We evaluate the status of shellfish reef ecosystems in Australia including their historical distribution and loss, regulation and management and identify current research priorities, policies and conservation mechanisms that can enable their future protection and repair. Eight species of shellfish were identified as developing complex, three-dimensional reef systems over large scales in intertidal and subtidal areas across tropical, subtropical and temperate Australia. A dramatic decline in the extent and condition of Australia’s shellfish reef ecosystems occurred during the mid-1800s to early 1900s in concurrence with extensive harvesting for food and lime production, habitat modification, disease outbreaks and a decline in water quality. Despite early attempts during the late 1800s to curb over exploitation and repair degraded reefs through protection, primitive aquaculture and enhancement, living examples of shellfish reefs are now rare. Only one Ostrea angasi reef is known to exist that is comparable in size to reefs historically commercially fished, compared to at least 118 previously known locations. Out of the 60 historically fished locations identified for Saccostrea glomerata, only five are known to still contain commercially harvestable sized reefs. The introduced oyster Crasostrea gigas is increasing in reef extent, whilst data on the remaining five reef-building species is limited, preventing a detailed assessment of their current status. Our knowledge of the extent, physical characteristics, biodiversity and ecosystem services of natural shellfish reefs in Australia is extremely limited. Australia is well equipped to reverse the decline of shellfish reef ecosystems with a number of state and federal protection laws, international conventions and management mechanisms already in place, all of which can be used to help protect remaining reefs and aid in future recovery. Several restoration projects have recently begun as awareness of historical loss grows amongst the community and groups become motivated to implement repair. As momentum continues to grow, Australia could serve as a long-term model for other regions that may currently have limited understanding of their shellfish reefs ecosystems but wish to work towards their future conservation. Data to be made publicly available with publication of manuscript by end 2018.

Coral community transect data collected concurrent with coral disease surveys in in the vicinity of Hoga Island in the Wakatobi Marine National Park, Sulawesi, Indonesia. Three replicate 20 m transects were collected by divers in each of reef flat, crest and slope habitats in 2005 (four sites, point intersect transect data), 2007, 2010 and 2011 (all six sites, line intersect transect data). For further detail see: Haapkylä, J., A. S. Seymour, J. Trebilco, and D. Smith. 2007. Coral disease prevalence and coral health in the Wakatobi Marine Park, south-east Sulawesi, Indonesia. Journal of the Marine Biological Association of the UK 87:403. Haapkylä, J., R. Unsworth, A. Seymour, J. Melbourne-Thomas, M. Flavell, B. Willis, and D. Smith. 2009. Spatio-temporal coral disease dynamics in the Wakatobi Marine National Park, South-East Sulawesi, Indonesia. Diseases of Aquatic Organisms 87:105–115. Haapkylä, J., J. Melbourne-Thomas, and M. Flavell. 2015. The association between coral communities and disease assemblages in the Wakatobi Marine National Park, south-eastern Sulawesi, Indonesia. Marine and Freshwater Research.

Six dredges were undertaken from the RV Investigator during voyage IN2016_E01 to obtain rock and sediment samples to constrain the crustal nature, age of formation and paleo-environment through time of the Cascade Seamount, located offshore Eastern Tasmania, Australia. This record lists the sample number, weights and rock types recovered. In total we collected 713 kg of rock samples, including basalts, conglomerates, sandstones, limestones and tuffs.

The Marine Futures Project was designed to benchmark the current status of key Western Australian marine ecosystems, based on an improved understanding of the relationship between marine habitats, biodiversity and our use of these values. Approximately 1,500 km2 of seafloor were mapped using hydroacoustics (Reson 8101 Multibeam), and expected benthic habitats "ground-truthed" using towed video transects and baited remote underwater video systems. Both sources of information were then combined in a spatial predictive modelling framework to produce fine-scale habitat maps showing the extent of substrate types, biotic formations, etc. Surveys took place across 9 study areas, including Rottnest Island, a popular family holiday destination just 20 km off the Perth coast. One of the main drawcards of the island is the diverse marine life inhabiting the surounding waters, which Western Australian locals and tourists can experience by snorkelling, diving, boating and fishing. The marine environment around Rottnest includes seagrass meadows, kelp-covered reef tops, coral patches, and sponge gardens in deeper water. As a result of the warm, southward flowing Leeuwin Current, the island represents the southern limit of the distributions of many tropical corals and fish. The marine life around Rottnest therefore represents a unique mix of tropical and temperate species and habitats.

The Marine Futures Project was designed to benchmark the current status of key Western Australian marine ecosystems, based on an improved understanding of the relationship between marine habitats, biodiversity and our use of these values. Approximately 1,500 km2 of seafloor were mapped using hydroacoustics (Reson 8101 Multibeam), and expected benthic habitats "ground-truthed" using towed video transects and baited remote underwater video systems. Both sources of information were then combined in a spatial predictive modelling framework to produce fine-scale habitat maps showing the extent of substrate types, biotic formations, etc. Surveys took place across 9 study areas, including Mount Gardner, a site located just off Two People’s Bay, 30km east of the town of Albany. The area is host to a number of human uses, including recreational and commercial fishing, diving, surfing, recreational boat use and shipping and mining. The marine environment at this location is different to the other three study locations on the south coast, in that it encompasses the protected Two Peoples Bay with seagrass and invertebrate communities and the more exposed rocky and macroalgal reefs around the Mt Gardner peninsula itself.

Point data collected from video drops identifying benthic habitats such as seagrass, macroalgae and reef, collected during field work in 2007 to 2011. Used to support the Benthic Habitat Mapping project undertaken by DENR to map the nearshore benthic habitats of South Australia