Assessing the potential underestimation of sediment and nutrient loads to the Great Barrier Reef lagoon during floods

Much of the sediment and nutrient load to the Great Barrier Reef (GBR) lagoon happens during over bank floods, when discharge can be significantly underestimated by standard river gauges. This paper assesses the potential need for a flood load correction for 28 coastal rivers that discharge into the GBR lagoon. For each river, daily discharge was divided into flows above and below a 'flood' threshold to calculate the mean annual percentage flow above this threshold. Most GBR rivers potentially need a flood load correction as over 15% of their mean annual flow occurs above the minor flood level; only seven rivers need little/no correction as their flood flows were less than 5% of the mean annual flow. Improved assessment of the true load of materials to the GBR lagoon would be an important contribution to the monitoring and reporting of progress towards Reef Plan and associated marine load targets.     

River loads of suspended solids, nitrogen, phosphorus and herbicides delivered to the Great Barrier Reef lagoon

Degradation of coastal ecosystems in the Great Barrier Reef (GBR) lagoon, Australia, has been linked with increased land-based runoff of suspended solids, nutrients and pesticides since European settlement. This study estimated the increase in river loads for all 35 GBR basins, using the best available estimates of pre-European and current loads derived from catchment modelling and monitoring. The mean-annual load to the GBR lagoon for (i) total suspended solids has increased by 5.5 times to 17,000ktonnes/year, (ii) total nitrogen by 5.7 times to 80,000tonnes/year, (iii) total phosphorus by 8.9 times to 16,000tonnes/year, and (iv) PSII herbicides is 30,000kg/year. The increases in river loads differ across the 10 pollutants and 35 basins examined, reflecting differences in surface runoff, urbanisation, deforestation, agricultural practices, mining and retention by reservoirs. These estimates will facilitate target setting for water quality and desired ecosystem states, and enable prioritisation of critical sources for management.     

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

We used historical flood plume extent data (modelled) to quantify the typical spatial extent of the summer runoff-seawater mixing zone of the Great Barrier Reef (GBR) lagoon. Spatially explicit analysis of the variability of in situ chlorophyll a concentrations (observed) across the runoff-seawater mixing zone, then allowed us to explore regional differences in the nutrient enrichment impact of runoff events from the various river systems that drain the GBR catchment. We demonstrate the existence of a discernable north-south gradient along the length of the GBR, such that for equivalent runoff:seawater dilutions ratios, lower levels of nutrient enrichment (as indicated by chlorophyll alpha observations) result from the river systems that drain the relatively undisturbed northern areas of the GBR catchment, compared to more human-impacted central and south areas. We identify a strong correlation between this north-south enrichment gradient and the flood concentration of dissolved inorganic nitrogen (DIN) entrained by the various river systems. By substituting the nutrient enrichment characteristics of the human-impacted river discharges with those of the undisturbed northern rivers, we provide a means to compare the short-term enriching 'footprint' for existing runoff intrusions with those that are likely to have occurred under pre-European catchment conditions. We demonstrate that under pre-European conditions, the nutrient enriching impact from river runoff was likely to have been largely constrained within 1-2 km of the coast, whereas existing conditions support the impact of reefs some 20-30 km off the coast. By using the developed spatial relations, we show that for the heavily human-impacted river systems, reductions in the end-of-river concentrations of DIN in the order 50-80% are needed in order to restore parity with pre-European conditions. We discuss these results in regard to developing end-of-catchment water quality targets for the region.     

Towards ecologically relevant targets for river pollutant loads to the Great Barrier Reef

Degradation of coastal ecosystems in the Great Barrier Reef (GBR), Australia, has been linked with a decline in water quality from land-based runoff. This paper examines the reduction in current end-of-catchment loads required for total suspended solids (TSS) and dissolved inorganic nitrogen (DIN) to achieve GBR water quality guidelines. Based on first-order estimates of sustainable pollutant loads, current TSS and DIN loads would need to be reduced by approximately 7000ktons/y (41%) and 6000tons/y (38%), respectively. Next, these estimated reductions for TSS and DIN are compared with Reef Plan targets for anthropogenic sediment (-20% by 2020) and nitrogen (-50% by 2013) loads. If successful, these targets will accomplish approximately 40% of TSS and 92% of DIN load reductions required to achieve sustainable loads to the GBR lagoon. These first-order estimates elucidate the need to establish ecologically relevant targets for river pollutant loads to the GBR for management and policy.     

Phytotoxicity induced in isolated zooxanthellae by herbicides extracted from Great Barrier Reef flood waters

To date there has been limited evidence anthropogenically sourced pollution from catchments reaching corals of the Great Barrier Reef (GBR). In this study, freshly isolated zooxanthellae were exposed to polar chemicals (chiefly herbicides) extracted from water samples collected in a flood plume in the GBR lagoon. Photosynthetic potential of the isolated zooxanthellae declined after exposure to concentrated extracts (10 times) from all but one of the sampling sites. Photosynthetic potential demonstrated a significant positive relationship with the concentration of diuron in the concentrated extracts and a significant inverse relationship with salinity measured at the sampling site. This study demonstrates that runoff from land based application of herbicides may reduce photosynthetic efficiency in corals of inshore reefs in the GBR. The ecological impacts of the chemicals in combination with other potential stressors on corals remain unclear.     

A multi-criteria approach to Great Barrier Reef catchment (Queensland, Australia) diffuse-source pollution problem

This paper presents a multi-criteria based tool for assessing the relative impact of diffuse-source pollution to the Great Barrier Reef (GBR) from the river basins draining into the GBR lagoon. The assessment integrates biophysical and ecological data of water quality and pollutant concentrations with socio-economic information pertaining to non-point source pollution and (potential) pollutant impact. The tool generates scores for each river basin against four criteria, thus profiling the basins and enabling prioritization of management alternatives between and within basins. The results support policy development for pollution control through community participation, scientific data integration and expert knowledge contributed by people from across the catchment. The results specifically provided support for the Reef Water Quality Protection Plan, released in October 2003. The aim of the plan is to provide a framework for reducing discharge of sediment, nutrient and other diffuse-source loads and (potential) impact of that discharge and for prioritising management actions both between and within river basins.     

The influence of a season of extreme wet weather events on exposure of the World Heritage Area Great Barrier Reef to pesticides

The 2010-2011 wet season was one of extreme weather for the State of Queensland, Australia. Major rivers adjacent to the Great Barrier Reef (GBR) were discharging at rates 1.5 to >3 times higher than their long term median. Exposure to photosystem II herbicides has been routinely monitored over a period of up to 5 years at 12 inshore GBR sites. The influence of this wet season on exposure to photosystem II herbicides was examined in the context of this long-term monitoring record and during flood plume events in specific regions. Median exposures expressed as diuron equivalent concentration were an average factor of 2.3 times higher but mostly not significantly different (p<0.05) to the median for the long-term monitoring record. The herbicides metolachlor and tebuthiuron were frequently detected in flood plume waters at concentrations that reached or exceeded relevant water quality guidelines (by up to 4.5 times).     

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

Photosystem II (PSII) herbicides are used in large quantities on agricultural lands adjoining the Great Barrier Reef (GBR). Routine monitoring at 14 sites in inshore waters of the GBR using passive sampling techniques detected diuron (32-94% of sampling periods) at maximum concentrations of 1.7-430ng L(-1) in the relatively pristine Cape York Region to the Mackay Whitsunday Region, respectively. A PSII herbicide equivalent (PSII-HEq) index developed as an indicator for reporting was dominated by diuron (average contribution 89%) and typically increased during the wet season. The maximum PSII-HEq indicates the potential for photosynthetic inhibition of diatoms, seagrass and coral-symbionts. PSII herbicides were significantly positively correlated with remotely sensed coloured dissolved organic matter, a proxy for freshwater extent. Combining these methods provides for the first time the potential to cost-effectively monitor improvements in water quality entering the GBR with respect to exposure to PSII herbicides.     

A bioindicator system for water quality on inshore coral reefs of the Great Barrier Reef

Responses of bioindicator candidates for water quality were quantified in two studies on inshore coral reefs of the Great Barrier Reef (GBR). In Study 1, 33 of the 38 investigated candidate indicators (including coral physiology, benthos composition, coral recruitment, macrobioeroder densities and FORAM index) showed significant relationships with a composite index of 13 water quality variables. These relationships were confirmed in Study 2 along four other water quality gradients (turbidity and chlorophyll). Changes in water quality led to multi-faceted shifts from phototrophic to heterotrophic benthic communities, and from diverse coral dominated communities to low-diversity communities dominated by macroalgae. Turbidity was the best predictor of biota; hence turbidity measurements remain essential to directly monitor water quality on the GBR, potentially complemented by our final calibrated 12 bioindicators. In combination, this bioindicator system may be used to assess changes in water quality, especially where direct water quality data are unavailable.     

Inter-annual variability of wet season freshwater plume extent into the Great Barrier Reef lagoon based on satellite coastal ocean colour observations

Riverine freshwater plumes are the major transport mechanism for nutrients, sediments and pollutants into the Great Barrier Reef (GBR) lagoon and connect the land with the receiving coastal and marine waters. Knowledge of the variability of the freshwater extent into the GBR lagoon is relevant for marine park management to develop strategies for improving ecosystem health and risk assessments. In this study, freshwater extent has been estimated for the entire GBR lagoon area from daily satellite observations of the Moderate Resolution Imaging Spectroradiometer (MODIS) between 2002 and 2010. To enable a reliable mapping of freshwater plumes we applied a physics-based coastal ocean colour algorithm, that simultaneously retrieves chlorophyll-a, non-algal particulate matter and coloured dissolved organic matter (CDOM), from which we used CDOM as a surrogate for salinity (S) for mapping the freshwater extent.     

Preliminary evaluation of the occurrence of herbicides and PAHs in the Wet Tropics region of the Great Barrier Reef, Australia, using passive samplers

The proximity of the Great Barrier Reef (GBR) Marine Park to areas of intensive agriculture and increasing urbanisation places the park under potential threat of contamination by land-based pollutants. Passive samplers were deployed at inshore reef and river mouth sites in the Wet Tropics region of the GBR during a dry and a wet season to measure levels of land-based organic pollutants in this environment. Two types of passive sampling devices were deployed: (i) a polar sampler, which can be used to monitor polar herbicides and (ii) semipermeable membrane devices (SPMDs) which sequester more hydrophobic compounds (e.g. PAHs, chlorpyrifos). Herbicides (diuron, simazine, atrazine, hexazinone and/or flumeturon) were detected at low concentrations (ng L⁻¹) at all sites sampled and in both seasons. Chlorpyrifos was not detected while PAHs were present in SPMDs at levels below limits of detection. The results show that the GBR environment does contain low levels of organic pollutants and that passive sampling provides a sensitive monitoring tool for measuring waterborne organic pollutants.     

An assessment of residence times of land-sourced contaminants in the Great Barrier Reef lagoon and the implications for management and reef recovery

We argue that the residence times of key pollutants exported to the Great Barrier Reef (GBR) are greater in the GBR lagoon than those of the water itself, in contradiction to some previous assumptions. Adverse effects of the pollutant discharge will be greater and longer lasting than previously considered, in turn requiring stronger or more urgent action to remediate land practices. Residence times of fine sediments, nitrogen and phosphorus, pesticides and trace metals are suggested to be from years to decades in the GBR lagoon and highly likely to be greater than the residence time of water, estimated at around 15-365days. The recovery of corals and seagrass in the central region of the GBR following current land-use remediation in the catchment depends on the residence time of these contaminants. Ecohydrological modeling suggests that this recovery may take decades even with adequate levels of improved land management practices.     

Dynamics of herbicide transport and partitioning under event flow conditions in the lower Burdekin region, Australia

This study examined the temporal variability in herbicide delivery to the Great Barrier Reef (GBR) lagoon (Australia) from one of the GBR catchment's major sugarcane growing regions. Annual loads of measured herbicides were consistently in the order of 200+kg. Atrazine, it's degradate desethylatrazine, and diuron contributed approximately 90% of annual herbicide load, with early 'first-flush' events accounting for the majority of herbicide loads leaving the catchment. Assessment of herbicide water-sediment partitioning in flood runoff highlighted the majority of herbicides were transported in predominantly dissolved form, although a considerable fraction of diuron was transported in particulate-bound form (ca. 33%). Diuron was also the herbicide demonstrating the highest concentrations and frequency of detection in sediments collected from catchment waterways and adjacent estuarine-marine environments, an outcome aligning with previous research. Herbicide physico-chemical properties appear to play a crucial role in partitioning between water column and sediment habitat types in GBR receiving ecosystems.     

Air–sea–river interactions

Extensive recording of currents, collection of water samples and routine meteorological and tide records provide a base for this study of the dynamics of Australia's largest river, the Murray, during one of its rare floods in 1974. The results suggest that the Coorong. a narrow lagoon extending from the river mouth to the Southeast, at right angles to prevailing winds, was formed as a flood escape mechanism. Geological evidence displays the existence of similar geometries formed in the past in an area which at one time was a deep gulf of the Southern Ocean extending into Australia. The same mechanism may have been at work elsewhere in the world.     

Estuarine modification of nutrient and sediment exports to the Great Barrier Reef Marine Park from the Daintree and Annan River catchments

Nutrient and suspended sediment concentrations were measured in the dry season and during the rising and falling stages of flood events in the Annan and Daintree rivers to estimate catchment exports. These flood events were also sampled along the salinity gradient in the estuary and nearshore shelf to quantify the modification of terrestrial sediment and nutrient loads as they pass through estuaries into the Great Barrier Reef lagoon. In the Daintree River TSS concentrations were found to increase between the catchment and the estuary plume. The source of TSS may have been scour of the estuarine channel or from land use in the catchment of the lower estuary. In the dry season nitrogen enters the Annan and Daintree estuaries predominantly in the form of PON and DON in roughly equal proportions. Nitrogen exports to the GBR are mostly in the form of DON. In the wet season the majority of nitrogen enters the estuaries as DON and leaves as PON. Nitrogen removal in the estuaries and plumes appears to be biologically mediated once suspended sediment concentrations decrease to a point where phytoplankton growth is not light limited. In the dry season phosphorus enters and leaves the estuaries primarily in organic form. PIP is the dominant form of phosphorus in river water, but leaves the estuary more evenly distributed between all forms. These estuarine processes result in less nitrogen and phosphorus being delivered to the GBR lagoon than is exported from the catchment. The differences between these estuaries highlights the need for further work to explore modifications in estuaries that drain into the Great Barrier Reef lagoon.     

Circulation in the Great Barrier Reef Lagoon using numerical tracers and in situ data

Numerical hydrodynamic models of the northeastern Queensland shelf, forced by regional winds and modelled boundary currents in the northern Coral Sea, are used to provide improved estimates of general flow trajectories and water residence times within the Great Barrier Reef (GBR) shelf system. Model performance was checked against a limited set of current metre records obtained at Lark Reef (16°S) and the Ribbon Reefs (15.5°S). Estimates of water parcel trajectories are derived from a series of numerical tracer experiments, with daily releases of neutrally buoyant, un-reactive particles at 320 sites along the coast between Cape York (10.7°S) and Hervey Bay (25°S). Flow trajectories and residence times for tracer particles introduced to the GBR lagoon in the southern—ca. 22°S, central—19°S, and northern reef—14°S are emphasised. For purposes of the analysis, the year was divided into two seasons based on mean alongshore current direction. Most coastal sourced tracers entering the central GBR lagoon between 16° and 20°S during the northward-current season (January–August) primarily encounter the outer-shelf reef matrix after exiting the lagoon at its northern “head” (nominally 16°S), after 50–150 days. Up to 70% of tracer particles entering in the southward-current season (August–December) eventually crossed the lagoon to the outer-shelf reef matrix, with median crossing times between 20 and 330 days. During favourable wind conditions, tracers introduced at the coast may move rapidly across the lagoon into the reef matrix. The tracer experiments indicate that most coastal-sourced tracers entering the GBR lagoon remain near the coast for extended periods of time, moving north and south in a coastal band. Residence times for conservative tracer particles (and implied residence times for water-borne materials) within the GBR shelf system ranged from ca. 1 month to 1 year—time frames that are very long relative to development times of planktonic larvae and cycling times for nutrient materials in the water column, implying they are transformed long before reaching the outer reef matrix.     

Monitoring pesticides in the Great Barrier Reef

Pesticide runoff from agriculture poses a threat to water quality in the world heritage listed Great Barrier Reef (GBR) and sensitive monitoring tools are needed to detect these pollutants. This study investigated the utility of passive samplers in this role through deployment during a wet and dry season at river mouths, two near-shore regions and an offshore region. The nearshore marine environment was shown to be contaminated with pesticides in both the dry and wet seasons (average water concentrations of 1.3-3.8 ng L⁻¹ and 2.2-6.4 ng L⁻¹, respectively), while no pesticides were detected further offshore. Continuous monitoring of two rivers over 13 months showed waters flowing to the GBR were contaminated with herbicides (diuron, atrazine, hexazinone) year round, with highest average concentrations present during summer (350 ng L⁻¹). The use of passive samplers has enabled identification of insecticides in GBR waters which have not been reported in the literature previously.     

A Paddock to reef monitoring and modelling framework for the Great Barrier Reef: Paddock and catchment component

Targets for improvements in water quality entering the Great Barrier Reef (GBR) have been set through the Reef Water Quality Protection Plan (Reef Plan). To measure and report on progress towards the targets set a program has been established that combines monitoring and modelling at paddock through to catchment and reef scales; the Paddock to Reef Integrated Monitoring, Modelling and Reporting Program (Paddock to Reef Program). This program aims to provide evidence of links between land management activities, water quality and reef health. Five lines of evidence are used: the effectiveness of management practices to improve water quality; the prevalence of management practice adoption and change in catchment indicators; long-term monitoring of catchment water quality; paddock & catchment modelling to provide a relative assessment of progress towards meeting targets; and finally marine monitoring of GBR water quality and reef ecosystem health. This paper outlines the first four lines of evidence.     

Estimates of sediment and nutrient loads in 10 major catchments draining to the Great Barrier Reef during 2006-2009

The Great Barrier Reef (GBR) catchment area has been monitored simultaneously for sediment and nutrient exports from 10 priority catchments discharging into the GBR lagoon between 2006 and 2009. This allows GBR catchment-wide exports to be estimated and spatially compared within a discrete time-frame. Elevated levels of sediment and nutrient exports were recorded in all monitored catchments as compared to pre-European estimates, but vary around previous estimates of mean annual loads. During the period of monitoring, the Burdekin and Fitzroy catchments contributed the highest sediment and nutrient exports, however when loads were normalised for area, these catchments produced the lowest unit yields. In contrast, the highest yields were produced in the wetter and proportionately more intensively cultivated Johnstone, O'Connell, and Pioneer catchments particularly for dissolved nitrogens. This assessment offers the necessary scientific foundation for future monitoring, assessment, and management of sediment and nutrient loads entering the GBR.     

Vertical surface water–groundwater exchange processes within a headwater floodplain induced by experimental floods

Restoring hydrologic connectivity between channels and floodplains is common practice in stream and river restoration. Floodplain hydrology and hydrogeology impact stream hydraulics, ecology, biogeochemical processing, and pollutant removal, yet rigorous field evaluations of surface water–groundwater exchange within floodplains during overbank floods are rare. We conducted five sets of experimental floods to mimic floodplain reconnection by pumping stream water onto an existing floodplain swale. Floods were conducted throughout the year to capture seasonal variation and each involved two replicate floods on successive days to test the effect of varying antecedent moisture. Water levels and specific conductance were measured in surface water, soil, and groundwater within the floodplain, along with surface flow into and out of the floodplain. Vegetation density varied seasonally and controlled the volume of surface water storage on the floodplain. By contrast, antecedent moisture conditions controlled storage of water in floodplain soils, with drier antecedent moisture conditions leading to increased subsurface storage and slower flood wave propagation across the floodplain surface. The site experienced spatial heterogeneity in vertical connectivity between surface water and groundwater across the floodplain surface, where propagation of hydrostatic pressure, preferential flow, and bulk Darcy flow were all mechanisms that may have occurred during the five floods. Vertical connectivity also increased with time, suggesting higher frequency of floodplain inundation may increase surface water–groundwater exchange across the floodplain surface. Understanding the variability of floodplain impacts on water quality noted in the literature likely requires better accounting for seasonal variations in floodplain vegetation and antecedent moisture as well as heterogeneous exchange flow mechanisms. Copyright © 2016 John Wiley & Sons, Ltd.