Dr Auzmendi
In my PhD I analysed and modelled biophysical processes (light interception, transpiration and photosynthesis) and their relationships in apple and pear trees during the growing season and at different levels of plant water status. During this time I collaborated in the upgrade of a functional-structural peach model (L-PEACH). Later I focused my research on the effect of carbohydrates on grapevine and berry growth, as well as the effects of light, temperature and VPD on carbon assimilation and transpiration both at leaf and canopy level.
Currently, I am undertaking research on improving management practices in avocado, macadamia and mango. I am focused on studying architecture, vegetative vigour, crop load and light interception using functional-structural plant modelling to understand the interactions between management practices, environmental factors, plant carbon balance and growth.
Journal Article: Studying spatial variability of fruit size within the tree canopy with a functional-structural plant model
Auzmendi, I. and Hanan, J.S. (2023). Studying spatial variability of fruit size within the tree canopy with a functional-structural plant model. Acta Horticulturae (1366), 203-210. doi: 10.17660/actahortic.2023.1366.23
Journal Article: Virtual plants for interpreting the effects of planting density on yield in young macadamia orchards
Auzmendi, I., Wilkie, J.D. and Hanan, J. (2022). Virtual plants for interpreting the effects of planting density on yield in young macadamia orchards. Acta Horticulturae (1346), 547-556. doi: 10.17660/actahortic.2022.1346.69
Journal Article: Investigating tree and fruit growth through functional-structural modelling: implications of carbon autonomy at different scales
Auzmendi, Inigo and Hanan, Jim S. (2020). Investigating tree and fruit growth through functional-structural modelling: implications of carbon autonomy at different scales. Annals of Botany, 126 (4), 775-788. doi: 10.1093/aob/mcaa098
(2021–2025) Queensland Department of Agriculture and Fisheries
(2020–2021) Queensland Department of Agriculture and Fisheries
Understanding fruit tree growth and yield through plant modelling
Doctor Philosophy
Computational modelling approach to understanding shoot architecture including plant branching and flowering.
Doctor Philosophy
Phenotypic and genotypic diversity in macadamia canopy architecture, flowering and yield
(2019) Doctor Philosophy
Understanding fruit tree growth and yield through plant modelling (PhD project)
In collaboration with a multi-disciplinary team, we have developed a plant physiology model to simulate macadamia trees growing in an orchard with different management practices such as planting density, tree shape and size. Building on this macadamia model, new models for macadamia, mango and/or avocado will be developed. The PhD student will acquire a strong background in plant modelling techniques, as well as areas of plant physiology and horticultural management, to explore how modelling can be used to better understand and improve orchard productivity. Established field trials at Bundaberg and Mareeba will provide experimental material for initial analysis of tree architecture and determining the growth relationships to include in the modelling of the trees.
The physiology and modelling to be studied will relate to one of the following key research areas:
A working knowledge of plant modelling (functional-structural plant models or crop models), plant physiology and/or horticulture would be of benefit to someone working on this project.
Simulating fruit tree development and growth (Honours project)
Functional-structural plant models simulate organ development and growth in complex plant canopies. They are employed to improve our understanding of physiological mechanisms and interactions between management practices, environmental factors, plant carbon balance and growth.
This project will use avocado, macadamia or mango data already collected from field trials and/or previous literature to simulate development and growth with different training systems, planting densities and cultivars, and interpret the results of field trials, as well as to generate new hypothesis and experiments.
The project focuses on one of four areas: tree architecture, light interception, vegetative vigour and crop load. Our final aim is to improve management practices, e.g. training, pruning, fruit thinning, limb bending, planting density and tree size that will allow better yields in fruit and nut trees.
The student will gain experience in online tools for remote collaboration, computer simulation and computational modelling using L-systems, as well as in plant physiology.
Using virtual plants to simulate photosynthesis in horticultural plants (Research program)
Plants assimilate the carbon required for maintenance and growth through photosynthesis. Estimating photosynthesis is not straightforward in horticultural plants with a complex canopy structure like avocado, macadamia and mango, because individual leaves within the canopy present different photosynthetic characteristics. Therefore, different approaches to simulate photosynthesis could result into different estimates of carbon assimilation. This project will involve the use of virtual plants to simulate photosynthesis of individual leaves and whole canopy with specific management practices like mechanical hedging or topping, different planting density and tree shape. The results of these simulations will be used to evaluate several biochemical and physiological photosynthesis models under various management conditions. The final goal is to determine on each case the most adequate photosynthesis model, and propose new approaches if necessary.
Scholars may gain skills in online tools for remote collaboration, simulation software, understanding photosynthesis, data analysis, fruit tree management, and computer simulations using virtual plants. Scholars with previous knowledge in programing can learn to develop their own photosynthesis models. Students may be asked to produce a report or oral presentation at the end of their project.
Auzmendi, I. and Hanan, J.S. (2023). Studying spatial variability of fruit size within the tree canopy with a functional-structural plant model. Acta Horticulturae (1366), 203-210. doi: 10.17660/actahortic.2023.1366.23
Virtual plants for interpreting the effects of planting density on yield in young macadamia orchards
Auzmendi, I., Wilkie, J.D. and Hanan, J. (2022). Virtual plants for interpreting the effects of planting density on yield in young macadamia orchards. Acta Horticulturae (1346), 547-556. doi: 10.17660/actahortic.2022.1346.69
Auzmendi, Inigo and Hanan, Jim S. (2020). Investigating tree and fruit growth through functional-structural modelling: implications of carbon autonomy at different scales. Annals of Botany, 126 (4), 775-788. doi: 10.1093/aob/mcaa098
Demonstrative simulations of L-PEACH: a computer-based model to understand how peach trees grow
Lopez, G., Da Silva, D., Auzmendi, I., Favreau, R. R. and DeJong, T. M. (2018). Demonstrative simulations of L-PEACH: a computer-based model to understand how peach trees grow. Acta Horticulturae, 1228 (1228), 13-19. doi: 10.17660/ActaHortic.2018.1228.2
Auzmendi, I. and Hanan, J. S. (2018). Using functional-structural modeling of carbon acquisition and utilization to understand fruit size distribution in tree canopies. Acta Horticulturae, 1228 (1228), 59-65. doi: 10.17660/ActaHortic.2018.1228.8
Auzmendi, I. and Holzapfel, B. P. (2016). Leaf area to fruit weight ratios for maximising grape berry weight, sugar concentration and anthocyanin content during ripening. Acta Horticulturae, 1115 (1115), 127-132. doi: 10.17660/ActaHortic.2016.1115.19
Auzmendi, I., Marsal, J., Girona, J. and Lopez, G. (2013). Daily photosynthetic radiation use efficiency for apple and pear leaves: seasonal changes and estimation of canopy net carbon exchange rate. European Journal of Agronomy, 51, 1-8. doi: 10.1016/j.eja.2013.05.007
Intercepted radiation by apple canopy can be used as a basis for irrigation scheduling
Auzmendi, I., Mata, M., Lopez, G., Girona, J. and Marsal, J. (2011). Intercepted radiation by apple canopy can be used as a basis for irrigation scheduling. Agricultural Water Management, 98 (5), 886-892. doi: 10.1016/j.agwat.2011.01.001
Linking water stress effects on carbon partitioning by introducing a xylem circuit into L-PEACH
Da Silva, David, Favreau, Romeo, Auzmendi, Inigo and DeJong, Theodore M. (2011). Linking water stress effects on carbon partitioning by introducing a xylem circuit into L-PEACH. Annals of Botany, 108 (6), 1135-1145. doi: 10.1093/aob/mcr072
Urarte, Estibaliz, Auzmendi, Inigo, Rol, Selene, Ariz, Idoia, Aparicio-Tejo, Pedro, Arredondo-Peter, Raul and Moran, Jose F. (2008). A self-induction method to produce high quantities of recombinant functional flavo-leghemoglobin reductase. Methods in Enzymology, 436, 411-423. doi: 10.1016/S0076-6879(08)36023-6
Use of recombinant iron-superoxide dismutase as a marker of nitrative stress
Larrainzar, Estibaliz, Urarte, Estibaliz, Auzmendi, Inigo, Ariz, Idoia, Arrese-Igor, Cesar, Gonzalez, Esther M. and Moran, Jose F. (2008). Use of recombinant iron-superoxide dismutase as a marker of nitrative stress. Methods in Enzymology, 437, 605-618. doi: 10.1016/S0076-6879(07)37031-6
Auzmendi, I. and Hanan, J. (2020). Investigating the effects of planting density and tree size on yield through functional-structural modeling. XXX International Horticultural Congress IHC2018: International Symposium on Cultivars, Rootstocks and Management Systems of Deciduous Fruit and Fruit Tree Behaviour in Dynamic Environments, Istanbul, Turkey, 12-16 August 2018. Leuven, Belgium: International Society for Horticultural Science. doi: 10.17660/ActaHortic.2020.1281.69
Auzmendi, Inigo and Hanan, Jim (2019). Using L-studio to visualize data and modify plant architecture for agronomic purposes: visualization and modification of plant architecture with L-studio. 6th International Symposium on Plant Growth Modeling, Simulation, Visualization and Applications (PMA 2018), Hefei, China, 4-8 November 2018. New York, NY, United States: Institute of Electrical and Electronics Engineers (IEEE). doi: 10.1109/PMA.2018.8611586
Toft, B.D., Hanan, J. S., Topp, B., Auzmendi, I. and Wilkie, J.D. (2018). Can greater understanding of macadamia canopy architecture lay the foundation for orchard productivity improvements?. XI International Symposium on Integrating Canopy, Rootstock and Environmental Physiology in Orchard Systems, Geneva, NY United States, 28 August - 2 September 2016. Leuven, Belgium: International Society for Horticultural Science. doi: 10.17660/actahortic.2018.1228.7
Modeling final leaf length as a function of carbon availability during the elongation period
Auzmendi, I. , Hanan, J, Da Silva, D. , Favreau, R. and DeJong, T. M. (2017). Modeling final leaf length as a function of carbon availability during the elongation period. X International Symposium on Modelling in Fruit Research and Orchard Management, Montpellier, France, 2-5 June 2015. Leuven, Belgium: International Society for Horticultural Science. doi: 10.17660/ActaHortic.2017.1160.11
Wang, Ming, Cribb, Bronwen, Auzmendi, Inigo and Hanan, Jim (2015). Spatially explicit individual-based modelling of insect- plant interactions: effects of level of detail in Queensland fruit fly models. International Congress on Modelling and Simulation, Gold Coast, QLD, Australia, 29 November to 4 December 2015. Gold Coast, QLD, Australia: MSSANZ.
(2021–2025) Queensland Department of Agriculture and Fisheries
(2020–2021) Queensland Department of Agriculture and Fisheries
Understanding fruit tree growth and yield through plant modelling
Doctor Philosophy — Principal Advisor
Other advisors:
Computational modelling approach to understanding shoot architecture including plant branching and flowering.
Doctor Philosophy — Associate Advisor
Other advisors:
Phenotypic and genotypic diversity in macadamia canopy architecture, flowering and yield
(2019) Doctor Philosophy — Associate Advisor
Other advisors:
Note for students: The possible research projects listed on this page may not be comprehensive or up to date. Always feel free to contact the staff for more information, and also with your own research ideas.
Understanding fruit tree growth and yield through plant modelling (PhD project)
In collaboration with a multi-disciplinary team, we have developed a plant physiology model to simulate macadamia trees growing in an orchard with different management practices such as planting density, tree shape and size. Building on this macadamia model, new models for macadamia, mango and/or avocado will be developed. The PhD student will acquire a strong background in plant modelling techniques, as well as areas of plant physiology and horticultural management, to explore how modelling can be used to better understand and improve orchard productivity. Established field trials at Bundaberg and Mareeba will provide experimental material for initial analysis of tree architecture and determining the growth relationships to include in the modelling of the trees.
The physiology and modelling to be studied will relate to one of the following key research areas:
A working knowledge of plant modelling (functional-structural plant models or crop models), plant physiology and/or horticulture would be of benefit to someone working on this project.
Simulating fruit tree development and growth (Honours project)
Functional-structural plant models simulate organ development and growth in complex plant canopies. They are employed to improve our understanding of physiological mechanisms and interactions between management practices, environmental factors, plant carbon balance and growth.
This project will use avocado, macadamia or mango data already collected from field trials and/or previous literature to simulate development and growth with different training systems, planting densities and cultivars, and interpret the results of field trials, as well as to generate new hypothesis and experiments.
The project focuses on one of four areas: tree architecture, light interception, vegetative vigour and crop load. Our final aim is to improve management practices, e.g. training, pruning, fruit thinning, limb bending, planting density and tree size that will allow better yields in fruit and nut trees.
The student will gain experience in online tools for remote collaboration, computer simulation and computational modelling using L-systems, as well as in plant physiology.
Using virtual plants to simulate photosynthesis in horticultural plants (Research program)
Plants assimilate the carbon required for maintenance and growth through photosynthesis. Estimating photosynthesis is not straightforward in horticultural plants with a complex canopy structure like avocado, macadamia and mango, because individual leaves within the canopy present different photosynthetic characteristics. Therefore, different approaches to simulate photosynthesis could result into different estimates of carbon assimilation. This project will involve the use of virtual plants to simulate photosynthesis of individual leaves and whole canopy with specific management practices like mechanical hedging or topping, different planting density and tree shape. The results of these simulations will be used to evaluate several biochemical and physiological photosynthesis models under various management conditions. The final goal is to determine on each case the most adequate photosynthesis model, and propose new approaches if necessary.
Scholars may gain skills in online tools for remote collaboration, simulation software, understanding photosynthesis, data analysis, fruit tree management, and computer simulations using virtual plants. Scholars with previous knowledge in programing can learn to develop their own photosynthesis models. Students may be asked to produce a report or oral presentation at the end of their project.
Modelling fruit tree architecture and physiology (Research program)
Mathematical modelling of plant architecture can offer insights into the underlying biology, with the eventual outcome of increased yields in Queensland agriculture. In complex plant canopies like fruit and nut trees, simulation of plant architecture at the scale of internodes, leaves and fruit can help to understand aspects of organ growth and development. These models can subsequently be used to study interactions between management practices, environmental factors, plant carbon balance and growth. This project will use data already collected in avocado, macadamia or mango for modelling an aspect of orchard management of interest to the student, such as different training systems, planting densities and cultivars.
Scholars may gain skills in tools for remote collaboration, L-systems, computational modelling and simulations, as well as plant physiology. Students may be asked to produce a report or oral presentation at the end of their project.