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The coastline of northern Australia may be a refuge for elasmobranchs threatened or extirpated from much of their former ranges across South-East Asia. In this study, we used baited remote underwater video stations to survey the abundance, size and assemblage of elasmobranchs in the Cobourg Marine Park in northern Australia. Two sites were sampled inside the park and one site was sampled outside the park, covering two management zones: open and partially protected. During the austral summer, 85 individuals of 12 species of elasmobranch were observed over 12 days. No significant differences were observed among sites in either size or abundance for common species. Videos were dominated by Carcharhinus melanopterus (relative abundance±s.d., 0.29±0.90h–1), Nebrius ferrugineus (0.03±0.24h–1) and Urogymnus granulatus (0.08±0.28h–1), which comprised >81% of all individuals. Environmental variables had no measurable effect on the abundance of elasmobranchs. The abundance and diversity of elasmobranchs in Cobourg Marine Park is high compared with other similar turbid, inshore areas of northern Australia. The large number of juveniles observed in our surveys also suggests the possibility of a nursery area.

The benefits of marine protected areas are difficult to estimate for mobile species, but their effectiveness can be increased if essential habitats, such as nursery areas, are protected. In the present study we examined movements of juvenile blacktip reef (Carcharhinus melanopterus) and sicklefin lemon (Negaprion acutidens) sharks in a coastal nursery in northern Australia. Telemetry-derived data were modelled using Brownian bridges and overlaid with maps of habitats and no-take zones. Juvenile N. acutidens were typically residents (≥30 days) of the nursery with small areas of core space use (

Broad-scale acoustic telemetry networks are being established worldwide. The 10-year anniversary of the Integrated Marine Observing System’s Animal Tracking Facility provided the opportunity to assess the efficiency of one of the first national-scale acoustic telemetry networks. Acoustic networks are comprised of acoustic receiver arrays that detect high-frequency transmitters attached to animals that pass within detection range. Herein we assessed the efficiency of eight curtains to detect passing animals by calculating the standardised mean number of detections and transmitters detected at each station. The aim was to determine how many receivers could be decommissioned from each curtain while maintaining its integrity (i.e. detection of all species passing the array). Pivotal locations were defined as the furthest station at which all species would still be detected and where at least 75% of the detections and transmitters would still be detected. By applying these criteria, we were able to improve the cost-effectiveness of our network significantly, reducing the number of stations from 132 to 85 (64% of the original network), yet still retaining 84% of total detections, 86% of transmitters and 100% of detected species. The present study provides a useful framework for refining acoustic telemetry networks.

Stingrays are an important part of the biomass of the fishes in shallow coastal ecosystems, particularly in inter-reefal areas. In these habitats, they are considered keystone species – modifying physical and biological habitats through their foraging and predation. Here, we quantify the effects of bioturbation by rays on sand flats of Ningaloo Reef lagoon in Western Australia. We measured the daily length, breadth and depth of 108 feeding pits over three 7‐day periods, created by stingrays (Pastinachus atrus, Himantura spp. Taeniura lymma and Urogymnus asperrimus) in Mangrove Bay. Additionally, an area of ~1 km2 of the lagoon at Coral Bay was mapped three times over 18 months, to record patterns of ray and pit presence. Over 21 days at Mangrove Bay, a total of 1.08 m3 of sediment was excavated by rays, equating to a sediment wet weight of 760.8 kg, and 2.42% of the total area sampled, or 0.03% of the whole intertidal zone. We estimate that up to 42% of the soft sediments in our study area would be reworked by stingrays each year. Based on a model predicting the probability of pit presence over time, there was a 40% probability of ray pits persisting for 4 days before being filled in but only a 15% probability of a pit being present after 7 days. Changes in pit volume over time were static, providing evidence for secondary use. Our results imply that rays play an important ecological role creating sheltered habitats for other taxa in addition to the turnover of sediments.

Appropriate management strategies for coastal regions require an understanding of how ecological similarities and differences among species shape ecosystem processes. Here, we tested whether morphological similarity equated to similar age and growth patterns in two common coastal sharks in northern Australia. Vertebrae of 199 pig-eye (Carcharhinus amboinensis) and 94 bull (C. leucas) sharks were sourced principally from commercial fisheries operating along the Northern Territory coastline during 2007–2009. We sectioned vertebrae to provide estimates of age of these animals. Model averaging results indicated female pig-eye sharks matured at 13 years and lived >30 years. Theoretical asymptotic length (L∞) (±s.e.) was estimated to be 2672 (±11.94) mm with a growth coefficient (k) of 0.145 year–1. Male pig-eye sharks matured slightly earlier than females (12 years) and survived >26 years. Theoretical asymptotic length for males (L∞) (±s.e.) was also smaller (2540 ± 13.056) mm and they grew faster (k = 0.161 year–1) than females. Bull sharks matured at 9.5 years and reached a maximum theoretical size (L∞) (±s.e.) of 3119 mm (±9.803) with a similar growth coefficient (k = 0.158 year–1) to pig-eye sharks. Longevity of bull sharks was estimated to be more than 27 years. Our results indicate that these patterns of high longevity and slow growth are indicative of low resilience and high susceptibility to over-exploitation of these coastal sharks.

Whale sharks (Rhincodon typus) are thought to aggregate in nearshore waters around Christmas Island (105°37′E, 10o29′S) to consume the marine larvae of the endemic red land crab (Gecarcoidea natalis). However, there have been no direct observations of sharks feeding on crab larvae. Whale shark faeces were analysed using genetic testing to confirm the presence of crab larvae in their diet. Primers were designed for amplifying two Gecarcoidea natalis mitochondrial small-subunit (mtSSU) rDNA regions. Gel electrophoresis of polymerase chain reaction (PCR) products amplified from whale shark faecal DNA produced bands of the expected size for G. natalis templates. Specificity of both primer sets for G. natalis mtSSU rDNA was expected to be high from comparisons with mtSSU rDNA regions from closely related crabs and we confirmed their specificity empirically. The amplification of fragments from faecal DNA of the same size as those produced from G. natalis DNA indicates that the whale shark had been feeding on G. natalis and that enough of the crab DNA survived digestion to be detected by these PCRs. Our study provides further evidence that aggregations of whale sharks in coastal waters occur in response to ephemeral but predictable increases in planktonic prey.

Changes in the relative abundance of marine megafauna (whales, dolphins, sharks, turtles, manta rays, dugongs) from aerial survey sightings in the waters adjacent to Ningaloo Reef between June 2000 and April 2002 are described. Generalised linear models were used to explore relationships between different trophic guilds of animals (based on animal sighting biomass estimates) and biophysical features of the oceanscape that were likely to indicate foraging habitats (regions of primary/secondary production) including sea surface temperature (SST), SST gradient, chlorophyll-a (Chl-a), bathymetry (BTH) and bathymetry gradient (BTHg). Relative biomass of krill feeders (i.e. minke whales, whale sharks, manta rays) were related to SST, Chl-a and bathymetry (model [AICc] weight = 0.45) and the model combining these variables explained a relatively large amount (32.3%) of the variation in relative biomass. Relative biomass of fish/cephalopod feeders (dolphins, sharks) were weakly correlated with changes in SST, whereas that of other invertebrate/macroalgal feeders (turtles, dugong) was weakly correlated with changes in steepness of the shelf (bathymetry gradient). Our results indicate that biophysical variables describe only a small proportion of the variance in the relative abundance and biomass of marine megafauna at Ningaloo reef.

Information on the temporal distributions of tropical fish larvae is scarce. Early stage larval fishes were sampled using towed bongo plankton nets at sites on the southern North West Shelf of Australia (21°49′S, 114°14′E), between October and February of 1997/98 and 1998/99. The first summer was characterised by El Niño–Southern Oscillation-driven upwelling and high primary productivity, whereas in the second summer water temperatures were warmer and primary production was lower. Benthic percoid shorefishes dominated surface assemblages in both summers and this pattern may be typical of tropical shelf environments.The abundance and diversity of larval fishes were lowest in October and increased from November through to February. Assemblages displayed weak cross-shelf patterns, with a few taxa being more abundant at inshore sites (e.g. monacanthids), whereas others were more abundant offshore (e.g. scombrids). Although the composition of assemblages remained relatively consistent, many taxa (e.g. pomacentrids and carangids) showed differences in abundance between summers. Multivariate analyses found no relationships between abundance patterns of larval fishes and biophysical variables, such as temperature, salinity, and zooplankton biomass. Thus, seasonal changes in abundance may reflect differences in the spawning activities of adult fishes and/or larval survival.

Hydroacoustic surveys were used to examine zooplankton distributions in coastal waters off Ningaloo Reef, Western Australia. Surveys were timed to coincide with the seasonal aggregation of whale sharks, Rhincodon typus, and other large zooplanktivores in these waters. The surveys examined scattering features of lagoon/shelf fronts, a series of cross-shelf transects and waters surrounding whale sharks swimming at the surface. These suggested that lagoon waters flow intrusively into shelf waters at reef passages in a layered exchange. Cross-shelf transects identified three vertical scattering layers: a surface bubble layer; a near-surface minimum layer; and a bottom maximum layer. Regions of intense mixing of lagoon and shelf waters were detected seaward and to the north of reef passages. Integrated acoustic mean volume backscatter of the bottom maximum layer increased with depth and distance offshore. Large subsurface aggregations of unidentified fauna were detected beneath whale sharks in the same area that manta rays and surface schools of euphausiids were also observed.