As part of Geoscience Australia's commitment towards the National Environmental Programme's Marine Biodiversity Hub, we have developed a fully four-dimensional (3D x time) biophysical dispersal model to simulate the movement of marine larvae over large, topographically complex areas. The model uses parallel processing on Australia's national supercomputer to handle large numbers of simulated larvae (on the order of several billion), and saves positional information as points within a relational database management system RDBMS). The model was used to study Australia's northwest marine region, with specific attention given to connectivity patterns among Australia's north-western Commonwealth Marine Reserves and Key Ecological Features (KEFs). These KEFs include carbonate terraces, banks and reefs on the shelf that support diverse benthic assemblages of sponges and corals, and canyons that extend from the shelf edge to the continental slope and are potential biodiversity hotspots. We will show animations of larval movement near canyons within the Gascoyne CMR; larval dispersal probability clouds partitioned by depth and time; as well as matrices of connectivity values among features of interest. We demonstrate how the data can be used to identify connectivity corridors in marine environments, and how the matrices can be analysed to identify key connections within the network. Information from the model can be used to inform priorities for monitoring the performance of reserves through examining net contributions of different reserves (i.e. are they sources or sinks), and studying changes in connectivity structure through adding and removing reserve areas.

Zooplankton sampling encompasses a range of methods, but these require specialized equipment, cost, and time. Ship-pumped seawater provides an opportunity to broadly quantify zooplankton abundance and richness during surveys with objectives other than zooplankton characterisation. Here, the effectiveness of sampling ship-pumped seawater for zooplankton was evaluated through the identification of established diurnal and biogeographic patterns as well as comparisons between sampling with surface tows and ship-pumped seawater over the Western Australian margin. Only one species was classed as a fouling organism (unknown Y-shaped polyps), and only one group was excluded from sampling via ship-pumped water (chaetognaths). As expected, we found significant diurnal differences in zooplankton abundance, as well as differences between the Houtman sub-basin (~ 100 km offshore) and the Wallaby (Cuvier) Plateau (~500 km offshore). These results suggest that sampling zooplankton with ship-pumped waters can result in useful broad comparisons of the overall abundance and number of taxa among regions but only when comparisons with surface tows are made. Importantly, sampling via ship-pumped water is not an appropriate method from which to characterize zooplankton communities and in no way replaces or negates the need for more traditional and comprehensive sampling of zooplankton.

Anthropogenic threats to benthic habitats do not pose an equal risk, nor are they uniformly distributed over the broad depth range of marine habitats. Deep sea benthic environments have, by and large, not been heavily exploited and most are in relatively good condition. In contrast, shelf and coastal habitats, and deep ocean pelagic fisheries, have been exploited extensively and human impacts here are locally severe. A critical point is that anthropogenic threats do not act in isolation; rather, they are cumulative and the impacts are compounded for every affected habitat. In general, the impacts of humans on benthic habitats is poorly understood. Habitat mapping provides condition assessments and establishes baselines against which changes can be measured. GeoHab scientists ranked the impacts on benthic habitats from fishing as the greatest threat, followed by pollution and litter, aggregate mining, oil and gas, coastal development, tourism, cables, shipping, invasive species, climate change and construction of wind farms. The majority of authors (84%) reported that monitoring changes in habitat condition over time was a planned or likely outcome of the work carried out. In this chapter the main anthropogenic threats to benthic habitats are reviewed in relation to their potential impacts on benthic environments.

Climate change is threatening tropical reefs across the world, with most scientists agreeing that the current changes in climate conditions are occurring at a much faster rate than in the past and are potentially beyond the capacity of reefs to adapt and recover. Current research in tropical ecosystems focuses largely on corals and fishes, although other benthic marine invertebrates provide crucial services to reef systems, with roles in nutrient cycling, water quality regulation, and herbivory. We review available information on the effects of environmental conditions associated with climate change on noncoral tropical benthic invertebrates, including inferences from modern and fossil records. Increasing sea surface temperatures may decrease survivorship and increase the developmental rate, as well as alter the timing of gonad development, spawning, and food availability. Environmental changes associated with climate change are linked to larger ecological processes, including changes in larval dispersal and recruitment success, shifts in community structure and range extensions, and the establishment and spread of invasive species. Loss of some species will trigger economic losses and negative effects on ecosystem function. Our review is intended to create a framework with which to predict the vulnerability of benthic invertebrates to the stressors associated with climate change, as well as their adaptive capacity. We anticipate that this review will assist scientists, managers, and policy-makers to better develop and implement regional research and management strategies, based on observed and predicted changes in environmental conditions.

This dataset contains species identifications of molluscs collected during survey SOL4934 (R.V. Solander, 27 August - 24 September, 2009). Animals were collected from the Joseph Bonaparte Gulf with a benthic sled. Specimens were lodged at Northern Territory Museum on the 8 February 2010. Species-level identifications were undertaken by Richard Willan at the Northern Territory Museum and were delivered to Geoscience Australia on the 15 March 2010. See GA Record 2010/09 for further details on survey methods and specimen acquisition. Data is presented here exactly as delivered by the taxonomist, and Geoscience Australia is unable to verify the accuracy of the taxonomic identifications.<p><p>This dataset is not to be used for navigational purposes.

A key component of marine bioregional planning is to map the spatial patterns of marine biodiversity, often measured as species richness, total abundance or abundance/presence of key taxa. In this study, predictive modelling approaches were used to map soft bottom benthic biodiversity on the Carnarvon Shelf, Western Australia, using a range of physical surrogates. This surrogacy approach could also explicitly link physical environmental attributes to the marine biodiversity patterns. The statistical results show that between 20% and 37% of variances on the two biodiversity measures (Species Richness and Total Abundance) were explained by the Random Forest Decision Tree models. The best statistical validation performance was found at the Point Cloates area. This was followed by the Gnaraloo area, then by the Mandu Creek area. The models identified different individual physical surrogates for the three study areas and the two biodiversity measures. However, it was found that the infaunal biodiversity at the three study areas of the Carnarvon Shelf were driven by similar ecological process. Sediment properties were the most important physical surrogates for the infaunal biodiversity. Coarser and heterogeneous sediments favour higher infaunal species richness and total abundance. The prediction maps indicate the highest infaunal biodiversity at deeper water of the Point Cloates area. In contrast, the majority of the Mandu creek area has low infaunal biodiversity. This may be due to the much narrower shelf width (e.g., ~6 km) in this part of Carnarvon Shelf than the Point Cloates and Gnaraloo areas. The narrow shelf would limit the space for oceanographic processes to work on the sediment and develop heterogeneous sediment properties that support diverse and productive infaunal species.

This introductory chapter provides an overview of the book's contents and definitions of key concepts including benthic habitat, potential habitat and seafloor geomorphology. The chapter concludes with a summary of commonly used habitat mapping technologies. Benthic (seafloor) habitats are physically distinct areas of seabed that are associated with particular species, communities or assemblages that consistently occur together. Benthic habitat maps are spatial representations of physically distinct areas of seabed that are associated with particular groups of plants and animals. Habitat maps can illustrate the nature, distribution and extent of distinct physical environments present and importantly they can predict the distribution of the associated species and communities.

Marine physical and geochemical data can be valuable in predicting the potential distributions and assemblages of marine species, acting as surrogate measures of biodiversity. The results of surrogacy analysis can also be useful for identifying ecological processes that link physical environmental attributes to the distribution of seabed biota. This paper reports the results of a surrogacy study in Jervis Bay, a shallow-water, sandy marine embayment in south-eastern Australia. A wide range of high-resolution co-located physical and biological data were employed, including multibeam bathymetry and backscatter data and their derivatives, parameters that describe seabed sediment and water column physical characteristics, seabed exposure, and infauna species. The study applied three decision tree models and a robust model selection process. The results show that the model performance for three diversity indices and seven out of eight infauna species range from acceptable to good. Important surrogates for infauna diversity and species distributions within the mapped area are broad-scale habitat type, seabed exposure, sediment nutrient status, and seabed rugosity and heterogeneity. The results demonstrate that abiotic environmental parameters of a sandy embayment can be used to effectively predict infauna species distributions and biodiversity patterns. International Journal of Geographical Information Science

Physical sedimentological processes such as the mobilisation and transport of shelf sediments during extreme storm events give rise to disturbances that characterise many shelf ecosystems. The intermediate disturbance hypothesis predicts that biodiversity is controlled by the frequency of disturbance events, their spatial extent and the amount of time required for ecological succession. A review of available literature suggests that periods of ecological succession in shelf environments range from 1 to over 10 years. Physical sedimentological processes operating on continental shelves having this same return frequency include synoptic storms, eddies shed from intruding ocean currents and extreme storm events (cyclones, typhoons and hurricanes). Modelling studies that characterise the Australian continental shelf in terms of bed stress due to tides, waves and ocean currents were used here to create a map of ecological disturbance, defined as occurring when the Shield's parameter exceeds a threshold of 0.25. We also define a dimensionless ecological disturbance ratio (ED) as the rate of ecological succession divided by the recurrence interval of disturbance events. The results illustrate that on the outer part of Australia's southern, wave-dominated shelf the mean number of days between threshold events that the Shield's parameter exceeds 0.25 is several hundred days.

Models of seabed sediment mobilisation by waves and currents over Australia's continental shelf environment are used to examine whether disturbance regimes exist in the context of the intermediate disturbance hypothesis (IDH). Our study shows that it is feasible to model the frequency and magnitude of seabed disturbance in relation to the dominant energy source (wave-dominated shelf, tide-dominated shelf or tropical cyclone dominated shelf). Areas are mapped where the recurrence interval of disturbance events is comparable to the rate of ecological succession, which meets criteria defined for a disturbance regime. We focus our attention on high-energy, patch-clearing events defined as exceeding the Shields (bed shear stress) parameter value of 0.25. Using known rates of ecological succession for different substrate types (gravel, sand, mud), predictions are made of the spatial distribution of a dimensionless ecological disturbance index (ED), given as: ED = FA (ES/RI), where ES is the ecological succession rate for different substrates, RI is the recurrence interval of disturbance events and FA is the fraction of the frame of reference (surface area) disturbed. Maps for the Australian continental shelf show small patches of ED-seafloor distributed around the continent, on both the inner and outer shelf. The patterns are different for wave-dominated (patches on the outer shelf trending parallel to the coast), tide-dominated (patches crossing the middle-shelf trending normal to the coast) and cyclone-dominated (large oval-shaped patches crossing all depths). Only a small portion of the shelf (perhaps ~10%) is characterised by a disturbance regime as defined here. To our knowledge, this is the first time such an analysis has been attempted for any continental shelf on the earth.