Overview
Background
Professor Mark Cooper is Chair of Prediction Based Crop Improvement at The University of Queensland, and a global leader in quantitative genetics and plant breeding. His work involves integrating genomic prediction and crop growth models into an ‘end to end’ framework for crop improvement.
Professor Cooper has pioneered the development of novel genetic modelling methodologies, based on gene networks, to study important properties of quantitative traits in biology, and demonstrated how this new genetic modelling framework can be successfully used in plant breeding to improve prediction of important traits under the influences of selection. Professor Cooper’s work at DuPont Pioneer on drought adaptation in one of the largest maize breeding programs in the world led to the AQUAmax hybrids that presently cover millions of hectares worldwide.
A quantitative geneticist by training, Professor Cooper spent 20 years working with industry in the United States and as CEO of his own consultancy firm Zenrun42, before returning to UQ to build upon the critical mass of predictive agricultural expertise in QAAFI and the wider university.
Availability
- Professor Mark Cooper is:
- Available for supervision
Qualifications
- Bachelor of Agricultural Science, The University of Queensland
- Doctor of Philosophy of Agriculture, The University of Queensland
- Graduate Certificate in Education, The University of Queensland
Works
Search Professor Mark Cooper’s works on UQ eSpace
2002
Journal Article
The GP problem: quantifying gene-to-phenotype relationships
Cooper, Mark, Chapman, Scott C., Podlich, Dean W. and Hammer, Graeme L. (2002). The GP problem: quantifying gene-to-phenotype relationships. Silico Biology, 2 (2), 151-164. doi: 10.3233/isb-00032
2002
Conference Publication
Simulated influence of drought incidence on conventional and marker-assisted selection in sorghum breeding
Chapman, S. C., Hammer, G. L., Podlich, D. and Cooper, M. (2002). Simulated influence of drought incidence on conventional and marker-assisted selection in sorghum breeding. 12th Australasian Plant Breeding Conference, Perth, Western Australia, 15-20 September, 2002. Perth, W.A.: The Australasian Plant Breeding Association.
2002
Journal Article
Yield response of rice (Oryza sativa L.) genotypes to different types of drought under rainfed lowlands - Part 1. Grain yield and yield components
Pantuwan, G., Fukai, S., Cooper, M., Rajatasereekul, S. and O'Toole, J. C. (2002). Yield response of rice (Oryza sativa L.) genotypes to different types of drought under rainfed lowlands - Part 1. Grain yield and yield components. Field Crops Research, 73 (2-3), 153-168. doi: 10.1016/S0378-4290(01)00187-3
2002
Journal Article
Yield response of rice (Oryza sativa L.) genotypes to different types of drought under rainfed lowlands - Part 3. Plant factors contributing to drought resistance
Pantuwan, G., Fukai, S., Cooper, M., Rajatasereekul, S. and O'Toole, J. C. (2002). Yield response of rice (Oryza sativa L.) genotypes to different types of drought under rainfed lowlands - Part 3. Plant factors contributing to drought resistance. Field Crops Research, 73 (2-3), 181-200. doi: 10.1016/S0378-4290(01)00194-0
2002
Book Chapter
Linking biophysical and genetic models to integrate physiology, molecular biology and plant breeding
Chapman, S.C., Hammer, G. L., Podlich, D. and Cooper, M. (2002). Linking biophysical and genetic models to integrate physiology, molecular biology and plant breeding. Quantitative Genetics, Genomics and Plant Breeding. (pp. 167-187) edited by M.S. Kang. Wallingford, UK: CAB International.
2002
Conference Publication
Comparison of phenotypic, marker and marker-assisted selection strategies in an S1 family recurrent selection strategy
Kruger, N., Cooper, M. and Podlich, D. (2002). Comparison of phenotypic, marker and marker-assisted selection strategies in an S1 family recurrent selection strategy. 12th Australasian Plant Breeding Conference, Perth, Western Australia, 15-20 September, 2002. Perth, W.A.: The Australasian Plant Breeding Assocation.
2002
Journal Article
Identification of research to improve the efficiency of breeding strategies for white clover in Australia - a review
Jahufer, M. Z. Z., Cooper, M., Ayres, J. F. and Bray, R. A. (2002). Identification of research to improve the efficiency of breeding strategies for white clover in Australia - a review. Australian Journal of Agricultural Research, 53 (3), 239-257. doi: 10.1071/AR01110
2002
Conference Publication
Correlated Genetic Advance from Multi-Environment Trials to the Target Population of Environments
Basford, Kaye, DeLacy, I. H. and Cooper, M. (2002). Correlated Genetic Advance from Multi-Environment Trials to the Target Population of Environments. Australasian Genstat Conference 2002, Busselton, Western Australia, 4-6 December 2002.
2002
Conference Publication
Inter-annual changes in genotypic and genotype by environment variance components for different stages of the Northern Wheat Improvement Program
Mathews, K. L., Chapman, S.C., Butler, D., Cooper, M., Delacy, I. H., Sheppard, J. A., Kelly, A. and Sahama, T. R. (2002). Inter-annual changes in genotypic and genotype by environment variance components for different stages of the Northern Wheat Improvement Program. 12th Australasian Plant Breeding Conference, Perth, Western Australia, 15-20 December, 2002. Perth, W.A.: The Australasian Plant Breeding Association.
2002
Journal Article
Using crop simulation to generate genotype by environment interaction effects for sorghum in water-limited environments
Chapman, S. C., Cooper, M. and Hammer, G. L. (2002). Using crop simulation to generate genotype by environment interaction effects for sorghum in water-limited environments. Australian Journal of Agricultural Research, 53 (4), 379-389. doi: 10.1071/AR01070
2002
Book Chapter
Complexity, quantitative traits and plant breeding: a role for simulation modelling in the genetic improvement of crops
Cooper, M., Podlich, D., Micallef, K. P., Smith, O. S., Jensen, N. M., Chapman, S. C. and Kruger, N. L. (2002). Complexity, quantitative traits and plant breeding: a role for simulation modelling in the genetic improvement of crops. Quantitative Genetics, Genomics and Plant Breeding. (pp. 143-166) edited by M. S. Kang. Wallingford, UK: CAB International.
2002
Conference Publication
Field screening for adaptability in drought-prone rainfed lowland rice: ACAIR experience in Thailand and Laos
Fukai, S. and Cooper, M. (2002). Field screening for adaptability in drought-prone rainfed lowland rice: ACAIR experience in Thailand and Laos. Internl Wksp on Field Screening for Drought Tolerance in Rice, Patencheru, India, 11-14 December, 2000. Patancheru, India: International Crops Research Inst for the Semi-Arid Tropics.
2001
Journal Article
A comparison of formal and participatory breeding approaches using selection theory
Atlin, G. N., Cooper, M. and Bjornstad, A. (2001). A comparison of formal and participatory breeding approaches using selection theory. Euphytica, 122 (3), 463-475. doi: 10.1023/A:1017557307800
2001
Journal Article
Erratum: "Genotype-by-management interactions for grain yield and grain protein concentration of wheat" (Field Crops Research (2001) 69 (47-67) PII: S0378429000001313)
Cooper, M., Woodruff, D. R., Philips, I. G., Basford, K. E. and Gilmour, A. R. (2001). Erratum: "Genotype-by-management interactions for grain yield and grain protein concentration of wheat" (Field Crops Research (2001) 69 (47-67) PII: S0378429000001313). Field Crops Research, 70 (1), 87-88. doi: 10.1016/S0378-4290(01)00134-4
2001
Journal Article
Using clusters of computers for large QU-GENE simulation experiments
Micallef, Kevin P., Cooper, Mark and Podlich, Dean W. (2001). Using clusters of computers for large QU-GENE simulation experiments. Bioinformatics, 17 (2), 194-195. doi: 10.1093/bioinformatics/17.2.194
2001
Book Chapter
Using molecular information for decision support in wheat breedings
Eagles, H. A., Cooper, M., Shorter, R. and Fox, P. N. (2001). Using molecular information for decision support in wheat breedings. Plant Genotyping: The DNA Fingerprinting of Plants. (pp. 285-298) edited by R. J. Henry. Wallingford, UK: CABI Publishing.
2001
Conference Publication
Development of drought resistant cultivars for rainfed lowland rice-experience from northeast Thailand and surrounding area
Fukai, S. and Cooper, M. (2001). Development of drought resistant cultivars for rainfed lowland rice-experience from northeast Thailand and surrounding area. The Impact of Agricultural Research for Development in SE Asia, Phnom Penh, Cambodia, 24-26 October 2000. Phnom Penh, Cambodia: Cambodian Agricultural Research & Development Institute.
2001
Journal Article
Some vocabulary and grammar for the analysis of multi-environment trials, as applied to the analysis of FPB and PPB trials
van Eeuwijk, F. A., Cooper, M., DeLacy, I. H., Ceccarelli, S. and Grando, S. (2001). Some vocabulary and grammar for the analysis of multi-environment trials, as applied to the analysis of FPB and PPB trials. Euphytica, 122 (3), 477-490. doi: 10.1023/A:1017591407285
2001
Conference Publication
Influence of seedling time and seedling age at time of transplanting on the productivity of rainfed lowland rice with different level so fphotoperiod sensitivity
Ouk, M., Fukai, S., Cooper, M. and Nesbitt, H.J. (2001). Influence of seedling time and seedling age at time of transplanting on the productivity of rainfed lowland rice with different level so fphotoperiod sensitivity. Increased Lowland Rice Production in the Mekong Region, Vientiane, Laos, 30 October - 2 November, 2000. Canberra, Australia: Australian Centre for International Agricultural Research.
2001
Conference Publication
The effect of population size on QTL detection in recombinant inbred lines
Kruger, N. L., Cooper, M., Podlich, D., Jensen, N. and Basford, K. E. (2001). The effect of population size on QTL detection in recombinant inbred lines. Wheat Breeding Society of Australia Inc. 10th Assembly, Mildura, Victoria, Australia, 16-21 September, 2001. Australia: Wheat Breeding Society of Australia Inc..
Funding
Current funding
Supervision
Availability
- Professor Mark Cooper is:
- Available for supervision
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Supervision history
Current supervision
-
Doctor Philosophy
Phylogenomic and ecophysiological investigations of transferability of adaptation solutions within the Andropogoneae tribe
Principal Advisor
-
Doctor Philosophy
Experimental investigation in Arabidopsis thaliana of realised selection trajectories for complex branching and flowering traits under the control of gene networks following application of genomic prediction methods.
Principal Advisor
Other advisors: Professor Christine Beveridge, Dr Owen Powell
-
Doctor Philosophy
Phylogenomic and ecophysiological investigations of transferability of adaptation solutions within the Andropogoneae tribe
Principal Advisor
-
Doctor Philosophy
Assessment of machine learning methods to discover novel models of gene networks to improve genomic prediction for plant breeding
Principal Advisor
Other advisors: Dr James Lefevre, Dr Owen Powell
-
Doctor Philosophy
Improving molecular and phenotypic predictions through network-based prior knowledge and AI
Associate Advisor
Other advisors: Professor Christine Beveridge
-
Doctor Philosophy
Testing the branching model predictions using mutant perturbations of populations
Associate Advisor
Other advisors: Dr Yang Liu, Professor Christine Beveridge
-
Doctor Philosophy
Predicting Plant Success For Future Generations
Associate Advisor
Other advisors: Dr Owen Powell
-
Doctor Philosophy
Network biology of quantitative traits in sorghum
Associate Advisor
Other advisors: Professor Graeme Hammer, Professor Emma Mace, Dr Colleen Hunt, Dr Sofie Pearson, Professor David Jordan
-
Doctor Philosophy
Unification of selection and inheritance informs adaptive potential for generations to come
Associate Advisor
Other advisors: Associate Professor Katrina McGuigan, Dr Yang Liu
-
Doctor Philosophy
Genomic prediction of lodging in sorghum
Associate Advisor
Other advisors: Professor Emma Mace, Dr Esinam Nancy Amuzu-Aweh, Professor David Jordan, Dr Colleen Hunt
Completed supervision
-
2004
Doctor Philosophy
Investigating quantitative genetic issues for a pedigree plant breeding program using computer simulation
Principal Advisor
Other advisors: Emeritus Professor Kaye Basford
-
2003
Master Agricultural Science
The inheritance of grain yield among Veery wheat lines under Qld environ.conditions.
Principal Advisor
-
2003
Doctor Philosophy
THE CONTRIBUTION OF OSMOTIC ADJUSTMENT TO GRAIN YIELD IN SORGHUM PRODUCTION ENVIRONMENTS
Principal Advisor
Other advisors: Professor Graeme Hammer
-
2022
Doctor Philosophy
Investigating envirotyping methodology to evaluate contributions of stay-green traits to wheat yield in Australian environments
Associate Advisor
Other advisors: Associate Professor Karine Chenu, Professor Ben Hayes, Dr Kai Voss-Fels, Professor Lee Hickey
-
2005
Doctor Philosophy
SIMULATING THE IMPACT OF MARKER-ASSISTED SELECTION IN A WHEAT BREEDING PROGRAM
Associate Advisor
Other advisors: Emeritus Professor Kaye Basford
-
2004
Doctor Philosophy
GENOTYPIC VARIATION IN SOYBEAN FOR STRATEGIES OF DROUGHT STRESS RESPONSE
Associate Advisor
Other advisors: Emeritus Professor Kaye Basford
-
2004
Doctor Philosophy
AN EVALUATION OF MARKER ASSISTED SELECTION (MAS) STRATEGIES FOR GENETIC IMPROVEMENT OF WHEAT
Associate Advisor
Other advisors: Professor Ian Godwin
-
2003
Doctor Philosophy
GENOTYPIC DIFFERENCES IN ADAPTATION TO DROUGHT AND INFERTILE SOILS IN RAINFED LOWLAND RICE IN CAMBODIA
Associate Advisor
Other advisors: Emeritus Professor Shu Fukai
Media
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