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Plant sciences, sustainable farming systems and food quality
RESEARCH ARTICLE

Crop design for specific adaptation in variable dryland production environments

Graeme L. Hammer A F , Greg McLean B , Scott Chapman C , Bangyou Zheng C , Al Doherty B , Matthew T. Harrison D , Erik van Oosterom A and David Jordan E
+ Author Affiliations
- Author Affiliations

A The University of Queensland, Queensland Alliance for Agriculture and Food Innovation, Brisbane, Qld 4072, Australia.

B Department of Agriculture, Forestry, and Fisheries, PO Box 102, Toowoomba, Qld 4350, Australia.

C CSIRO Plant Industry, Queensland Biosciences Precinct, 306 Carmody Road, St Lucia, Qld 4067, Australia.

D Tasmanian Institute of Agriculture, PO Box 3523, Burnie, Tas. 7320, Australia.

E The University of Queensland, Queensland Alliance for Agriculture and Food Innovation, Hermitage Research Station, 604 Yangan Road, Warwick, Qld 4370, Australia.

F Corresponding author. Email: g.hammer@uq.edu.au

Crop and Pasture Science 65(7) 614-626 https://doi.org/10.1071/CP14088
Submitted: 21 March 2014  Accepted: 7 July 2014   Published: 7 August 2014

Abstract

Climatic variability in dryland production environments (E) generates variable yield and crop production risks. Optimal combinations of genotype (G) and management (M) depend strongly on E and thus vary among sites and seasons. Traditional crop improvement seeks broadly adapted genotypes to give best average performance under a standard management regime across the entire production region, with some subsequent manipulation of management regionally in response to average local environmental conditions. This process does not search the full spectrum of potential G × M × E combinations forming the adaptation landscape. Here we examine the potential value (relative to the conventional, broad adaptation approach) of exploiting specific adaptation arising from G × M × E. We present an in-silico analysis for sorghum production in Australia using the APSIM sorghum model. Crop design (G × M) is optimised for subsets of locations within the production region (specific adaptation) and is compared with the optimum G across all environments with locally modified M (broad adaptation). We find that geographic subregions that have frequencies of major environment types substantially different from that for the entire production region show greatest advantage for specific adaptation. Although the specific adaptation approach confers yield and production risk advantages at industry scale, even greater benefits should be achievable with better predictors of environment-type likelihood than that conferred by location alone.

Additional keywords: crop improvement, crop modelling, G × E, genotype by environment interaction, plant breeding, trait simulation.


References

ABARE (2013) ‘Australian Commodities. September Quarter Vol. 3, No. 3.’ (Australian Bureau of Agricultural Resource and Economics: Canberra, ACT)

Alam MM, Hammer GL, van Oosterom EJ, Cruickshank A, Hunt C, Jordan DR (2014) A physiological framework to explain genetic and environmental regulation of tillering in sorghum. New Phytologist 203, 155–167.
A physiological framework to explain genetic and environmental regulation of tillering in sorghum.Crossref | GoogleScholarGoogle Scholar | 1:CAS:528:DC%2BC2cXovFWrsr0%3D&md5=0ac8a891b12c75b9fb12c0e9833952c9CAS | 24665928PubMed |

Borrell AK, Hammer GL, Douglas ACL (2000) Does maintaining green leaf area in sorghum improve yield under drought? I. Leaf growth and senescence. Crop Science 40, 1026–1037.
Does maintaining green leaf area in sorghum improve yield under drought? I. Leaf growth and senescence.Crossref | GoogleScholarGoogle Scholar |

Chapman SC, Cooper M, Hammer GL, Butler DG (2000) Genotype by environment interactions affecting grain sorghum. II. Frequencies of different seasonal patterns of drought stress are related to location effects on hybrid yields. Australian Journal of Agricultural Research 51, 209–221.
Genotype by environment interactions affecting grain sorghum. II. Frequencies of different seasonal patterns of drought stress are related to location effects on hybrid yields.Crossref | GoogleScholarGoogle Scholar |

Chapman S, Cooper M, Podlich D, Hammer G (2003) Evaluating plant breeding strategies by simulating gene action and dryland environment effects. Agronomy Journal 95, 99–113.
Evaluating plant breeding strategies by simulating gene action and dryland environment effects.Crossref | GoogleScholarGoogle Scholar |

Chenu K, Chapman SC, Tardieu F, McLean G, Welcker C, Hammer GL (2009) Simulating the yield impacts of organ-level quantitative trait loci associated with drought response in maize: A ‘gene-to-phenotype’ modeling approach. Genetics 183, 1507–1523.
Simulating the yield impacts of organ-level quantitative trait loci associated with drought response in maize: A ‘gene-to-phenotype’ modeling approach.Crossref | GoogleScholarGoogle Scholar | 19786622PubMed |

Chenu K, Cooper M, Hammer GL, Mathews KL, Dreccer MF, Chapman SC (2011) Environment characterization as an aid to wheat improvement: interpreting genotype-environment interactions by modelling water-deficit patterns in North-Eastern Australia. Journal of Experimental Botany 62, 1743–1755.
Environment characterization as an aid to wheat improvement: interpreting genotype-environment interactions by modelling water-deficit patterns in North-Eastern Australia.Crossref | GoogleScholarGoogle Scholar | 1:CAS:528:DC%2BC3MXjsFyis7w%3D&md5=8282c863a9541a9c8d5865e5ced1e870CAS | 21421705PubMed |

Cooper M, Hammer GL (1996) Synthesis of strategies for crop improvement. In ‘Plant adaptation and crop improvement’. (Eds M Cooper, GL Hammer) pp. 591–623. (CAB International, ICRISAT & IRRI: Wallingford, UK)

Dalgliesh NP, Foale MA (2005) ‘Soil matters: monitoring soil water and nutrients in dryland farming.’ (Agricultural Production Systems Research Unit: Toowoomba, Qld)

deVoil P, Rossing WAH, Hammer GL (2006) Exploring profit-sustainability trade-offs in cropping systems using evolutionary algorithms. Environmental Modelling & Software 21, 1368–1374.
Exploring profit-sustainability trade-offs in cropping systems using evolutionary algorithms.Crossref | GoogleScholarGoogle Scholar |

Duvick DN (2005) The contribution of breeding to yield advances in maize (Zea mays L.). In ‘Advances in agronomy. Vol. 86’. (Ed. DL Sparks) pp. 83–145. (Elsevier: Amsterdam)

Fischer RA (2009) Farming systems of Australia: Exploiting the synergy between genetic improvement and agronomy. In ‘Crop physiology: applications for genetic improvement and agronomy’. pp. 22–54. (Academic Press, Elsevier: Amsterdam)

Gholipoor M, Prasad PVV, Mutava RN, Sinclair TR (2010) Genetic variability of transpiration response to vapour pressure deficit among sorghum genotypes. Field Crops Research 119, 85–90.
Genetic variability of transpiration response to vapour pressure deficit among sorghum genotypes.Crossref | GoogleScholarGoogle Scholar |

Hammer GL (2006) Pathways to prosperity: Breaking the yield barrier in sorghum. (The Journal of the Australian Institute of Agricultural Science and Technology) 19, 16–22.

Hammer GL, Jordan DR (2007) An integrated systems approach to crop improvement. In ‘Scale and complexity in plant systems research: Gene–plant–crop relations’. Wageningen UR: Frontis Series No. 21. (Eds JHJ Spiertz, PC Struik, HH van Laar) pp. 45–61. (Springer: Dordrecht, the Netherlands)

Hammer GL, Carberry PS, Muchow RC (1993) Modelling genotypic and environmental control of leaf area dynamics in grain sorghum. I. Whole plant level. Field Crops Research 33, 293–310.
Modelling genotypic and environmental control of leaf area dynamics in grain sorghum. I. Whole plant level.Crossref | GoogleScholarGoogle Scholar |

Hammer GL, Farquhar GD, Broad IJ (1997) On the extent of genetic variation for transpiration efficiency in sorghum. Australian Journal of Agricultural Research 48, 649–655.
On the extent of genetic variation for transpiration efficiency in sorghum.Crossref | GoogleScholarGoogle Scholar |

Hammer GL, van Oosterom E, McLean G, Chapman SC, Broad I, Harland P, Muchow RC (2010) Adapting APSIM to model the physiology and genetics of complex adaptive traits in field crops. Journal of Experimental Botany 61, 2185–2202.
Adapting APSIM to model the physiology and genetics of complex adaptive traits in field crops.Crossref | GoogleScholarGoogle Scholar | 1:CAS:528:DC%2BC3cXmsVGnsr0%3D&md5=823332f1ed12ec3a74e36afb7d228145CAS | 20400531PubMed |

Harrison M, Tardieu F, Dong Z, Messina CD, Hammer GL (2014) Characterizing drought stress and trait influence on maize yield under current and future conditions. Global Change Biology 20, 867–878.
Characterizing drought stress and trait influence on maize yield under current and future conditions.Crossref | GoogleScholarGoogle Scholar | 24038882PubMed |

Hartigan JA, Wong MA (1979) A K-means clustering algorithm. Applied Statistics 28, 100–108.
A K-means clustering algorithm.Crossref | GoogleScholarGoogle Scholar |

Henzell RG, Jordan D, Tao Y, Hardy A, Franzmann B, Fletcher D, McCosker T, Bunker G (2002) Grain sorghum breeding for resistances to the sorghum midge and drought. In ‘Plant Breeding for the 11th Millennium. Proceedings of the 12th Australasian Plant Breeding Conference’. 15–20 Sept. 2002, Perth, W. Aust.. (Ed. JA McComb) pp. 281–286. (Australasian Plant Breeding Assoc. Inc.)

Jordan DR, Hammer GL, Henzell RG (2006) Breeding for yield in the DPI&F breeding program. In ‘Proceedings of the 5th Australian Sorghum Conference’. 30 Jan.–2 Feb. 2006, Gold Coast, Qld. CD-ROM. (Eds AK Borrell, DR Jordan) (Range Media Pty Ltd: Toowoomba, Qld)

Keating BA, Carberry PS, Hammer GL, Probert ME, Robertson MJ, Holzworth D, Huth NI, Hargreaves JNG, Meinke H, Hochman Z, McLean G, Verburg K, Snow V, Dimes JP, Silburn M, Wang E, Brown S, Bristow KL, Asseng S, Chapman S, McCown RL, Freebairn DM, Smith CJ (2003) An overview of APSIM, a model designed for farming systems simulation. European Journal of Agronomy 18, 267–288.
An overview of APSIM, a model designed for farming systems simulation.Crossref | GoogleScholarGoogle Scholar |

Kim HK, van Oosterom E, Dingkuhn M, Luquet D, Hammer G (2010a) Regulation of tillering in sorghum: Environmental effects. Annals of Botany 106, 57–67.
Regulation of tillering in sorghum: Environmental effects.Crossref | GoogleScholarGoogle Scholar | 20421230PubMed |

Kim HK, Luquet D, van Oosterom E, Dingkuhn M, Hammer G (2010b) Regulation of tillering in sorghum: Genotypic effects. Annals of Botany 106, 69–78.
Regulation of tillering in sorghum: Genotypic effects.Crossref | GoogleScholarGoogle Scholar | 1:CAS:528:DC%2BC3cXotVWjsbs%3D&md5=a4a4904dd107a3c240bfc66eb2acd6b6CAS | 20430784PubMed |

Koenker R (2013) ‘quanteg: Quantile Regression. R Package, Version 5.05.’ (R Foundation for Statistical Computing: Vienna) Available at: http://CRAN.R-project.org/package=quantreg

Lafarge TA, Hammer GL (2002) Tillering in grain sorghum over a wide range of population densities. Modelling dynamics of tiller fertility. Annals of Botany 90, 99–110.
Tillering in grain sorghum over a wide range of population densities. Modelling dynamics of tiller fertility.Crossref | GoogleScholarGoogle Scholar | 1:STN:280:DC%2BD38zotVyhtg%3D%3D&md5=4e625c3af46289feaf55b8b727ea83e2CAS | 12125777PubMed |

Lyon DJ, Hammer GL, McLean GB, Blumenthal JM (2003) Simulation supplements field studies to determine no-till dryland corn population recommendations for semiarid western Nebraska. Agronomy Journal 95, 884–891.
Simulation supplements field studies to determine no-till dryland corn population recommendations for semiarid western Nebraska.Crossref | GoogleScholarGoogle Scholar |

Manschadi AM, Christopher J, deVoil P, Hammer GL (2006) The role of root architectural traits in adaptation of wheat to water-limited environments. Functional Plant Biology 33, 823–837.
The role of root architectural traits in adaptation of wheat to water-limited environments.Crossref | GoogleScholarGoogle Scholar | 1:CAS:528:DC%2BD28XptVClsbY%3D&md5=8d50008cf290d8344daef568cc0f92deCAS |

Messina C, Hammer G, Dong Z, Podlich D, Cooper M (2009) Modelling crop improvement in a G*E*M framework via gene-trait-phenotype relationships. In ‘Crop physiology: applications for genetic improvement and agronomy’. (Eds VO Sadras, D Calderini) pp. 235–265. (Academic Press, Elsevier: Amsterdam)

Messina CD, Podlich D, Dong Z, Samples M, Cooper M (2011) Yield-trait performance landscapes: from theory to application in breeding maize for drought tolerance. Journal of Experimental Botany 62, 855–868.
Yield-trait performance landscapes: from theory to application in breeding maize for drought tolerance.Crossref | GoogleScholarGoogle Scholar | 1:CAS:528:DC%2BC3MXhtVekurs%3D&md5=d56efdbbb118c508c2d6196cc27dc97dCAS | 21041371PubMed |

Muchow RC, Hammer GL, Vanderlip RL (1994) Assessing climatic risk to sorghum production in water-limited subtropical environments. II. Effects of planting date, soil water at planting, and cultivar phenology. Field Crops Research 36, 235–246.
Assessing climatic risk to sorghum production in water-limited subtropical environments. II. Effects of planting date, soil water at planting, and cultivar phenology.Crossref | GoogleScholarGoogle Scholar |

Muchow RC, Cooper M, Hammer GL (1996) Characterising environmental challenges using models. In ‘Plant adaptation and crop improvement’. (Eds M Cooper, GL Hammer) pp. 349–364. (CAB International, ICRISAT & IRRI: Wallingford, UK)

Passioura JB, Angus JF (2010) Improving productivity of crops in water-limited environments. Advances in Agronomy 106, 37–75.
Improving productivity of crops in water-limited environments.Crossref | GoogleScholarGoogle Scholar |

Potgieter AB, Hammer GL, Doherty A, de Voil P (2005) A simple regional-scale model for forecasting sorghum yield across North-Eastern Australia. Agricultural and Forest Meteorology 132, 143–153.
A simple regional-scale model for forecasting sorghum yield across North-Eastern Australia.Crossref | GoogleScholarGoogle Scholar |

R Development Core Team (2008) ‘R: A language and environment for statistical computing.’ (R Foundation for Statistical Computing: Vienna) Available at: www.R-project.org

Ravi Kumar S, Hammer GL, Broad I, Harland P, McLean G (2009) Modelling environmental effects on phenology and canopy development of diverse sorghum genotypes. Field Crops Research 111, 157–165.
Modelling environmental effects on phenology and canopy development of diverse sorghum genotypes.Crossref | GoogleScholarGoogle Scholar |

Sadras VO, Connor DJ (1991) Physiological-basis of the response of harvest index to the fraction of water transpired after anthesis – a simple-model to estimate harvest index for determinate species. Field Crops Research 26, 227–239.
Physiological-basis of the response of harvest index to the fraction of water transpired after anthesis – a simple-model to estimate harvest index for determinate species.Crossref | GoogleScholarGoogle Scholar |

Sinclair TR, Hammer GL, van Oosterom EJ (2005) Potential yield and water-use efficiency benefits in sorghum from limited maximum transpiration rate. Functional Plant Biology 32, 945–952.
Potential yield and water-use efficiency benefits in sorghum from limited maximum transpiration rate.Crossref | GoogleScholarGoogle Scholar |

Singh V, van Oosterom EJ, Jordan DR, Hammer GL (2012) Genetic control of nodal root angle in sorghum and its implications on water extraction. European Journal of Agronomy 42, 3–10.
Genetic control of nodal root angle in sorghum and its implications on water extraction.Crossref | GoogleScholarGoogle Scholar |

Stone RC, Hammer GL, Marcussen T (1996) Prediction of global rainfall probabilities using phases of the Southern Oscillation Index. Nature 384, 252–255.
Prediction of global rainfall probabilities using phases of the Southern Oscillation Index.Crossref | GoogleScholarGoogle Scholar | 1:CAS:528:DyaK28XntFSqsbo%3D&md5=ddff24523a10765658afa1bd0c3d5759CAS |

Tardieu F (2012) Any trait or trait-related allele can confer drought tolerance: just design the right drought scenario. Journal of Experimental Botany 63, 25–31.
Any trait or trait-related allele can confer drought tolerance: just design the right drought scenario.Crossref | GoogleScholarGoogle Scholar | 1:CAS:528:DC%2BC3MXhs1yms73L&md5=2b1e13e95d7cfd94160acf2c622b2d2aCAS | 21963615PubMed |

Turner NC (2004) Agronomic options for improving rainfall-use efficiency of crops in dryland farming systems. Journal of Experimental Botany 55, 2413–2425.
Agronomic options for improving rainfall-use efficiency of crops in dryland farming systems.Crossref | GoogleScholarGoogle Scholar | 1:CAS:528:DC%2BD2cXovVOju7k%3D&md5=c03b3b646671375b58d247d5ecb2c297CAS | 15361527PubMed |

van Oosterom EJ, Borrell AK, Deifel KS, Hammer GL (2011) Does increased leaf appearance rate enhance adaptation to postanthesis drought stress in sorghum? Crop Science 51, 2728–2740.
Does increased leaf appearance rate enhance adaptation to postanthesis drought stress in sorghum?Crossref | GoogleScholarGoogle Scholar |

Whish J, Butler G, Castor M, Cawthray S, Broad I, Carberry P, Hammer G, McLean G, Routley R, Yeates S (2005) Modelling the effects of row configuration on sorghum yield reliability in north-eastern Australia. Australian Journal of Agricultural Research 56, 11–23.
Modelling the effects of row configuration on sorghum yield reliability in north-eastern Australia.Crossref | GoogleScholarGoogle Scholar |