Aquatic Ecodynamics

Publications


PEER REVIEWED PUBLICATIONS


IN PRESS AND FORTHCOMING

Hydro-climatological non-stationarity shifts patterns of nutrient delivery to an estuarine system.
Ruibal Conti, A.L. Summers, R., Weaver D., Hipsey, M.R., 2013. Hydrology & Earth System Science Discussions, 10, 11035-11092. [link]

Assessment of seasonal patterns of distribution of Synechococcus and total picopyhtoplankton along a freshwater-marine continuum (Swan River Estuary, Australia) using flow cytometry.
Gedaria, A.I., and Hipsey, M.R., in review.


2015

Exploring, exploiting and evolving diversity of aquatic ecosystem models: a community perspective.
Janssen, A.G., Arhonditsis, G., Beusen, A., Bolding, K., Bruce, L., Bruggeman, J., Couture, R.-M., Downing, A., Alex Elliott, J., Frassl, M., Gal, G., Gerla, D., Hipsey, M.R., Hu, F., Ives, S., Janse, J., Jeppesen, E., Jöhnk, K., Kneis, D., Kong, X., Kuiper, J., Lehmann, M., Lemmen, C., Özkundakci, D., Petzoldt, T., Rinke, K., Robson, B., Sachse, R., Schep, S., Schmid, M., Scholten, H., Teurlincx, S., Trolle, D., Troost, T., Van Dam, A., Van Gerven, L.A., Weijerman, M., Wells, S. & Mooij, W., 2015. Aquatic Ecology, doi: 10.1007/s10452-015-9544-1

Predicting the resilience and recovery of aquatic systems: A framework for model learning in observatory systems
Hipsey, M.R., Hamilton, D.P., Hanson, P.C., Carey, C.C., Coletti, J.Z., Read, J.S., Ibelings, B.W., Valesini, F. and Brookes, J.D., 2015. Water Resources Research, doi: 10.1002/2015WR017175

A model of the socio-hydrologic dynamics in a semi-arid catchment: Isolating feedbacks in the coupled human-hydrology system.
Elshafei, Y., Sivapalan, M., Coletti, J.Z. and Hipsey, M.R., 2015. Water Resources Research, doi: 10.1002/2015WR017048.

Optimal migration energetics of humpback whales and the implications of disturbance.
Braithwaite, J., Meeuwig, J., Hipsey, M.R., 2015. Conservation Physiology, 3(1): cov001. doi: 10.1093/conphys/cov001

Cyanobacteria sensitivity to environmental factors at a global scale: adopting Bayesian networks to determine probability of blooms occurrence in a changing climate.
Rigosi, A., Hanson, P., Hamilton, D.P., Hipsey, M.R., Rusak, J.A., Bois, J., Sparber, K., Chorus, I., Watkinson, A.J., Qin, B., Brookes, J.D., 2014. Ecological Applications, in press.


2014

Novel approaches to address challenges in modelling aquatic ecosystems.
Gal, G., Hipsey, M.R., Rinke, K. and Robson, B., 2014. Environmental Modelling & Software, , 61: 246-248.

Simulating 2,400 lakes to understand individual and regional responses to climate.
Read, J., Hansen, G, Van Den Hoek, J, Hanson, P., Bruce, L.C., Markfort, C.D., 2014. Ecological Modelling, in press, DOI: 10.1016/j.ecolmodel.2014.07.029

The interplay of physical and physiological processes shape the spatial heterogeneity of a Microcystis bloom in a stratified reservoir.
Chung, S.W., Imberger, J., Hipsey, M.R. and Lee, H.S., 2014. Ecological Modelling, 289: 133-144.

Sediment diagenesis models: model approaches, challenges and opportunities.
Paraska, D. Hipsey, M.R., Salmon, S.U., 2014. Environmental Modelling & Software, 61: 297-325.

Serving many at once: how a database approach can create unity in dynamical ecosystem modelling.
Mooij, W.M., Brederveld, B., DeAngelis, D., Downing, A., Faber, A. Gerla, D. van Gerven, L., Hipsey, M.R., Hoen, J., Janse, J.H., Janssen, A.B.G., Jeuken, M. de Klein, J., Kooi, B., Lischke, B., Postma, L., Petzoldt, T., Schep, S., Thiange, C., Trolle, D., Kuiper, J., 2014. Environmental Modelling & Software, 61: 266-273.

A prototype framework for models of socio-hydrology: identification of key feedback loops and parameterization approach.
Elshafei, Y., Sivapalan, M., Tonts, M., and Hipsey, M.R., 2014. Hydrology & Earth System Sciences, 18: 2141-2166. [link]

Exploring the role of the microbial loop in regulating lake nutrient stoichiometry and phytoplankton dynamics.
Li, Y., Gal, G., Makler-Pick, V., Waite, A.M., Bruce, L. and Hipsey, M.R., 2014. Biogeosciences, 11, 2939-2960. [link]

Comparing ice and temperature simulations by four dynamic lake models in Harp Lake: past performance and future predictions.
Yao, H., N.R. Samal, K.D. Joehnk, X.Fang, L.C. Bruce, D.C. Pierson, J.A. Rusak, A. James. 2014. Hydrological Processes, in press. [link]

Hydrodynamic controls on oxygen dynamics in a riverine salt-wedge estuary, the Yarra River estuary, Australia.
Bruce, L.C., Cook, P.L.M., Teakle, I. and Hipsey, M.R., 2014. Hydrology & Earth System Sciences, 18: 1397 - 1411. [link]

A three-dimensional hydro-geochemical model to assess lake acidification risk.
Hipsey, M.R., Salmon, S.U. and Mosley, L.M., 2014. Environmental Modelling & Software, 61: 433-457. [link]

The nearshore shunt and the decline of the phytoplankton spring bloom in the Laurentian Great Lakes: insights from a three-dimensional lake model.
Bocaniov, S., Smith R.E.H., Spillman, C.M., Hipsey, M.R., and Leon, L.F., 2014. Hydrobiologia, 731: 151-172. [link]


2013

Developing predictive insight into changing water systems: use-inspired hydrologic science for the Anthropocene.
Thompson, S.E., Sivapalan, M., Harman, C.J., Srinivasan, V., Hipsey, M.R., Reed, P., Montanari, A., and Bloschl, G., 2013. Hydrology & Earth System Sciences, 17, 5013-5039. [link]

Sediment-water oxygen and nutrient fluxes in a hypoxic estuary.
Norlem, M., Paraska, D. and Hipsey, M.R., 2013. MODSIM2013 - 20th International Congress on Modelling and Simulation. Modelling and Simulation Society of Australia and New Zealand, December 2013, Adelaide, Australia. [link]

A 3D hydrodynamic-biogeochemical model for assessing artificial oxygenation in a riverine salt-wedge estuary.
Hipsey, M.R., Bruce, L.C. and Kilminster, K., 2013. MODSIM2013 - 20th International Congress on Modelling and Simulation. Modelling and Simulation Society of Australia and New Zealand, December 2013, Adelaide, Australia. [link]

The importance of model structural complexity when simulating aquatic food webs.
Li, Y. and Hipsey, M.R., 2013. MODSIM2013 - 20th International Congress on Modelling and Simulation. Modelling and Simulation Society of Australia and New Zealand, December 2013, Adelaide, Australia. [link]

Wetland vegetation-hydrology co-evolution in response to rainfall variability.
Coletti, J.Z., Vogwill, R. and Hipsey, M.R., 2013. MODSIM2013 - 20th International Congress on Modelling and Simulation. Modelling and Simulation Society of Australia and New Zealand, December 2013, Adelaide, Australia. [link]

Challenges for water-quality research in the new IAHS decade.
Hipsey, M.R. and Arheimer, B., 2013. In: B. Arheimer et al. eds. Understanding freshwater quality problems in a changing world, IAHS Press, Wallingford, UK. IAHS Red Book Publ. 361, 17-29. [link]

Controls on oxygen dynamics in a riverine salt-wedge estuary - a three-dimensional model of the Yarra River estuary, Australia.
Bruce, L.C., Cook, P.L.M., Teakle, I. and Hipsey, M.R., 2013. Hydrology & Earth System Science Discussions, 10, 9799-9845.

'Panta Rhei-Everything Flows': Change in hydrology and society - The IAHS Scientific Decade 2013-2022.
Montanari, A., Young, G., Savenije, H.H.G., Hughes, D., Wagener, T., Ren, L.L., Koutsoyiannis, D., Cudennec, C., Toth, E., Grimaldi, S., Blöschl, G., Sivapalan, M., Beven, K., Gupta, H., Hipsey, M.R., Schaefli, B., Arheimer, B., Boegh, E., Schymanski, S.J., Di Baldassarre, G., Yu, B., Hubert, P., Huang, Y., Schumann, A., Post, D., Srinivasan, V., Harman, C., Thompson, S., Rogger, M., Viglione, A., McMillan, H., Characklis, G., Pang, Z., and Belyaev, V., 2013. Hydrological Sciences Journal. 58 (6), 1256-1275.

Linking eco-energetics and eco-hydrology to select sites for the assisted colonisation of Australia's rarest reptile.
Mitchell, N., Hipsey, M.R., Arnall, S., McGrath, G., Tareque, H., Kuchling, G., Vogwill, R., Sivapalan, M., Porter, W. and Kearney, M.R., 2013. Biology, 2(1): 1-25. [link]

Hydrological controls on carbon metabolism in wetlands.
Coletti, J.Z., Hinz, C., Vogwill, R. and Hipsey, M.R. Ecological Modelling, 249: 3-18.

Pathogen management in surface waters: Practical considerations for reducing public health risk.
Hipsey, M.R. and Brookes, J.D. 2013. In: Rodriguez-Morales, A. (Ed.), Current Topics in Public Health. InTech, Rijeka. [link]

An analysis of the relationship between phytoplankton internal stoichiometry and water column N:P ratios in a dynamic lake environment.
Li, Y., Gal, G., Waite, A.M., and Hipsey, M.R. Ecological Modelling, 252: 196-213.


2012

The impact of extreme low flows on the water quality of the Lower Murray River and Lakes (South Australia).
Mosley, L.M., Corkhill, E., Heneker, T.M., Skinner, D., Aldridge, K.T., and Hipsey, M.R. 2013. Water Resources Management, 26(13): 3923-3946.

Physical circulation and spatial exchange dynamics in a shallow floodplain wetland.
Sharip, Z., Hipsey, M.R., Schooler, S.S., and Hobbs, R.J. 2012. International Journal of Design & Nature and Ecodynamics, 7(3), 274-291.

Nested 3D modelling of the spatial dynamics of nutrients and phytoplankton in a Lake Ontario nearshore zone.
Leon, L.F., Smith, R.E.H., Malkin, S.Y., Depew, D., Hipsey, M.R., Antenucci, J.P., Higgins, S.N., Hecky, R.E., Rao, Y.R.. 2012. Journal of Great Lakes Research. 38(4), 171-183

Blueprint for a unifying framework for synthesis of aquatic ecodynamics.
Hipsey, M.R., Hamilton, D.P., Hanson, P.C., Brookes, J.D., Trolle, D, and Bruce, L.C. 2012. In: R. Seppelt, A.A. Voinov, S. Lange, D. Bankamp (Eds.), 2012 International Congress on Environmental Modelling and Software. International Environmental Modelling and Software Society (iEMSs), June 2012.

Time-scale dependence in numerical simulations: Assessment of physical, chemical, and biological predictions in a stratified lake at temporal scales of hours to months. Environmental Modelling and Software, 35, 104-121. 2012.
Kara, E.L., Hanson, P.C., Hamilton, D.P., Hipsey, M.R., et al.

Eutrophication, agriculture and water level control shift in aquatic plant communities from floating-leaved to submerged macrophytes in Lake Chini, Malaysia. Biological Invasions, 14(5), 1029-1044. 2012.
Sharip, Z., Schooler, S., Hipsey, M.R. and Hobbs, R. [link]

A community-based framework for aquatic ecosystem models.
Trolle, D., Hamilton, D.P., Hipsey, M.R., Bolding, K., Bruggeman, J., Mooij, W. M., et al. 2012. Hydrobiologia, 683(1): 25-34. [link]

The influence of nutrients, phytoplankton, pathogens and organic carbon on water quality: A case study of Myponga Reservoir, South Australia.
van der Linden, L.G., Hipsey, M.R., Burch, M.D. and Brookes, J.D. 2012. In: Bengtsson, L., Herschy, R.W. and Fairbridge, R.W. (Eds.), Encyclopaedia of Lakes and Reservoirs (1st ed). Springer, ISBN: 978-1-4020-4410-6.




2011

Physical controls on the spatial evolution of a dinoflagellate bloom in a large lake.
Ng, S., Antenucci, J.P., Hipsey, M.R., Tibor, G., and Zohary, T., 2011. Limnology and Oceanography, 56(6): 2265-2281

Exploring the role of fish in a lake ecosystem (Lake Kinneret, Israel) by coupling an individual-based fish population model to a dynamic ecosystem model.
Canadian Journal of Fisheries and Aquatic Sciences, 68(7): 1265-1284. 2011. Makler-Pick, V., Gal, G., Shapiro, J., and Hipsey, M.R. [link]

Application of a 3D hydrodynamic-biological model for seasonal and spatial dynamics of water quality and phytoplankton in Lake Erie.
Leon, L.F., Smith, R.E.H., Hipsey, M.R., Bocaniov, S.N, Higgins, S.N., Hecky, R.E., Antenucci, J.P., Guildford, S.J., 2011. Journal of Great Lakes Research, 37(1): 41-53.

Use of water quality models for adaptive monitoring and management of aquatic systems during periods of rapid environmental change.
Mosley, L.M. and Hipsey, M.R., 2011. In: Ortiz, A.C. and Griffin, N.B. (eds), Pollution Monitoring, Nova Science Publishers Inc., USA, pp. 91-114. ISBN: 978-1-61209-397-0.

Coupling of an individual-based model with a complex aquatic ecosystem model to explore the impact of the upper trophic level on lower trophic levels.
Makler-Pick, V., Gal, G. and Hipsey, M.R., in press. Proceedings of the 2011 International Congress on Modelling and Simulation (MODSIM2011), Perth, Australia.

Using a 3D hydrodynamic-biogeochemical model to compare estuarine nitrogen assimilation efficiency under anoxic and oxic conditions.
Bruce, L.C., Cook, P.L.M. and Hipsey, M.R., in press. Proceedings of the 2011 International Congress on Modelling and Simulation (MODSIM2011), Perth, Australia.

Microbial loop processes shape the food web stoichiometry in Lake Kinneret.
Li, Y., Gal, G., Waite, A.M. and Hipsey, M.R., in press. Proceedings of the 2011 International Congress on Modelling and Simulation (MODSIM2011), Perth, Australia.

Identification of the major hydrological threats for two clay pan wetlands in the South West of Australia.
Hanna, J.P., Coletti, J.Z. Hipsey, M.R. and Vogwill, R., in press. Proceedings of the 2011 International Congress on Modelling and Simulation (MODSIM2011), Perth, Australia.

A minimalistic model for carbon cycling in wetlands.
Coletti, J.Z., Hinz, C., Vogwill, R. and Hipsey, M.R., in press. Proceedings of the 2011 International Congress on Modelling and Simulation (MODSIM2011), Perth, Australia.

Development of a 3-D hydro-geochemical model to assess water quality and acidification risk in the Murray Lower Lakes, South Australia.
Hipsey, M.R., Salmon, S.U., Mosley, L.M., Barnett, L. and Frizenschaf, J., in press. Proceedings of the 2011 International Congress on Modelling and Simulation (MODSIM2011), Perth, Australia.

A multi-scale ecohydrological model for assessing floodplain wetland response to altered flow regimes.
Hipsey, M.R., Vogwill, R., Farmer, D. and Busch, B.D., in press. Proceedings of the 2011 International Congress on Modelling and Simulation (MODSIM2011), Perth, Australia.

Comparison of organic matter oxidation approaches in sediment diagenesis models.
Paraska, D., Hipsey, M.R. and Salmon, S.U., in press. Proceedings of the 2011 International Congress on Modelling and Simulation (MODSIM2011), Perth, Australia.

Do phytoplankton nutrient ratios reflect patterns of water column nutrient ratios? A numerical stoichiometric analysis of Lake Kinneret.
Li, Y., Waite, A.M., Gal, G., Hipsey M.R., in press. Procedia Environmental Sciences (ISEM2011), Beijing, China.

Physical circulation and spatial exchange dynamics in a shallow floodplain wetland.
Sharip, Z., Hipsey, M.R., Schooler, S., Hobbs, R.J., 2011. WIT Transactions on Ecology and the Environment, in press.

2010

Mooij, W.M., Trolle, D., Jeppesen, E., Arhonditsis, G., Belolipetsky, P.V., Chitamwebwa, D.B.R., Degermendzhy, A.G., DeAngelis, D.L., De Senerpont Domis, L.N., Downing, A.S., Elliott, A.E., Fragoso Jr, C.R., Gaedke, U., Genova, S.N., Gulati, R.D., Håkanson, L., Hamilton, D.P., Hipsey, M.R., Hoen, J., Hülsmann, S., Los, F.J., Makler-Pick, V., Petzoldt, T., Prokopkin, I.G., Rinke, K., Schep, S.A., Tominaga, K., Van Dam, A.A., Van Nes, E.H., Wells, S.A., Janse, J.H., 2010. Challenges and opportunities for integrating lake ecosystem modelling approaches, Aquatic Ecology, 44: 633-667.

Makler-Pick, V., Gal, G., Gorfine, M., Hipsey, M.R., and Carmel, Y., 2010. Sensitivity analysis for complex ecological models - a new approach. Environmental Modelling and Software, 26(2): 124-134.

Hipsey, M.R., Salmon, S.U., Aldrige, K.T. and Brookes, J.D., 2010. Impact of hydro-climatological change and flow regulation on physical and biogeochemical dynamics of the Lower River Murray, Australia. 8th International Symposium on Ecohydraulics (ISE2010), September, 2010, Korea.

2009

Oldham, C.E., Salmon, S.U., Hipsey, M.R. and Ivey, G.N. 2009. Modelling pit lake water quality: Coupling of lake stratification dynamics, lake ecology, aqueous geochemistry and sediment diagenesis. In: Castendyk, D.N. and Eary, L.E. (eds), Mine Pit Lakes: Characteristics, predictive modeling and sustainability, Society for Mining, Metallurgy and Exploration, Colorado, USA.

Chung, S.W., Hipsey, M.R. and Imberger, J. 2009. Modelling the propagation of turbid density inflows into a stratified lake: Daecheong Reservoir, Korea, Environmental Modelling and Software, 24: 1467-1482.

Gal, G., Hipsey, M.R., Paparov, A., Makler, V. and Zohary, T., 2009. Implementation of ecological modeling as an effective management and investigation tool: Lake Kinneret as a case study. Ecological Modelling, 220: 1697-1718.

<2008 and before

Hipsey, M.R., Antenucci, J.P. and Brookes, J.D,. 2008. A generic, process-based model of microbial pollution in aquatic systems, Water Resources Research, 44, W07408, doi:10.1029/2007WR006395.

Hipsey, M.R., 2006. Numerical investigation into the significance of night-time evaporation from irrigation farm dams across Australia. International Water & Irrigation, 26: 16-19.

Hipsey, M.R., Brookes, J.D., Antenucci, J.P., Regel, R.H. and Burch. M.D., 2006. In situ evidence for the association of total coliforms and Escherichia coli with suspended inorganic particles in an Australian reservoir, Water, Air and Soil Pollution, 170(1-4): 191-209.

Brookes, J.D., Hipsey, M.R., Burch, M.D., Regel, R.H., Linden, L., Ferguson, C.M. and Antenucci, J.P., 2005. Investigation of the relative value of surrogate indicators for detecting pathogens in lakes and reservoirs, Environmental Science and Technology, 39(22): 8614-8621.

Hipsey, M.R., Brookes, J.D., Antenucci, J.P., Burch, M.D. and Regel, R., 2004. A three-dimensional model of Cryptosporidium dynamics in lakes and reservoirs: a new model for risk management. International Journal of River Basin Management, 2(3): 181-197.

Brookes, J.D., Antenucci, J.P., Hipsey, M.R., Burch, M.D. Ashbolt, N. and Fergusson, C., 2004. Pathogen transport, distribution and fate in lakes and reservoirs. Environment International, 30(5): 741-759.

Hipsey, M.R., Sivapalan, M. and Clement, T.P., 2004. A numerical and field investigation of surface heat fluxes from small wind-sheltered waterbodies in semi-arid Western Australia. Environmental Fluid Mechanics, 4: 79-106.

Hipsey, M.R. and Sivapalan, M,. 2003. Parameterizing the effect of a wind-shelter on evaporation from small waterbodies. Water Resources Research 39(12): 1339-1348.

Hipsey, M.R., Sivapalan, M. and Menabde, M., 2003. A risk-based approach to the design of rural water supply catchments across Western Australia. Hydrological Sciences Journal - des Sciences Hydrologiques, 48(5): 709-727.



SELECTED TECHNICAL REPORTS

Hipsey, M.R., Bruce, L.C. 2012. Framework for Aquatic Biogeochemical Models (FABM) – Aquatic Ecodynamics Model Overview. University of Western Australia Technical Report prepared for Sydney Water Corporation, Sydney, Australia. 30pp.

Hipsey, M.R., Busch, B.D. 2012. Lower Lakes water quality recovery dynamics. University of Western Australia Technical Report prepared for South Australian Department of Environment and Natural Resources, Adelaide, Australia. 81pp.

Hipsey, M.R., Busch, B.D., Coletti, J., and Salmon, S.U., 2011. Lower Lakes hydro-geochemical model development and assessment of acidification risks. University of Western Australia Technical Report prepared for South Australian Environmental Protection Authority (EPA). South Australian EPA Publication No. ###, Adelaide.

Hipsey, M.R., Gedaria, A.I., and Paparini, A., 2010. Integration of bio-molecular and nutrient data to explore microbial trophic interactions and nutrient cycling in the Swan River Estuary. Report prepared for Swan River Trust.

Balistrieri, L. Hipsey, M.R. and Morra, M. 2009. Diagenesis in Sediments: Modeling the Mobilization & Fate of Metals. USGS Pacific North-west conference, Oregon, USA.

Hipsey, M.R., Salmon, S.U., Marti, C., Aldridge, K. and Brookes, J.D. 2009. The Lower Murray HydroModel – a 3D model of hydrodynamics, biogeochemistry and water quality from Lock1 to Goolwa. Report prepared for SA Water.

Brookes, J.D., Burch, M.D., Hipsey, M.R., Linden, L., Antenucci, J.P., Steffensen, D., Hobson, P., Thorne, O., Lewis, D., Rinck-Pfeiffer, S., Keading, U. and Ramussen, P., 2008. A practical guide to reservoir management, Water Quality Research Australia Research Report #67, Adelaide, South Australia.

Brookes, J.D., Daly, R., Regel, R.H., Burch, M.D., Ho, L., Newcombe, G., Hoefel, D., Saint, C., Meyne, T., Burford, M., Smith, M., Shaw, G., Guo, P., Lewis, D., and Hipsey, M.R., 2008. Reservoir Management Strategies for Control and Degradation of Algal Toxins. AwwaRF Report 91199. ISBN: 9781843392088, 280pp.

Hipsey, M.R., and Hamilton, D.P. 2008. Computational Aquatic Ecosystem Dynamic Model: CAEDYM v3 Science Manual. Centre for Water Research Report.

Hipsey, M.R. and Salmon, S.U. 2008. Numerical assessment of acid sulfate soil impact on the River Murray Lower Lakes during water level decline. Report prepared for SA Environmental Protection Agency. CWR Reference WP2214, 65 pp.

Hipsey, M.R., Brookes, J.D., Antenucci, J.P., Burch, M., Regel, R.H., Davies, C., Ashbolt, N.J. and Ferguson, C. 2005. Hydrodynamic distribution of pathogens in lakes and reservoirs. AWWA Research Foundation Project 2752 Final Report. CWR Reference WP1486MH, 194 pp.

Hipsey, M.R. 2005. Development of a decision support tool for managing hydrological threats to biodiversity assets. Report prepared for Department of Conservation and Land Management. CWR Reference WP1648.1MH, 65 pp.