Towards protecting the Great Barrier Reef from land-based pollution.

The Great Barrier Reef (GBR) is an iconic coral reef system extending over 2000 km along the north-east coast of Australia. Global recognition of its Outstanding Universal Value resulted in the listing of the 348 000 km(2) GBR World Heritage Area (WHA) by UNESCO in 1981. Despite various levels of national and international protection, the condition of GBR ecosystems has deteriorated over the past decades, with land-based pollution from the adjacent catchments being a major and ongoing cause for this decline. To reduce land-based pollution, the Australian and Queensland Governments have implemented a range of policy initiatives since 2003. Here, we evaluate the effectiveness of existing initiatives to reduce discharge of land-based pollutants into the waters of the GBR. We conclude that recent efforts in the GBR catchments to reduce land-based pollution are unlikely to be sufficient to protect the GBR ecosystems from declining water quality within the aspired time frames. To support management decisions for desired ecological outcomes for the GBR WHA, we identify potential improvements to current policies and incentives, as well as potential changes to current agricultural land use, based on overseas experiences and Australia's unique potential. The experience in the GBR may provide useful guidance for the management of other marine ecosystems, as reducing land-based pollution by better managing agricultural sources is a challenge for coastal communities around the world.

Automated detection of broadband clicks of freshwater fish using spectro-temporal features.

Large scale networks of embedded wireless sensor nodes can passively capture sound for species detection. However, the acoustic recordings result in large amounts of data requiring in-network classification for such systems to be feasible. The current state of the art in the area of in-network bioacoustics classification targets narrowband or long-duration signals, which render it unsuitable for detecting species that emit impulsive broadband signals. In this study, impulsive broadband signals were classified using a small set of spectral and temporal features to aid in their automatic detection and classification. A prototype system is presented along with an experimental evaluation of automated classification methods. The sound used was recorded from a freshwater invasive fish in Australia, the spotted tilapia (Tilapia mariae). Results show a high degree of accuracy after evaluating the proposed detection and classification method for T. mariae sounds and comparing its performance against the state of the art. Moreover, performance slightly improves when the original signal was down-sampled from 44.1 to 16 kHz. This indicates that the proposed method is well-suited for detection and classification on embedded devices, which can be deployed to implement a large scale wireless sensor network for automated species detection.

Suspended sediment prolongs larval development in a coral reef fish.

Increasing sediment input into coastal environments is having a profound influence on shallow marine habitats and associated species. Coral reef ecosystems appear to be particularly sensitive, with increased sediment deposition and re-suspension being associated with declines in the abundance and diversity of coral reef fishes. While recent research has demonstrated that suspended sediment can have negative impacts on post-settlement coral reef fishes, its effect on larval development has not been investigated. In this study, we tested the effects of different levels of suspended sediment on larval growth and development time in Amphiprion percula, a coral reef damselfish. Larvae were subjected to four experimental concentrations of suspended sediment spanning the range found around coastal coral reefs (0-45 mg l(-1)). Larval duration was significantly longer in all sediment treatments (12 days) compared with the average larval duration in the control treatment (11 days). Approximately 75% of the fish in the control had settled by day 11, compared with only 40-46% among the sediment treatments. In the highest sediment treatment, some individuals had a larval duration twice that of the median duration in the control treatment. Unexpectedly, in the low sediment treatment, fish at settlement were significantly longer and heavier compared with fish in the other treatments, suggesting delayed development was independent of individual condition. A sediment-induced extension of the pelagic larval stage could significantly reduce numbers of larvae competent to settle and, in turn, have major effects on adult population dynamics.

The effect of catchment load reductions on water quality in the crown-of-thorn starfish outbreak initiation zone.

Crown-of-Thorns Starfish (CoTS) population outbreaks contribute to coral cover decline on Indo-Pacific reefs. On the Great Barrier Reef (GBR), enhanced catchment nutrient loads are hypothesised to increase phytoplankton food for CoTS larvae in the outbreak initiation zone. This study examines whether catchment load reductions will improve water quality in this zone during the larval period. We defined the i) initiation zone's spatial extent; ii) larval stage's temporal extent; and iii) water quality thresholds related to larval food, from published information. We applied these to model simulations, developed to quantify the effect of catchment load reductions on GBR water quality (Baird et al., 2021), and found a consistently weak response of chlorophyll-a, total organic nitrogen and large zooplankton concentrations in the initiation zone. Model results indicate marine and atmospheric forcing are more likely to control the planktonic biomass in this zone, even during major flooding events purported to precede CoTS outbreaks.

Assessment of microplastic bioconcentration, bioaccumulation and biomagnification in a simple coral reef food web.

Plastics, and more specifically, microplastics (MPs, <5 mm) are considered a marine contaminant of emerging concern. To accurately assess the ecological risk of MPs, it is critical to first understand the relationship between MP contamination in organisms with that in their surrounding environment. The goal of this study was to examine the ecological risk of MPs in coral reef ecosystems by assessing the MP contamination found within a simple food web against contamination in the surrounding environment. Taxa representing three trophic levels (zooplankton, benthic crustaceans, and reef fish), as well as the distinct environmental matrices which they inhabit (i.e., mid-column water and sediment) were collected from two mid-shelf reefs in the central Great Barrier Reef, Australia. Microplastics were isolated using validated clarification techniques, visually characterised (i.e., shape, colour, size) by microscopy, chemically confirmed by Fourier transform infrared spectroscopy and recorded in all three trophic levels and all abiotic samples. MPs were found to bioconcentrate, with similar concentrations, polymer types, sizes, shapes, and colours at each trophic level compared to their surrounding environment. However, MP contamination varied across the three trophic levels, with no evidence of bioaccumulation. Further, MP concentrations did not increase up the food web, discounting MP biomagnification. Regardless, given the heterogeneity of MPs found in the marine environment, and the complexity of marine food webs, trophic transfer represents a prominent pathway of exposure from lower to higher trophic levels.

An assessment workflow to recover microplastics from complex biological matrices.

A criteria-guided workflow was applied to assess the effectiveness of microplastic separation methods on complex marine biological matrices. Efficacy of four methods (nitric acid, HNO3, and potassium hydroxide, KOH, digestions, and sodium chloride, NaCl, and potassium iodide, KI, density flotations) was evaluated on four taxa (hard coral, sponge, sea squirt, sea cucumber) using five microplastics (polyethylene, polystyrene, polyethylene terephthalate, PET, polyvinylchloride, rayon). Matrix clarification was only unacceptably low for KOH. PET discoloured regardless of reagent. Rayon threads unravelled into monofilaments after exposure to all reagents, with discolouration also occurring with HNO3. Recovery rates were overall high, except for dense microplastics treated with NaCl and only KI yielded high rayon recovery efficiency. All polymers were accurately assigned, with subtle spectral changes observed. These results demonstrate specific limitations to separation methods applied to different biological matrices and microplastics and highlight the need to assess their suitability to provide estimates of microplastic contamination.

Sampling re-design increases power to detect change in the Great Barrier Reef's inshore water quality.

Monitoring programs are fundamental to understanding the state and trend of aquatic ecosystems. Sampling designs are a crucial component of monitoring programs and ensure that measurements evaluate progress toward clearly stated management objectives, which provides a mechanism for adaptive management. Here, we use a well-established marine monitoring program for inshore water quality in the Great Barrier Reef (GBR), Australia to investigate whether a sampling re-design has increased the program's capacity to meet its primary objectives. Specifically, we use bootstrap resampling to assess the change in statistical power to detect temporal water quality trends in a 15-year inshore marine water quality data set that includes data from both before and after the sampling re-design. We perform a comprehensive power analysis for six water quality analytes at four separate study areas in the GBR Marine Park and find that the sampling re-design (i) increased power to detect trends in 23 of the 24 analyte-study area combinations, and (ii) resulted in an average increase in power of 34% to detect increasing or decreasing trends in water quality analytes. This increase in power is attributed more to the addition of sampling locations than increasing the sampling rate. Therefore, the sampling re-design has substantially increased the capacity of the program to detect temporal trends in inshore marine water quality. Further improvements in sampling design need to focus on the program's capability to reliably detect trends within realistic timeframes where inshore improvements to water quality can be expected to occur.

Temporal patterns of plastic contamination in surface waters at the SS Yongala shipwreck, Great Barrier Reef, Australia.

Plastic pollution is ubiquitous within the marine environment, including surface waters, water column and benthic sediments. Marine plastic contamination is expected to increase if future projections of increased plastic production eventuate. Conversely, national and international efforts are aiming to reduce marine plastic contamination. In this context, scientists, managers and the general public are increasingly interested in understanding the status and temporal trends of plastic contamination in the marine environment. Presented here is the first temporal assessment of plastic contamination in surface waters of the Great Barrier Reef (GBR), Australia. Specifically, duplicate surface seawater samples (n = 66) were collected at the SS Yongala shipwreck (Central GBR) monthly from September 2016 to September 2019 and analysed for plastic presence and abundance. The processing workflow involved density separation, followed by filtration, visual identification and sizing of putative plastics using stereomicroscopy, and chemical characterisation using Fourier transform infrared spectroscopy. A total of 533 plastic items were identified across all tows, consisting of macro-, meso- and microplastic fragments and fibres, with polypropylene and polyethylene being the most common polymers. Plastic contamination was detected in every replicate tow, bar one. Plastic concentrations fluctuated and spiked every three months, although contamination did not significantly alter across the three-year period. Wind speed, salinity and river discharge volume, but not surface current speed nor sea surface temperature, had a significant influence on the levels of plastic contamination. This study reveals, for the first time, the chronic presence of plastic debris in the surface waters of the GBR highlighting the need for long-term and on-going monitoring of the marine environment for plastic contamination.

Efficacy of Microplastic Separation Techniques on Seawater Samples: Testing Accuracy Using High-Density Polyethylene.

AbstractMicroplastic contamination of the marine environment has been reported globally. Its pervasiveness has highlighted the importance of accurate quantification to enable comparability within and between different environmental matrices. The potential efficacy of different methods to separate microplastics from their environmental sample matrix, however, is rarely validated. In this study, we examine the effects of four commonly used separation methods for seawater samples, namely, visual separation, density flotation, acidic digestion, and enzymatic digestion, using high-density polyethylene as our model microplastic. For each separation method, clarification efficiencies of the sample matrix, spiked recovery of high-density polyethylene microparticles, and potential changes in the chemical and physical characteristics of high-density polyethylene were assessed. High, albeit variable, recovery rates (>83%) of high-density polyethylene microparticles were achieved across all methods. Concentrated nitric acid was most effective at eliminating biological material from seawater samples. No apparent physical (i.e., length or color) or chemical changes due to separation treatments were observed in recovered high-density polyethylene microparticles, with the one exception that enzymatic digestion obscured polymer identification of high-density polyethylene. Our findings highlight the need to determine and report on the accuracy of separation methods for different polymer types and specific environmental sample matrices to ensure accurate quantification of marine microplastic contamination.

Fish predators control outbreaks of Crown-of-Thorns Starfish.

Outbreaks of corallivorous Crown-of-Thorns Starfish (CoTS, Acanthaster spp.) have caused persistent and widespread loss of coral cover across Indo-Pacific coral reefs. The potential drivers of these outbreaks have been debated for more than 50 years, hindering effective management to limit their destructive impacts. Here, we show that fish biomass removal through commercial and recreational fisheries may be a major driver of CoTS population outbreaks. CoTS densities increase systematically with increasing fish biomass removal, including for known CoTS predators. Moreover, the biomass of fish species and families that influence CoTS densities are 1.4 to 2.1-fold higher on reefs within no-take marine reserves, while CoTS densities are 2.8-fold higher on reefs that are open to fishing, indicating the applicability of fisheries-based management to prevent CoTS outbreaks. Designing targeted fisheries management with consideration of CoTS population dynamics may offer a tangible and promising contribution to effectively reduce the detrimental impacts of CoTS outbreaks across the Indo-Pacific.

Relevance and reliability of evidence for microplastic contamination in seafood: A critical review using Australian consumption patterns as a case study.

Seafood contamination with, and human consumption of, microplastics (MPs) have recently been highlighted as an emerging concern for global food security. While there is evidence that commercial marine species are contaminated with MPs, it is still unknown if seafood can act as a vector for MP transfer to human consumers. Microplastics have been reported in the digestive tract, gills and in select internal organs of marine animals. However, many of these tissues are not typically eaten by human consumers but discarded. In this critical review, we examined the peer-reviewed literature for evidence of MP contamination in seafood, and the potential transfer to human consumers. Based on known seafood consumption patterns in a typical Australian diet, we assessed the relevance and reliability of the current body of literature to examine the prospect and risk of MP transfer. The relevance of data was considered based on the organism studied, origin of the samples, and the tissues analysed, while reliability was assessed based on procedural methodologies used to derive the data. A review of 132 studies found limited evidence of MP contamination in edible tissues from fresh fish or crustaceans. MP presence was confirmed in packaged fish, as well as in fresh and packaged bivalve molluscs. The limited number of studies satisfying the relevance and reliability criteria (n = 24) precluded a quantitative assessment of the potential risk associated with MP transfer. While consumption of packaged fish and bivalve molluscs may result in the consumption of MPs by humans, it is currently unknown whether this presents a health risk.

Automated flow control of a multi-lane swimming chamber for small fishes indicates species-specific sensitivity to experimental protocols.

In fishes, swimming performance is considered an important metric to measure fitness, dispersal and migratory abilities. The swimming performance of individual larval fishes is often integrated into models to make inferences on how environmental parameters affect population-level dynamics (e.g. connectivity). However, little information exists regarding how experimental protocols affect the swimming performance of marine fish larvae. In addition, the technical setups used to measure larval fish swimming performance often lack automation and accurate control of water quality parameters and flow velocity. In this study, we automated the control of multi-lane swimming chambers for small fishes by developing an open-source algorithm. This automation allowed us to execute repeatable flow scenarios and reduce operator interference and inaccuracies in flow velocity typically associated with manual control. Furthermore, we made structural modifications to a prior design to reduce the areas of lower flow velocity. We then validated the flow dynamics of the new chambers using computational fluid dynamics and particle-tracking software. The algorithm provided an accurate alignment between the set and measured flow velocities and we used it to test whether faster critical swimming speed (U crit) protocols (i.e. shorter time intervals and higher velocity increments) would increase U crit of early life stages of two tropical fish species [4-10-mm standard length (SL)]. The U crit of barramundi (Lates calcarifer) and cinnamon anemonefish (Amphiprion melanopus) increased linearly with fish length, but in cinnamon anemonefish, U crit started to decrease upon metamorphosis. Swimming protocols using longer time intervals (more than 2.5 times increase) negatively affected U crit in cinnamon anemonefish but not in barramundi. These species-specific differences in swimming performance highlight the importance of testing suitable U crit protocols prior to experimentation. The automated control of flow velocity will create more accurate and repeatable data on swimming performance of larval fishes. Integrating refined measurements into individual-based models will support future research on the effects of environmental change.

Bioaccumulation and biomagnification of microplastics in marine organisms: A review and meta-analysis of current data.

Microplastic (MP) contamination has been well documented across a range of habitats and for a large number of organisms in the marine environment. Consequently, bioaccumulation, and in particular biomagnification of MPs and associated chemical additives, are often inferred to occur in marine food webs. Presented here are the results of a systematic literature review to examine whether current, published findings support the premise that MPs and associated chemical additives bioaccumulate and biomagnify across a general marine food web. First, field and laboratory-derived contamination data on marine species were standardised by sample size from a total of 116 publications. Second, following assignment of each species to one of five main trophic levels, the average uptake of MPs and of associated chemical additives was estimated across all species within each level. These uptake data within and across the five trophic levels were then critically examined for any evidence of bioaccumulation and biomagnification. Findings corroborate previous studies that MP bioaccumulation occurs within each trophic level, while current evidence around bioaccumulation of associated chemical additives is much more ambiguous. In contrast, MP biomagnification across a general marine food web is not supported by current field observations, while results from the few laboratory studies supporting trophic transfer are hampered by using unrealistic exposure conditions. Further, a lack of both field and laboratory data precludes an examination of potential trophic transfer and biomagnification of chemical additives associated with MPs. Combined, these findings indicate that, although bioaccumulation of MPs occurs within trophic levels, no clear sign of MP biomagnification in situ was observed at the higher trophic levels. Recommendations for future studies to focus on investigating ingestion, retention and depuration rates for MPs and chemical additives under environmentally realistic conditions, and on examining the potential of multi-level trophic transfer for MPs and chemical additives have been made.

Relative efficacy of three approaches to mitigate Crown-of-Thorns Starfish outbreaks on Australia's Great Barrier Reef.

Population outbreaks of Crown-of-Thorns Starfish (COTS; Acanthaster spp.) are a major contributor to loss of hard coral throughout the Indo-Pacific. On Australia's Great Barrier Reef (GBR), management interventions have evolved over four COTS outbreaks to include: (1) manual COTS control, (2) Marine Protected Area (MPA) zoning, and, (3) water quality improvement. Here we evaluate the contribution of these three approaches to managing population outbreaks of COTS to minimize coral loss. Strategic manual control at sites reduced COTS numbers, including larger, more fecund and damaging individuals. Sustained reduction in COTS densities and improvements in hard coral cover at a site were achieved through repeated control visits. MPAs influenced initial COTS densities but only marginally influenced final hard coral cover following COTS control. Water quality improvement programs have achieved only marginal reductions in river nutrient loads delivered to the GBR and the study region. This, a subsequent COTS outbreak, and declining coral cover across the region suggest their contributions are negligible. These findings support manual control as the most direct, and only effective, means of reducing COTS densities and improving hard coral cover currently available at a site. We provide recommendations for improving control program effectiveness with application to supporting reef resilience across the Indo-Pacific.

Author Correction: DNA-based identification of predators of the corallivorous Crown-of-Thorns Starfish (Acanthaster cf. solaris) from fish faeces and gut contents.

An amendment to this paper has been published and can be accessed via a link at the top of the paper.

DNA-based identification of predators of the corallivorous Crown-of-Thorns Starfish (Acanthaster cf. solaris) from fish faeces and gut contents.

The corallivorous Crown-of-Thorns Starfish (CoTS, Acanthaster spp.) has been linked with the widespread loss of scleractinian coral cover on Indo-Pacific reefs during periodic population outbreaks. Here, we re-examine CoTS consumption by coral reef fish species by using new DNA technologies to detect Pacific Crown-of-Thorns Starfish (Acanthaster cf. solaris) in fish faecal and gut content samples. CoTS DNA was detected in samples from 18 different coral reef fish species collected on reefs at various stages of CoTS outbreaks in the Great Barrier Reef Marine Park, nine of which had not been previously reported to feed on CoTS. A comprehensive set of negative and positive control samples confirmed that our collection, processing and analysis procedures were robust, although food web transfer of CoTS DNA cannot be ruled out for some fish species. Our results, combined with the (i) presence of CoTS spines in some samples, (ii) reported predation on CoTS gametes, larvae and settled individuals, and (iii) known diet information for fish species examined, strongly indicate that direct fish predation on CoTS may well be more common than is currently appreciated. We provide recommendations for specific management approaches to enhance predation on CoTS by coral reef fishes, and to support the mitigation of CoTS outbreaks and reverse declines in hard coral cover.

Sources, presence and potential effects of contaminants of emerging concern in the marine environments of the Great Barrier Reef and Torres Strait, Australia.

Current policy and management for marine water quality in the Great Barrier Reef (GBR) in north-eastern Australia primarily focusses on sediment, nutrients and pesticides derived from diffuse source pollution related to agricultural land uses. In addition, contaminants of emerging concern (CECs) are known to be present in the marine environments of the GBR and the adjacent Torres Strait (TS). Current and projected agricultural, urban and industrial developments are likely to increase the sources and diversity of CECs being released into these marine ecosystems. In this review, we evaluate the sources, presence and potential effects of six different categories of CECs known to be present, or likely to be present, in the GBR and TS marine ecosystems. Specifically, we summarize available monitoring, source and effect information for antifouling paints; coal dust and particles; heavy/trace metals and metalloids; marine debris and microplastics; pharmaceuticals and personal care products (PPCPs); and petroleum hydrocarbons. Our study highlights the lack of (available) monitoring data for most of these CECs, and recommends: (i) the inclusion of all relevant environmental data into integrated databases for building marine baselines for the GBR and TS regions, and (ii) the implementation of local, targeted monitoring programs informed by predictive methods for risk prioritization. Further, our spatial representation of the known and likely sources of these CECs will contribute to future ecological risk assessments of CECs to the GBR and TS marine environments, including risks relative to those identified for sediment, nutrients and pesticides.

Sources, distribution and fate of microfibres on the Great Barrier Reef, Australia.

Marine microdebris, in particular microplastics (plastics <5 mm), has become an issue of international concern due to its prevalence, persistence and potential adverse impacts on marine ecosystems. Informing source reduction based on ecological effects requires an understanding of the origin, distribution and characteristics of microdebris and the interactions with marine organisms. Here we show widespread contamination of the central Great Barrier Reef environment with microdebris, with microfibres comprising 86% of all items detected. Microdebris intake by coral reef fish was non-random, with chemical composition, shape and colour differing significantly from that detected in surface waters. Furthermore, the origin of microdebris contamination in surface waters is non-random with riverine discharge a likely source for microdebris detected at inshore, but not at offshore reef locations. Our findings demonstrate the complexities associated with determining marine microdebris exposure and fate, and assist in improving future ecological assessments and prioritizing source reduction.

Classification of marine microdebris: A review and case study on fish from the Great Barrier Reef, Australia.

Marine debris, and in particular plastic pollution, is ubiquitous throughout global marine environments. Here, we present a classification of marine microdebris (i.e. debris between 0.1 µm and <5 mm) tailored to represent synthetic, semi-synthetic and naturally-derived items. The specific aim of this classification is to introduce a level of consistency in the higher-level characterisation of marine microdebris, thereby improving the overall reporting on marine microdebris contamination. We first conducted an extensive literature review on the accumulation of ingested debris in fish to identify discrepancies in marine microdebris reporting as a basis for the new classification. The review reveals the diverse nature of ingested marine microdebris, including items that are non-plastic but often incorrectly reported on as microplastics. We then applied our classification to a case study on wild-caught juvenile coral trout, Plectropomus spp., from the Great Barrier Reef World Heritage Area, Australia. This first report on accumulation of ingested marine debris in commercial fish on the reef demonstrates a high frequency of occurrence and a prevalence of semi-synthetic and naturally-derived fibres. Based on our findings, we offer recommendations on potential improvements for the classification presented, ultimately contributing to a more realistic assessment of the ecological risks of marine microdebris.