Search

The deep sea holds a fascination for many of us but remains a frontier for discovery, with new species identified during almost every deep-sea expedition. This editorial provides an overview of deep-sea biological exploration, using technological advancement as a framework for summarizing deep-sea discoveries to show their development over time. We also describe some of the many challenges still associated with undertaking research in this remote environment. More qualified people, continued technological advancement and coordinated collaboration are crucial in these frontier regions, where species inventories and ecological understanding are limited. This editorial is the prelude to a selection of 15 recent papers on deep-sea biological discoveries published in the Zoological Journal of the Linnean Society.

Many sampling techniques rely on taking measurements along a transect; an example is underwater imagery from towed platforms used for marine ecological studies. Despite transect‐based sampling being commonly used, methods to generate randomized survey designs have not hitherto been developed. We develop methods to generate random transect designs, which respect the user‐defined probability of sampling each grid cell (the cell inclusion probabilities). We show how to: (a) define transect inclusion probabilities from user‐specified cell inclusion probabilities, which allows particular environments to be sampled more often; (b) alter the cell and transect inclusion probabilities so that when transects are sampled the frequencies of sampling cells approximate the cell inclusion probabilities, and; (c) draw a spatially balanced probability sample of transects. The spatially balanced transect designs approximately maintain the cell inclusion probabilities. The greatest of the small departures occur near the extreme corners of our convex study region, which are difficult to place transects into. The proposed designs also exhibit superior spatial balance compared to the non‐balanced counterparts. We illustrate the successful application of the method to a towed‐camera survey of deep‐sea (500–2,000 m depths) seamounts off Tasmania, Australia. This was a challenging application due to the complex topology of the setting, and uneven inclusion probabilities for the property of interest – the presence of a stony coral. Our approach develops the randomization approach to transect‐based surveys, thereby ensuring that transect‐based surveys can enjoy the same benefits as random point‐based surveys. The method approximates the cell inclusion probabilities, and does so while spatially balancing the transects throughout the study area. Practitioners can access the methods through the R ‐package MBHdesign , which is available from CRAN. We anticipate that it will act as a cornerstone for transect‐based ecological monitoring programmes.

Data are currently being used, and reused, in ecological research at an unprecedented rate. To ensure appropriate reuse however, we need to ask the question: "Are aggregated databases currently providing the right information to enable effective and unbiased reuse?" We investigate this question, with a focus on designs that purposefully favor the selection of sampling locations (upweighting the probability of selection of some locations). These designs are common and examples are those designs that have uneven inclusion probabilities or are stratified. We perform a simulation experiment by creating data sets with progressively more uneven inclusion probabilities and examine the resulting estimates of the average number of individuals per unit area (density). The effect of ignoring the survey design can be profound, with biases of up to 250% in density estimates when naive analytical methods are used. This density estimation bias is not reduced by adding more data. Fortunately, the estimation bias can be mitigated by using an appropriate estimator or an appropriate model that incorporates the design information. These are only available however, when essential information about the survey design is available: the sample location selection process (e.g., inclusion probabilities), and/or covariates used in their specification. The results suggest that such information must be stored and served with the data to support meaningful inference and data reuse.

Repeat multibeam mapping of two slope-confined canyons on the northwest Australian margin provides new understanding of the processes that are active in shaping these environments. The Cape Range and Cloates canyons initiate on the mid to lower continental slope but are now known to be connected to the shelf via small channels and gullies. Both canyons have areas of steep walls, with evidence of slides, and large depressions on the canyon floors. These canyons were first mapped systematically with multibeam sonar in 2008 and were remapped in 2020 during a biodiversity survey that also collected high-resolution imagery and biological samples. Comparison of seabed features between these two time periods indicates active sliding, minor headwall retreat and continued excavation of deep depressions on the canyon floor. Significantly, intact blades of displaced seagrass imaged at various depths up to 4200 m throughout both canyons indicates that material sourced from the adjacent continental shelf is being transported through these canyon systems. Turbidity currents are actively modifying canyon walls and floor depressions, while also providing a sediment source that has resulted in minor accretion on the canyon floor. Sedimentation likely regulates benthic communities in these canyons, with imagery showing highest densities of sessile invertebrates in habitats protected from sedimentation (e.g. rock overhangs, cliff edges). Since steep canyon habitats are rare within these canyons, and support high benthic abundance, they likely represent biologically significant areas of the Gascoyne Marine Park. Repeat mapping provides an understanding of the dynamics of these canyons and a context for assessing and monitoring the stability of the seabed habitats within this marine reserve.

Systematic conservation planning requires spatial information on biodiversity. Such information is often unavailable, forcing spatial planning to rely on assumed relationships between species and environmental features. This problem is particularly acute in large, remote marine protected areas that are proliferating rapidly. Here, we use models to predict whether (a) macrobenthic biodiversity across four taxa (gorgonians, soft corals, hard corals, and sponges) with different life histories are congruent within seascape features through regional space; and (b) models generated in an intensively‐sampled area in one region can predict the occurrence of habitat‐forming macrobenthos in neighboring ones. All four taxa studied showed similar habitat preferences, but high variability in distributions among and within features suggesting factors other than simple geomorphology influence these regional biodiversity patterns. Nonetheless, models derived from one region accurately predicted the presence and absence of the same taxa hundreds of kilometers away. This transferability of models of species occurrences has the potential to deliver improved reserve design in data‐deficient regions.

The Oceanic Shoals Marine Park is located within the Timor Sea offshore northern Australia and was established due to the conservation values associated with carbonate bank and terrace systems in the region. Between 2009 and 2012, ten grids covering ~3100 km2 were mapped and associated biological samples and benthic imagery collected. We describe three of these grids in detail, including banks but also other geomorphic features: the western grid includes banks that are characterized by flat tops and relatively steep sides supporting sponge gardens; the central grid is characterized by shallow channels and plains with low ridges, pockmarks, and depressions and associated rich polychaete communities; and the eastern grid encompasses a north–south oriented valley with flanking terraces and banks that supported sessile invertebrate assemblages, including dense reef-forming corals. Imagery data was applied to a predictive habitat map for the marine park. Sponge and polychaete biodiversity are characterized, but no strong environmental surrogates were identified. Overall, our geological and biological analyses confirm and further describe the carbonate banks and shoals as a key ecological feature in the Oceanic Shoals Marine Park.

The Evidence Based Decision Making (EBDM) paradigm encourages managers to base their decisions on the strongest available evidence, but it has been criticized for placing too much emphasis on the choice of study design method without considering the types of questions that are being addressed as well as other relevant factors such as how well a study is implemented. Here we review the objectives of Australia’s Marine Park network, and identify the types of questions and data analysis that would address these objectives. Critically, we consider how the design of a monitoring program influences our ability to adequately answer these questions, using the strength of evidence hierarchy from the EBDM paradigm to assess the adequacy of different design strategies and other sources of information. It is important for conservation managers to recognize that the types of questions monitoring programs are able to answer depends on how they are designed and how the collected data are analyzed. The socio-political process that dictates where protected areas are placed typically excludes the strongest types of evidence, Random Controlled Trials (RCTs), for certain questions. Evidence bases that are stronger than ones commonly employed to date, however, could be used to provide a causal inference, including for those questions where RCTs are excluded, but only if appropriate designs such as cohort or case-control studies are used, and supported where relevant by appropriate sample frames. Randomized, spatially balanced sampling, together with careful selection of control sites, and more extensive use of propensity scores and structured elicitation of expert judgment, are also practical ways to improve the evidence base for answering the questions that underlie marine park objectives and motivate long-term monitoring programs.

Commercial scallops (Pecten fumatus) were collected from Bass Strait, Australia from 41 dredge tows. Of these, four dredges undertaken in February 2016 at 46 m depth returned scallops that were covered by ascidians of the Pyura stolonifera species complex, commonly known as cunjevoi. There were no obvious signs of immediate ill health in the scallops, with meat being assessed as normal quality and all scallops requiring force to separate the shells. Ascidian-encrusted scallops were significantly smaller, and previous tows in the same location ten and eight months earlier returned far fewer scallops with clean shells and no signs of ascidians. This suggests that both both scallop and ascidian recruitment and growth occurred during the period between sampling events. Future research combining laboratory experiments and field observations is recommended to understand this relationship and its potential impacts on scallop populations.

Marine seismic surveys are a fundamental tool for geological research, including the exploration of offshore oil and gas resources, but the sound generated during these surveys represents a source of noise pollution in the marine environment. Recent evidence has shown that seismic surveys may negatively affect some cetaceans, fish and invertebrates, although the magnitude of these impacts remains uncertain. This paper applies a case study on marine seismic impacts (the Gippsland Marine Environmental Monitoring (GMEM) project) to the critical assessment of the advantages and challenges of field-based methods in the context of future research and management priorities. We found that an interdisciplinary approach, using both conventional (e.g. dredging) and innovative (e.g. autonomous imagery) experimental components, make for more robust interpretations and also provide a failsafe in case of limited suitable data (e.g. equipment issues related to image acquisition). Field observational studies provide an unparalleled capability to undertake ecologically realistic research, although their practical challenges must be considered during research planning. We also note the need for appropriate environmental baselines and accessible time-series data to account for spatiotemporal variability of environmental and biological parameters that may mask effects, as well as the need for a standardised technique in sound monitoring and equipment calibration to ensure accuracy and comparability among studies.

Marine seismic surveys are an important tool to map geology beneath the seafloor and manage petroleum resources, but they are also a source of underwater noise pollution. A mass mortality of scallops in the Bass Strait, Australia occurred a few months after a marine seismic survey in 2010, and fishing groups were concerned about the potential relationship between the two events. The current study used three field-based methods to investigate the potential impact of marine seismic surveys on scallops in the region: 1) dredging and 2) deployment of Autonomous Underwater Vehicles (AUVs) were undertaken to examine the potential response of two species of scallops (Pecten fumatus, Mimachlamys asperrima) before, two months after, and ten months after a 2015 marine seismic survey; and 3) MODIS satellite data revealed patterns of sea surface temperatures from 2006-2016. Results from the dredging and AUV components show no evidence of scallop mortality attributable to the seismic survey, although sub-lethal effects cannot be excluded. The remote sensing revealed a pronounced thermal spike in the eastern Bass Strait between February and May 2010, overlapping the scallop beds that suffered extensive mortality and coinciding almost exactly with dates of operation for the 2010 seismic survey. The acquisition of in situ data coupled with consideration of commercial seismic arrays meant that results were ecologically realistic, while the paired field-based components (dredging, AUV imagery) provided a failsafe against challenges associated with working wholly in the field. This study expands our knowledge of the potential environmental impacts of marine seismic survey and will inform future applications for marine seismic surveys, as well as the assessment of such applications by regulatory authorities.

Spatial distribution of sponge species richness (SSR) and its relationship with environment are important for marine ecosystem management, but they are either unavailable or unknown. Hence we applied random forest (RF), generalised linear model (GLM) and their hybrid methods with geostatistical techniques to SSR data by addressing relevant issues with variable selection and model selection. It was found that: 1) of five variable selection methods, one is suitable for selecting optimal RF predictive models; 2) traditional model selection methods are unsuitable for identifying GLM predictive models and joint application of RF and AIC can select accuracy-improved models; 3) highly correlated predictors may improve RF predictive accuracy; 4) hybrid methods for RF can accurately predict count data; and 5) effects of model averaging are method-dependent. This study depicted the non-linear relationships of SSR and predictors, generated spatial distribution of SSR with high accuracy and revealed the association of high SSR with hard seabed features. Five feature selection methods for selecting RF predictive models are assessed.Jointly using RF and AIC can select accuracy-improved GLM predictive models.Hybrid methods of RF and geostatistical methods can accurately predict count data.High sponge species richness is usually associated with hard seabed features.Spatial distribution of sponge species richness is predicted with a high accuracy.

1. A robust scientific conclusion is the result of a rigorous scientific process. In observational ecology, this process involves making inferences about a population from a sample. The sample is crucial, and is the result of implementing a survey design. A good survey design ensures that the data from the survey are capable of answering the research question. Better designs, such as spatially balanced designs, will also be as precise as possible given the constraints of the budget. 2. Many study areas will have previously sampled ‘legacy sites’ that already have accumulated a time series of observations. For estimating trent, it is often beneficial to include these sites within a new survey. In this paper, we propose a method to incorporate the locations of legacy sites into new spatially balanced survey designs to ensure spatial balance among all sample locations. 3. Simulation experiments indicate that incorporating the spatial location of legacy sites increases spatial balance and decreases uncertainty in inferences (smaller standard errors in mean estimates) when compared to designs that ignore legacy site locations. We illustrate the process of incorporating legacy sites using a proposed survey of a large marine reserve in South-Eastern Australia, although the method is applicable to all environments. 4. Our approach allows for integration of legacy sites into a new spatially balanced design, increasing efficiency. Scientists, managers and funders alike will benefit from this methodology – it provides a tool to provide efficient survey designs around established ones, including in-the-field adjustments. In this way, it can aid integrated monitoring programmes. An R-package that implements these methods, called MBHdesign, is available from CRAN.

Marine seismic surveys produce high intensity, low-frequency impulsive sounds at regular intervals, with most sound produced between 10 and 300 Hz. Offshore seismic surveys have long been considered to be disruptive to fisheries, but there are few ecological studies that target commercially important species, particularly invertebrates. This review aims to summarise scientific studies investigating the impacts of low-frequency sound on marine fish and invertebrates, as well as to critically evaluate how such studies may apply to field populations exposed to seismic operations. We focus on marine seismic surveys due to their associated unique sound properties (i.e. acute, low-frequency, mobile source locations), as well as fish and invertebrates due to the commercial value of many species in these groups. The main challenges of seismic impact research are the translation of laboratory results to field populations over a range of sound exposure scenarios and the lack of sound exposure standardisation which hinders the identification of response thresholds. An integrated multidisciplinary approach to manipulative and in situ studies is the most effective way to establish impact thresholds in the context of realistic exposure levels, but if that is not practical the limitations of each approach must be carefully considered.

The oceans play a key role in global issues such as climate change, food security, and human health. Given their vast dimensions and internal complexity, efficient monitoring and predicting of the planet’s ocean must be a collaborative effort of both regional and global scale. A first and foremost requirement for such collaborative ocean observing is the need to follow well-defined and reproducible methods across activities: from strategies for structuring observing systems, sensor deployment and usage, and the generation of data and information products, to ethical and governance aspects when executing ocean observing. To meet the urgent, planet-wide challenges we face, methods across all aspects of ocean observing should be broadly adopted by the ocean community and, where appropriate, should evolve into “Ocean Best Practices.” While many groups have created best practices, they are scattered across the Web or buried in local repositories and many have yet to be digitized. To reduce this fragmentation, we introduce a new open access, permanent, digital repository of best practices documentation (oceanbestpractices.org) that is part of the Ocean Best Practices System (OBPS). The new OBPS provides an opportunity space for the centralized and coordinated improvement of ocean observing methods. The OBPS repository employs user-friendly software to significantly improve discovery and access to methods. The software includes advanced semantic technologies for search capabilities to enhance repository operations. In addition to the repository, the OBPS also includes a peer reviewed journal research topic, a forum for community discussion and a training activity for use of best practices. Together, these components serve to realize a core objective of the OBPS, which is to enable the ocean community to create superior methods for every activity in ocean observing from research to operations to applications that are agreed upon and broadly adopted across communities. Using selected ocean observing examples, we show how the OBPS supports this objective. This paper lays out a future vision of ocean best practices and how OBPS will contribute to improving ocean observing in the decade to come.

Following the establishment of the world’s largest network of marine protected areas, Australia is now tasked with implementing national plans to manage a huge range of marine environments, from tropical to sub-Antarctic climates and shallow reef to abyssal depths. Monitoring (i.e. condition assessment and trend detection) is one of the key objectives of associated management plans. As part of a national effort to acquire baseline data for future monitoring purposes from 2009 to 2012, we collected geoscientific (bathymetry, backscatter, sub-bottom profiles, sediment grain-size) and biological data (assemblages and richness of infauna, sponges and pelagic fish) using a variety of gear (grab, sled, pelagic baited video, multibeam sonar, sparker) from the Oceanic Shoals Australian Marine Park in northern Australia. In this presentation, we describe how the integration of such data (including derived geoscientific products) helped to inform sampling design, map habitats, predict the distribution of benthic and pelagic communities at varying spatial scales, and better understand ecosystem processes. We hope to encourage ecologists and marine managers to incorporate geoscientific methods into their research and policy in order to further improve sampling design, data collection, robust modelling, and informed decision-making.

The impact of seismic surveys on the catchability of marine fish is a contentious issue, with some claims that seismic surveys may negatively affect catch rates. However little empirical evidence exists to quantify the impacts or identify the mechanisms of such impact. In this study, we used a 2-D seismic survey in the Gippsland Basin, Bass Strait, Australia in April 2015 as an opportunity to quantify fish behaviour (field-based) and commercial fisheries catch (desktop study) across the region before and after airgun operations. Three species found in abundance (gummy shark, swell shark, tiger flathead) were acoustically tagged and released within one of two acoustic arrays (experimental and control zone) and monitored before, during and after the seismic survey. In the field study, only 35% of the gummy sharks and 30% of the swell sharks were subsequently detected two days after release, suggesting movement outside the study area. Various tagged individuals returned sporadically over the monitoring period, including during the seismic survey operations. Behaviour consistent with a possible response to the seismic survey operations was observed for flathead which increased their swimming speed during the seismic survey period and changed their diel movement patterns after the survey. We also investigated the potential impacts of the seismic survey on catch rates using Commonwealth fisheries logbook data from Jan 2012-Oct 2015. Fifteen species and two gear types (Danish seine, gillnet) were modelled to examine differences in catch rates before and after the seismic survey. The catch rates in the six months following the seismic survey were significantly different than predicted in nine out of the 15 species examined, with six species (tiger flathead, goatfish, elephantfish, boarfish, broadnose shark and school shark) showing increases in catch following the seismic survey, and three species (gummy shark, red gurnard, and sawshark) showing reductions. With the exception of flathead movement, we found little evidence for consistent behavioural or catch rate changes induced by the seismic survey in the targeted species, although behavioural data were limited because many sharks left the acoustic receiver array prior to the commencement of the seismic survey.

Australia has one of the world’s largest marine estates and has recently established the largest network of marine protected areas in the world. As such, Australia is now uniquely placed to develop standardised national approaches to monitor the marine environment. We have therefore developed a suite of field manuals for the acquisition of marine data from a variety of frequently-used sampling platforms so that data is directly comparable in time and through space. This will then facilitate a national monitoring program in Australian waters, with a particular focus on Australian Marine Parks (AMPs).Due to the large geographic area, diverse flora and fauna, and range of environmental conditions represented by the Australian marine estate, a single method of sampling is neither practical nor desirable. For this reason, we present a standard operating procedure (SOP) for each of six key marine benthic (i.e. seafloor) sampling platforms that were identified based on their frequency of use in previous sampling and monitoring programs:• Multibeam sonar (MBES) provides bathymetry and backscatter data that are used to map the seafloor.• Autonomous Underwater Vehicles (AUVs) acquire high-resolution continuous imagery of the seafloor and its associated habitats and organisms.• Benthic Baited Remote Underwater Video (BRUV) systems acquire video of demersal fish attracted to a baited camera system dropped to the seafloor.• Pelagic BRUVs acquire video of pelagic fish and other fauna that are attracted to a baited camera system suspended in the water column. This platform is included as an emergent sampling method for pelagic ecosystems.• Towed cameras acquire video or still imagery of the seafloor and its associated habitats and organisms.• Grabs and box corers collect sediment samples that can be analysed for biological, geochemical, or sedimentological variables.• Sleds and trawls collect benthic or demersal fauna near the seafloor.The main challenge in the development of these manuals was to find a balance between being overly prescriptive (such that everyone follows their existing protocols and ignores the manuals) and overly flexible (such that data is not consistent and therefore not comparable). A collaborative approach was paramount to addressing this concern. Ultimately, over 60 individuals from 28 organisations contributed to the field manual package. By engaging researchers, managers, and technicians from multiple agencies with a variety of experience, sea time, and subject matter expertise, we strove to ensure the field manuals represented the broader marine science community of Australia. This not only improved the content but also increased the potential for adoption across multiple agencies and monitoring programs.Future work is based on the understanding that SOPs should be periodically checked and revised, lest they become superseded or obsolete. Resources are available to develop a Version 2 of this field manual package, due for completion in late 2018. As part of this version, a long-term plan for managing the field manuals will be developed, including maintenance and version control.

Many countries are now using or investigating offshore geological storage of CO2 as a means to reduce atmospheric CO2 emissions. Although associated research often focuses on deep-basin geology (e.g. seismic, geomagnetics), environmental data on the seabed and shallow subseabed is also crucial to (1) detect and characterise potential indicators of fluid seeps and their potential connectivity to targeted storage reserves, (2) obtain baseline environmental data for use in future monitoring, and (3) acquire information to facilitate an improved understanding of ecosystem processes for use in impact prediction. This study reviews the environmental considerations, including potential ecological impacts, associated with subseabed geological storage of CO2. Due to natural variations in CO2 levels in seafloor sediments, baseline CO2 measurements and knowledge of physical–chemical processes affecting the regional distribution of CO2 and pH are critical for the design of appropriate monitoring strategies to assess potential impacts of CO2 seepage from subseabed storage reservoirs. Surficial geological and geophysical information, such as that acquired from multibeam sonar and sub-bottom profiling, can be used to investigate the connectivity between the deep reservoirs and the surface, which is essential in establishing the reservoir containment properties. CO2 leakage can have a pronounced effect on sediments and rocks which in turn can have carryover effects to biogeochemical cycles. The effects of elevated CO2 on marine organisms are variable and species-specific but can also have cascading effects on communities and ecosystems, with marine benthic communities at some natural analogue sites (e.g. volcanic vents) showing decreased diversity, biomass, and trophic complexity. Despite their potential applications, environmental surveys and data are still not a standard and integral part of subseabed CO2 storage projects. However, the habitat mapping and seabed characterisation methodology that underpins such surveys is well developed and has a strong record of providing information to industry and decision makers. This review provides recommendations for an integrated and interdisciplinary approach to offshore geological storage of CO2, which will benefit national programs and industry and will be valuable to researchers in a broad range of disciplines.

Australia is increasingly recognised as a global hotspot for sponge biodiversity, but there is a knowledge gap about sponge communities in northern Australia, including those in Commonwealth Marine Reserves. We aim to quantify sponge biodiversity of the eastern Joseph Bonaparte Gulf and adjacent Van Diemen Rise (VDR) and to examine spatial and environmental patterns in community structure. Sponges were collected with a benthic sled from 65 sites encompassing five geomorphic features (bank, terrace, ridge, plain, and valley), study area (as a proxy for distance offshore) and three environmental variables (depth, substrate hardness, and slope). A total of 283 species were collected, representing four classes, 53 families and at least 117 genera. Sponge richness and biomass were related to those of other taxa. Sponge diversity was generally highest further offshore and on raised geomorphic features, particularly banks. Sponge assemblages on the same bank were more similar than those from different banks, although full interpretation of patterns is limited by the relatively low sampling effort. The current study will help facilitate integrated marine management by providing a baseline species inventory, supporting the VDR’s carbonate banks as a key ecological feature, and highlighting the importance of sponges as habitat providers and potential biological surrogates for monitoring.

Northern Australia has been the focus of recent marine biodiversity research to support natural resource management for both industry and conservation, including management of the Oceanic Shoals Australian Marine Park (AMP). Much of this research has targeted habitat-forming sessile invertebrates and charismatic megafauna, but smaller macrofauna and infauna may also be important because of their roles in ecosystem functions. In this study we characterised the biodiversity of polychaetes collected from four marine surveys to the Oceanic Shoals AMP between 2009 and 2012 from which sediment samples were elutriated (500μm) to separate macrofauna. We used this species-level inventory to examine several questions related to marine management, namely: (1) do polychaete assemblages vary among surveys; (2) can environmental variables or geomorphology explain differences in community structure; and (3) how do ecological patterns change according to taxonomic resolution (species, family) and functional group (feeding, habitat, mobility)? A total of 2561 individual polychaetes were collected from 266 samples, representing 368 species and 43 families, including new species and genera, as well as new family records for Australia (Iospilidae, Lacydoniidae). Polychaete species assemblages and functional groups showed variation among the surveys, but this was not observed at the family level. Species and family assemblages were weakly related to environmental factors, but functional groups showed stronger relationships. Plains and banks each supported distinct polychaete assemblages, although the latter showed temporal variation. The results provide baseline biodiversity and ecological data about polychaetes on the northern Australian shelf, and these are discussed in relation to marine management strategies. Notably, intersurvey and environmental patterns differ from those of larger sessile fauna (sponges) collected on the same surveys, highlighting the need to consider small macrofauna in monitoring programs of marine protected areas.

We reassess whether range shifts in marine organisms are occurring in a direction predicted by causation due to climate using two different methods: a global meta-analysis and a regional analysis of museum records focussing on marine molluscs. Globally we used rigorous selection criteria to investigate studies describing range shifts in marine organisms, including exclusion of single-species studies and those that inferred range shifts through shifting abundance. For each species meeting these criteria (311 species from 13 studies), the distance in kilometres moved per year was calculated, and life history characteristics such as mobility, habitat, dispersal potential and trophic level were recorded to assess if these were linked to the shifts. We also examined the potential correlation between changing sea surface temperatures and range shifts. Regionally we analysed the intertidal mollusc collection of the Australian Museum and Museum of Victoria and consulted with mollusc experts to determine if museum records could be used to detect range shifts in marine invertebrates. The global meta-analysis showed that individual species shifted on average 8.9 km polewards per year. Range shifts were not significantly related to temperature change or life history characteristics with the exception of intertidal and nearshore subtidal fauna showing poleward shifts (6.8 and 14.3 km per decade, respectively) and shelf fauna showing a slight equatorial shift (2.7 km per decade). Our regional analysis showed that 54 of the 634 mollusc species examined shifted their range into or out of the well-surveyed Sydney region. However, closer examination by mollusc experts revealed that the evidence for these shifts was unreliable, and we conclude that caution is required when using museum records in range shift studies. Overall, our study supports previous research showing a poleward shift in response to climate change, although this is an order of magnitude less than values reported in the only other meta-analysis on marine range shifts, possibly owing to the strict selection criteria applied here.

Biological invasions are one of the most significant threats to marine biodiversity, and can be facilitated and amplified by climate change. Among all aspects of invasion biology, biotic interactions between invaders and native species are of particular importance. They strongly influence the invasion velocity as well as species responses to climate-induced stressors. Yet the effects of biotic interactions and other important demographic processes remain overlooked among most studies of climate-mediated invasions. We critically assessed current modelling techniques for forecasting marine invasions under climate change, with a particular focus on their ability to account for important biotic interactions and demographic processes. We show that coupled range dynamics models currently represent the most comprehensive and promising approach for modelling and managing marine invasions under climate change. We show, using the crown-of-thorns seastar (Acanthaster planci), why model architectures that account for biotic interactions and demographic and spatial processes (and their interaction) are required to provide ecologically realistic predictions of the distribution and abundance of invader species, both under present-day conditions and into the future. We suggest potential solutions to inform data-poor situations, such as Bayesian parameter estimation and meta-analysis, and identify strategic and targeted gaps in marine invasion research.

Much of the deep sea comprises soft-sediment habitats dominated by comparatively low abundances of species-rich macrofauna and meiofauna. Although often not observed, these animals bioturbate the sediment during feeding and burrowing, leaving signs of their activities called Lebensspuren (‘life traces’). In this study, we use still images to quantify Lebensspuren from the eastern (1921 images, 13 stations, 1300–2200 m depth) and western (1008 images, 11 stations, 1500–4400 m depth) Australian margins using a univariate measure of trace richness and a multivariate measure of Lebensspuren assemblages. A total of 46 Lebensspuren types were identified, including those matching named trace fossils and modern Lebensspuren found elsewhere in the world. Most traces could be associated with waste, crawling, dwellings, organism tests, feeding, or resting, but the origin of 15% of trace types remains unknown. Assemblages were significantly different between the two regions and depth profiles, with five Lebensspuren types accounting for over 95% of the differentiation (ovoid pinnate trace, crater row, spider trace, matchstick trace, mesh trace). Lebensspuren richness showed no strong relationships with depth, total organic carbon, or mud, although there was a positive correlation to chlorin index (i.e., organic freshness) in the eastern margin, with richness increasing with organic freshness. Lebensspuren richness was not related to epifauna either, indicating that epifauna may not be the primary source of Lebensspuren. Despite the abundance and distinctiveness of several traces both in the current and previous studies (e.g., ovoid pinnate, mesh, spider), their origin and distribution remains a mystery. We discuss this and several other considerations in the identification and quantification of Lebensspuren. This study represents the first comprehensive catalogue of deep-sea Lebensspuren in Australian waters and highlights the potential of Lebensspuren as valuable and often untapped deep-sea datasets that can be used for biogeographical, evolutionary, behavioural, and ecological studies.

Marine reserves are becoming progressively more important as anthropogenic impacts continue to increase, but we have little baseline information for most marine environments. In this study, we focus on the Oceanic Shoals Commonwealth Marine Reserve (CMR) in northern Australia, particularly the carbonate banks and terraces of the Sahul Shelf and Van Diemen Rise which have been designated a Key Ecological Feature (KEF). We use a species-level inventory compiled from three marine surveys to the CMR to address several questions relevant to marine management: 1) Are carbonate banks and other raised geomorphic features associated with biodiversity hotspots? 2) Can environmental (depth, substrate hardness, slope) or biogeographic (east vs west) variables help explain local and regional differences in community structure? 3) Do sponge communities differ among individual raised geomorphic features? Approximately 750 sponge specimens were collected in the Oceanic Shoals CMR and assigned to 348 species, of which only 18% included taxonomically described species. Between eastern and western areas of the CMR, there was no difference between sponge species richness or assemblages on raised geomorphic features. Among individual raised geomorphic features, sponge assemblages were significantly different, but species richness was not. Species richness showed no linear relationships with measured environmental factors, but sponge assemblages were weakly associated with several environmental variables including mean depth and mean backscatter (east and west) and mean slope (east only). These patterns of sponge diversity are applied to support the future management and monitoring of this region, particularly noting the importance of spatial scale in biodiversity assessments and associated management strategies.

Przeslawski, R., Currie, D. R., Sorokin, S. J., Ward. T. M., Althaus, F., and Williams, A. 2011. Utility of a spatial habitat classification system as a surrogate of marine benthic community structure for the Australian margin. – ICES Journal of Marine Science, 68: 1954–1962. This study tests whether a continental-scale classification of Australian benthic habitats (termed “seascapes”) and the interpolated environmental data from which they are derived are useful as abiotic surrogates of biodiversity at a local [tens of kilometres, Great Australian Bight (GAB)] and regional scale [hundreds of kilometres, Western Australian (WA) margin]. Benthic invertebrate community structure is moderately associated with specific seascapes in both the GAB (R = 0.418) and WA margin (excluding hard substrata, R = 0.375; all substrata, R = 0.313). Mud content, seafloor slope, and seafloor temperature are significantly correlated with invertebrate communities at both scales, with disturbance and primary production correlated with GAB communities. Seascapes are not consistently useful surrogates because the strength and significance of relationships between seascapes and community structure differs among seascapes, regions, and spatial scales. Nevertheless, a national system of seascapes is an appropriate surrogate for broad-scale benthic invertebrate community patterns when biological data are limited, provided the uncertainty is acknowledged and, where possible, an assessment made of each seascape's ability to differentiate biological communities. Further refinement of seascape derivations may include updated and additional environmental data (particularly for hard vs. soft substrata) and validation among biological datasets from a range of habitats and scales.

Little is known about diversity patterns of biological assemblages in deep-sea environments, primarily because sampling deep-sea biota over vast areas is time consuming, difficult, and costly. In contrast, physical mapping capabilities are increasing rapidly, and are becoming more cost-effective. Consequently, the growing need to manage and conserve marine resources, particularly deep-sea areas that are sensitive to anthropogenic disturbance and change, is leading the promotion of physical data as surrogates to predict biological assemblages. However, few studies have directly examined the predictive ability of these surrogates. The physical environment and biological assemblages were surveyed for two adjacent areas – the western flank of Lord Howe Rise (LHR) and the Gifford Guyot - spanning combined water depths of 250-2200 m depth on the northern part of the LHR, in the Coral Sea. Multibeam acoustic surveys were used to generate large-scale geomorphic classification maps that were superimposed over the study area. Forty towed-video stations were deployed across the area capturing 32 h of seabed video, 6229 still photographs, that generated 3413 seabed characterisations of physical and biological variables. In addition, sediment and biological samples were collected from 36 stations across the area. The northern Lord Howe Rise was characterised by diverse but sparsely distributed faunas for both the vast soft-sediment environments as well as the discrete rock outcrops. Substratum type and depth were the main variables correlated with benthic assemblage composition. Soft-sediments were characterised by low to moderate levels of bioturbation, while rocky outcrops supported diverse but sparse assemblages of suspension feeding invertebrates, such as cold-water corals and sponges which in turn supported epifauna, dominated by ophiuroids and crinoids. While deep environments of the LHR flank and lower slopes of the Gifford Guyot were characterised by bioturbation with high occurrences of trails, burrows, and mounds, evidence for bioturbation was significantly less on the upper sections of Gifford Guyot, with mostly trails on the more sediment starved environments. The seamount summit also supported a variety of taxa, such as benthic ctenophores and rock-associated fishes that were not recorded in the deeper basin habitats. Physical characteristics of the seabed, particularly geomorphology, were good predictors of biological assemblage composition and percent cover of key taxa. Of the nine geomorphic classes assessed in this study, six predicted different physical habitats that supported distinct biological assemblages. However, other classes that were defined by spatial features (e.g., valleys, seamount dunes) where surficial physical variables were not unique, provided little predictive power of biological assemblages, but rather had characteristics that were shared with adjacent/surrounding geomorphic classes. Given the growing need to use surrogates in the management and conservation of marine environments, these results are promising. However, our findings suggest that there is a pressing need for careful testing and validation of surrogates, such as geomorphic classes, before classification schemes can be deemed effective and employed as a management tool to predict seabed habitats and their biological assemblages.

The two principal aims of this study were to synthesise physical and biological information to characterise the Lord Howe Rise (LHR) region and to use recent survey collections of benthic invertebrates (mostly large benthic epifauna) to describe its biogeography at regional and sub-regional scales. The LHR region is large (1.95 million km2), spans tropical and cool temperate latitudes (18.4 to 40.3°S), and is influenced by several ocean currents, notably the East Australian Current and the Tasman Front. Our analyses revealed that biological patterns were related to two groups of geomorphic morphotypes found in this topographically complex region: subdued bathymetric features (expansive soft sediment basins and plateaus) and raised bathymetric features (scattered seamounts, guyots, knolls, and pinnacles). Raised bathymetric features in the LHR region were more likely to support richer and more abundant epifaunal assemblages dominated by suspension feeding invertebrates on hard substrata compared to subdued features which were dominated by infauna and detritivores in soft sediments. However, this trend does not apply to all raised bathymetric features (e.g., Gifford Guyot), with variations in depth, elevation, latitude, and particularly substrata affected the composition of biological assemblages. In addition, some demersal fishes, ophiuroids, and other benthic invertebrates showed distinct north-south delineations that coincide with the influence of the Tasman Front and thermal gradients. While the lack of spatially- and temporally- replicated data in the region limits our interpretation of survey data, paleo-environmental processes and examples from other regions provide some indication of how dispersal influences migration, speciation, and endemism in the LHR region. Although our current knowledge is limited, it is hoped that this review will help inform future studies in the area, as equitable examination of biological, geological, and oceanographic characteristics will facilitate future assessments of LHR biogeography and permit the inclusion of this region in biogeographic studies with a national or global context.

Acorn worms (Enteropneusta), which were previously thought to be a missing link in understanding the evolution of chordates, are an unusual and potentially important component of many deep-sea benthic environments, particularly for nutrient cycling. Very little is known about their distribution, abundance, or behaviour in deep-sea environments around the world, and almost nothing is known about their distribution within Australian waters. In this study, we take advantage of two large-scale deep-sea mapping surveys along the eastern (northern Lord Howe Rise) and western continental margins of Australia to quantify the distribution, abundance and trail-forming behaviour of this highly unusual taxon. This is the first study to quantify the abundance and trail behaviour of acorn worms within Australian waters and provides the first evidence of strong depth-related distributions. Acorn worm densities and trail activity were concentrated between transect-averaged depths of 1600 and 3000 m in both eastern and western continental margins. The shallow limit of their depth distribution was 1600 m. The deeper limit was less well-defined, as individuals were found in small numbers below 3000 down to 4225 m. This distributional pattern may reflect a preference for these depths, possibly due to higher availability of nutrients, rather than a physiological constraint to greater depths. Sediment characteristics alone were poor predictors of acorn worm densities and trail activity. High densities of acorn worms and trails were associated with sandy-mud sediments, but similar sediment characteristics in either shallower or deeper areas did not support similar densities of acorn worms or trails. Trail shapes varied between eastern and western margins, with proportionally more meandering trails recorded in the east, while spiral and meandering trails were both common in the west. Trail shape varied by depth, with spiral-shaped trails dominant in areas of high acorn worm densities (2000–3000 m water depth) while meandering trails were common over a much broader depth range and were the only trails recorded in deep environments >3000 m. While species-specific patterns may in part explain these differences, evidence suggests that nutrient availability is also likely to be an important driving factor, supporting the hypothesis put forward by Smith et al. (2005) that acorn worms meander when searching for food and form a spiral when feeding in a nutrient-rich area.

This study presents new information on the regional geochemical characteristics of deep-sea floor sediments (1300–2423 m water depth) on the Lord Howe Rise (deep–sea plateau) and Gifford Guyot (seamount/tablemount), remote areas off eastern Australia. The aim was to provide a coherent synthesis for a suite of geochemical data that can be used to make habitat inferences and to develop surrogates of biodiversity. Sediment characteristics analysed were mineralogy, organic carbon and nitrogen concentrations and isotopic compositions, and concentrations of major and trace elements. We also measured parameters that convey information about the reactivity of organic matter and on the bio-availability of bioactive trace elements (e.g., chlorin indices and acid-extractable elements). Surface sediments from the region were calcareous oozes that were carbon-lean (0.26±0.1%) and had moderate to high chlorin indices (0.62 – 0.97). With the exception of arsenic, inorganic element concentrations were generally low by global standards. Statistical and geochemical analyses identified two major dimensions of variation in the elemental composition: (i) the degree of mixing between the detrital sediment and carbonate end-members; and (ii) the concentrations of bio-available bioactive elements. The causes of compositional variation are discussed, and include: (i) a strong latitudinal gradient in detrital atmospheric dust deposition; (ii) size fractionation and cation exchange of dust components during transit (for non-carbonates); (iii) water depth controls on carbonate dissolution; and (iv) topographic/hydrodynamic focussing of reactive organic matter. Reactive organic matter indicators were not well correlated with water depth, and did not reflect the regional ocean productivity pattern. Basalt source signatures were not evident in the mineralogy or geochemistry of sediments overlying the seamount or in the vicinity of volcanoes.

A growing need to manage marine biodiversity sustainably at local, regional and global scales cannot be met by applying 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 biodiversity with particular regard to how variables are tied to processes affecting species richness and how easily those variables can be measured at scales relevant to resource management decisions. Direct gradient variables such as salinity, oxygen concentration and temperature can be strong predictive variables for larger systems, although local stability of water quality may prevent usefulness of these factors at fine spatial scales. Biological productivity has complex relationships with benthic biodiversity and although the development of local and regional models cannot accurately predict outside the range of their biological sampling, remote sensing may provide useful information. Indeed, interpolated values are available for much of the world’s seas, and these are continually being refined by the collection of remote sensing and field data. Sediment variables often exhibit complex relationships with benthic biodiversity. The strength of the relationship between any one sediment variable and biodiversity may depend on the state of another sediment variable in that system. Percentage mud, percentage gravel, rugosity and compaction hold the strongest independent predictive power. Rugosity and the difference between gravel and finer sediments can be established using acoustic methods, but to quantify grain size and measure compaction, a sample is necessary. Pure spatial variables such as latitude, longitude and depth are not direct drivers of biodiversity patterns but often correspond with driving gradients and can be of some use in prediction. In such cases it would be better to identify what the spatial variable is acting as a proxy for so boundaries for that variable are not overlooked. The utility of these potential surrogates vary across spatial scales, quality of data, and management needs. A continued focus on surrogate research will address the need of marine scientists and resource managers worldwide for accurate and robust predictions, extending from simple measures of diversity to species distributions and patterns of assemblage.

The oligochaete Limnodrilus hoffmeisteri at Foundry Cove (FC), New York evolved genetic resistance to cadmium (Cd) and lost resistance after contaminated sediments were removed by dredging. Selection (on survival time in dissolved Cd) was used to generate tolerance to evaluate fitness cost, the commonplace expectation for evolutionary reversal. The hypothesis that gene flow from neighboring populations could "swamp" resistance was addressed by 16S rDNA sequences. In disagreement with the cost hypothesis, selected-Cd tolerant worms and controls showed no difference in total fecundity or growth rate in environments. Highly-Cd-tolerant worms of the FC-selected population grew rapidly at different temperatures and showed no growth impairment in the presence of Cd, indicating metabolically efficient resistance. Genetic structure at FC was consistent with invasion of genotypes from an adjacent population in the time since dredging. Applying selection to lines from FC and a reference site, demonstrated a more rapid increase in Cd tolerance in FC-origin lines, indicating standing allelic variation for resistance at FC (despite phenotypic erosion). The selection experiment supports the view that resistance is simply controlled--probably by one allele of large effect. Whether such rapid "readaptation" could occur naturally is an important question for understanding broad effects of pollutants.

The planktobenthos is an important area with unique environmental conditions that represents the immediate link between the benthos and the water column, yet it has never been deliberately sampled concurrently with the benthos. We have developed a new sampling method to allow concurrent collection of benthic and planktobenthic specimens. The Mounted Assembly for Planktobenthic Sampling (MAPS) uses a novel trilayered net with a seafloor-triggered opening and closing mechanism attached to an epibenthic sled. The MAPS was deployed on the Carnarvon Shelf off Western Australia and was successful at separately sampling both benthic and planktobenthic fauna. A wide variety of epibenthic and infaunal animals were collected from the sled, and planktobenthic animals such as mysids were identified from all three nets. The trilayered net was particularly effective at collecting a broad range of planktobenthic organisms, including smaller fragile larvae and adults that may have otherwise been destroyed during collection in a single net or grab. The number of species in planktobenthic and benthic samples was correlated, although the strength and significance of this relationship varied among taxonomic groups, suggesting that rich benthic assemblages are linked to rich planktobenthic assemblages. Importantly, the MAPS is a value-adding method, collecting two sample sets for the cost of one, and can be modified for use on a wide variety of benthic sleds to target a range of organisms. The concurrent collection of planktobenthic and benthic biota will contribute to a range of research areas, including larval ecology, nutrient cycling, and surrogacy research for habitat mapping.

Infauna play key roles in nutrient cycling and bioturbation by facilitating exchange across the sediment-water interface, but the effects of environmental stressors on the behavior of infauna are poorly studied compared to epifauna. Here we used laboratory experiments to examine the effects of temperature (15, 21, and 32°C), salinity (16, 22, 28, and 34), and food availability (low, moderate, high) on the burrowing activity of the opportunistic deposit-feeding polychaete Capitella sp. 1. We also used pH and O2 fluorosensors to investigate the effects of burrowing on marine sedi- ment chemistry. Worms buried significantly deeper at 21 than at 15°C, and they died at 32°C. Salin- ity only marginally affected the area of burrowing activity, with greater area at 35 than at 22. Burrows in highly enriched treatments were significantly more shallow than those in moderate and low food treatments. The fluorosensors showed that the exchange of solutes between the sediment and over- lying water was associated with burrowing activity. These results show that changes in environmen- tal conditions affect infaunal burrowing activity, which in turn affects sediment characteristics. We discuss the need to consider infaunal responses to abiotic stress in order to understand community and ecosystem responses to environmental changes associated with climate change, pollution, and eutrophication.