Accepting PhD Students

PhD projects

Biogeochemistry of permeable sediments Influence of cable bacteria on sediment geochemical processes

20002020

Research output per year

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Research Output

2020

Editorial: Facing Marine Deoxygenation

Capet, A., Cook, P., Garcia-Robledo, E., Hoogakker, B., Paulmier, A., Rabouille, C. & Vaquer-Sunyer, R., 14 Feb 2020, In : Frontiers in Marine Science. 7, 3 p., 46.

Research output: Contribution to journalEditorialOtherpeer-review

Open Access

Pore water conditions driving calcium carbonate dissolution in reef sands

Kessler, A. J., Rogers, A., Cyronak, T., Bourke, M. F., Hasler-Sheetal, H., Glud, R. N., Greening, C., Meysman, F. J. R., Eyre, B. D. & Cook, P. L. M., 15 Jun 2020, In : Geochimica et Cosmochimica Acta. 279, p. 16-28 13 p.

Research output: Contribution to journalArticleResearchpeer-review

2019

Bacterial fermentation and respiration processes are uncoupled in anoxic permeable sediments

Kessler, A. J., Chen, Y-J., Waite, D. W., Hutchinson, T. F., Koh, S., Popa, M. E., Beardall, J., Hugenholtz, P., Cook, P. & Greening, C. A., 11 Mar 2019, In : Nature Microbiology. 4, 6, p. 1014–1023 10 p.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
File
13 Citations (Scopus)

Cable bacteria promote DNRA through iron sulfide dissolution

Kessler, A. J., Wawryk, M., Marzocchi, U., Roberts, K. L., Wong, W. W., Risgaard-Petersen, N., Meysman, F. J. R., Glud, R. N. & Cook, P. L. M., 1 May 2019, In : Limnology and Oceanography. 64, 3, p. 1228-1238 11 p.

Research output: Contribution to journalArticleResearchpeer-review

8 Citations (Scopus)

Effect of temperature and drying-rewetting of sediments on the partitioning between denitrification and DNRA in constructed urban stormwater wetlands

Rahman, M., Grace, M. R., Roberts, K. L., Kessler, A. J. & Cook, P. L. M., Dec 2019, In : Ecological Engineering. 140, 10 p., 105586.

Research output: Contribution to journalArticleResearchpeer-review

3 Citations (Scopus)

Factors controlling dissimilatory nitrate reduction processes in constructed stormwater urban wetlands

Rahman, M. M., Roberts, K. L., Warry, F., Grace, M. R. & Cook, P. L. M., 15 Feb 2019, In : Biogeochemistry. 142, 3, p. 375-393 19 p.

Research output: Contribution to journalArticleResearchpeer-review

8 Citations (Scopus)

Intra-strain Variability in the Effects of Temperature on UV-B Sensitivity of Cyanobacteria

Islam, M. A., Beardall, J. & Cook, P., 2019, In : Photochemistry and Photobiology. 95, 1, p. 306-314 9 p.

Research output: Contribution to journalArticleResearchpeer-review

1 Citation (Scopus)

Role of benthic habitat structure and riverine connectivity in controlling the spatial distribution and ecology of estuarine fish

Woodland, R. J., Warry, F. Y., Zhu, Y., Nally, R. M., Reich, P., Jenkins, G. P., Brehm, D. & Cook, P. L. M., 7 Nov 2019, In : Marine Ecology Progress Series. 630, p. 197-214 18 p.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
File

Role of organic carbon, nitrate and ferrous iron on the partitioning between denitrification and DNRA in constructed stormwater urban wetlands

Rahman, M. M., Roberts, K. L., Grace, M. R., Kessler, A. J. & Cook, P. L. M., 20 May 2019, In : Science of the Total Environment. 666, p. 608-617 10 p.

Research output: Contribution to journalArticleResearchpeer-review

11 Citations (Scopus)
2018

Biogeochemical controls on the relative importance of denitrification and dissimilatory nitrate reduction to ammonium in estuaries

Kessler, A. J., Roberts, K. L., Bissett, A. & Cook, P. L. M., 1 Jul 2018, In : Global Biogeochemical Cycles. 32, 7, p. 1045-1057 13 p.

Research output: Contribution to journalArticleResearchpeer-review

18 Citations (Scopus)

Catchment land use predicts benthic vegetation in small estuaries

Cook, P. L. M., Warry, F. Y., Reich, P., Nally, R. M. & Woodland, R. J., 2018, In : PeerJ. 2018, 2, 15 p., e4378.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
File

Delayed timing of successful spawning of an estuarine dependent fish, black bream Acanthopagrus butcheri

Jenkins, G. P., Kent, J. A., Woodland, R. J., Warry, F., Swearer, S. E. & Cook, P. L. M., 1 Nov 2018, In : Journal of Fish Biology. 93, 5, p. 931-941 11 p.

Research output: Contribution to journalArticleResearchpeer-review

2 Citations (Scopus)

Escherichia coli survival and transfer in estuarine bed sediments

Schang, C., Lintern, A., Cook, P. L. M., Rooney, G., Coleman, R., Murphy, H. M., Deletic, A. & McCarthy, D., 1 Jul 2018, In : River Research and Applications. 34, 6, p. 606-614 9 p.

Research output: Contribution to journalArticleResearchpeer-review

4 Citations (Scopus)

Factoring stream turbulence into global assessments of nitrogen pollution

Grant, S. B., Azizian, M., Cook, P., Boano, F. & Rippy, M. A., 16 Mar 2018, In : Science. 359, 6381, p. 1266-1268 3 p.

Research output: Contribution to journalArticleResearchpeer-review

20 Citations (Scopus)

Negligible isotopic fractionation of nitrogen within temperate Zostera spp. meadows

Russell, D. G., Wen Wong, W. & Cook, P. L. M., 4 Dec 2018, In : Biogeosciences. 15, 23, p. 7225-7234 10 p.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
File

Nitrogen removal in greywater living walls: Insights into the governing mechanisms

Fowdar, H. S., Deletic, A., Hatt, B. E. & Cook, P. L. M., 23 Apr 2018, In : Water. 10, 4, 13 p., 527.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
File
5 Citations (Scopus)

Plant-Microbe Interactions Drive Denitrification Rates, Dissolved Nitrogen Removal, and the Abundance of Denitrification Genes in Stormwater Control Measures

Morse, N., Payne, E., Henry, R., Hatt, B., Chandrasena, G., Shapleigh, J., Cook, P., Coutts, S., Hathaway, J., Walter, M. T. & McCarthy, D., 21 Aug 2018, In : Environmental Science & Technology. 52, 16, p. 9320-9329 10 p.

Research output: Contribution to journalArticleResearchpeer-review

12 Citations (Scopus)

Stable isotopes of nitrate reveal different nitrogen processing mechanisms in streams across a land use gradient during wet and dry periods

Wong, W. W., Pottage, J., Warry, F. Y., Reich, P., Roberts, K. L., Grace, M. R. & Cook, P., 2 Jul 2018, In : Biogeosciences. 15, 13, p. 3953-3965 13 p.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
File
6 Citations (Scopus)

The influence of an invasive plant on denitrification in an urban wetland

Roley, S. S., Tank, J. L., Grace, M. R. & Cook, P. L. M., 1 Apr 2018, In : Freshwater Biology. 63, 4, p. 353-365 13 p.

Research output: Contribution to journalArticleResearchpeer-review

9 Citations (Scopus)

The role of catchment land use and tidal exchange in structuring estuarine fish assemblages

Warry, F. Y., Reich, P., Cook, P. L. M., Mac Nally, R. & Woodland, R. J., 1 Apr 2018, In : Hydrobiologia. 811, 1, p. 173-191 19 p.

Research output: Contribution to journalArticleResearchpeer-review

2 Citations (Scopus)

Which species? A decision-support tool to guide plant selection in stormwater biofilters

Payne, E. G. I., Pham, T., Deletic, A., Hatt, B. E., Cook, P. L. M. & Fletcher, T. D., 1 Mar 2018, In : Advances in Water Resources. 113, p. 86-99 14 p.

Research output: Contribution to journalArticleResearchpeer-review

20 Citations (Scopus)
2017

Ambient groundwater flow diminishes nitrate processing in the hyporheic zone of streams

Azizian, M., Boano, F., Cook, P. L. M., Detwiler, R. L., Rippy, M. A. & Grant, S. B., 1 May 2017, In : Water Resources Research. 53, 5, p. 3941-3967 27 p.

Research output: Contribution to journalArticleResearchpeer-review

16 Citations (Scopus)

Capacity of a temperate intertidal seagrass species to tolerate changing environmental conditions: significance of light and tidal exposure

Manassa, R. P., Smith, T. M., Beardall, J., Keough, M. J. & Cook, P. L. M., 2017, In : Ecological Indicators. 81, p. 578-586 9 p.

Research output: Contribution to journalArticleResearchpeer-review

1 Citation (Scopus)

Designing living walls for greywater treatment

Fowdar, H., Hatt, B., Breen, P., Cook, P. & Deletic, A., 1 Mar 2017, In : Water Research. 110, p. 218-232 15 p.

Research output: Contribution to journalArticleResearchpeer-review

36 Citations (Scopus)

Does denitrification occur within porous carbonate sand grains?

Cook, P. L. M., Kessler, A. J. & Eyre, B. D., 19 Sep 2017, In : Biogeosciences. 14, 18, p. 4061-4069 9 p.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
File
6 Citations (Scopus)

Effects of changes in nutrient loading and composition on hypoxia dynamics and internal nutrient cycling of a stratified coastal lagoon

Zhu, Y., McCowan, A. & Cook, P. L. M., 6 Oct 2017, In : Biogeosciences. 14, 19, p. 4423-4433 11 p.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
File
4 Citations (Scopus)

Greenhouse Gas Dynamics in a Salt-Wedge Estuary Revealed by High Resolution Cavity Ring-Down Spectroscopy Observations

Tait, D. R., Maher, D. T., Wong, W., Santos, I. R., Sadat-Noori, M., Holloway, C. & Cook, P. L. M., 5 Dec 2017, In : Environmental Science & Technology. 51, 23, p. 13771-13778 8 p.

Research output: Contribution to journalArticleResearchpeer-review

9 Citations (Scopus)

Hyporheic hot moments: Dissolved oxygen dynamics in the hyporheic zone in response to surface flow perturbations

Kaufman, M. H., Cardenas, M. B., Buttles, J., Kessler, A. J. & Cook, P. L. M., 1 Aug 2017, In : Water Resources Research. 53, 8, p. 6642-6662 21 p.

Research output: Contribution to journalArticleResearchpeer-review

15 Citations (Scopus)

Inside Story of Gas Processes within Stormwater Biofilters: Does Greenhouse Gas Production Tarnish the Benefits of Nitrogen Removal?

Payne, E. G. I., Pham, T., Cook, P. L. M., Deletic, A., Hatt, B. E. & Fletcher, T. D., 4 Apr 2017, In : Environmental Science & Technology. 51, 7, p. 3703-3713 11 p.

Research output: Contribution to journalArticleResearchpeer-review

6 Citations (Scopus)

Interactions between design, plant growth and the treatment performance of stormwater biofilters

Glaister, B. J., Fletcher, T. D., Cook, P. L. M. & Hatt, B. E., 1 Aug 2017, In : Ecological Engineering. 105, p. 21-31 11 p.

Research output: Contribution to journalArticleResearchpeer-review

15 Citations (Scopus)

Metabolism in anoxic permeable sediments is dominated by eukaryotic dark fermentation

Bourke, M. F., Marriott, P. J., Glud, R. N., Hasler-Sheetal, H., Kamalanathan, M., Beardall, J., Greening, C. A. & Cook, P., 1 Jan 2017, In : Nature Geoscience. 10, 1, p. 30-35 6 p.

Research output: Contribution to journalArticleResearchpeer-review

13 Citations (Scopus)

Phosphorus Fate and Dynamics in Greywater Biofiltration Systems

Fowdar, H. S., Hatt, B. E., Cresswell, T., Harrison, J. J., Cook, P. L. M. & Deletic, A., 21 Feb 2017, In : Environmental Science & Technology. 51, 4, p. 2280-2287 8 p.

Research output: Contribution to journalArticleResearchpeer-review

14 Citations (Scopus)

Pollution-tolerant invertebrates enhance greenhouse gas flux in urban wetlands

Mehring, A. S., Cook, P. L. M., Evrard, V., Grant, S. B. & Levin, L. A., 1 Sep 2017, In : Ecological Applications. 27, 6, p. 1852-1861 10 p.

Research output: Contribution to journalArticleResearchpeer-review

6 Citations (Scopus)
2016

Benthic carbon mineralization and nutrient turnover in a Scottish sea loch: an integrative in situ study

Glud, R. N., Berg, P., Stahl, H., Hume, A., Larsen, M., Eyre, B. D. & Cook, P., Dec 2016, In : Aquatic Geochemistry. 22, 5-6, p. 443-467 25 p.

Research output: Contribution to journalArticleResearchpeer-review

15 Citations (Scopus)

Blooms of cyanobacteria in a temperate Australian lagoon system post and prior to European settlement

Cook, P., Jennings, M., Holland, D., Beardall, J., Briles, C. E., Zawadzki, A., Doan, P., Mills, K. & Gell, P., 22 Jun 2016, In : Biogeosciences. 13, 12, p. 3677-3686 10 p.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
File
5 Citations (Scopus)

Dissimilatory nitrate reduction to ammonium coupled to Fe(II) oxidation in sediments of a periodically hypoxic estuary

Robertson, E. K., Roberts, K. L., Burdorf, L. D. W., Cook, P. & Thamdrup, B., 1 Jan 2016, In : Limnology and Oceanography. 61, 1, p. 365-381 17 p.

Research output: Contribution to journalArticleResearchpeer-review

59 Citations (Scopus)

Hyporheic flow and dissolved oxygen distribution in fish nests: the effects of open channel velocity, permeability patterns, and groundwater upwelling

Cardenas, M. B. R., Ford, A. E., Kaufman, M. H., Kessler, A. & Cook, P., 2016, In : Journal of Geophysical Research: Biogeosciences. 121, 12, 18 p.

Research output: Contribution to journalArticleResearchpeer-review

12 Citations (Scopus)

Linking nitrogen sources utilised by seagrass in a temperate marine embayment to patterns of seagrass change during drought

Hirst, A. J., Longmore, A. R., Ball, D., Cook, P. & Jenkins, G. P., 10 May 2016, In : Marine Ecology-Progress Series. 549, p. 79-88 10 p.

Research output: Contribution to journalArticleResearchpeer-review

14 Citations (Scopus)

Long-distance electron transport by cable bacteria in mangrove sediments

Burdorf, L. D. W., Hidalgo-Martinez, S., Cook, P. & Meysman, F. J. R., 8 Mar 2016, In : Marine Ecology-Progress Series. 545, p. 1-8 8 p.

Research output: Contribution to journalArticleResearchpeer-review

14 Citations (Scopus)

Niche-dependent trophic position distributions among primary, secondary and tertiary consumers

Woodland, R. J., Warry, F. Y., Evrard, V., Clarke, R. H., Reich, P. & Cook, P. L. M., 2016, In : Oikos. 125, 4, p. 556-565 10 p.

Research output: Contribution to journalArticleResearchpeer-review

3 Citations (Scopus)

Nitrogen loads influence trophic organization of estuarine fish assemblages

Warry, F., Reich, P., Cook, P., Mac Nally, R., Thomson, J. & Woodland, R., 1 Oct 2016, In : Functional Ecology. 30, 10, p. 1723-1733 11 p.

Research output: Contribution to journalArticleResearchpeer-review

12 Citations (Scopus)

Nitrogen stable isotope values of large-bodied consumers reflect urbanization of coastal catchments

Warry, F., Reich, P., Woodland, R., Thomson, J. R., Mac Nally, R. & Cook, P., 19 Jan 2016, In : Marine Ecology-Progress Series. 542, p. 25-37 13 p.

Research output: Contribution to journalArticleResearchpeer-review

3 Citations (Scopus)

Presence and survival of culturable Campylobacter spp. and Escherichia coli in a temperate urban estuary

Schang, C., Lintern, A., Cook, P. L. M., Osborne, C., McKinley, A., Schmidt, J., Coleman, R., Rooney, G., Henry, R., Deletic, A. & McCarthy, D., 1 Nov 2016, In : Science of the Total Environment. 569-570, p. 1201-1211 11 p.

Research output: Contribution to journalArticleResearchpeer-review

9 Citations (Scopus)

The balance between nitrogen fixation and denitrification on vegetated and non-vegetated intertidal sediments

Russell, D. G., Warry, F. Y. & Cook, P. L. M., Nov 2016, In : Limnology and Oceanography. 61, 6, p. 2058-2075 18 p.

Research output: Contribution to journalArticleResearchpeer-review

12 Citations (Scopus)

The Gippsland Lakes: Management challenges posed by long-term environmental change

Boon, P. I., Cook, P. & Woodland, R., 2016, In : Marine and Freshwater Research. 67, 6, p. 721-737 17 p.

Research output: Contribution to journalArticleResearchpeer-review

16 Citations (Scopus)

The role of bioirrigation in sediment phosphorus dynamics and blooms of toxic cyanobacteria in a temperate lagoon

Zhu, Y., Hipsey, M. R., McCowan, A., Beardall, J. & Cook, P. L. M., 1 Dec 2016, In : Environmental Modelling and Software. 86, p. 277-304 28 p.

Research output: Contribution to journalArticleResearchpeer-review

6 Citations (Scopus)
2015

A model of oxygen and nitrogen biogeochemical response to hydrodynamic regimes in the Yarra River estuary

Bruce, L. C., Cook, P. L. M. & Hipsey, M. R., 1 Jan 2015, Proceedings - 21st International Congress on Modelling and Simulation, MODSIM 2015: 21st International Congress on Modelling and Simulation: Partnering with Industry and the Community for Innovation and Impact through Modelling, MODSIM 2015 - Held jointly with the 23rd National Conference of the Australian Society for Operations Research and the DSTO led Defence Operations Research Symposium, DORS 2015; Gold Coast Convention and Exhibition Centre Broadbeach; Australia; 29 November 2015 through 4 December 2015. Weber, T., McPhee, M. & Anderssen, R. (eds.). Modelling and Simulation Society of Australia and New Zealand Inc. (MSSANZ), p. 524-530 7 p.

Research output: Chapter in Book/Report/Conference proceedingConference PaperResearch

Bedforms as biocatalytic filters: a pumping and streamline segregation model for nitrate removal in permeable sediments

Azizian, M., Grant, S. B., Kessler, A. J., Cook, P., Rippy, M. A. & Stewardson, M. J., 2015, In : Environmental Science & Technology. 49, 18, p. 10993-11002 10 p.

Research output: Contribution to journalArticleResearchpeer-review

15 Citations (Scopus)

Deep dynamic pools of phosphorus in the sediment of a temperate lagoon with recurring blooms of diazotrophic cyanobacteria

Scicluna, T. R., Woodland, R. J., Zhu, Y., Grace, M. R. & Cook, P., 2015, In : Limnology and Oceanography. 60, 6, p. 2185-2196 12 p.

Research output: Contribution to journalArticleResearchpeer-review

7 Citations (Scopus)

Erratum: Factors controlling nitrogen fixation in temperate seagras beds

Cook, P. L. M., Evrard, V. & Woodland, R. J., 15 Sep 2015, In : Marine Ecology-Progress Series. 535, p. 285 1 p.

Research output: Contribution to journalComment / DebateOtherpeer-review