Further reading

 

Peer-reviewed eReefs modelling studies.

2020

Baird, M. E., M. Mongin, J, Skerratt, N. Margvelashvili, S. Tickell, A. D. L. Steven, C. Robillot, R. Ellis, D. Waters, P. Kaniewska, J. Brodie (submitted 15th Oct 2020) Impact of catchment loads of nutrients and sediments on marine water quality on the Great Barrier Reef: An application of the eReefs marine modelling system. Mar. Poll. Bull.

Baird, M.E., M. Mongin, F. Rizwi, L. Bay, N. Cantin, L. Morris (submitted 11 Sep 2020) The effect of natural and anthropogenic nutrient and sediment loads on coral oxidative stress on runoff-exposed reefs. Marine Pollution Bulletin.

Baird ME, Green R, Lowe R, Mongin M, Bougeot E (2020) Optimising cool-water injections
to reduce thermal stress on coral reefs of the Great Barrier Reef. PLoS ONE 15(10): e0239978. https://
doi.org/10.1371/journal.pone.0239978.

Baird, M. E., K. Wild-Allen, J. Parslow, M. Mongin, B. Robson, J. Skerratt, F. Rizwi, M. Soja-Woźniak, E. Jones, M. Herzfeld, N. Margvelashvili, J. Andrewartha, C. Langlais, M. Adams, N. Cherukuru, S. Hadley, P. Ralph, T. Schroeder, A. Steven, U. Rosebrock, L. Laiolo, M. Gustafsson, and D. Harrison (2020). CSIRO Environmental Modelling Suite (EMS): Scientific description of the optical and biogeochemical models (vB3p0). Geoscientific Model Development.13:4503-4553.

Frade, P.R., Glasl, B., Matthews, S.A. et al. Spatial patterns of microbial communities across surface waters of the Great Barrier Reef. Commun Biol 3, 442 (2020). https://doi.org/10.1038/s42003-020-01166-y.

Khan, U., F. J. Cook, R. Laugesen, M. M. Hasan, K. Plastow, G. E. Amirthanathan, M. A. Bari, N. K. Tuteja (2020) Development of catchment water quality models within nowcasting system for the Great Barrier Reef. Env. Mod. Soft., 132, 104790.

Smith, J. N, M. Mongin, A. Thompson, M. J. Jonker G. De’ath, K. E. Fabricius (2020) Shifts in coralline algae, macroalgae, and coral juveniles in the Great Barrier Reef associated with present‐day ocean acidificationGlob Change Biol. 262149– 2160https://doi.org/10.1111/gcb.14985

Robson, B., J. Skerratt, M. Baird, C. Davies, M. Herzfeld, E. Jones, M. Mongin, A. Richardson, F. Rizwi, K. Wild-Allen, A. D.L. Steven (2020) Enhanced assessment of the eReefs biogeochemical model for the Great Barrier Reef using the Concept/State/Process/System model evaluation framework. Environ. Mod. Soft. 129:104707.

2019

Anthony KRN, Condie S, Bozec Y-M, Harrison D, Gibbs M, Baird M, Mumby PJ, Mead D (2019) Reef Restoration and Adaptation Program: Modelling Methods and Findings. A report provided to the Australian Government by the Reef Restoration and Adaptation Program (112 pp).

Baird M, Mongin M, Bouget E (2019) Reef Restoration and Adaptation Program: Ultra-Thin Surface Films. A report provided to the Australian Government by the Reef Restoration and Adaptation Program (23 pp).

Baird ME, Green R, Lowe R (2019) Reef Restoration and Adaptation Program: Cool Water Injection. A report provided to the Australian Government by the Reef Restoration and Adaptation Program (15 pp).

Baird, M. E., Margvelashvili, N and Cantin, N (2019) Historical context and causes of water quality decline in the Whitsunday region. CSIRO Report to Department of Environment and Energy.

Brinkman, R., Baird, M., Boswood, P., Fearns, P., Gruber, R., Holmes, M., Honchin, C., Johnson, R., Lewis, S., Lonborg, C., Mueller, J., Robillot, C., Schroeder, T., Steinberg, C., and Treleaven, J. 2019, Monitoring the marine physical and chemical environment within the Reef 2050 Integrated Monitoring and Reporting Program: Final Report of the Marine Physical and Chemical Environment Expert Group, Great Barrier Reef Marine Park Authority, Townsville.

Harrison DP, Baird M, Harrison L, Utembe S, Schofield R, Escobar Correa R, Mongin M, Rizwi F (2019) Reef Restoration and Adaptation Program: Environmental Modelling of Large Scale Solar Radiation Management. A report provided to the Australian Government by the Reef Restoration and Adaptation Program (83pp).

Herzfeld, M, F. Rizwi (2019) A two-way nesting framework for ocean models,
Environmental Modelling & Software, 117, 200-213. https://doi.org/10.1016/j.envsoft.2019.03.015.

Hock, K., Doropoulos, C., Gorton, R., Condie, S.A., Mumby, P.J. (2019) Split spawning increases robustness of coral larval supply and inter-reef connectivity Nature Communications, 10 (1), 3463.

Robillot, C., Logan, M., Baird, M., Waterhouse J., Martin, K. and Schaffelke, B. (2018) Testing and implementation of an improved water quality index for the 2016 and 2017 Great Barrier Reef Report Cards – Detailed technical report. Report to the National Environmental Science Program. Reef and Rainforest Research Centre Limited, Cairns (150pp.).

Skerratt J.H., M. Mongin, K. A. Wild-Allen, M. E. Baird, B. J. Robson, B. Schaffelke, M. Soja-Wozniak, N Margvelashvili, C. H. Davies, A. J. Richardson, A. D. L. Steven (2019) Simulated nutrient and plankton dynamics in the Great Barrier Reef (2011-2016). J. Mar. Sys. 192, 51-74.

Soja-Wozniak, M., M. Baird, T. Schroeder, Y. Qin, L. Clementson, B. Baker, D. Boadle, V. Brando, A. Steven (2019). Particulate backscattering ratio as an indicator of changing particle composition in coastal waters: Observations from Great Barrier Reef waters. Journal of Geophysical Research: Oceans, 124. https://doi.org/10.1029/2019JC014998.

Steven., A. D. L., M. E. Baird, R. Brinkman, N. J. Car, S. J. Cox, M. Herzfeld, J. Hodge, E. Jones, E. King, N. Margvelashvili, C. Robillot, B. Robson, T. Schroeder, J. Skerratt, N. Tuteja, K. Wild-Allen, J. Yu. eReefs: An operational information system for managing the Great Barrier Reef J. Operational Oceanogr. DOI: 10.1080/1755876X.2019.1650589.

Tickell, Sharon; Dowideit, Sven; Wild, Dan; Kenna, Erin; Steven, Andy; Baird, Mark; Schroeder, Thomas; Rizwi, Farhan; Mongin, Mathieu; Blondeau-Patissier, David; King, Edward. eReefs Infrastructure 2019: Capacity to facilitate user access and scale-up of services. Brisbane, Australia: CSIRO; 2019. https://doi.org/10.25919/5eea68383d375.

Xiao, Y. , X. H Wang, E. A. Ritchie, F. Rizwi, L. Qiao 2019. The development and evolution of the Burdekin River estuary freshwater plume during Cyclone Debbie (2017) Estuarine, Coastal and Shelf Science, 224, 187-196, https://doi.org/10.1016/j.ecss.2019.04.037.

2018

Baird, M. E., M. Mongin, F. Rizwi, L. K. Bay, N. E. Cantin, M. Soja-Wozniak and J. Skerratt (2018) A mechanistic model of coral bleaching due to temperature-mediated light-driven reactive oxygen build-up in zooxanthellae. Ecol. Model 386: 20-37.

S.A. Condie, M. Herzfeld, K. Hock, J.R. Andrewartha, R. Gorton, R. Brinkman, M. Schultz (2018)
System level indicators of changing marine connectivity,
Ecological Indicators, 91, 531-541.
https://doi.org/10.1016/j.ecolind.2018.04.036.

Margvelashvili, N. M., J. Andrewartha, M. Baird, M. Herzfeld, E Jones, M. Mongin, F. Rizwi, B. Robson, J. Skerratt, K. Wild-Allen and A. Steven (2018) Simulated fate of catchment-derived sediment on the Great Barrier Reef shelf. Mar. Poll. Bull. 135: 954-962.

Robson, B.J., Arhonditsis, G.B., Baird, M.E., Brebion, J., Edwards, K.F., Geoffroy, L., Hébert, M.P., van Dongen-Vogels, V., Jones, E.M., Kruk, C. and Mongin, M., 2018. Towards evidence-based parameter values and priors for aquatic ecosystem modelling. Environmental Modelling & Software100, pp.74-81.

Wolff, N. H., E. Teixeira da Silva, M. Devlin, K. R.N. Anthony, S. Lewis, H. Tonin, R. Brinkman, P. J. Mumby (2018) Contribution of individual rivers to Great Barrier Reef nitrogen exposure with implications for management prioritization, Marine Pollution Bulletin, 133, 30-43. https://doi.org/10.1016/j.marpolbul.2018.04.069.

2017

Baird, M. E., J. Andrewartha, M. Herzfeld, E. Jones, N. Margvelashvili, M. Mongin, F. Rizwi, J. Skerratt, M. Soja-Wozniak, K. Wild-Allen, T. Schroeder, B. Robson, E. da Silva, M. Devlin (2017) River plumes of the Great Barrier Reef: freshwater, sediment and optical footprints quantified by the eReefs modelling system. In Syme, G., Hatton MacDonald, D., Fulton, B. and Piantadosi, J. (eds) MODSIM2017, 22nd International Congress on Modelling and Simulation. Modelling and Simulation Society of Australia and New Zealand, December 2017, pp.1892-1898. ISBN: 978-0-9872143-7-9. https://www.mssanz.org.au/modsim2017/L22/baird.pdf.

Brodie, J., Baird, M., Waterhouse, J., Warne, M., Skerratt, J., Smith, R., Mann, R., Robillot, C. and Mongin, M., 2017. Development of basin-specific ecologically relevant water quality targets for the Great Barrier Reef. Australian Centre for Tropical Water and Aquatic Ecosystem Research.

Brodie, J., Baird, M., Waterhouse, J., Mongin, M., Skerratt, J., Robillot, C., Smith, R., Mann, R., Warne, M., 2017. Development of basin-specific ecologically relevant water quality targets for the Great Barrier Reef. TropWATER Report No. 17/38, James Cook University, Published by the State of Queensland, Brisbane, Australia. 68 pp.

Robson, B.J., Andrewartha, J., Baird, M.E., Herzfeld, M., Jones, E.M., Margvelashvili, N., Mongin, M., Rizwi, F., Skerratt, J. and Wild-Allen, K., 2017. Evaluating the eReefs Great Barrier Reef marine model against observed emergent properties. In MODSIM2017, 22nd International Congress on Modelling and Simulation (pp. 1976-1982). Modelling and Simulation Society of Australia and New Zealand.

2016

Albright, R., Anthony, K.R., Baird, M., Beeden, R., Byrne, M., Collier, C., Dove, S., Fabricius, K., Hoegh-Guldberg, O., Kelly, R.P. and Lough, J., 2016. Ocean acidification: Linking science to management solutions using the Great Barrier Reef as a case study. Journal of environmental management182, pp.641-650.

BAIRD, M. E., ADAMS, M. P., BABCOCK, R. C., OUBELKHEIR, K., MONGIN, M., WILD-ALLEN, K. A., SKERRATT, J., ROBSON, B., PETROU, K., RALPH, P. J., O’BRIEN, K. R., CARTER, A. B., JARVIS, J. C. & RASHEED, M. A. 2016 A physical representation of seagrass growth for application in a complex shallow-water biogeochemical model Ecological Modelling. 325, 13-27.

BAIRD, M. E., CHERUKURU, N., JONES, E. M., MARGVELASHVILI, N., MONGIN, M., OUBELKHEIR, K., RALPH, P. J., RIZWI, F., ROBSON, B., SCHROEDER, T., SKERRATT, J., STEVEN, A. D. L. & WILD-ALLEN, K. A. 2016. Remote-sensing reflectance and true colour produced by a coupled hydrodynamic, optical, sediment, biogeochemical model of the Great Barrier Reef, Australia: comparison with remotely-sensed data Environmental Modelling and Software 78, 79-96.

Benthuysen, J. A., Tonin, H., Brinkman, R., Herzfeld, M., and Steinberg, C. (2016), Intrusive upwelling in the Central Great Barrier Reef, J. Geophys. Res. Oceans, 121, 8395– 8416, doi:10.1002/2016JC012294.

Jones, E.M., Baird, M.E., Mongin, M., Parslow, J., Skerratt, J., Lovell, J., Margvelashvili, N., Matear, R.J., Wild-Allen, K., Robson, B. and Rizwi, F., 2016. Use of remote-sensing reflectance to constrain a data assimilating marine biogeochemical model of the Great Barrier Reef. Biogeosciences13 (23), pp.6441-6469.

GILLIBRAND, P. A. & HERZFELD, M. 2016 A mass-conserving advection scheme for offline simulation of tracer transport in coastal ocean models. Ocean Modelling. 101,1-16.

MARGVELASHVILI, N., HERZFELD, M., F. RIZWI, M. M., M. E. BAIRD, E. JONES, , E. KING, T. SCHROEDE, RIZWI, F., MONGIN, M., BAIRD, M. E., JONES, E. M., SCHAFFELKE, B., KING, E. & SCHROEDER, T. 2016. Emulator-assisted data assimilation in complex models. . Ocean Dynamics 66, 1109-1124.

MONGIN, M., BAIRD, M. E., TILBROOK, B., MATEAR, R., LENTON, A., HERZFELD, M., WILD-ALLEN, K. A., SKERRATT, J., MARGVELASHVILI, N., ROBSON, B., DUARTE, C. M., GUSTAFSSON, M. S. M., RALPH, P. J. & STEVEN, A. D. L. 2016. The exposure of the Great Barrier Reef to ocean acidification. Nature Communications 7:10732.

MONGIN, M., BAIRD, M. E., LENTON, A & HADLEY, S. 2016. Optimising reef-scale CO2 removal by seaweed to buffer ocean acidification. Environ. Res. Lett. 11 034023.

2015

HERZFELD, M. 2015. Methods for freshwater riverine input into regional ocean models. Ocean Modelling, 90, 1-15.

HERZFELD, M. & GILLIBRAND, P. A. 2015. Active open boundary forcing using dual relaxation time-scales in downscaled ocean models. Ocean Modelling, 89, 71-83.

JONES, E. M., DOBLIN, M. A., MATEAR, R. & KING, E. 2015. Assessing and evaluating the ocean-colour footprint of a regional observing system. Journal of Marine Systems, 143, 49-61.

ROBSON, B. J. & DOURDET, V. 2015. Prediction of sediment, particulate nutrient and dissolved nutrient concentrations in a dry tropical river to provide input to a mechanistic coastal water quality model. Environmental Modelling & Software, 63, 97-108.

SCHILLER, A., HERZFELD, M., BRINKMAN, R., RIZWI, F. & ANDREWARTHA, J. 2015. Cross-shelf exchanges between the Coral Sea and the Great Barrier Reef lagoon determined from a regional-scale numerical model. Continental Shelf Research, 109, 150-163.

STEVEN, A. D. L., HODGE, J., CANNARD, T., CARLIN, G., FRANKLIN, H., MCJANNET, D., MOESENEDER, C. & SEARLE, R. 2015. Continuous Water Quality Monitoring on the Great Barrier Reef. CSIRO Final Report to Great Barrier Reef Foundation. CSIRO, 159pp.

2014

MARGVELASHVILI, N., CAMPBELL, E., MURRAY, L. & JONES, E. M. 2014. Hierarchical emulation and data assimilation into the sediment transport model. Procedia Computer Science, 29, 2121-2126.

MONGIN, M. & BAIRD, M. 2014. The impact of photosynthesis, calcification and water circulation on carbon chemistry variability above a coral reef: a modelling study. Ecological Modelling, 284, 19-34.

ROBSON, B. 2014. When do aquatic systems models provide useful predictions, what is changing, and what is next? Environmental Modelling & Software, 61, 287-296.

ROBSON, B. J., SKERRATT, J., MONGIN, M., WILD-ALLEN, K. A. & BAIRD, M. E. 2014. Varying the temporal resolution of river nutrient boundary conditions to a coupled hydrodynamic-biogeochemical model of a coastal system has surprisingly little impact on model results. Proceedings – 7th International Congress on Environmental Modelling and Software: Bold Visions for Environmental Modeling, iEMSs Vol 1, 533-539.

SCHILLER, A., HERZFELD, M., BRINKMAN, R. & STUART, G. 2014. Monitoring, Predicting, and Managing One of the Seven Natural Wonders of the World. Bulletin of the American Meteorological Society, 95, 23-30.

2013

MARGVELASHVILI, N., ANDREWARTHA, J., HERZFELD, M., ROBSON, B. & BRANDO, V. 2013. Satellite data assimilation and estimation of a 3d coastal sediment transport model using error-subspace emulators. Environmental Modelling and Software Journal 40, 191-201.

ROBSON, B. J., BAIRD, M. & WILD-ALLEN, K. 2013. A physiological model for the marine cyanobacteria, Trichodesmium. MODSIM2013, 20th International Congress on Modelling and Simulation, Modelling and Simulation Society of Australia and New Zealand, 1652-1658.

Other References

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