Alongi DM, McKinnon AD: The cycling and fate of terrestrially-derived sediments and nutrients in the coastal zone of the Great Barrier Reef shelf. Mar Pollut Bull 2005, 51: 239–252. 10.1016/j.marpolbul.2004.10.033
Article
CAS
Google Scholar
Anthony KRN, Fabricius KE: Shifting roles of heterotrophy and autotrophy in coral energetics under varying turbidity. J Exp Mar Biol Ecol 2000, 252: 221–253. 10.1016/S0022-0981(00)00237-9
Article
Google Scholar
Álvarez-Romero JG, Devlin MJ, Teixeira da Silva E, Petus C, Ban N, Pressey RJ, Kool J, Roberts S, Cerdeira WA, Brodie J: A novel approach to model exposure of coastal-marine ecosystems to riverine flood plumes based on remote sensing techniques. J Environ Manage 2013, 119: 194–207.
Article
Google Scholar
Bainbridge Z, Wolanski E, Álvarez-Romero JG, Lewis S, Brodie J: Fine sediment and nutrient dynamics related to particle size and floc formation in a Burdekin River flood plume, Australia. Mar Pollut Bull 2012, 65: 236–248. 10.1016/j.marpolbul.2012.01.043
Article
CAS
Google Scholar
Baith K, Lindsay R, Fu G, McClain CR: SeaDAS, a data analysis system for ocean colour satellite sensors. Eos Trans AGU 2001, 82: 202.
Article
Google Scholar
Boynton WR, Hagy JD, Murray L, Stokes C, Kemp WM: A comparative analysis of eutrophication patterns in a temperate coastal lagoon. Estuar Coast Shelf Sci 1996, 19: 408–421. 10.2307/1352459
Article
CAS
Google Scholar
Brando V, Schroeder T, Dekker A, Park Y: Reef rescue marine monitoring program: using remote sensing for GBR wide water quality. Final report for 2009/10 activities. CSIRO, Canberra; 2010.
Google Scholar
Brando V, Dekker A, Park Y, Schroeder T: Adaptive semianalytical inversion of ocean colour radiometry in optically complex waters. Appl Optics 2012, 51(15):2808–2833. 10.1364/AO.51.002808 10.1364/AO.51.002808 10.1364/AO.51.002808
Article
Google Scholar
Bricker SB, Ferreira JG, Simas T: An integrated methodology for assessment of estuarine trophic status. Ecol Model 2003, 169: 39–60. 10.1016/S0304-3800(03)00199-6
Article
CAS
Google Scholar
Brodie JE, Furnas M: Long term monitoring programs for eutrophication and the design of a monitoring program for the Great Barrier Reef. Proc 7th Int Coral Reef Symp Guam 1994, 1: 77–84.
Google Scholar
Brodie JE, Mitchell AW: Nutrients in Australian tropical rivers: changes with agricultural development and implications for receiving environments. Mar Freshwater Res 2005, 56: 279–302. 10.1071/MF04081
Article
CAS
Google Scholar
Brodie JE, Waterhouse J: Assessment of the relative risk of impacts of broad-scale agriculture on the Great Barrier Reef and priorities for investment under the Reef Protection Package. In Stage 1 Report: April 2009. ACTFR technical report 09/17. Australian Centre for Tropical Freshwater Research, Townsville; 2009.
Google Scholar
Brodie JE, Waterhouse J: A critical review of environmental management of the 'not so Great’ Barrier Reef. Estuar Coast Shelf Sci 2012, 104–105: 1–22.
Article
Google Scholar
Brodie JE, Furnas MJ, Steven ADL, Trott LA, Pantus F, Wright M: Monitoring chlorophyll in the Great Barrier Reef lagoon: trends and variability. In Proc 8th Int Coral Reef Symp 1 Edited by: Lessios HA, Macintyre IG. 1997, 797–802.
Google Scholar
Brodie JE, Fabricius K, De'ath G, Okaji K: Are increased nutrient inputs responsible for more outbreaks of crown of thorns starfish? An appraisal of the evidence. Mar Pollut Bull 2005, 51: 266–278. 10.1016/j.marpolbul.2004.10.035
Article
CAS
Google Scholar
Brodie JE, De’ath G, Devlin MJ, Furnas M, Wright M: Spatial and temporal patterns of near-surface chlorophyll a in the Great Barrier Reef lagoon. Mar Freshw Res 2007, 58: 342–353. 10.1071/MF06236
Article
CAS
Google Scholar
Brodie JE, Schroeder T, Rohde K, Faithful J, Masters B, Dekker A, Maughan M: Dispersal of suspended sediments and nutrients in the Great Barrier Reef lagoon during river-discharge events: conclusions from satellite remote sensing and concurrent flood-plume sampling. Marine and Freshwater Research 2010, 61(6):651–664. 10.1071/MF08030
Article
CAS
Google Scholar
Brodie JE, Devlin MJ, Haynes D, Waterhouse J: Assessment of the eutrophication status of the Great Barrier Reef lagoon (Australia). Biogeochemistry 2011, 106: 281–302. 10.1007/s10533-010-9542-2
Article
CAS
Google Scholar
Brodie JE, Kroon FJ, Schaffelke B, Wolanski EC, Lewis SE, Devlin MJ, Bohnet IC, Bainbridge ZT, Waterhouse J, Davis AM: Terrestrial pollutant runoff to the Great Barrier Reef: an update of issues priorities and management responses. Mar Poll Bull 2012, 65: 81–100. 10.1016/j.marpolbul.2011.12.012
Article
CAS
Google Scholar
Brodie J, Waterhouse J, SchaffelkeB JJ, Kroon F, Thorburn P, Rolfe J, Lewis S, Warne M, Fabricius K, McKenzie L, Devlin M: Reef Water Quality Scientific Consensus Statement 2013. Department of the Premier and Cabinet. Queensland Government, Brisbane; 2013.
Google Scholar
Chongprasith P: Nutrient release and nitrogen transformations resulting from resuspension of Great Barrier Reef shelf sediments. James Cook University of North Queensland, Townsville, PhD Dissertation; 1992.
Google Scholar
Clarke GL, Ewing GC, Lorenzen CJ: Spectra of backscattered light from sea obtained from aircraft as a measure of chlorophyll concentration. Science 1970, 16: 1119–1121.
Article
Google Scholar
Cloern JE: Our evolving conceptual model of the coastal eutrophication problem. Marine Ecol Progress Ser 2001, 210(2001):223–253.
Article
CAS
Google Scholar
Collier CJM, Waycott M, Mckenzie LJ: Light thresholds derived from seagrass loss in the coastal zone of the Great Barrier Reef. Ecol Indic 2012, 23: 211–219.
Article
Google Scholar
da Silva ET, Devlin M, Wenger A, Petus C: Burnett-Mary wet season 2012–2013: water quality data sampling, analysis and comparison against wet season 2010–2011 data. Centre for Tropical Water & Aquatic Ecosystem Research (TropWATER) Publication. James Cook University, Townsville; 2013.
Google Scholar
De’ath G, Fabricius KE, Sweatman H, Puotinen M: The 27-year decline of coral cover on the Great Barrier Reef and its causes. Proc Natl Acad Sci USA 2012, 109(44):17995–17999. 10.1073/pnas.1208909109
Article
Google Scholar
Dennison WC, Orth RJ, Moore KA, Stevenson JC, Carter V, Kollar S, Bergstrom PW, Batiuk RA: Assessing water quality with submersed aquatic vegetation. BioScience 1993, 43(2):86–94. 10.2307/1311969
Article
Google Scholar
Devlin M, Brodie J: Terrestrial discharge into the Great Barrier Reef Lagoon: nutrient behavior in coastal waters. Mar Pollut Bull 2005, 51: 9–22. 10.1016/j.marpolbul.2004.10.037
Article
CAS
Google Scholar
Devlin M, Schaffelke B: Spatial extent of riverine flood plumes and exposure of marine ecosystems in the Tully coastal region Great Barrier Reef. Mar Freshwat Res 2009, 60: 1109–1122. 10.1071/MF08343
Article
CAS
Google Scholar
Devlin M, Waterhouse J, Taylor J, Brodie J: Flood plumes in the Great Barrier Reef: spatial and temporal patterns in composition and distribution. GBRMPA research publication no. 68. Great Barrier Reef Marine Park Authority, Townsville, Australia; 2001.
Google Scholar
Devlin M, Barry J, Painting S, Best M: Extending the phytoplankton tool kit for the UK Water Framework Directive: indicators of phytoplankton community structure. Hydrobiologia 2009, 633(1):151–168. 10.1007/s10750-009-9879-5
Article
Google Scholar
Devlin M, Harkness P, McKinna L, Waterhouse J: Mapping of risk and exposure of Great Barrier Reef ecosystems to anthropogenic water quality. Report to the Great Barrier Reef Marine Park Authority August 2010, Australian Centre for Tropical Freshwater Research. ACTFR report number 10/12. James Cook University, Townsville, Australia; 2010.
Google Scholar
Devlin M, Wenger A, Waterhouse J, Alvarez-Romero JG, Abbot B, da Silva ET: Reef rescue marine monitoring program: flood plume monitoring annual report 2010–11. Incorporating results from the Extreme Weather Response Program flood plume monitoring. ACTFR final report 02/12. James Cook University, Townsville, Australia; 2011.
Google Scholar
Devlin M, McKinna LW, Álvarez-Romero JG, Petus C, Abott B, Harkness P, Brodie J: Mapping the pollutants in surface riverine flood plume waters in the Great Barrier Reef Australia. Mar Pollut Bull 2012, 65: 224–235. 10.1016/j.marpolbul.2012.03.001
Article
CAS
Google Scholar
Devlin M, Schroeder T, McKinna L, Brodie J, Brando V, Dekker A: Chapter 8: monitoring and mapping of flood plumes in the Great Barrier Reef based on in situ and remote sensing observations. In Environmental remote sensing and systems analysis. Edited by: Chang N. CRC Press, Boca Raton; 2012:147–190.
Chapter
Google Scholar
Devlin MJ, Debose J, Adjani P, Brodie J: Phytoplankton in the Great Barrier Reef – potential links to crown of thorns outbreaks – a review. In Report to the National Environmental Research Program. Reef and Rainforest Research Centre, Cairns; 2013:44.
Google Scholar
Dzwonkowski B, Yan X-H: Tracking of a Chesapeake Bay estuarine outflow plume with satellite-based ocean colour data. Cont Shelf Res 2005, 25: 1942–1958. 10.1016/j.csr.2005.06.011
Article
Google Scholar
Elmhirst T, Connolly SR, Hughes TP: Connectivity regime shifts and the resilience of coral reefs. Coral Reefs 2009, 28: 949–957. 10.1007/s00338-009-0530-8
Article
Google Scholar
Fabricius KE: Effects of terrestrial runoff on the ecology of corals and coral reefs: review and synthesis. Mar Pollut Bull 2005, 50: 125–146. 10.1016/j.marpolbul.2004.11.028
Article
CAS
Google Scholar
Fabricius KE: Factors determining the resilience of coral reefs to eutrophication: a review and conceptual model. In Coral reefs: an ecosystem in transition. Edited by: Dubinsky Z, Stambler N. Springer, New York; 2011:493–506.
Chapter
Google Scholar
Fabricius KE, Wolanski E: Rapid smothering of coral reef organisms by muddy marine snow. Estuar Coast Shelf Sci 2000, 50: 115–120. 10.1006/ecss.1999.0538
Article
Google Scholar
Fabricius KE, Okaji K, De’ath G: Three lines of evidence to link outbreaks of the crown-of-thorns seastar Acanthaster planci to the release of larval food limitation. Coral Reefs 2010, 29: 593–605. 10.1007/s00338-010-0628-z
Article
Google Scholar
Froidefond JM, Gardelb L, Guiralb D, Parrab M, Ternon JF: Spectral remote sensing reflectances of coastal waters in French Guiana under the Amazon influence. Remote Sens Environ 2002, 80: 225–232. 10.1016/S0034-4257(01)00301-7
Article
Google Scholar
Furnas MJ: Cyclonic disturbance and a phytoplankton bloom in a tropical shelf ecosystem. In Red tides: biology environmental science and toxicology. Proceedings of the First International Symposium on Red Tides, November 10–14, 1987. Edited by: Okaichi T, Anderson DM, Nemoto T. Elsevier Science, New York, Takamatsu, Kagawa Prefecture; 1989:273–276.
Google Scholar
Furnas MJ, Brodie JE: Current status of nutrient levels & other water quality parameters in the Great Barrier Reef. In Downstream effects of land use. Edited by: Hunter HM, Eyles AG, Rayment GE. Queensland Department of Natural Resources, Brisbane, Australia; 1996:9–23.
Google Scholar
Furnas MJ, Mitchell A, Skuza M, Brodie JE: In the other 90%: phytoplankton responses to enhanced nutrient availability in the GBR lagoon. Mar Pollut Bull 2005, 51: 253–265. 10.1016/j.marpolbul.2004.11.010
Article
CAS
Google Scholar
Furnas M, Alongi D, McKinnon AD, Trott L, Skuza M: Regional-scale nitrogen and phosphorus budgets for the northern (14°S) and central (17°S) Great Barrier Reef shelf ecosystem. Cont Shelf Res 2011, 31: 1967–1990. 10.1016/j.csr.2011.09.007
Article
Google Scholar
Geyer WR, Hill PS, Kineke GC: The transport transformation and dispersal of sediment by buoyant coastal flows. Cont Shelf Res 2004, 24: 927–949. 10.1016/j.csr.2004.02.006
Article
Google Scholar
Gitelson AA, Gurlin D, Moses WJ, Barrow T: A bio-optical algorithm for the remote estimation of the chl-a concentration in Case 2 waters. Env Res Lett 2009, 4: 045003. 10.1088/1748-9326/4/4/045003
Article
Google Scholar
Gordon H, Morel A: Remote assessment of ocean colour for interpretation of satellite visible imagery: a review. In Lecture notes on coastal and estuarine studies, vol. 4. Springer Verlag, New York; 1983:114.
Google Scholar
Great Barrier Reef Marine Park Authority: Water quality guidelines for the Great Barrier Reef Marine Park. rev edition. Great Barrier Reef Marine Park Authority, Townsville; 2010.
Google Scholar
Great Barrier Reef Marine Park Authority: Reef rescue marine monitoring program: quality assurance/quality control methods and procedures. Great Barrier Reef Marine Park. Authority, Townsville; 2012.
Google Scholar
Harding LW, Perry ES: Long-term increase of phytoplankton biomass in Chesapeake Bay 1950–1994. Mar Ecol Prog Ser 1997, 157: 39–52.
Article
Google Scholar
Johnson JE, Brando VE, Devlin MJ, Kennedy K, McKenzie L, Morris S, Schaffelke B, Thompson A, Waterhouse J, Waycott M: Reef rescue marine monitoring program: 2009/2010 synthesis report. Report prepared by the Reef and Rainforest Research Centre Consortium of monitoring providers for the Great Barrier Reef Marine Park Authority. Reef and Rainforest Research Centre, Cairns; 2011.
Google Scholar
Johnson JE, Maynard J, Devlin M, Wilkinson S, Anthony K, Yorkston H, Heron S, Puotinen M, Hooidonk R: Resilience of Great Barrier Reef marine ecosystems and drivers of change. Scientific consensus statement. Reef Water Quality Protection Plan Secretariat, Queensland; 2013.
Google Scholar
Kennedy K, Schroeder T, Shaw M, Haynes D, Lewis S, Bentley C, Paxman C, Carter S, Brando V, Bartkow M, Hearn L, Mueller J: Long term monitoring of photosystem II herbicides—correlation with remotely sensed freshwater extent to monitor changes in the quality of water entering the Great Barrier Reef, Australia. Mar Pollut Bull 2012, 65(4–9):292–305. 10.1016/j.marpolbul.2011.10.029 10.1016/j.marpolbul.2011.10.029
Article
CAS
Google Scholar
Klemas : Remote sensing of coastal plumes and ocean fronts: overview and case study. J Coast Res 2012, 28(1A):1–7.
Article
Google Scholar
Kleypas JA: Coral reef development under naturally turbid conditions: fringing reefs near Broad Sound, Australia. Coral Reefs 1996, 15: 153–167.
Article
Google Scholar
Kroon FJ, Kuhnert PM, Henderson BL, Wilkinson SN, Kinsey-Henderson A, Abbott B, Turner RD: River loads of suspended solids, nitrogen, phosphorus and herbicides delivered to the Great Barrier Reef lagoon. Mar Pollut Bull 2012, 65(4):167–181.
Article
CAS
Google Scholar
Lee J, Valle-Levinson A: Bathymetric effects on estuarine plume dynamics. J Geophys Res C Oceans 2013, 118(4):1969–1981. 10.1002/jgrc.20119
Article
Google Scholar
Lewis SE, Schaffelke B, Shaw M, Bainbridge ZT, Rohde KW, Kennedy K, Brodie JE: Assessing the additive risks of PSII herbicide exposure to the Great Barrier Reef. Mar Pollut Bull 2012, 65(4):280–291.
Article
CAS
Google Scholar
Lihan T, Saitoh S-I, Iida T, Hirawake T, Iida K: Satellite-measured temporal and spatial variability of the Tokachi River plume. Estuar Coast Shelf Sci 2008, 78: 237–249. 10.1016/j.ecss.2007.12.001
Article
Google Scholar
McClain CR: A decade of satellite ocean colour observations. Ann Rev Mar Sci 2009, 1: 19–42. 10.1146/annurev.marine.010908.163650
Article
Google Scholar
McKenzie LJ, Unsworth RKF, Waycott M: Reef Rescue Marine Monitoring Program: intertidal seagrass annual report for the sampling period 1st September 2009–31st May 2010. Fisheries Queensland, Cairns; 2010.
Google Scholar
Mitchell A, Reghenzani J, Furnas M: Nitrogen levels in the Tully River—a long-term view. Water Sci Technol 2001, 43: 99–105.
CAS
Google Scholar
Mitchell A, Reghenzani J, Faithful J, Furnas M, Brodie J: Relationships between land use and nutrient concentrations in streams draining a 'wet-tropics’ catchment in northern Australia. Mar Freshwat Res 2009, 60: 1097–1108. 10.1071/MF08330
Article
CAS
Google Scholar
Morel A: Optical modeling of the upper ocean in relation to its biogeneous matter content (Case 1 waters). J Geophys Res 1988, 93(C9):10749–10768. 10.1029/JC093iC09p10749
Article
Google Scholar
Morel A, Prieur L: Analysis of variations in ocean colour. Limnol Oceanogr 1977, 22: 709–722. 10.4319/lo.1977.22.4.0709
Article
Google Scholar
Muslim I, Jones J: The seasonal variation of dissolved nutrients chlorophyll a and suspended sediments at Nelly Bay Magnetic Island. Estuar Coast Shelf Sci 2003, 57: 445–455. 10.1016/S0272-7714(02)00373-6
Article
CAS
Google Scholar
Naik P, D’Sa JE, Gomes HR, Goés JI, Mouw CB: Light absorption properties of southeastern Bering Sea waters: analysis parameterization and implications for remote sensing. Remote Sens Environ 2013, 134: 120–134.
Article
Google Scholar
Novoa S, Chust G, Froidefond J, Petus C, Franco J, Orive E, Seoane S, Borja A: Water quality monitoring in Basque coastal areas using local chl-a algorithm and MERIS images. J Appl Remote Sens 2012, 6: 063519. 10.1117/1.JRS.6.063519 10.1117/1.JRS.6.063519 10.1117/1.JRS.6.063519
Article
Google Scholar
Odermatt D, Gitelson A, Vittorio E, Brando VE, Schaepman M: Review of constituent retrieval in optically deep and complex waters from satellite imagery. Remote Sens Environ 2012, 118: 116–126.
Article
Google Scholar
Ostendorf B: Overview: spatial information and indicators for sustainable management of natural resources. Ecol Indic 2011, 11: 97–102. 10.1016/j.ecolind.2010.10.003
Article
Google Scholar
Schaffelke B, Mellors J, Duke NC: Water quality in the Great Barrier Reef region: responses of mangrove seagrass and macroalgal communities. Mar Pollut Bull 2005, 51: 279–296. 10.1016/j.marpolbul.2004.10.025
Article
CAS
Google Scholar
Schaffelke B, Carleton J, Skuza M, Zagorskis I, Furnas MJ: Water quality in the inshore Great Barrier Reef lagoon: implications for long-term monitoring and management. Mar Pollut Bull 2012, 65: 249–260. 10.1016/j.marpolbul.2011.10.031
Article
CAS
Google Scholar
Schroeder T, Devlin M, Brando VE, Dekker AG, Brodie J, Clementson L, McKinna L: Inter-annual variability of wet season freshwater plume extent into the Great Barrier Reef lagoon based on satellite coastal ocean colour observations. Mar Pollut Bull 2012, 65: 210–223. 10.1016/j.marpolbul.2012.02.022
Article
CAS
Google Scholar
Sorokin YI, Sorokin PY: Plankton of the central Great Barrier Reef: abundance production and trophodynamic roles. J Mar Biol Assoc UK 2010, 90: 1173–1187. 10.1017/S0025315410000597
Article
Google Scholar
Spencer CP: The use of plant micro-nutrient and chlorophyll records as indices of eutrophication in inshore waters. Netherland J Sea Res 1985, 19: 269–275. 10.1016/0077-7579(85)90033-X
Article
CAS
Google Scholar
Steven ADL, Pantus F, Brooks D, Trott L: Long-term chlorophyll monitoring in the Great Barrier Reef Lagoon: status report 1 1993–1995. Great Barrier Reef Marine Park. Authority, Townsville; 1998.
Google Scholar
Ullman WJ, Sandstrom MW: Dissolved nutrient fluxes from the nearshore sediments of Bowling Green Bay central Great Barrier Reef Lagoon (Australia). Estuar Coast Shelf Sci 1987, 24(3):289–303. 10.1016/0272-7714(87)90051-5
Article
CAS
Google Scholar
Valente AS, da Silva JCB: On the observability of the fortnightly cycle of the Tagus estuary turbid plume using MODIS ocean colour images. J Mar Syst 2009, 75: 131–137. 10.1016/j.jmarsys.2008.08.008
Article
Google Scholar
Walker TA: Dependance of phytoplankton chlorophyll on bottom resuspension in Cleveland Bay northern Queensland. Mar Freshw Res 1981, 32(6):981–986. 10.1071/MF9810981
Article
CAS
Google Scholar
Wang M, Shi W: The NIR-SWIR combined atmospheric correction approach for MODIS ocean colour data processing. Opt Express 2007, 15(24):15722–15733. 10.1364/OE.15.015722
Article
Google Scholar
Waterhouse J, Brodie J, Lewis S, Mitchell A: Quantifying the sources of pollutants to the Great Barrier Reef. Mar Pollut Bull 2012, 65: 394–406. 10.1016/j.marpolbul.2011.09.031
Article
CAS
Google Scholar
Wooldridge S, Brodie JE, Furnas M: Exposure of inner-shelf reefs to nutrient enriched runoff entering the Great Barrier Reef Lagoon: post-European changes and the design of water quality targets. Mar Pollut Bull 2006, 52(11):1467–1479. 10.1016/j.marpolbul.2006.05.009
Article
CAS
Google Scholar
Yunev OA, Vedernikov VI, Gasturk O, Yilmaz A, Kideys AH, Moncheva S, Konovalov SK: Long-term variations of surface chlorophyll a and primary production in the open Black Sea. Mar Ecol Prog Ser 2002, 230: 11–28.
Article
Google Scholar