting grain sorghum. III. Temporal sequences and spatial patterns in the target population of environments , 2000 .

[39]  Holger Meinke,et al.  Using Seasonal Climate Forecasts to Manage Dryland Crops in Northern Australia — Experiences from the 1997/98 Seasons , 2000 .

[40]  Graeme L. Hammer,et al.  Genotype by environment interactions affecting grain sorghum. II. Frequencies of different seasonal patterns of drought stress are related to location effects on hybrid yields. , 2000 .

[41]  Graeme L. Hammer,et al.  Advances in application of climate prediction in agriculture , 2001 .

[42]  G. Hammer,et al.  The economic theory of water and nitrogen dynamics and management in field crops , 2001 .

[43]  P. S. Carberry,et al.  Simulating growth, development, and yield of tillering pearl millet: I. Leaf area profiles on main shoots and tillers , 2001 .

[44]  R. Mccown,et al.  Learning to bridge the gap between science-based decision support and the practice of farming: Evolution in paradigms of model-based research and intervention from design to dialogue , 2001 .

[45]  Graeme L. Hammer,et al.  The GP problem: Quantifying gene-to-phenotype relationships , 2002, Silico Biol..

[46]  M. Robertson,et al.  The FARMSCAPE approach to decision support: farmers', advisers', researchers' monitoring, simulation, communication and performance evaluation , 2002 .

[47]  Graeme L. Hammer,et al.  Future contributions of crop modelling—from heuristics and supporting decision making to understanding genetic regulation and aiding crop improvement , 2002 .

[48]  G. Hammer,et al.  Predicting plant leaf area production:: shoot assimilate accumulation and partitioning, and leaf area ratio, are stable for a wide range of sorghum population densities , 2002 .

[49]  Graeme L. Hammer,et al.  Infusing the use of seasonal climate forecasting into crop management practice in North East Australia using discussion support software , 2002 .

[50]  Holger Meinke,et al.  Development of a generic crop model template in the cropping system model APSIM , 2002 .

[51]  Senthold Asseng,et al.  An overview of APSIM, a model designed for farming systems simulation , 2003 .

[52]  Graeme L. Hammer,et al.  The effect of row configuration on yield reliability in grain sorghum: II. Modelling the effects of row configuration. , 2003 .

[53]  Loïc Pagès,et al.  GRAAL: a model of GRowth, Architecture and carbon ALlocation during the vegetative phase of the whole maize plant: Model description and parameterisation , 2003 .

[54]  Dean Podlich,et al.  Evaluating Plant Breeding Strategies by Simulating Gene Action and Dryland Environment Effects , 2003, Agronomy Journal.

[55]  James W. Jones,et al.  The DSSAT cropping system model , 2003 .

[56]  G. Hammer,et al.  The effect of row configuration on yield reliability in grain sorghum: I. Yield, water use efficiency and soil water extraction , 2003 .

[57]  M. Werger,et al.  Patterns of light and nitrogen distribution in relation to whole canopy carbon gain in C3 and C4 mono- and dicotyledonous species , 1995, Oecologia.

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

[59]  Philippe de Reffye,et al.  Environmental and genetic control of morphogenesis in crops: towards models simulating phenotypic plasticity , 2005 .

[60]  G. Hammer,et al.  Potential yield and water-use efficiency benefits in sorghum from limited maximum transpiration rate. , 2005, Functional plant biology : FPB.

[61]  Graeme L. Hammer,et al.  Trait physiology and crop modelling as a framework to link phenotypic complexity to underlying genetic systems , 2005 .

[62]  Claudio O. Stöckle,et al.  Transpiration-use efficiency of barley , 2005 .

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

[64]  G. Hammer,et al.  Predicting flowering time in sorghum using a simple gene network: functional physiology or fictional functionality? , 2006 .

[65]  B. Stewart,et al.  Growing dryland grain sorghum in clumps to reduce vegetative growth and increase yield , 2006 .

[66]  J. Porter,et al.  Modelling protein content and composition in relation to crop nitrogen dynamics for wheat , 2006 .

[67]  Scott C. Chapman,et al.  Use of crop models to understand genotype by environment interactions for drought in real-world and simulated plant breeding trials , 2008, Euphytica.

[68]  Greg McLean,et al.  Short-term responses of leaf growth rate to water deficit scale up to whole-plant and crop levels: an integrated modelling approach in maize. , 2008, Plant, cell & environment.

[69]  Mark E. Cooper,et al.  Modelling Crop Improvement in a G×E×M Framework via Gene–Trait–Phenotype Relationships , 2009 .

[70]  G. Hammer,et al.  Modelling environmental effects on phenology and canopy development of diverse sorghum genotypes. , 2009 .

[71]  D. Holzworth,et al.  Re-inventing model-based decision support with Australian dryland farmers. 4. Yield Prophet® helps farmers monitor and manage crops in a variable climate. , 2009 .

[72]  M. A. Foale,et al.  Re-inventing model-based decision support with Australian dryland farmers. 2. Pragmatic provision of soil information for paddock-specific simulation and farmer decision making , 2009 .

[73]  Graeme L. Hammer,et al.  Can Changes in Canopy and/or Root System Architecture Explain Historical Maize Yield Trends in the U.S. Corn Belt? , 2009 .

[74]  M. Robertson,et al.  Re-inventing model-based decision support with Australian dryland farmers. 3. Relevance of APSIM to commercial crops. , 2009 .

[75]  T. Sinclair,et al.  Genetic variability of transpiration response to vapor pressure deficit among sorghum genotypes , 2010 .

[76]  G. Hammer,et al.  Regulation of tillering in sorghum: genotypic effects. , 2010, Annals of botany.

[77]  Greg McLean,et al.  Adapting APSIM to model the physiology and genetics of complex adaptive traits in field crops. , 2010, Journal of experimental botany.

[78]  R. Klein,et al.  Skip‐Row and Plant Population Effects on Sorghum Grain Yield , 2010 .

[79]  G. Hammer,et al.  Functional dynamics of the nitrogen balance of sorghum. II. Grain filling period. , 2010 .

[80]  G. Hammer,et al.  Functional dynamics of the nitrogen balance of sorghum: I. N demand of vegetative plant parts , 2010 .

[81]  G. Hammer,et al.  Genetic variability and control of nodal root angle in sorghum , 2011 .

[82]  D. Lobell,et al.  Climate Trends and Global Crop Production Since 1980 , 2011, Science.

[83]  S. Irmak,et al.  Grain sorghum water use with skip-row configuration in the Central Great Plains of the USA , 2011 .

[84]  M. Tester,et al.  Phenomics--technologies to relieve the phenotyping bottleneck. , 2011, Trends in plant science.

[85]  G. Hammer,et al.  Does Increased Leaf Appearance Rate Enhance Adaptation to Postanthesis Drought Stress in Sorghum , 2011 .

[86]  G. Hammer,et al.  QTL for nodal root angle in sorghum (Sorghum bicolor L. Moench) co-locate with QTL for traits associated with drought adaptation , 2011, Theoretical and Applied Genetics.

[87]  C. Messina,et al.  Yield-trait performance landscapes: from theory to application in breeding maize for drought tolerance. , 2011, Journal of experimental botany.

[88]  D. Jordan,et al.  The Relationship Between the Stay‐Green Trait and Grain Yield in Elite Sorghum Hybrids Grown in a Range of Environments , 2012 .

[89]  Karl E. Taylor,et al.  An overview of CMIP5 and the experiment design , 2012 .

[90]  Edward S. Buckler,et al.  Crop genomics: advances and applications , 2011, Nature Reviews Genetics.

[91]  François Tardieu,et al.  Any trait or trait-related allele can confer drought tolerance: just design the right drought scenario. , 2012, Journal of experimental botany.

[92]  Graeme L. Hammer,et al.  Genetic control of nodal root angle in sorghum and its implications on water extraction , 2012 .

[93]  D. Lobell,et al.  The critical role of extreme heat for maize production in the United States , 2013 .

[94]  L. Totir,et al.  Predicting the future of plant breeding: complementing empirical evaluation with genetic prediction , 2014, Crop and Pasture Science.

[95]  C. T. Hash,et al.  Modelling the effect of plant water use traits on yield and stay-green expression in sorghum. , 2014, Functional plant biology : FPB.

[96]  Dean P. Holzworth,et al.  Plant Modelling Framework: Software for building and running crop models on the APSIM platform , 2014, Environ. Model. Softw..

[97]  Chris Murphy,et al.  APSIM - Evolution towards a new generation of agricultural systems simulation , 2014, Environ. Model. Softw..

[98]  QTL analysis in multiple sorghum populations facilitates the dissection of the genetic and physiological control of tillering , 2014, Theoretical and Applied Genetics.

[99]  Graeme L. Hammer,et al.  Crop design for specific adaptation in variable dryland production environments , 2014, Crop and Pasture Science.

[100]  C. Messina,et al.  Breeding drought-tolerant maize hybrids for the US corn-belt: discovery to product. , 2014, Journal of experimental botany.

[101]  G. Hammer,et al.  A physiological framework to explain genetic and environmental regulation of tillering in sorghum. , 2014, The New phytologist.

[102]  Barbara George-Jaeggli,et al.  Stay-green alleles individually enhance grain yield in sorghum under drought by modifying canopy development and water uptake patterns. , 2014, The New phytologist.

[103]  G. Hammer,et al.  Drought adaptation of stay-green sorghum is associated with canopy development, leaf anatomy, root growth, and water uptake , 2014, Journal of experimental botany.

[104]  C. B. Tanner,et al.  Efficient Water Use in Crop Production: Research or Re‐Search? , 2015 .

[105]  D. Lobell,et al.  The shifting influence of drought and heat stress for crops in northeast Australia , 2015, Global change biology.

[106]  Frank Technow,et al.  Integrating Crop Growth Models with Whole Genome Prediction through Approximate Bayesian Computation , 2015, bioRxiv.

[107]  Jeffrey W. White,et al.  An Overview of CERES–Sorghum as Implemented in the Cropping System Model Version 4.5 , 2015 .

[108]  Graeme L. Hammer,et al.  Molecular Breeding for Complex Adaptive Traits: How Integrating Crop Ecophysiology and Modelling Can Enhance Efficiency , 2016 .