ORCID Profile
0000-0002-9069-4581
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Research Topics
In Research Link Australia (RLA), "Research Topics" refer to ANZSRC FOR and SEO codes. These topics are either sourced from ANZSRC FOR and SEO codes listed in researchers' related grants or generated by a large language model (LLM) based on their publications.
Top 5 Research Topics
ANZSRC Field of Research (FoR)
Photogrammetry and Remote Sensing | Marine and Estuarine Ecology (incl. Marine Ichthyology) | Ecological Impacts of Climate Change | Environmental Science and Management | Ecosystem Function | Ecological Applications | Environmental Impact Assessment | Fisheries Sciences | Aquatic Ecosystem Studies and Stock Assessment | Fisheries Management | Aquaculture | Environmental Monitoring | Pattern Recognition and Data Mining | Image Processing
ANZSRC Socio-Economic Objective (SEO)
Ecosystem Assessment and Management of Marine Environments | Coastal and Marine Management Policy | Ecosystem Adaptation to Climate Change | Effects of Climate Change and Variability on Australia (excl. Social Impacts) | Aquaculture Tuna | Wild Caught Tuna | Wild Caught Fin Fish (excl. Tuna) | Aquaculture Fin Fish (excl. Tuna) | Marine Oceanic Processes (excl. climate related) | Marine Flora, Fauna and Biodiversity |
Related Links
Publications
eDNA metabarcoding survey reveals fine‐scale coral reef community variation across a remote, tropical island ecosystem
Publisher: Wiley
Date: 03-2020
DOI: 10.1111/MEC.15382
Seeing the Landscape: Multiple Scales of Visualising Terrestrial Heritage on Rosemary Island (Dampier Archipelago)
Publisher: Ubiquity Press, Ltd.
Date: 2020
DOI: 10.5334/OQ.81
Climate-change induced tropicalisation of marine communities in Western Australia
Publisher: CSIRO Publishing
Date: 2012
DOI: 10.1071/MF11205
Abstract: A major observed and predicted impact of climate change on marine species is the poleward shift in their distributions and the resulting changes in community structure. Here, we used a Dynamic Bioclimate Envelope Model to project range shift of exploited marine fishes and invertebrates in Western Australia. We combined published data and expert knowledge to predict current species distributions for 30 tropical, sub-tropical and temperate species that occur along the coast of Western Australia. Using outputs from both a Regional Oceanographic Model and a Global Circulation Model, we simulated change in the distribution of each species. Our study shows that under the SRES (Special Report for Emission Scenarios) A1B scenario, the median rate of distribution shift is around 19 km decade–1 towards higher latitudes and 9 m deeper decade–1 by 2055 relative to 2005. As a result, species gains and losses are expected along the south coast and north coast of Western Australia, respectively. Also, the coast of Western Australia is expected to experience a ‘tropicalisation’ of the marine community in the future, with increasing dominance of warmer-water species. Such changes in species assemblages may have large ecological and socio-economic implications through shifts in fishing grounds and unexpected trophic effects.
High diversity, but low abundance of cryptobenthic fishes on soft sediment habitats in Southeast Asia
Publisher: Elsevier BV
Date: 02-2019
A review of techniques for the identification and measurement of fish in underwater stereo-video image sequences
Publisher: SPIE
Date: 23-05-2013
DOI: 10.1117/12.2020941
Complementary molecular and visual sampling of fish on oil and gas platforms provides superior biodiversity characterisation
Publisher: Elsevier BV
Date: 07-2022
DOI: 10.1016/J.MARENVRES.2022.105692
Abstract: Offshore oil and gas platforms have the potential to provide complex refugia for fish and benthic colonisers. We compare two methods of bio ersity assessment for fish and elasmobranchs at seven decommissioned oil and gas platforms as well as five sediment sites, located 5 km from platforms, in the Gulf of Thailand. Using surveys from stereo-video ROV transects, and data from Environmental DNA (eDNA) water-column s les, we detected fish and elasmobranch taxa from 39 families and 66 genera across both platform and sediment sites with eDNA, compared with 18 families and 29 genera by stereo-ROV with platforms yielding significantly greater species richness. This study demonstrates that the combination of stereo-video ROV and eDNA provide effective, non-extractive and complementary methods to enhance data capture. This approach sets new benchmarks for evaluating fish assemblages surrounding platforms and will enhance measurements of biota to inform decisions on the fate of oil/gas infrastructure.
Storm-induced changes in environmental conditions are correlated with shifts in temperate reef fish abundance and diversity
Publisher: Elsevier BV
Date: 11-2015
Ecosystem biomonitoring with eDNA
Publisher: Springer Science and Business Media LLC
Date: 25-09-2017
DOI: 10.1038/S41598-017-12501-5
Abstract: Effective marine management requires comprehensive data on the status of marine bio ersity. However, efficient methods that can document bio ersity in our oceans are currently lacking. Environmental DNA (eDNA) sourced from seawater offers a new avenue for investigating the biota in marine ecosystems. Here, we investigated the potential of eDNA to inform on the breadth of bio ersity present in a tropical marine environment. Directly sequencing eDNA from seawater using a shotgun approach resulted in only 0.34% of 22.3 million reads assigning to eukaryotes, highlighting the inefficiency of this method for assessing eukaryotic ersity. In contrast, using ‘tree of life’ (ToL) metabarcoding and 20-fold fewer sequencing reads, we could detect 287 families across the major isions of eukaryotes. Our data also show that the best performing ‘universal’ PCR assay recovered only 44% of the eukaryotes identified across all assays, highlighting the need for multiple metabarcoding assays to catalogue bio ersity. Lastly, focusing on the fish genus Lethrinus , we recovered intra- and inter-specific haplotypes from seawater s les, illustrating that eDNA can be used to explore ersity beyond taxon identifications. Given the sensitivity and low cost of eDNA metabarcoding we advocate this approach be rapidly integrated into biomonitoring programs.
Declines in the abundance of coral trout (Plectropomus leopardus) in areas closed to fishing at the Houtman Abrolhos Islands, Western Australia
Publisher: Elsevier BV
Date: 09-2011
A little bait goes a long way: The influence of bait quantity on a temperate fish assemblage sampled using stereo-BRUVs
Publisher: Elsevier BV
Date: 11-2013
Nesting behaviour of a temperate damselfish (Parma mccullochi) and its influence on algae
Publisher: Informa UK Limited
Date: 05-2013
Stereo-ROV surveys of tropical reef fishes are comparable to stereo-DOVs with reduced behavioural biases
Publisher: Elsevier BV
Date: 02-2023
A comparison of underwater visual census, baited, diver operated and remotely operated stereo-video for sampling shallow water reef fishes
Publisher: Elsevier BV
Date: 10-2022
Large decline in the abundance of a targeted tropical lethrinid in areas open and closed to fishing
Publisher: Inter-Research Science Center
Date: 18-11-2010
DOI: 10.3354/MEPS08834
Using artificial illumination to survey nocturnal reef fish
Publisher: Elsevier BV
Date: 09-2013
Effects of a spatial closure on highly mobile fish species: an assessment using pelagic stereo-BRUVs
Publisher: Elsevier BV
Date: 11-2014
Cross and long-shore variations in reef fish assemblage structure and implications for biodiversity management
Publisher: Elsevier BV
Date: 03-2019
Life-history characteristics and mortality of the protogynous hermaphroditic frostback rockcod (Epinephelus bilobatus) from the eastern Indian Ocean
Publisher: Elsevier BV
Date: 09-2023
Effects of human footprint and biophysical factors on the body-size structure of fished marine species
Publisher: Wiley
Date: 27-07-2022
DOI: 10.1111/COBI.13807
Abstract: Marine fisheries in coastal ecosystems in many areas of the world have historically removed large‐bodied in iduals, potentially impairing ecosystem functioning and the long‐term sustainability of fish populations. Reporting on size‐based indicators that link to food‐web structure can contribute to ecosystem‐based management, but the application of these indicators over large (cross‐ecosystem) geographical scales has been limited to either fisheries‐dependent catch data or er‐based methods restricted to shallow waters ( m) that can misrepresent the abundance of large‐bodied fished species. We obtained data on the body‐size structure of 82 recreationally or commercially targeted marine demersal teleosts from 2904 deployments of baited remote underwater stereo‐video (stereo‐BRUV). S ling was at up to 50 m depth and covered approximately 10,000 km of the continental shelf of Australia. Seascape relief, water depth, and human gravity (i.e., a proxy of human impacts) were the strongest predictors of the probability of occurrence of large fishes and the abundance of fishes above the minimum legal size of capture. No‐take marine reserves had a positive effect on the abundance of fishes above legal size, although the effect varied across species groups. In contrast, sublegal fishes were best predicted by gradients in sea surface temperature (mean and variance). In areas of low human impact, large fishes were about three times more likely to be encountered and fishes of legal size were approximately five times more abundant. For conspicuous species groups with contrasting habitat, environmental, and biogeographic affinities, abundance of legal‐size fishes typically declined as human impact increased. Our large‐scale quantitative analyses highlight the combined importance of seascape complexity, regions with low human footprint, and no‐take marine reserves in protecting large‐bodied fishes across a broad range of species and ecosystem configurations.
Similarities between Line Fishing and Baited Stereo-Video Estimations of Length-Frequency: Novel Application of Kernel Density Estimates
Publisher: Public Library of Science (PLoS)
Date: 29-11-2012
Remotely sensed hydroacoustics and observation data for predicting fish habitat suitability
Publisher: Elsevier BV
Date: 02-2017
A comparison of underwater visual distance estimates made by scuba divers and a stereo-video system: implications for underwater visual census of reef fish abundance
Publisher: CSIRO Publishing
Date: 2004
DOI: 10.1071/MF03130
Abstract: Underwater visual census of reef fish by scuba ers is a widely used and useful technique for assessing the composition and abundance of reef fish assemblages, but suffers from several biases and errors. We compare the accuracy of underwater visual estimates of distance made by novice and experienced scientific ers and an underwater stereo-video system. We demonstrate the potential implications that distance errors may have on underwater visual census assessments of reef fish abundance. We also investigate how the accuracy and precision of scuba er length estimates of fish is affected as distance increases. Distance was underestimated by both experienced (mean relative error = −11.7%, s.d. = 21.4%) and novice scientific ers (mean relative error = −5.0%, s.d. = 17.9%). For experienced scientific ers this error may potentially result in an 82% underestimate or 194% overestimate of the actual area censused, which will affect estimates of fish density. The stereo-video system also underestimated distance but to a much lesser degree (mean relative error = −0.9%, s.d. = 2.6%) and with less variability than the ers. There was no correlation between the relative error of length estimates and the distance of the fish away from the observer.
High functional diversity in deep‐sea fish communities and increasing intraspecific trait variation with increasing latitude
Publisher: Wiley
Date: 08-07-2021
DOI: 10.1002/ECE3.7871
Abstract: Variation in both inter‐ and intraspecific traits affects community dynamics, yet we know little regarding the relative importance of external environmental filters versus internal biotic interactions that shape the functional space of communities along broad‐scale environmental gradients, such as latitude, elevation, or depth. We examined changes in several key aspects of functional alpha ersity for marine fishes along depth and latitude gradients by quantifying intra‐ and interspecific richness, dispersion, and regularity in functional trait space. We derived eight functional traits related to food acquisition and locomotion and calculated seven complementary indices of functional ersity for 144 species of marine ray‐finned fishes along large‐scale depth (50–1200 m) and latitudinal gradients (29°–51° S) in New Zealand waters. Traits were derived from morphological measurements taken directly from footage obtained using Baited Remote Underwater Stereo‐Video systems and museum specimens. We partitioned functional variation into intra‐ and interspecific components for the first time using a PERMANOVA approach. We also implemented two tree‐based ersity metrics in a functional distance‐based context for the first time: namely, the variance in pairwise functional distance and the variance in nearest neighbor distance. Functional alpha ersity increased with increasing depth and decreased with increasing latitude. More specifically, the dispersion and mean nearest neighbor distances among species in trait space and intraspecific trait variability all increased with depth, whereas functional hypervolume (richness) was stable across depth. In contrast, functional hypervolume, dispersion, and regularity indices all decreased with increasing latitude however, intraspecific trait variation increased with latitude, suggesting that intraspecific trait variability becomes increasingly important at higher latitudes. These results suggest that competition within and among species are key processes shaping functional multidimensional space for fishes in the deep sea. Increasing morphological dissimilarity with increasing depth may facilitate niche partitioning to promote coexistence, whereas abiotic filtering may be the dominant process structuring communities with increasing latitude.
A field and video annotation guide for baited remote underwater stereo-video surveys of demersal fish assemblages
Publisher: Wiley
Date: 24-09-2020
Cost-efficient sampling of fish assemblages: comparison of baited video stations and diver video transects
Publisher: Inter-Research Science Center
Date: 27-04-2010
DOI: 10.3354/AB00235
Description of a Remote Still Photography System for Collection of Benthic Photo-Quadrats
Publisher: Marine Technology Society
Date: 03-2010
DOI: 10.4031/MTSJ.44.2.1
Abstract: Abstract Quantitative s ling of benthic communities is central to a wide range of ecological research, from understanding spatial distribution and ecology to impact studies. With the need to s le deep as well as shallow regions, limited s ling capabilities of er-based methods and the expanding footprint of human activity, there is a need for an effective system capable of classifying benthic assemblages and able to monitor potential anthropogenic impacts. Here we describe a remote system capable of collecting benthic photo-quadrats to depths of 100 m. A procedure for the classification of these images into 64 abiotic and biotic categories is also described. During a 64-day s ling program that included s ling at seven locations along 1,200 km of coastline that resulted in the collection of over 9,000 images, only one day of s ling was lost due to equipment malfunction, with 99.5% of points able to be classified to the taxonomic resolution required, demonstrating the reliability and accuracy of this system. Furthermore, the incorporation of differential GPS and ultra-short baseline positioning system allowed collected images to be geo-referenced to within 0.5 m. Such precision allows the system to be used in conjunction with hydroacoustic habitat mapping techniques and potentially for repeated monitoring of areas with a small spatial extent. Development of this system provides a cost-effective means of quantifying benthic assemblages over broad scales.
Presettlement schooling behaviour of a priacanthid, the Purplespotted Bigeye Priacanthus tayenus (Priacanthidae: Teleostei)
Publisher: Springer Science and Business Media LLC
Date: 26-05-2013
Local genetic patchiness but no regional differences between Indo-West Pacific populations of the dogtooth tuna Gymnosarda unicolor
Publisher: Inter-Research Science Center
Date: 23-06-2014
DOI: 10.3354/MEPS10819
Response of diurnal and nocturnal coral reef fish to protection from fishing: an assessment using baited remote underwater video
Publisher: Springer Science and Business Media LLC
Date: 23-09-2012
Bait Effects in Sampling Coral Reef Fish Assemblages with Stereo-BRUVs
Publisher: Public Library of Science (PLoS)
Date: 27-07-2012
A comparison of visual- and stereo-video based fish community assessment methods in tropical and temperate marine waters of Western Australia
Publisher: Wiley
Date: 27-06-2013
A three-year, Australian-wide, environmental DNA (eDNA) study reveals spatial and temporal patterns in marine biodiversity
Publisher: Wiley
Date: 26-04-2023
DOI: 10.1111/DDI.13699
Abstract: To use a long‐term collection of bulk plankton s les to test the capacity of DNA metabarcoding to characterize the spatial and seasonal patterns found within a range of zooplankton communities, and investigate links with concurrent abiotic data collected as part of Australia's Integrated Marine Observing System (IMOS) programme. S les were sourced seasonally for 3 years from nine Pan‐Australian marine sites (n = 90). Here, we apply a multi‐assay metabarcoding approach to environmental DNA extracted from bulk plankton s les. Six assays (targeting 16SrRNA and COI genes) were used to target, lify and sequence the zooplankton ersity found within each s le. The data generated from each assay were filtered and clustered into OTUs prior to analysis. Abiotic IMOS data collected contemporaneously enabled us to explore the physical and chemical drivers of community composition. From over 25 million sequences, we identified in excess of 500 distinct taxa and detected clear spatial differences. We found that site and sea surface temperature are the most consistent predictors of differences between zooplankton communities. We detected endangered and invasive species such as the bryozoan Membranipora membranacea and the mollusc Maoricolpus roseus , and seasonal occurrences of species such as humpback whales ( Megaptera novaeangliae ). We also estimated the number of s les required to detect any significant seasonal changes. For OTU richness, this was found to be assay dependent and for OTU assemblage, a minimum of nine s les per season would be required. Our results demonstrate the ability of DNA to capture and map zooplankton community changes in response to seasonal and spatial stressors and provide vital evidence to environmental stakeholders. We confirm that a metabarcoding method offers a practical opportunity for an ecosystem‐wide approach to long‐term biomonitoring and understanding marine biomes where morphological analysis is not feasible.
Functional vulnerability and biogeography of reef fish assemblages in the Galapagos Archipelago
Publisher: Elsevier BV
Date: 06-2023
Increased connectivity and depth improve the effectiveness of marine reserves
Publisher: Wiley
Date: 20-05-2021
DOI: 10.1111/GCB.15635
Abstract: Marine reserves are a key tool for the conservation of marine bio ersity, yet only ~2.5% of the world's oceans are protected. The integration of marine reserves into connected networks representing all habitats has been encouraged by international agreements, yet the benefits of this design has not been tested empirically. Australia has one of the largest systems of marine reserves, providing a rare opportunity to assess how connectivity influences conservation success. An Australia‐wide dataset was collected using baited remote underwater video systems deployed across a depth range from 0 to 100 m to assess the effectiveness of marine reserves for protecting teleosts subject to commercial and recreational fishing. A meta‐analytical comparison of 73 fished species within 91 marine reserves found that, on average, marine reserves had 28% greater abundance and 53% greater biomass of fished species compared to adjacent areas open to fishing. However, benefits of protection were not observed across all reserves (heterogeneity), so full subsets generalized additive modelling was used to consider factors that influence marine reserve effectiveness, including distance‐based and ecological metrics of connectivity among reserves. Our results suggest that increased connectivity and depth improve the aforementioned marine reserve benefits and that these factors should be considered to optimize such benefits over time. We provide important guidance on factors to consider when implementing marine reserves for the purpose of increasing the abundance and size of fished species, given the expected increase in coverage globally. We show that marine reserves that are highly protected (no‐take) and designed to optimize connectivity, size and depth range can provide an effective conservation strategy for fished species in temperate and tropical waters within an overarching marine bio ersity conservation framework.
Distributional responses to marine heat waves: insights from length frequencies across the geographic range of the endemic reef fish Choerodon rubescens
Publisher: Springer Science and Business Media LLC
Date: 06-11-2017
Evidence of fish following towed oil and gas platforms to a reefing site and rapid colonisation
Publisher: Elsevier BV
Date: 09-2022
DOI: 10.1016/J.MARENVRES.2022.105728
Abstract: We investigated the composition and abundance of fish assemblages associated with seven offshore oil and gas platform jackets in the Gulf of Thailand before (pre-lift and pre-tow), and immediately after relocation (post-tow and reefed). Jackets were cut, lifted until partly out of the water, and attached to the rear of a heavy lift vessel. They were towed at speeds of 2.7 - 3.3 knots for between 133.9 and 205.4 km before being placed on the seafloor at an artificial reef site. Sixteen species of fish were observed both before and after jacket towing. We believe these species have sought refuge in the complex structures out of the current and have remained with the jackets. Ten species of fish were observed before towing, but not after. A further seven species of fish were only observed after the jackets were relocated onto the seafloor and were assumed to be early colonisers to the structures. The paper provides empirical evidence of a much-discussed paradigm that fish can swim great distances following moved structures, and further evidence of the ability of fish to rapidly colonise reefed structures.
Assessing reef fish assemblage structure: How do different stereo-video techniques compare?
Publisher: Springer Science and Business Media LLC
Date: 14-02-2010
Evaluation of the effect of closed areas on a unique and shallow water coral reef fish assemblage reveals complex responses
Publisher: Springer Science and Business Media LLC
Date: 30-04-2014
Calibration of pelagic stereo‐BRUV s and scientific longline surveys for sampling sharks
Publisher: Wiley
Date: 12-07-2014
Remote drifted and diver operated stereo–video systems: A comparison from tropical and temperate reef fish assemblages
Publisher: Elsevier BV
Date: 05-2016
Seasonal changes in a deep-water fish assemblage in response to monsoon-generated upwelling events
Publisher: Wiley
Date: 14-09-2011
Combined use of eDNA metabarcoding and video surveillance for the assessment of fish biodiversity
Publisher: Wiley
Date: 12-09-2019
DOI: 10.1111/COBI.13183
Management strategies to minimize the dredging impacts of coastal development on fish and fisheries
Publisher: Wiley
Date: 08-06-2018
DOI: 10.1111/CONL.12572
Coastal fish assemblages reflect geological and oceanographic gradients within an Australian zootone
Publisher: Public Library of Science (PLoS)
Date: 22-11-2013
Behavioural and pathomorphological impacts of flash photography on benthic fishes
Publisher: Springer Science and Business Media LLC
Date: 24-01-2019
DOI: 10.1038/S41598-018-37356-2
Abstract: Millions of people take animal pictures during wildlife interactions, yet the impacts of photographer behaviour and photographic flashes on animals are poorly understood. We investigated the pathomorphological and behavioural impacts of photographer behaviour and photographic flashes on 14 benthic fish species that are important for scuba ing tourism and aquarium displays. We ran a field study to test effects of photography on fish behaviour, and two laboratory studies that tested effects of photographic flashes on seahorse behaviour, and ocular and retinal anatomy. Our study showed that effects of photographic flashes are negligible and do not have stronger impacts than those caused solely by human presence. Photographic flashes did not cause changes in gross ocular and retinal anatomy of seahorses and did not alter feeding success. Physical manipulation of animals by photographing scuba ers, however, elicited strong stress responses. This study provides important new information to help develop efficient management strategies that reduce environmental impacts of wildlife tourism.
Widespread diversity deficits of coral reef sharks and rays
Publisher: American Association for the Advancement of Science (AAAS)
Date: 16-06-2023
Abstract: A global survey of coral reefs reveals that overfishing is driving resident shark species toward extinction, causing ersity deficits in reef elasmobranch (shark and ray) assemblages. Our species-level analysis revealed global declines of 60 to 73% for five common resident reef shark species and that in idual shark species were not detected at 34 to 47% of surveyed reefs. As reefs become more shark-depleted, rays begin to dominate assemblages. Shark-dominated assemblages persist in wealthy nations with strong governance and in highly protected areas, whereas poverty, weak governance, and a lack of shark management are associated with depauperate assemblages mainly composed of rays. Without action to address these ersity deficits, loss of ecological function and ecosystem services will increasingly affect human communities.
Erratum to Declines in the abundance of coral trout (Plectropomus leopardus) in areas closed to fishing at the Houtman Abrolhos Islands, Western Australia [J. Exp. Mar. Biol. Ecol. 406 (2011) 71-78]
Publisher: Elsevier BV
Date: 04-2012
Behaviour of temperate and sub-tropical reef fishes towards a stationary SCUBA diver
Publisher: Informa UK Limited
Date: 06-2007
The effect of kelp bed disturbance on the abundance and feeding behaviour of fishes on high-relief reefs
Publisher: Informa UK Limited
Date: 03-2010
Evidence of artisanal fishing impacts and depth refuge in assemblages of Fijian reef fish
Publisher: Springer Science and Business Media LLC
Date: 23-02-2011
Responses of benthic habitat and fish to severe tropical cyclone Winston in Fiji
Publisher: Springer Science and Business Media LLC
Date: 13-04-2021
Efficiently measuring complex sessile epibenthic organisms using a novel photogrammetric technique
Publisher: Elsevier BV
Date: 11-2006
Contrasting habitat use of diurnal and nocturnal fish assemblages in temperate Western Australia
Publisher: Elsevier BV
Date: 09-2012
Benthic assemblage composition on subtidal reefs along a latitudinal gradient in Western Australia
Publisher: Elsevier BV
Date: 2010
Comparison of the relative efficiencies of stereo-BRUVs and traps for sampling tropical continental shelf demersal fishes
Publisher: Elsevier BV
Date: 08-2012
Habitat suitability for marine fishes using presence-only modelling and multibeam sonar
Publisher: Inter-Research Science Center
Date: 16-12-2010
DOI: 10.3354/MEPS08858
Large‐scale eDNA metabarcoding survey reveals marine biogeographic break and transitions over tropical north‐western Australia
Publisher: Wiley
Date: 24-01-2021
DOI: 10.1111/DDI.13228
Abstract: Environmental DNA (eDNA) metabarcoding has demonstrated its applicability as a highly sensitive biomonitoring tool across small spatial and temporal scales in marine ecosystems. However, it has rarely been tested across large spatial scales or biogeographical barriers. Here, we scale up marine eDNA metabarcoding, test its ability to detect a major marine biogeographic break and evaluate its use as a regional biomonitoring tool in Australia. North‐western Australia (NWA). We applied metabarcoding assays targeting the mitochondrial 16S rRNA and CO1 genes to 284 surface seawater eDNA s les collected from 71 mid‐shelf, inshore, coastal and nearshore estuarine sites over 700 km of the NWA coastline. Metabarcoding detected a wide range of bony fish (404 taxa), elasmobranchs (44) and aquatic reptiles (5). We detected bioregional and depth differentiation within inshore bony fish communities. These findings support the presence of a marine biogeographic break, which is purported to occur in the vicinity of Cape Leveque, demarcating the border between the Kimberley and Canning bioregions. Inshore bony fish and elasmobranch communities, as well as coastal bony fish assemblages, were additionally found to differ between the South and North Kimberley regions suggesting previously unrecognized subregional differentiation amongst these taxa. The overall compositional data have been used to update distribution information for a number of endangered, elusive and data‐deficient taxa, including sawfish (family: Pristidae), northern river shark ( Glyphis garricki ) and wedgefish (genus: Rhynchobatus ). eDNA metabarcoding demonstrated a high level of sensitivity that was able to discern fine‐scale patterns across the large‐scale, remote and oceanographically complex region of North‐western Australia. Importantly, this study highlights the potential of integrating broad‐scale eDNA metabarcoding alongside other baseline surveys and long‐term monitoring approaches, which are crucial for the sustainable management and conservation of marine bio ersity in this unique marine region.
Habitat Specialization in Tropical Continental Shelf Demersal Fish Assemblages
Publisher: Public Library of Science (PLoS)
Date: 25-06-2012
Mode of reproduction, recruitment, and genetic subdivision in the brooding sponge Haliclona sp.
Publisher: Springer Science and Business Media LLC
Date: 28-09-2004
From fronds to fish: the use of indicators for ecological monitoring in marine benthic ecosystems, with case studies from temperate Western Australia
Publisher: Springer Science and Business Media LLC
Date: 15-09-2011
Regional-scale benthic monitoring for Ecosystem-Based Fisheries Management (EBFM) using an Autonomous Underwater Vehicle (AUV)
Publisher: Oxford University Press (OUP)
Date: 18-05-2012
Abstract: Smale, D. A., Kendrick, G. A., Harvey, E. S., Langlois, T. J., Hovey, R. K., Van Niel, K. P., Waddington, K. I., Bellchambers, L. M., Pember, M. B., Babcock, R. C., Vanderklift, M. A., Thomson, D. P., Jakuba, M. V., Pizarro, O., and Williams, S. B. 2012. Regional-scale benthic monitoring for ecosystem-based fisheries management (EBFM) using an autonomous underwater vehicle (AUV). – ICES Journal of Marine Science, 69: 1108–1118. Monitoring marine habitats and bio ersity is critical for understanding ecological processes, conserving natural resources, and achieving ecosystem-based fisheries management (EBFM). Here, we describe the application of autonomous underwater vehicle (AUV) technology to conduct ongoing monitoring of benthic habitats at two key locations in Western Australia. Benthic assemblages on rocky reefs were s led with an AUV, which captured 000 geo-referenced images. Surveys were designed to obtain 100% coverage of 25 × 25 m patches of benthic habitat. In 2010, multiple patches were surveyed at 15–40-m depths at three reference sites at the Houtman Abrolhos Islands and at six reference sites at Rottnest Island. The following year, repeat surveys of the same geo-referenced patches were conducted. Benthic assemblages at the Houtman Abrolhos Islands were varied in that one reference site was dominated by hard corals, whereas the other two were macroalgae dominated. Conversely, assemblages at Rottnest Island were dominated by the kelp Ecklonia radiata. The AUV resurveyed each patch with high precision and demonstrated adequate power to detect change. Repeated observations at the reference sites will track natural variability in benthic habitat structure, which in turn will facilitate the detection of ecological change and ultimately feed back into EBFM processes.
Combining environmental gradients to explain and predict the structure of demersal fish distributions
Publisher: Wiley
Date: 04-2010
Temperature and spatiotemporal variability of salicylihalamide A in the sponge Haliclona sp.
Publisher: Springer Science and Business Media LLC
Date: 04-07-2007
DOI: 10.1007/S10886-007-9326-X
Abstract: The production of salicylihalamide A by the marine sponge Haliclona sp. was investigated. S les of the two morphologies (green and brown) were collected from four locations covering approximately 1,200 km of coastline. Temporal variation between winter and summer was also examined at Bremer Bay. Chemical profiling by using liquid chromatography coupled with ultra violet detection and mass spectrometry showed that salicylihalamide A was produced only by the green morphology. Salicylihalamide A concentration was significantly correlated to water temperature but not to the size or depth of the sponge. Salicylihalamide A concentration was found to differ significantly among locations (Bremer Bay 13.5 microg g(-1), Hamelin Bay 11 microg g(-1), Rottnest Island 9.9 microg g(-1), and Jurien Bay 8.5 microg g(-1)) partially accounted for by the influence of water temperature. A difference between seasons was also observed in Bremer Bay (summer concentration of 13.5 microg g(-1) vs. winter concentration of 8.2 microg g(-1)). Environmental and physiological factors appear to be important in the production of salicylihalamide A by the green morphology. Additionally, the brown morphology does not produce salicylihalamide A, thus adding to the evidence that this morphology may be a different species.
A comparison of temperate reef fish assemblages recorded by three underwater stereo-video techniques
Publisher: Springer Science and Business Media LLC
Date: 26-08-2005
Characterizing ontogenetic habitat shifts in marine fishes: advancing nascent methods for marine spatial management
Publisher: Wiley
Date: 07-07-2017
DOI: 10.1002/EAP.1565
Abstract: Niche requirements and habitat resource partitioning by conspecific fishes of different sizes are significant knowledge gaps in the species distribution modelling domain. Management actions and operations are typically concentrated on static habitats, or specific areas of interest, without considering movement patterns of species associated with ontogenetic shifts in habitat usage. Generalized additive models were used to model the body-length-habitat relationships of six fish species. These models were used to identify subsets of environmental parameters that drive and explain the continuous length-habitat relationships for each of the study species, which vary in their degree of ecological and/or commercial importance. Continuous predictive maps of the length distributions for each of the six study species across approximately 200 km
Isolated reefs support stable fish communities with high abundances of regionally fished species
Publisher: Wiley
Date: 16-03-2021
DOI: 10.1002/ECE3.7370
Comparing two remote video survey methods for spatial predictions of the distribution and environmental niche suitability of demersal fishes
Publisher: Springer Science and Business Media LLC
Date: 15-12-2017
DOI: 10.1038/S41598-017-17946-2
Abstract: Information on habitat associations from survey data, combined with spatial modelling, allow the development of more refined species distribution modelling which may identify areas of high conservation/fisheries value and consequentially improve conservation efforts. Generalised additive models were used to model the probability of occurrence of six focal species after surveys that utilised two remote underwater video s ling methods (i.e. baited and towed video). Models developed for the towed video method had consistently better predictive performance for all but one study species although only three models had a good to fair fit, and the rest were poor fits, highlighting the challenges associated with modelling habitat associations of marine species in highly homogenous, low relief environments. Models based on baited video dataset regularly included large-scale measures of structural complexity, suggesting fish attraction to a single focus point by bait. Conversely, models based on the towed video data often incorporated small-scale measures of habitat complexity and were more likely to reflect true species-habitat relationships. The cost associated with use of the towed video systems for surveying low-relief seascapes was also relatively low providing additional support for considering this method for marine spatial ecological modelling.
Comparing environmental DNA collection methods for sampling community composition on marine infrastructure
Publisher: Elsevier BV
Date: 04-2023
Characterization of 13 polymorphic microsatellite loci for the dogtooth tuna Gymnosarda unicolor
Publisher: Springer Science and Business Media LLC
Date: 28-02-2013
Fluctuations of Galapagos mid-water and benthic reef fish populations during the 2015–16 ENSO
Publisher: Elsevier BV
Date: 11-2023
Shifts in Labridae geographical distribution along a unique and dynamic coastline
Publisher: Wiley
Date: 08-09-2019
DOI: 10.1111/DDI.12980
Erratum: A comparison of temperate reef fish assemblages recorded by three underwater stereo-video techniques (Marine Biology (2005) 148 (415-425) DOI: doi.org/10.1007/s00227-005-0090-6)
Publisher: Springer Science and Business Media LLC
Date: 09-02-2006
Influence of Range, Angle of View, Image Resolution and Image Compression on Underwater Stereo-Video Measurements: High-Definition and Broadcast-Resolution Video Cameras Compared
Publisher: Marine Technology Society
Date: 2010
DOI: 10.4031/MTSJ.44.1.3
Abstract: Abstract An investigation of how increasing the distance and angle to objects of interest affected the measurement accuracy and precision achievable with high-definition and medium-resolution PAL stereo-video systems was conducted. A test was also conducted to determine whether varying the compression of the imagery influenced measurement accuracy and precision. Measurements of five different lengths of PVC pipe (ranging from 51.5 to 3,001 mm) that represented the lengths of reef fishes routinely s led with stereo-video were made at 1 m intervals out to the maximum visibility (9 m range) over three different angles (90°, 80° and 70°). High-definition stereo-video imagery was compressed at three different bit-rates. The results show that higher definition stereo-video imagery allows objects to be measured more accurately and precisely over greater ranges. When both ends of a target can be clearly seen in high-definition stereo-video imagery, the associated error is approximately 1% of the total length of the object. There was no deleterious effect on accuracy or precision from increasing the angle of view. Lower compression did not result in more accurate and precise length estimates. The configuration of a stereo-video system needs to match the task of a particular survey, as changes in the base separation and angle of convergence will affect the accuracy and precision of measurements. With full high-definition systems, smaller lengths ( mm) of PVC could not be accurately measured at distances greater than 5 m whereas longer lengths (500‐3,001 mm) could be measured with acceptable accuracy and precision at 9 m.
Functional beta diversity of New Zealand fishes: Characterising morphological turnover along depth and latitude gradients, with derivation of functional bioregions
Publisher: Wiley
Date: 06-08-2021
DOI: 10.1111/AEC.13078
Abstract: Changes in the functional structures of communities are rarely examined along multiple large‐scale environmental gradients. Here, we describe patterns in functional beta ersity for New Zealand marine fishes versus depth and latitude, including broad‐scale delineation of functional bioregions. We derived eight functional traits related to food acquisition and locomotion and calculated complementary indices of functional beta ersity for 144 species of marine ray‐finned fishes occurring along large‐scale depth (50–1200 m) and latitudinal gradients (29°–51°S) in the New Zealand Exclusive Economic Zone. We focused on a suite of morphological traits calculated directly from in situ Baited Remote Underwater Stereo‐Video (stereo‐BRUV) footage and museum specimens. We found that functional changes were primarily structured by depth followed by latitude, and that latitudinal functional turnover decreased with increasing depth. Functional turnover among cells increased with increasing depth distance, but this relationship plateaued for greater depth distances ( m). In contrast, functional turnover did not change significantly with increasing latitudinal distance at 700–1200 m depths. Shallow functional bioregions (50–100 m) were distinct at different latitudes, whereas deeper bioregions extended across broad latitudinal ranges. Fishes in shallow depths had a body shape conducive to efficient propulsion, while fishes in deeper depths were more elongated, enabling slow, energy‐efficient locomotion, and had large eyes to enhance vision. Environmental filtering may be a primary driver of broad‐scale patterns of functional beta ersity in the deep sea. Greater environmental homogeneity may lead to greater functional homogeneity across latitudinal gradients at deeper depths (700–1200 m). We suggest that communities living at depth may follow a ‘functional village hypothesis’, whereby similar key functional niches in fish communities may be maintained over large spatial scales.
Effects of protection from fishing on the lengths of targeted and non-targeted fish species at the Houtman Abrolhos Islands, Western Australia
Publisher: Inter-Research Science Center
Date: 29-05-2009
DOI: 10.3354/MEPS08009
Baited remote underwater stereo-video outperforms baited downward-facing single-video for assessments of fish diversity, abundance and size composition
Publisher: Elsevier BV
Date: 12-2017
Development and evaluation of fish eDNA metabarcoding assays facilitate the detection of cryptic seahorse taxa (family: Syngnathidae)
Publisher: Wiley
Date: 19-06-2020
DOI: 10.1002/EDN3.93
Utility of body and otolith morphometry to discriminate cryptic juveniles of two sympatric red snappers (Perciformes: Lutjanidae)
Publisher: Wiley
Date: 05-09-2023
DOI: 10.1111/JFB.15530
Abstract: The sympatric red snappers, Lutjanus erythropterus and L. malabaricus , are highly valued by commercial and recreational fishers along the tropical northern coasts of Australia and throughout their distribution. Studies on the life history and ecology of these congeners are confounded by difficulties in distinguishing the cryptic juveniles of each species (i.e., 200 mm total length). This study aimed to validate a robust and cost‐effective method to discriminate these juveniles using body and/or otolith morphometric data in a multivariate analysis. Juvenile s les were collected from the northwest (n = 71) and northeast (n = 19) coasts of Australia, and species identification was confirmed using DNA barcoding. The most parsimonious multivariate models achieved accurate species prediction rates of 98.8%, which consisted of just three body variables (dorsal fin length, the distance from the snout to the anterior edge of the eye, and either jaw length or distance from the snout to the preoperculum). The high level of discrimination for these cryptic juveniles highlights the robustness of this morphometric approach. The slightly lower rate of discrimination using otolith morphology (84.9%) was associated with greater regional variation in L. malabaricus between the northwest and northeast coasts. Slight variations in otolith shape are typically used to determine stock structure, which highlights the potential need to collect s les over a broader area of a species geographic range when using an otolith morphometric discrimination model. The method outlined in this study could be applied to distinguish other cryptic congeneric fish species, including from archived otolith collections. Moreover, this method has the potential to be utilised in assessing species compositions using body measurements from in situ stereo‐video. This article is protected by copyright. All rights reserved.
Environmental DNA metabarcoding studies are critically affected by substrate selection
Publisher: Wiley
Date: 21-12-2019
Abstract: Effective biomonitoring is critical for driving management outcomes that ensure long-term sustainability of the marine environment. In recent years, environmental DNA (eDNA), coupled with metabarcoding methodologies, has emerged as a promising tool for generating biotic surveys of marine ecosystems, including those under anthropogenic pressure. However, more empirical data are needed on how to best implement eDNA field s ling approaches to maximize their utility for each specific application. The effect of the substrate chosen for eDNA s ling on the ersity of marine taxa detected by DNA metabarcoding has not yet been systematically analysed, despite aquatic systems being those most commonly targeted for eDNA studies. We investigated the effect of four commonly used eDNA substrates to explore taxonomic ersity: (a) surface water, (b) marine sediment, (c) settlement plates and (d) planktonic tows. With a focus on coastal ports, 332 eDNA s les from Australia (Indian and Southern oceans) and Kazakhstan (Caspian Sea) were collected and analysed by multi-assay DNA metabarcoding. Across study locations, between 30% and 52% of eukaryotic families detected were unique to a particular substrate and <6% of families were found in all four substrates. Taxonomic composition varied significantly depending on the substrate s led implying that the suitability (and bias) of an eDNA substrate will depend on the focal taxa. These findings demonstrate that single substrate eDNA metabarcoding likely underestimates the total eukaryotic ersity. Future eDNA experimental design should consider incorporating multiple substrates or select substrate(s) best suited to the specific detection of target taxa.
Efficacy of otolith morphometry for rapid discrimination of cryptic fishes
Publisher: Elsevier BV
Date: 10-2023
Strong direct and inconsistent indirect effects of fishing found using stereo-video: Testing indicators from fisheries closures
Publisher: Elsevier BV
Date: 12-2012
Protection from fishing alters the species composition of fish assemblages in a temperate-tropical transition zone
Publisher: Springer Science and Business Media LLC
Date: 21-07-2007
Are We Predicting the Actual or Apparent Distribution of Temperate Marine Fishes?
Publisher: Public Library of Science (PLoS)
Date: 19-04-2012
Consistent abundance distributions of marine fishes in an old, climatically buffered, infertile seascape
Publisher: Wiley
Date: 15-12-2012
Flight behavior of targeted fishes depends on variables other than fishing
Publisher: Elsevier BV
Date: 2019
Related Organisations
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