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.

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.

Much of the deep sea comprises soft-sediment habitats dominated by low abundances of small infauna, and traditional methods of biological sampling may therefore fail to sufficiently quantify biodiversity. During feeding and burrowing, many deep sea animals bioturbate the sediment, leaving signs of their activities called lebensspuren ('life traces'). In this study, we use three criteria to assess whether the quantification of lebensspuren from high resolution still images is an appropriate technique to broadly quantify biological activity in the deep sea: 1) The ability to differentiate biological assemblages between geographic regions; 2) the ability to reveal known biological patterns across environmental gradients; and 3) correlation with other methods of biological characterisation often used in the deep sea (e.g. video). Lebensspuren were quantified using a univariate measure of track richness and a multivariate measure of lebensspuren assemblages from the eastern (1712 images, 13 stations) and western (949 images, 11 stations) Australian margins. A total of 46 lebensspuren types were identified, including those matching named trace fossils. Assemblages were significantly different between the two regions, with five lebensspuren types accounting for over 95% of the differentiation (ovoid pinnate trace, crater row, spider feature, matchstick feature, mesh feature). Track richness in the combined margins dataset was correlated to depth, chlorin index (i.e. organic freshness), and possibly mud, although the strength of the relationships varied according to the dataset used. There was no relationship to total organic carbon. Lebensspuren richness from still images was significantly related to lebensspuren from video but not to occurrence of epifauna. Based on these results, the quantification of lebensspuren from still images seems an appropriate measure to broadly characterise biological activity in deep sea soft sediment ecosystems.

Geoscience Australia carried out marine surveys in Jervis Bay (NSW) in 2007, 2008 and 2009 (GA303, GA305, GA309, GA312) to map seabed bathymetry and characterise benthic environments through co-located sampling of surface sediments (for textural and biogeochemical analysis) and infauna, observation of benthic habitats using underwater towed video and stills photography, and measurement of ocean tides and wave-generated currents. Data and samples were acquired using the Defence Science & Technology Organisation (DSTO) Research Vessel Kimbla. Bathymetric mapping, sampling and tide/wave measurement were concentrated in a 3x5 km survey grid (named Darling Road Grid, DRG) within the southern part of the Jervis Bay, incorporating the bay entrance. Additional sampling and stills photography plus bathymetric mapping along transits was undertaken at representative habitat types outside the DRG. This 42 sample data set comprises the mineraology of surface seabed sediment (~0-2 cm) in Jervis Bay. More information: Radke, L.C., Huang, Z., Przeslawski, R., Webster, I.T., McArthur, M.A., Anderson, T.J., P.J. Siwabessy, Brooke, B. 2011. Including biogeochemical factors and a temporal component in benthic habitat maps: influences on infaunal diversity in a temperate embayment. Marine and Freshwater Research 62 (12): 1432 - 1448. Huang, Z., McArthur, M., Radke, L., Anderson, T., Nichol, S., Siwabessy, J. and Brooke, B. 2012. Developing physical surrogates for benthic biodiversity using co-located samples and regression tree models: a conceptual synthesis for a sandy temperature embayment. International Journal of Geographical Information Science DOI:10.1080/13658816.2012.658808.

This resource contains geochemistry data for the Oceanic Shoals Commonwealth Marine Reserve (CMR) in the Timor Sea collected by Geoscience Australia during September and October 2012 on RV Solander (survey GA0339/SOL5650). This dataset comprises inorganic element data from the fine fraction (Mud: <63um) of the upper ~2cm of seabed sediment. The Oceanic Shoals Commonwealth Marine Reserve survey was undertaken as an activity within the Australian Government's National Environmental Research Program Marine Biodiversity Hub and was the key component of Research Theme 4 - Regional Biodiversity Discovery to Support Marine Bioregional Plans. Hub partners involved in the survey included the Australian Institute of Marine Science, Geoscience Australia, the University of Western Australia, Museum Victoria and the Museum and Art Gallery of the Northern Territory. Data acquired during the survey included: multibeam sonar bathymetry and acoustic backscatter; sub-bottom acoustic profiles; physical samples of seabed sediments, infauna and epibenthic biota; towed underwater video and still camera observations of seabed habitats; baited video observations of demersal and pelagic fish, and; oceanographic measurements of the water column from CTD (conductivity, temperature, depth) casts and from deployment of sea surface drifters. Further information on the survey is available in the post-survey report published as Geoscience Australia Record 2013/38 (Nichol et al. 2013).

Geoscience Australia carried out marine surveys in Jervis Bay (NSW) in 2007, 2008 and 2009 (GA303, GA305, GA309, GA312) to map seabed bathymetry and characterise benthic environments through co-located sampling of surface sediments (for textural and biogeochemical analysis) and infauna, observation of benthic habitats using underwater towed video and stills photography, and measurement of ocean tides and wave-generated currents. Data and samples were acquired using the Defence Science & Technology Organisation (DSTO) Research Vessel Kimbla. Bathymetric mapping, sampling and tide/wave measurement were concentrated in a 3x5 km survey grid (named Darling Road Grid, DRG) within the southern part of the Jervis Bay, incorporating the bay entrance. Additional sampling and stills photography plus bathymetric mapping along transits was undertaken at representative habitat types outside the DRG. This 128 sample data set comprises major, minor and trace elements derived from x-ray fluorescence analysis of surface seabed sediments (~0-2 cm). Sediment surface area data are also presented. More Information: Radke, L.C., Huang, Z., Przeslawski, R., Webster, I.T., McArthur, M.A., Anderson, T.J., P.J. Siwabessy, Brooke, B. 2011. Including biogeochemical factors and a temporal component in benthic habitat maps: influences on infaunal diversity in a temperate embayment. Marine and Freshwater Research 62 (12): 1432 - 1448. Huang, Z., McArthur, M., Radke, L., Anderson, T., Nichol, S., Siwabessy, J. and Brooke, B. 2012. Developing physical surrogates for benthic biodiversity using co-located samples and regression tree models: a conceptual synthesis for a sandy temperature embayment. International Journal of Geographical Information Science DOI:10.1080/13658816.2012.658808.

The Oceanic Shoals survey (SOL5650, GA survey 339) was conducted on the R.V. Solander in collaboration with Geoscience Australia, the Australian Institute of Marine Science (AIMS), University of Western Australia and the Museum and Art Gallery of the Northern Territory between 12 September - 5 October, 2012. This dataset comprises an interpreted geomorphic map. Interpreted local-scale geomorphic maps were produced for each survey area in the Oceanic Shoals Commonwealth Marine Reserve (CMR) using multibeam bathymetry and backscatter grids at 2 m resolution and bathymetric derivatives (e.g. slope; 1-m contours). Six geomorphic units; bank, depression, mound, plain, scarp and terrace were identified and mapped using definitions suitable for interpretation at the local scale (nominally 1:10 000). Maps and polygons were manual digitised in ArcGIS using the spatial analyst and 3D analyst toolboxes. For further information on the geomorphic mapping methods please refer to Appendix N of the post-survey report, published as Geoscience Australia Record 2013/38: Nichol, S.L., Howard, F.J.F., Kool, J., Stowar, M., Bouchet, P., Radke, L., Siwabessy, J., Przeslawski, R., Picard, K., Alvarez de Glasby, B., Colquhoun, J., Letessier, T. & Heyward, A. 2013. Oceanic Shoals Commonwealth Marine Reserve (Timor Sea) Biodiversity Survey: GA0339/SOL5650 Post Survey Report. Record 2013/38. Geoscience Australia: Canberra. (GEOCAT #76658).

A growing need to manage marine biodiversity sustainably at local, regional and global scales cannot be met by applying the limited existing biological data. Abiotic surrogates of biodiversity are thus increasingly valuable in filling the gaps in our knowledge of biodiversity patterns, especially identification of hotspots, habitats needed by endangered or commercially valuable species and systems or processes important to the sustained provision of ecosystem services. This review examines the use of abiotic variables as surrogates for patterns in benthic assemblages with particular regard to how variables are tied to processes affecting biodiversity and how easily those variables can be measured at scales relevant to resource management decisions.

This report provides a description of the research activities completed during the CERF Marine Biodiversity Hub survey of southeast Tasmanian temperate reefs, aboard RV Challenger, as part of the Hub's Surrogates Program. The survey was undertaken as a collaborative exercise between the Tasmania Aquaculture and Fisheries Institute (TAFI, University of Tasmania) and Geoscience Australia (GA), and was completed in two stages during 2008 and 2009. This report describes the methods employed in the mapping and video characterisation of shallow-shelf temperate reef habitats across seven survey sites in southeast Tasmania. Preliminary results are provided of the analysis of multibeam sonar and underwater video data. Examples of the types of biota encountered in the towed video and stills photography, and initial interpretations of the benthic communities are also provided. In addition, initial results are presented from the deployment of an Autonomous Underwater Vehicle (AUV) to collect high resolution photographs of reefs and associated biota.