Book Chapter
Hammer, Graeme, McLean, Greg, Doherty, Al, van Oosterom, Erik and Chapman, Scott (2016). Sorghum crop modeling and its utility in agronomy and breeding. Sorghum: state of the art and future perspectives. (pp. 1-25) edited by Ignacio Ciampitti and Vara Prasad. Madison, WI United States: American Society of Agronomy and Crop Science Society of America. doi: 10.2134/agronmonogr58.2014.0064
Journal Articles
Washburn, Jacob D., Cimen, Emre, Ramstein, Guillaume, Reeves, Timothy, O'Briant, Patrick, McLean, Greg, Cooper, Mark, Hammer, Graeme and Buckler, Edward S. (2021). Predicting phenotypes from genetic, environment, management, and historical data using CNNs. TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik. doi: 10.1007/s00122-021-03943-7
Yang, Kai-Wei, Chapman, Scott, Carpenter, Neal, Hammer, Graeme, McLean, Greg, Zheng, Bangyou, Chen, Yuhao, Delp, Edward, Masjedi, Ali, Crawford, Melba, Ebert, David, Habib, Ayman, Thompson, Addie, Weil, Clifford and Tuinstra, Mitchell R (2021). Integrating crop growth models with remote sensing for predicting biomass yield of sorghum. In Silico Plants, 3 (1) diab001, 1-19. doi: 10.1093/insilicoplants/diab001
van Oosterom, E. J., Kulathunga, M. R. D. L., Deifel, K. S., McLean, G. B., Barrasso, C., Wu, A., Messina, C. and Hammer, G. L. (2021). Dissecting and modelling the comparative adaptation to water limitation of sorghum and maize: role of transpiration efficiency, transpiration rate and height. In Silico Plants, 3 (1) diaa012, 1-12. doi: 10.1093/insilicoplants/diaa012
Tirfessa, Alemu, McLean, Greg, Mace, Emma, Oosterom, Erik, Jordan, David and Hammer, Graeme (2020). Differences in temperature response of phenological development among diverse Ethiopian sorghum genotypes are linked to racial grouping and agroecological adaptation. Crop Science, 60 (2) csc2.20128, 977-990. doi: 10.1002/csc2.20128
Hammer, Graeme. L., McLean, Greg, van Oosterom, Erik, Chapman, Scott, Zheng, Bangyou, Wu, Alex, Doherty, Alastair and Jordan, David (2020). Designing crops for adaptation to the drought and high-temperature risks anticipated in future climates. Crop Science, 60 (2), 605-621. doi: 10.1002/csc2.20110
Fox, Glen, Nugusu, Yohannes, Nida, Habte, Tedessa, Taye, McLean, Greg and Jordan, David (2020). Evaluation of variation in Ethiopian sorghum injera quality with new imaging techniques. Cereal Chemistry, 97 (2) cche.10252, 362-372. doi: 10.1002/cche.10252
Geetika, Geetika, van Oosterom, Erik J, George-Jaeggli, Barbara, Mortlock, Miranda Y, Deifel, Kurt S, McLean, Greg and Hammer, Graeme L. (2019). Genotypic variation in whole-plant transpiration efficiency in sorghum only partly aligns with variation in stomatal conductance. Functional Plant Biology, 46 (12), 1072-1089. doi: 10.1071/FP18177
Clarke, S.J., McLean, J., George-Jaeggli, B., McLean, G., de Voil, P., Eyre, J.X. and Rodriguez, D. (2019). Understanding the diversity in yield potential and stability among commercial sorghum hybrids can inform crop designs. Field Crops Research, 230, 84-97. doi: 10.1016/j.fcr.2018.10.010
Phelan, David C., Harrison, Matthew T., McLean, Greg, Cox, Howard, Pembleton, Kieth G., Dean, Geoff J., Parsons, David, do Amaral Richter, Maria E., Pengilley, Georgie, Hinton, Sue J. and Mohammed, Caroline L. (2018). Advancing a farmer decision support tool for agronomic decisions on rainfed and irrigated wheat cropping in Tasmania. Agricultural Systems, 167, 113-124. doi: 10.1016/j.agsy.2018.09.003
Chenu, K., van Oosterom, E. J., McLean, G., Deifel, K. S., Fletcher, A., Geetika, G., Tirfessa, A., Mace, E. S., Jordan, D. R., Sulman, R. and Hammer, G. L. (2018). Integrating modelling and phenotyping approaches to identify and screen complex traits : transpiration efficiency in cereals. Journal of Experimental Botany, 69 (13), 3181-3194. doi: 10.1093/jxb/ery059
Soufizadeh, S., Munaro, E., McLean, G., Massignam, A., van Oosterom, E. J., Chapman, S. C., Messina, C., Cooper, M. and Hammer, G. L. (2018). Modelling the nitrogen dynamics of maize crops - enhancing the APSIM maize model. European Journal of Agronomy, 100, 118-131. doi: 10.1016/j.eja.2017.12.007
Singh, Vijaya, Nguyen, Chuc T., McLean, Greg, Chapman, Scott C., Zheng, Bangyou, van Oosterom, Erik J. and Hammer, Graeme L. (2017). Quantifying high temperature risks and their potential effects on sorghum production in Australia. Field Crops Research, 211, 77-88. doi: 10.1016/j.fcr.2017.06.012
Lobell, David B., Hammer, Graeme L., Chenu, Karine, Zheng, Bangyou, McLean, Greg and Chapman, Scott C. (2015). The shifting influence of drought and heat stress for crops in northeast Australia. Global Change Biology, 21 (11), 4115-4127. doi: 10.1111/gcb.13022
Kouadio, Louis, Newlands, Nathaniel, Potgieter, Andries, McLean, Greg and Hill, Harvey (2015). Exploring the potential impacts of climate variability on spring wheat yield with the APSIM decision support tool. Agricultural Sciences, 6 (7), 686-698. doi: 10.4236/as.2015.67066
Sultan, B., Guan, K., Kouressy, M., Biasutti, M., Piani, C., Hammer, G. L., McLean, G. and Lobell, D. B. (2014). Robust features of future climate change impacts on sorghum yields in West Africa. Environmental Research Letters, 9 (10) 104006, 1-13. doi: 10.1088/1748-9326/9/10/104006
Holzworth, Dean P., Huth, Neil I., deVoil, Peter G., Zurcher, Eric J., Herrmann, Neville I., McLean, Greg, Chenu, Karine, van Oosterom, Erik J., Snow, Val, Murphy, Chris, Moore, Andrew D., Brown, Hamish, Whish, Jeremy P. M., Verrall, Shaun, Fainges, Justin, Bell, Lindsay W., Peake, Allan S., Poulton, Perry L., Hochman, Zvi, Thorburn, Peter J., Gaydon, Donald S., Dalgliesh, Neal P., Rodriguez, Daniel, Cox, Howard, Chapman, Scott, Doherty, Alastair, Teixeira, Edmar, Sharp, Joanna, Cichota, Rogerio ... Keating, Brian A. (2014). APSIM - evolution towards a new generation of agricultural systems simulation. Environmental Modelling and Software, 62, 327-350. doi: 10.1016/j.envsoft.2014.07.009
Hammer, Graeme L., McLean, Greg, Chapman, Scott, Zheng, Bangyou, Doherty, Al, Harrison, Matthew T., van Oosterom, Erik and Jordan, David (2014). Crop design for specific adaptation in variable dryland production environments. Crop and Pasture Science, 65 (7), 614-626. doi: 10.1071/CP14088
Lobell, David B., Hammer, Graeme L., McLean, Greg, Messina, Carlos, Roberts, Michael J. and Schlenker, Wolfram (2014). CORRESPONDENCE: Temperature and drought effects on maize yield Reply. Nature Climate Change, 4 (4), 234-234. doi: 10.1038/nclimate2140
Lobell, David B., Hammer, Graeme L., McLean, Greg, Messina, Carlos, Roberts, Michael J. and Schlenker, Wolfram (2013). The critical role of extreme heat for maize production in the United States. Nature Climate Change, 3 (5), 497-501. doi: 10.1038/NCLIMATE1832
Cave, Robyn L., Hammer, Graeme L., McLean, Greg, Birch, Colin J., Erwin, John E. and Johnston, Margaret E. (2013). Modelling temperature, photoperiod and vernalization responses of Brunonia australis (Goodeniaceae) and Calandrinia sp. (Portulacaceae) to predict flowering time. Annals of Botany, 111 (4), 629-639. doi: 10.1093/aob/mct028
Kholova, Jana, McLean, Greg, Vadez, Vincent, Craufurd, Peter and Hammer, Graeme L. (2013). Drought stress characterization of post-rainy season (rabi) sorghum in India. Field Crops Research, 141, 38-46. doi: 10.1016/j.fcr.2012.10.020
Hammer, Graeme L., van Oosterom, Erik, McLean, Greg, Chapman, Scott C., Broad, Ian, Harland, Peter and Muchow, Russell C. (2010). Adapting APSIM to model the physiology and genetics of complex adaptive traits in field crops. Journal of Experimental Botany, 61 (8), 2185-2202. doi: 10.1093/jxb/erq095
Chenu, Karine, Chapman, Scott C., Tardieu, Francois, McLean, Greg, Welcker, Claude and Hammer, Graeme L. (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 (4), 1507-1523. doi: 10.1534/genetics.109.105429
Kumar, S.R., Hammer, G.L., Broad, I., Harland, P. and McLean, G. (2009). Modelling environmental effects on phenology and canopy development of diverse sorghum genotypes. Field Crops Research, 111 (1-2), 157-165. doi: 10.1016/j.fcr.2008.11.010
Hammer, G.L., Dong, Z.S., McLean, G., Doherty, A., Messina, C., Schusler, J., Zinselmeier, C., Paszkiewicz, S. and Cooper, M. (2009). Can changes in canopy and/or root system architecture explain historical maize yield trends in the US corn belt?. Crop Science, 49 (1), 299-312. doi: 10.2135/cropsci2008.03.0152
Birch, C J., Stephen, K, McLean, G., Doherty, A, Hammer, G. L. and Robertson, M.J. (2008). Reliability of production of quick to medium maturity maize in areas of variable rainfall in north-east Australia. Australian Journal of Experimental Agriculture, 48 (3), 326-334. doi: 10.1071/EA06104
Conference Papers
Holzworth, Dean, Huth, N. I., Fainges, J., Herrmann, N. I., Zurcher, E., Brown, H., Snow, V., Verrall, S., Cichota, R., Doherty, A., deVoil, P., McLean, G. and Brider, J. (2020). APSIM next generation: The final frontier?. 21st International Congress on Modelling and Simulation, MODSIM 2015, Broadbeach, QLD, Australia, 29 November - 4 December 2015. Canberra, ACT, Australia: Modelling and Simulation Society of Australia and New Zealand Inc. (MSSANZ).
Potgieter, Andries, Watson, James, Jordan, David, Hammer, Graeme, Chapman, Scott, Laws, Kenneth, McLean, Greg, Barbara George-Jaeggli, Holland, Edward and Eldridge, Mark (2016). Field phenotyping of sorghum breeding plots through proximal sensing. 5th International Controlled Environment Conference (AusPheno 2016), ANU, 18-23 September, 2016.
Hammer, G., Chapman, S., Van Oosterom, E., Borrell, A., McLean, G. and Jordan, D. (2016). Integrating crop physiology and modelling with genetic improvement. International Crop Modelling Symposium, Berlin, Germany, 15-17 March 2016.
van Oosterom, E., Chenu, K., McLean, G., Deifel, K. , Sulman, R. and Hammer, G. (2016). Phenotyping transpiration efficiency: linking trait dissection to genetics. 5th International Controlled Environment Conference (AusPheno 2016), Canberra, Australia, 18-22 September 2016. ICEC.
George-Jaeggli, Barbara, Brider, Jason, Broad, Ian, Chenu, Karine, Eyre, Joseph, Ferrante, Ariel, McLean, Greg, McLean, James, Skerman, Andrew and Rodriguez, Daniel (2015). Adapting rain-fed sorghum agronomy to breeding progress - cropping system model parameterisation. Australian Agronomy Conference, Hobart, TAS, Australia, 21-24 September 2015. Warragul, VIC, Australia: Australian Society of Agronomy.
Ferrante, Ariel, Eyre, Joseph, George-Jaeggli, Barbara, McLean, James, Chenu, Karine, deVoil, Peter, McLean, Greg and Rodriguez, Daniel (2015). High yielding wheat in the northern region: impact of nitrogen fertilisation on grain yield and quality in modern cultivars. Australian Agronomy Conference, Hobart, TAS, Australia, 21-24 September 2015. Warragul, VIC, Australia: Australian Society of Agronomy.
Ferrante, Ariel, Eyre, Joe, George-Jaeggli, Barbara, McLean, James, Chenu, Karine, deVoil, Peter, McLean, Greg and Rodriguez, Daniel (2015). Maize yield determination in the Northern Region: hybrid by environment by management interactions. Australian Agronomy Conference, Hobart, TAS, Australia, 21-24 September 2015. Warragul, VIC, Australia: Australian Society of Agronomy.
Kholova, Jana, Murugesan, Tharanya, Kaliamoorthy, Sivasakthi, Malayee, Srikanth, Baddam, Rekha, Hammer, Graeme L., McLean, Greg, Deshpande, Santosh, Hash, C. Thomas, Craufurd, Peter Q. and Vadez, Vincent (2014). Modelling the effect of plant water use traits on yield and stay-green expression in sorghum. Interdrought IV Conference, Perth, WA Australia, 2–6 September 2013. Clayton, VIC Australia: C S I R O Publishing. doi: 10.1071/FP13355
Borrell, A., Hammer, G., Van Oosterom, E., George-Jaeggli, B., McLean, G., Hamlet, S., Hunt, C., Mace, E., Mullet, J., Klein, P., Weers, B. and Jordan, D. (2013). Improving cereal productivity with stay-green technology.. 2013 QAAFI Annual Research Meeting, Brisbane, Australia, 6-7 August 2013.
Chenu, Karine, Hammer, Graeme, van Oosterom, Erik, Christopher, Jack, McLean, Greg, Doherty, Al and Chapman, Scott (2012). Modelling crop physiology and genetics to simulate Genotype x Management x Environment (GxMxE) interactions. APSIM Users and Developers Forum, Canberra, Australia, 14 March 2012.
Chenu, Karine, Chapman, Scott, Tardieu, Francois, McLean, Greg, Welcker, Claude and Hammer, Graeme L. (2011). Revealing the yield impacts of organ-level quantitative trait loci associated with drought response in maize – a gene-to phenotype modelling approach. XVIII International Botanical Congress, Melbourne, Australia, 23-30 July 2011.
Chenu, K., Christopher, J. T., McLean, G., Payero, J. O. and Hammer, G. L. (2011). New lysimeter platforms to phenotype daily transpiration over the crop cycle in contrasting wheat lines. Wheat Breeding Assembly, Perth, Australia, 24-26 August 2011.
Chenu, K., Chapman, S. C., Tardieu, F., Welcker, C., McLean, G. and Hammer, G. L. (2010). Revealing the yield impacts of organ-level QTL associated with drought response in maize - A gene-to-phenotype modelling approach. DROPS workshop, Montpellier, France, 2-3 September.
Chenu, K., Hammer, G. L., Chapman, S. C., Christopher, J. and McLean, G. (2010). Functional whole-Plant modelling - The missing link between molecular biology and crop improvement?. Mathematical Modeling of Plant Development, Columbus, OH, USA, 27 September - 1 October 2010. Columbus, OH, United States: Mathematical Biosciences Institute, The Ohio State University.
Chapman, Scott, Van Oosterom, Erik, Chenu, Karine, McLean, Greg and Hammer, Graeme (2010). The value of linking genomic knowledge with ecophysiological knowledge using dynamic crop models. ASA, CSSA, and SSSA 2010 Internation Annual Meetings, Long Beach, CA, USA, 31 October - 3 November 2010. Madison, WI, United States: ASA; CSSA; SSSA.
Chapman, S. C., Dreccer, M. F., Chenu, K., Jordan, D., McLean, G., Hammer, G. L., Bourgault, M., Milroy, S., Palta-Paz, J. A., Wockner, K. B. and Zheng, B. (2010). Traits and technologies to design crop breeding systems for climate change. 2010 International Climate Change Adaptation Conference, Gold Coast, Queensland, Australia, 29 June - 1 July 2010. NCCARF/CSIRO.
Chapman, S. C., Wang, J., Chenu, K., McLean, G., Doherty, A., Hansen, N., Dieters, M. and Hammer, G. L. (2009). A simulation platform to study QTL detection and response to selection. 3rd International Conference on Integrated Approaches to Improve Crop Production Under Drought Prone Environments (InterDrought-III), Shanghai, China, 11-16 October 2009.
Chenu, K., Dreccer, F., Hammer, G. L., Lush, D., McLean, G. and Chapman, S. C. (2009). Crop modelling as an aid for environment characterisation and crop improvement. Society for Experimental Biology conference, Glasgow, UK, 6-10 July 2009.
Chapman, S. C., Chenu, K., McLean, G., Hammer, G. L., Dieters, M. and Wang, J. (2009). Simulating breeding systems for climate change. Workshop - Crop production under heat stress: monitoring, impact assessment and adaptation, Tsukuba, Japan, 5 - 9 October 2009.
Chenu, K., Chapman, S. C., Tardieu, F., McLean, G., Welcker, C. and Hammer, G. L. (2009). Revealing the yield impacts of organ-level quantitative trait loci associated with drought response in maize: a gene-to-phenotype modelling approach. 3rd International Conference on Integrated Approaches to Improve Crop Production Under Drought Prone Environments (InterDrought-III), Shanghai, China, 11-16 October 2009.
Chenu, K, Chapman, SC, Tardieu, F, McLean, G, Welcker, C and Hammer, GL (2009). Revealing the yield impacts of organ-level quantitative trait loci associated with drought response in maize-A gene-to-phenotype modelling approach. Annual Meeting of the Society-for-Experimental-Biology, Glasgow Scotland, Jun 28-Jul 01, 2009. NEW YORK: ELSEVIER SCIENCE INC. doi: 10.1016/j.cbpa.2009.04.575
Chenu, K., Chapman, S. C., McLean, G., Lush, D., Hammer, G. L. and Dreccer, F. (2009). Crop modelling as an aid for environmental characterisation and crop improvement. Annual Meeting of the Society for Experimental Biology, Glasgow, Scotland, 28 June-1 July 2009. New York, United States: Elsevier. doi: 10.1016/j.cbpa.2009.04.566
Hammer, Graeme L., Van Oosterom, Erik, McLean, Greg and Chapman, Scott (2009). Designing the sorghum crop model in APSIM to simulate the physiology and genetics of complex adaptive traits. Annual Meeting of the Society-for-Experimental-Biology, Glasgow Scotland, Jun 28-Jul 01, 2009. Philadelphia, United States: Elsevier. doi: 10.1016/j.cbpa.2009.04.550
Chenu, K., Tardieu, F., Chapman, S. C., McLean, G., Welcker, C. and Hammer, G. L. (2009). Quantitative trait loci associated with drought response in maize - a gene-to-phenotype modelling approach. 14th Australasian Plant Breeding Conference (APBC) and the 11th Congress of the Society for the Advancement of Breeding Research in Asia and Oceania (SABRAO), Cairns, Australia, 10-14 August 2009. Bangkok, Thailand: Society for Advancement of Breeding Research in Asia and Oceania.
Chenu, K., Chapman, S. C., Tardieu, F., Welcker, C., McLean, G. and Hammer, G. L. (2008). Model-based trait dissection as an aid to QTL detection and deployment - Illustration for leaf growth under drought in maize. Workshop: Integrating new technologies for rapid genetic advance in plant breeding programs, Brisbane, QLD, Australia, 8-9 October 2008.
Birch, Colin, Stephen, Kirsten, McLean, Greg and Hammer, Graeme (2008). Using modelling and agronomy to improve reliability of corn as a rainfed crop in northern New South Wales and south western Queensland. 14th Australian Society of Agron Conference, Adelaide, South Australia, 21-25 September, 2008.
Chenu, Karine, Tardieu, François, Chapman, Scott, McLean, Greg, Welcker, Claude and Hammer, Graeme (2008). Simulating yield impact of QTL controlling leaf and silk expansion under drought in maize. Global Issues. Paddock Action, Adelaide, South Australia, 21-25 Sep 2008. Gosford, NSW: The Regional Institute Ltd.
McLean, Greg, Hammer, Graeme, Van Oosterom, Erik and Doherty, Alistair (2008). Development of the Generic APSIM Cereal Template to Enhance Functionality of Whole-Plant Modelling. 14th Australian Society of Agronomy Conference, Adelaide South Australia, 21-25 September 2008. Gosford Australia: The Regional Institute.
Birch, C J., McLean, G. and Sawers, A. (2008). Analysis of high yielding maize production - a study based on a commercial crop. Melbourne Australia: CSIRO Publishing. doi: 10.1071/EA06103
Chenu, K., Chapman, S. C., Hammer, G. L., McLean, G. and Tardieu, F. (2007). How do short-term environmental effects on leaf growth rate translate into differences in whole-plant profiles of maize leaf area? Impact of temperature, evaporative demand and soil water status. Agron-Omics, Montpellier, France, 17-18 July 2007.
Birch, C. J., McLean, G. and Sawers, A. (2006). Analysis of high yielding maize production-a study based on a commercial crop. Water to Gold-Proceedings 6th Triennial Conference, Maize Ass. Aust., Griffith, NSW, 21-23 February, 2006. Darlington Point, NSW: Maize Association of Australia.
McLean, Greg and Doherty, Alastair (2004). REMS – a research experiment management system to support the maintenance and development of crop growth and development models. The 4th International Crop Science Congress, Brisbane, QLD, Australia, 26 September – 1 October 2004. Gosford, NSW, Australia: The Regional Institute.