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Widespread and ever-increasing anthropogenic impacts in the marine environment are driving a need to develop more efficient survey methods for monitoring changes in marine biodiversity. There is a particular urgent need for survey methods that could more rapidly and effectively detect change in species richness, abundance and community composition. Here, test the suitability of the Mackinnon Lists Technique for use in the marine environment by testing its effectiveness for rapid assessment of fish communities. The MacKinnon Lists Technique is a time-efficient and cost-effective sampling method developed for studying avian tropical biodiversity, in which several list samples of species can be collected from a single survey. Using the well-established MaxN approach on data from deployments of a Baited Remote Underwater Video Systems for comparison, we tested the suitability of the MacKinnon Lists Technique for use in marine environments by analysing tropical reef fish communities. Using both methods for each data set, differences in community composition between depths and levels of protection were assessed. Both methods were comparable for diversity and evenness indices with similar ranks for species. Multivariate analysis showed that the MacKinnon Lists Technique and MaxN detected similar differences in community composition at different depths and protection status. However, the MacKinnon Lists Technique detected significant differences between factors when fewer videos (representing reduced survey effort) were used. We conclude that the MacKinnon Lists Technique is at least as effective as the widely used MaxN method for detecting differences between communities in the marine environment and suggest can do so with lower survey effort. The MacKinnon Lists Technique has the potential to be widely used as an effective new tool for rapid conservation monitoring in marine ecosystems., Competing Interests: The authors have declared that no competing interests exist.

In recent decades, spearfishing with SCUBA has emerged as an efficient method for targeting reef fish in deeper waters. However, deeper waters are increasingly recognised as a potential source of refuge that may help sustain fishery resources. We used a combination of historical catch data over a 20-year time period and fishery-independent surveys to investigate the effects of SCUBA spearfishing on coral reef fish populations in the southern Mariana Islands. Two jurisdictions were studied; Guam, where SCUBA spearfishing is practiced, and the nearby Commonwealth of Northern Mariana Islands (CNMI), where SCUBA spearfishing has been banned since 2003. Fishery-independent data were collected using baited remote underwater stereo-video systems (stereo-BRUVs) stratified by depth, marine protected area status and jurisdiction. Herbivores (primary consumers) dominated spearfishing catches, with parrotfish (scarines) and surgeonfish/unicornfish (acanthurids) the main groups harvested. However, the large, endangered humphead wrasse (Cheilinus undulatus) was the main species by weight landed by SCUBA spearfishers. SCUBA spearfishing was associated with declining size of scarines over time and catches shifting from a dominance of large parrotfishes to a mixed assemblage with increasing proportions of acanthurids. Comparisons between Guam and the nearby CNMI revealed differences in the assemblage of fished species and also greater size of scarines and acanthurids in deep water where SCUBA fishing is banned. These results suggest that SCUBA spearfishing impacts reef fish populations and that the restriction of this fishing method will ensure refuge for fish populations in deeper waters. We recommend a ban on SCUBA spearfishing to preserve or aid the recovery of large, functionally important coral reef species and to improve the sustainability of coral reef fisheries.

Distributions of mobile animals have been shown to be heavily influenced by habitat and climate. We address the historical and contemporary context of fish habitats within a major zootone: the Recherche Archipelago, southern western Australia. Baited remote underwater video systems were set in nine habitat types within three regions to determine the species diversity and relative abundance of bony fishes, sharks and rays. Constrained ordinations and multivariate prediction and regression trees were used to examine the effects of gradients in longitude, depth, distance from islands and coast, and epibenthic habitat on fish assemblage composition. A total of 90 species from 43 families were recorded from a wide range of functional groups. Ordination accounted for 19% of the variation in the assemblage composition when constrained by spatial and epibenthic covariates, and identified redundancy in the use of distance from the nearest emergent island as a predictor. A spatial hierarchy of fourteen fish assemblages was identified using multivariate prediction and regression trees, with the primary split between assemblages on macroalgal reefs, and those on bare or sandy habitats supporting seagrass beds. The characterisation of indicator species for assemblages within the hierarchy revealed important faunal break in fish assemblages at 122.30 East at Cape Le Grand and subtle niche partitioning amongst species within the labrids and monacanthids. For example, some species of monacanthids were habitat specialists and predominantly found on seagrass (Acanthaluteres vittiger, Scobinichthys granulatus), reef (Meuschenia galii, Meuschenia hippocrepis) or sand habitats (Nelusetta ayraudi). Predatory fish that consume molluscs, crustaceans and cephalopods were dominant with evidence of habitat generalisation in reef species to cope with local disturbances by wave action. Niche separation within major genera, and a sub-regional faunal break, indicate future zootone mapping should recognise both cross-shelf and longshore environmental gradients.

Understanding movement patterns, habitat use and behaviour of fish is critical to determining how targeted species may respond to protection provided by "no-take" sanctuary zones within marine parks. We assessed the fine and broad scale movement patterns of an exploited herbivore, luderick (Girella tricuspidata), using acoustic telemetry to evaluate how this species may respond to protection within Jervis Bay (New South Wales, Australia). We surgically implanted fourteen fish with acoustic transmitters and actively and passively tracked individuals to determine fine and broad scale movement patterns respectively. Eight fish were actively tracked for 24 h d¯(1) for 6 d (May 2011), and then intermittently over the following 30 d. Six fish were passively tracked from December 2011 to March 2012, using a fixed array of receivers deployed across rocky reefs around the perimeter of the bay. Luderick exhibited strong site fidelity on shallow subtidal reefs, tending to remain on or return consistently to the reef where they were caught and released. All eight fish actively tracked used core areas solely on their release reef, with the exception of one fish that used multiple core areas, and four of the six fish passively tracked spent between 75 to 96% of days on release reefs over the entire tracking period. Luderick did move frequently to adjacent reefs, and occasionally to more distant reefs, however consistently returned to their release reef. Luderick also exhibited predictable patterns in movement between spatially distinct daytime and night-time core use areas. Night-time core use areas were generally located in sheltered areas behind the edge of reefs. Overall, our data indicate luderick exhibit strong site fidelity on shallow subtidal reefs in Jervis Bay and suggests that this important herbivore may be likely to show a positive response to protection within the marine park.

Baited underwater video techniques are increasingly being utilised for assessing and monitoring demersal fishes because they are: 1) non extractive, 2) can be used to sample across multiple habitats and depths, 3) are cost effective, 4) sample a broader range of species than many other techniques, 5) and with greater statistical power. However, an examination of the literature demonstrates that a range of different bait types are being used. The use of different types of bait can create an additional source of variability in sampling programs. Coral reef fish assemblages at the Houtman Abrolhos Islands, Western Australia, were sampled using baited remote underwater stereo-video systems. One-hour stereo-video recordings were collected for four different bait treatments (pilchards, cat food, falafel mix and no bait (control)) from sites inside and outside a targeted fishery closure (TFC). In total, 5209 individuals from 132 fish species belonging to 41 families were recorded. There were significant differences in the fish assemblage structure and composition between baited and non-baited treatments (P<0.001), while no difference was observed with species richness. Samples baited with cat food and pilchards contained similar ingredients and were found to record similar components of the fish assemblage. There were no significant differences in the fish assemblages in areas open or closed to fishing, regardless of the bait used. Investigation of five targeted species indicated that the response to different types of bait was species-specific. For example, the relative abundance of Pagrus auratus was found to increase in areas protected from fishing, but only in samples baited with pilchards and cat food. The results indicate that the use of bait in conjunction with stereo-BRUVs is advantageous. On balance, the use of pilchards as a standardised bait for stereo-BRUVs deployments is justified for use along the mid-west coast of Western Australia.

Age structure data is essential for single species stock assessments but length-frequency data can provide complementary information. In south-western Australia, the majority of these data for exploited species are derived from line caught fish. However, baited remote underwater stereo-video systems (stereo-BRUVS) surveys have also been found to provide accurate length measurements. Given that line fishing tends to be biased towards larger fish, we predicted that, stereo-BRUVS would yield length-frequency data with a smaller mean length and skewed towards smaller fish than that collected by fisheries-independent line fishing. To assess the biases and selectivity of stereo-BRUVS and line fishing we compared the length-frequencies obtained for three commonly fished species, using a novel application of the Kernel Density Estimate (KDE) method and the established Kolmogorov-Smirnov (KS) test. The shape of the length-frequency distribution obtained for the labrid Choerodon rubescens by stereo-BRUVS and line fishing did not differ significantly, but, as predicted, the mean length estimated from stereo-BRUVS was 17% smaller. Contrary to our predictions, the mean length and shape of the length-frequency distribution for the epinephelid Epinephelides armatus did not differ significantly between line fishing and stereo-BRUVS. For the sparid Pagrus auratus, the length frequency distribution derived from the stereo-BRUVS method was bi-modal, while that from line fishing was uni-modal. However, the location of the first modal length class for P. auratus observed by each sampling method was similar. No differences were found between the results of the KS and KDE tests, however, KDE provided a data-driven method for approximating length-frequency data to a probability function and a useful way of describing and testing any differences between length-frequency samples. This study found the overall size selectivity of line fishing and stereo-BRUVS were unexpectedly similar.

The implications of shallow water impacts such as fishing and climate change on fish assemblages are generally considered in isolation from the distribution and abundance of these fish assemblages in adjacent deeper waters. We investigate the abundance and length of demersal fish assemblages across a section of tropical continental shelf at Ningaloo Reef, Western Australia, to identify fish and fish habitat relationships across steep gradients in depth and in different benthic habitat types. The assemblage composition of demersal fish were assessed from baited remote underwater stereo-video samples (n = 304) collected from 16 depth and habitat combinations. Samples were collected across a depth range poorly represented in the literature from the fringing reef lagoon (1-10 m depth), down the fore reef slope to the reef base (10-30 m depth) then across the adjacent continental shelf (30-110 m depth). Multivariate analyses showed that there were distinctive fish assemblages and different sized fish were associated with each habitat/depth category. Species richness, MaxN and diversity declined with depth, while average length and trophic level increased. The assemblage structure, diversity, size and trophic structure of demersal fishes changes from shallow inshore habitats to deeper water habitats. More habitat specialists (unique species per habitat/depth category) were associated with the reef slope and reef base than other habitats, but offshore sponge-dominated habitats and inshore coral-dominated reef also supported unique species. This suggests that marine protected areas in shallow coral-dominated reef habitats may not adequately protect those species whose depth distribution extends beyond shallow habitats, or other significant elements of demersal fish biodiversity. The ontogenetic habitat partitioning which is characteristic of many species, suggests that to maintain entire species life histories it is necessary to protect corridors of connected habitats through which fish can migrate.

Background: Continental slopes are among the steepest environmental gradients on earth. However, they still lack finer quantification and characterisation of their faunal diversity patterns for many parts of the world., Methodology/principal Findings: Changes in fish community structure and diversity along a depth gradient from 50 to 1200 m were studied from replicated stereo baited remote underwater video deployments within each of seven depth zones at three locations in north-eastern New Zealand. Strong, but gradual turnover in the identities of species and community structure was observed with increasing depth. Species richness peaked in shallow depths, followed by a decrease beyond 100 m to a stable average value from 700 to 1200 m. Evenness increased to 700 m depth, followed by a decrease to 1200 m. Average taxonomic distinctness △(+) response was unimodal with a peak at 300 m. The variation in taxonomic distinctness Λ(+) first decreased sharply from 50 to 300 m, then increased beyond 500 m depth, indicating that species from deep samples belonged to more distant taxonomic groups than those from shallow samples. Fishes with northern distributions progressively decreased in their proportional representation with depth whereas those with widespread distributions increased., Conclusions/significance: This study provides the first characterization of diversity patterns for bait-attracted fish species on continental slopes in New Zealand and is an imperative primary step towards development of explanatory and predictive ecological models, as well as being fundamental for the implementation of efficient management and conservation strategies for fishery resources.