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The identification of tsunami deposits in the geological record remains a challenge because the proxies availabilities are subject to the environment. The proxies may degrade over time and inherently inhibit the robustness of event interpretations. Multi-proxy methods, which leverage on each other's advantage/s and limitation/s, are employed to improve the identification of tsunami deposits from the geological record. Here, we assess the utility of environmental DNA (eDNA) for tsunami research by comparing and contrasting the eDNA collected from a sequence of well-documented palaeotsunami deposits spanning the past three millennia. We study swales in a coastal beach ridge sequences on Phra Thong Island, Thailand and test if eDNA can robustly discriminate the tsunami-deposited sand sheets that intercalate between the non-tsunami derived organic mud layers. Our results indicate that the 2004 Indian Ocean tsunami deposit and preceding tsunami deposits (approximately 550 to 700 years ago) contain microbial communities that differ significantly from the overlying and underlying organic mud layers (p-value = 0.0269) but the signal becomes restricted in the older sediment layers up to 2800-year-old that are constantly submerged in groundwater. This work demonstrates the potential for applying eDNA to study tsunami deposits over centennial time frames and perhaps longer.

Population characteristics e g density and body sizes of foundation species can affect their own persistence and provisioning of ecosystem functions Understanding the drivers of population characteristics of foundation species at multiple spatial scales is therefore critical for maximizing ecosystem functions of restored habitats We analyzed variation in population characteristics densities 95th percentile and median lengths of live oysters of the Sydney rock oyster Saccostrea glomerata on remnant oyster reefs at regional scales among three estuaries along an approximately 250 km of coastline in New South Wales Australia We then analyzed how population characteristics were further related to spatial attributes at smaller spatial scales including within patches rugosity distance to patch edge and elevation whole patches size and shape and among patch connectivity within each estuary The densities and body sizes of S glomerata were related to spatial attributes occurring within patch e g elevation whole patch e g shape and landscape i e connectivity scales but these relationships varied among estuaries The greatest variation in oyster density and size occurred at regional scales suggesting that processes acting at larger spatial scales e g water quality and or climate set the context for smaller scale influences on oyster characteristics Our results highlight the potential importance of incorporating site specific spatial attributes in the design of restored oyster reefs to maximize ecosystem services and functions provided by restoration efforts 2022 The Authors Restoration Ecology published by Wiley Periodicals LLC on behalf of Society for Ecological Restoration

Antarctic sea-ice forms a complex and dynamic system that drives many ecological processes in the Southern Ocean. Sea-ice microalgae and their associated microbial communities are understood to influence nutrient flow and allocation in marine polar environments. Sea-ice microalgae and their microbiota can have high seasonal and regional (>1000 km2) compositional and abundance variation, driven by factors modulating their growth, symbiotic interactions and function. In contrast, our knowledge of small-scale variation in these communities is limited. Understanding variation across multiple scales and its potential drivers is critical for informing on how multiple stressors impact sea-ice communities and the functions they provide. Here, we characterized bacterial communities associated with sea-ice microalgae and the potential drivers that influence their variation across a range of spatial scales (metres to >10 kms) in a previously understudied area in Commonwealth Bay, East Antarctica where anomalous events have substantially and rapidly expanded local sea-ice coverage. We found a higher abundance and different composition of bacterial communities living in sea-ice microalgae closer to the shore compared to those further from the coast. Variation in community structure increased linearly with distance between samples. Ice thickness and depth to the seabed were found to be poor predictors of these communities. Further research on the small-scale environmental drivers influencing these communities is needed to fully understand how large-scale regional events can affect local function and ecosystem processes.

Host-microbe interactions play crucial roles in marine ecosystems. However, we still have very little understanding of the mechanisms that govern these relationships, the evolutionary processes that shape them, and their ecological consequences. The holobiont concept is a renewed paradigm in biology that can help to describe and understand these complex systems. It posits that a host and its associated microbiota with which it interacts, form a holobiont, and have to be studied together as a coherent biological and functional unit to understand its biology, ecology, and evolution. Here we discuss critical concepts and opportunities in marine holobiont research and identify key challenges in the field. We highlight the potential economic, sociological, and environmental impacts of the holobiont concept in marine biological, evolutionary, and environmental sciences. Given the connectivity and the unexplored biodiversity specific to marine ecosystems, a deeper understanding of such complex systems requires further technological and conceptual advances, e.g., the development of controlled experimental model systems for holobionts from all major lineages and the modeling of (info)chemical-mediated interactions between organisms. Here we propose that one significant challenge is to bridge cross-disciplinary research on tractable model systems in order to address key ecological and evolutionary questions. This first step is crucial to decipher the main drivers of the dynamics and evolution of holobionts and to account for the holobiont concept in applied areas, such as the conservation, management, and exploitation of marine ecosystems and resources, where practical solutions to predict and mitigate the impact of human activities are more important than ever.

Urbanization and its resulting environmental stressors are often managed within terrestrial, freshwater, or marine realms separately. This is problematic for the many cities situated at the intersection between these realms, because stressors and associated management actions can affect multiple realms simultaneously and impacts may be compounded at boundaries. Here, we describe management approaches operating within and across realms, and identify impediments to cross‐realm urban management. We find that management that fails to consider connectivity either within or between realms at best delivers only small‐scale benefits and at worst can produce large‐scale unintended negative outcomes. In contrast, management that explicitly considers inter‐realm connectivity can generate large benefits relative to the cost of interventions. Successful cross‐realm management requires consideration of connectivity, scale (temporal and spatial), and ecological processes across more than two realms, and is underpinned by an integrated and collaborative approach that provides multiple benefits.

Coral reefs provide critical ecological and geomorphic (e.g. sediment production for reef-fronted shoreline maintenance) services, which interact in complex and dynamic ways. These services are under threat from climate change, requiring dynamic modelling approaches that predict how reef systems will respond to different future climate scenarios. Carbonate budgets, which estimate net reef calcium carbonate production, provide a comprehensive 'snap-shot' assessment of reef accretionary potential and reef stability. These budgets, however, were not intended to account for the full suite of processes that maintain coral reef services or to provide predictive capacity on longer timescales (decadal to centennial). To respond to the dual challenges of enhancing carbonate budget assessments and advancing their predictive capacity, we applied a novel model elicitation and review method to create a qualitative geo-ecological carbonate reef system model that links geomorphic, ecological and physical processes. Our approach conceptualizes relationships between net carbonate production, sediment transport and landform stability, and rates knowledge confidence to reveal major knowledge gaps and critical future research pathways. The model provides a blueprint for future coral reef research that aims to quantify net carbonate production and sediment dynamics, improving our capacity to predict responses of reefs and reef-fronted shorelines to future climate change.

Global habitat deterioration of marine ecosystems has led to a need for active interventions to halt or reverse the loss of ecological function. Restoration has historically been a key tool to reverse habitat loss and restore functions, but the extent to which this will be sufficient under future climates is uncertain. Emerging genetic technologies now provide the ability for restoration to proactively match adaptability of target species to predicted future environmental conditions, which opens up the possibility of boosting resistance to future stress in degraded and threatened habitats. As such, the choice of whether to restore to historical baselines or anticipate the future remains a key decision that will influence restoration success in the face of environmental and climate change. Here, we present an overview of the different motives for restoration – to recover or revive lost or degraded habitats to extant or historical states, or to reinforce or redefine for future conditions. We focus on the genetic and adaptive choices that underpin each option and subsequent consequences for restoration success. These options span a range of possible trajectories, technological advances and societal acceptability, and represent a framework for progressing restoration of marine habitat forming species into the future.

Propagule pressure is acknowledged as a key determinant of invasion success. Nonetheless, the role of morphological or physiological attributes of propagules (i.e. their quality) in regulating invader establishment has been little explored. In particular, no study has investigated how the presence of propagules differing in quality within an inoculum influences establishment across heterogeneous landscapes. We experimentally tested the hypothesis that the quality (+Fronds+Rhizoids; +Fronds−Rhizoids; −Fronds+Rhizoids) and the diversity (1, 2 and 3 fragment types) of vegetative fragments of the seaweed Caulerpa taxifolia determine their establishment success across seascapes consisting of bare sediments and patches of the seagrass Zostera muelleri exposed to different disturbance intensities (control, seagrass canopy clipping and total removal). After 6 weeks, seaweed biomass, stolon and frond length, frond and rhizoid number were generally greater in unvegetated habitats (bare sediments and total seagrass removal) than full or reduced seagrass canopies. The type and the diversity of types of fragments inoculated had significant effects on the final biomass and morphological features of C. taxifolia only in vegetated habitats. In control plots, inocula of fragments retaining both fronds and rhizoids achieved higher biomass, developed longer stolons and more fronds. In canopy clipping plots, mixed inocula of +Fronds+Rhizoids and −Fronds+Rhizoids fragments had the greatest biomass and stolon length. Synthesis. Assessing how propagules differing in quality perform in different habitats might be not sufficient to draw a comprehensive picture of invasion risk, as their establishment can be modulated by both negative and positive interactions among them. Propagule composition should be, therefore, considered as a further dimension of propagule pressure. Our results also suggest that the relevance of specific propagule traits for invader establishment decreases from intact t

Saltmarshes provide many valuable ecosystem services including storage of a large amount of ‘blue carbon’ within their soils. To date, up to 50% of the world’s saltmarshes have been lost or severely degraded primarily due to a variety of anthropogenic pressures. Previous efforts have aimed to restore saltmarshes and their ecosystem functions, but the success of these efforts is rarely evaluated. To fill this gap, we used a range of metrics, including organic carbon stocks, root production, soil respiration and microbial communities to compare natural and a 20-year restoration effort in saltmarsh habitats within the Sydney Olympic Park in New South Wales, Australia. We addressed four main questions: (1) Have above- and belowground plant biomass recovered to natural levels? (2) Have organic carbon stocks of soils recovered? (3) Are microbial communities similar between natural and regenerated saltmarshes? and (4) Are microbial communities at both habitats associated to ecosystem characteristics? For both soil organic carbon stocks and belowground biomass, we found no significant differences between natural and regenerated habitats (F(1,14) = 0.47, p = 0.5; F(1,42) = 0.08, p = 0.76). Aboveground biomass was higher in the natural habitat compared to the regenerated habitat (F(1,20) = 27.3, p < 0.0001), which may result from a site-specific effect: protection from erosion offered by a fringing mangrove forest in the natural habitat but not the regenerated habitat. Our microbial community assessment indicated that restored and natural saltmarsh habitats were similar at a phylum level, with the exception of a higher proportion of Proteobacteria in the rhizosphere of saltmarshes from the regenerated habitat (p < 0.01). Abundance of both Desulfuromonas and Geobacter was associated with high carbon and nitrogen densities in soils indicating that these genera may be key for the recovery of ecosystem characteristics in saltmarshes. Our restored and natural saltmarsh soils store

© 2019, The Author(s), under exclusive licence to Springer Nature Limited. Research into the microbiomes of natural environments is changing the way ecologists and evolutionary biologists view the importance of microorganisms in ecosystem function. This is particularly relevant in ocean environments, where microorganisms constitute the majority of biomass and control most of the major biogeochemical cycles, including those that regulate Earth’s climate. Coastal marine environments provide goods and services that are imperative to human survival and well-being (for example, fisheries and water purification), and emerging evidence indicates that these ecosystem services often depend on complex relationships between communities of microorganisms (the ‘microbiome’) and the environment or their hosts — termed the ‘holobiont’. Understanding of coastal ecosystem function must therefore be framed under the holobiont concept, whereby macroorganisms and their associated microbiomes are considered as a synergistic ecological unit. Here, we evaluate the current state of knowledge on coastal marine microbiome research and identify key questions within this growing research area. Although the list of questions is broad and ambitious, progress in the field is increasing exponentially, and the emergence of large, international collaborative networks and well-executed manipulative experiments are rapidly advancing the field of coastal marine microbiome research.

Scleractinian corals are vulnerable to a range of environmental disturbances, but generally suffer the highest rates of mortality during early life-history stages, i.e., from larval settlement until a few months post-settlement. Variations in survival rates of corals during this period play a key role in structuring adult coral populations. Many coral reefs have experienced reductions in herbivory rates due to overfishing and consequent increases in macroalgae, however, the effect of increased coral-algal interactions may vary between coral life-history stages and among locations. Therefore understanding the relative importance of different drivers of mortality across early life-history stages, under a range of environmental conditions, is essential to effectively manage and restore coral reefs. To date, however, relatively few studies have (a) examined coral-algal interactions across several early life-history stages (i.e., from planulae to juvenile colonies) and (b) done so in highly disturbed reefs close to large urban centers. We investigated the effect of algal-coral-herbivore interactions on early life history stages in the coral Pocillopora acuta on coral reefs off mainland Singapore, a heavily disturbed "urbanized reef environment". Larval settlement rates were estimated in the presence of six macroalgal species ex situ. The effect of direct interaction with two macroalgal species on newly settled spat was examined in situ and the effect of reduced herbivory was tested with exclusion cages on naturally settled 9-month-old juveniles in situ. We found significant reductions in P. acuta settlement in the presence of four macroalgal species. Newly settled spat of P. acuta had significantly lower survivorship when in contact with Sargassum sp. on the reef crest but not with Bryopsis sp. on the reef flat. Herbivore exclusion reduced survivorship of juvenile corals, which was associated with increased sediment accumulation, but not with algal biomass. Our results s

Host-associated microbial communities play a fundamental role in the life of eukaryotic hosts. It is increasingly argued that hosts and their microbiota must be studied together as 'holobionts' to better understand the effects of environmental stressors on host functioning. Disruptions of host-microbiota interactions by environmental stressors can negatively affect host performance and survival. Substantial ecological impacts are likely when the affected hosts are habitat-forming species (e.g., trees, kelps) that underpin local biodiversity. In marine systems, coastal urbanisation via the addition of artificial structures is a major source of stress to habitat formers, but its effect on their associated microbial communities is unknown. We characterised kelp-associated microbial communities in two of the most common and abundant artificial structures in Sydney Harbour - pier-pilings and seawalls - and in neighbouring natural rocky reefs. The kelp Ecklonia radiata is the dominant habitat-forming species along 8000 km of the temperate Australian coast. Kelp-associated microbial communities on pilings differed significantly from those on seawalls and natural rocky reefs, possibly due to differences in abiotic (e.g., shade) and biotic (e.g., grazing) factors between habitats. Many bacteria that were more abundant on kelp on pilings belonged to taxa often associated with macroalgal diseases, including tissue bleaching in Ecklonia. There were, however, no differences in kelp photosynthetic capacity between habitats. The observed differences in microbial communities may have negative effects on the host by promoting fouling by macroorganisms or by causing and spreading disease over time. This study demonstrates that urbanisation can alter the microbiota of key habitat-forming species with potential ecological consequences.

© 2018 Ferrari et al. This is an open ccess article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and eproduction in any medium, provided the original author and source are credited. Marine protected areas (MPAs) are designed to reduce threats to biodiversity and ecosystem functioning from anthropogenic activities. Assessment of MPAs effectiveness requires synchronous sampling of protected and non-protected areas at multiple spatial and temporal scales. We used an autonomous underwater vehicle to map benthic communities in replicate 'no-take' and 'general-use' (fishing allowed) zones within three MPAs along 7o of latitude. We recorded 92 taxa and 38 morpho-groups across three large MPAs. We found that important habitat-forming biota (e.g. massive sponges) were more prevalent and abundant in no-take zones, while short ephemeral algae were more abundant in general-use zones, suggesting potential short-term effects of zoning (5±10 years). Yet, short-term effects of zoning were not detected at the community level (community structure or composition), while community structure varied significantly among MPAs. We conclude that by allowing rapid, simultaneous assessments at multiple spatial scales, autonomous underwater vehicles are useful to document changes in marine communities and identify adequate scales to manage them. This study advanced knowledge of marine benthic communities and their conservation in three ways. First, we quantified benthic biodiversity and abundance, generating the first baseline of these benthic communities against which the effectiveness of three large MPAs can be assessed. Second, we identified the taxonomic resolution necessary to assess both short and long-term effects of MPAs, concluding that coarse taxonomic resolution is sufficient given that analyses of community structure at different taxonomic levels were generally consistent. Yet, observed differences were taxa-s

We report on the marine fouling and fouling release effects caused by variations of surface mechanical properties and microtopography of engineering polymers. Polymeric materials were covered with hierarchical micromolded topographical patterns inspired by the shell of the marine decapod crab Myomenippe hardwickii. These micropatterned surfaces were deployed in field static immersion tests. PDMS, polyurethane, and PMMA surfaces with higher elastic modulus and hardness were found to accumulate more fouling and exhibited poor fouling release properties. The results indicate interplay between surface mechanical properties and microtopography on antifouling performance.

Our growing awareness of the microbial world's importance and diversity contrasts starkly with our limited understanding of its fundamental structure. Despite recent advances in DNA sequencing, a lack of standardized protocols and common analytical frameworks impedes comparisons among studies, hindering the development of global inferences about microbial life on Earth. Here we present a meta-analysis of microbial community samples collected by hundreds of researchers for the Earth Microbiome Project. Coordinated protocols and new analytical methods, particularly the use of exact sequences instead of clustered operational taxonomic units, enable bacterial and archaeal ribosomal RNA gene sequences to be followed across multiple studies and allow us to explore patterns of diversity at an unprecedented scale. The result is both a reference database giving global context to DNA sequence data and a framework for incorporating data from future studies, fostering increasingly complete characterization of Earth's microbial diversity.

Coral cover on reefs is declining globally due to coastal development, overfishing and climate change. Reefs isolated from direct human influence can recover from natural acute disturbances, but little is known about long term recovery of reefs experiencing chronic human disturbances. Here we investigate responses to acute bleaching disturbances on turbid reefs off Singapore, at two depths over a period of 27 years. Coral cover declined and there were marked changes in coral and benthic community structure during the first decade of monitoring at both depths. At shallower reef crest sites (3-4 m), benthic community structure recovered towards pre-disturbance states within a decade. In contrast, there was a net decline in coral cover and continuing shifts in community structure at deeper reef slope sites (6-7 m). There was no evidence of phase shifts to macroalgal dominance but coral habitats at deeper sites were replaced by unstable substrata such as fine sediments and rubble. The persistence of coral dominance at chronically disturbed shallow sites is likely due to an abundance of coral taxa which are tolerant to environmental stress. In addition, high turbidity may interact antagonistically with other disturbances to reduce the impact of thermal stress and limit macroalgal growth rates.

Some of the most profound effects of climate change on ecological communities are due to alterations in species interactions rather than direct physiological effects of changing environmental conditions. Empirical evidence of historical changes in species interactions within climate-impacted communities is, however, rare and difficult to obtain. Here, we demonstrate the recent disappearance of key habitat-forming kelp forests from a warming tropical-temperate transition zone in eastern Australia. Using a 10-y video dataset encompassing a 0.6 °C warming period, we show how herbivory increased as kelp gradually declined and then disappeared. Concurrently, fish communities from sites where kelp was originally abundant but subsequently disappeared became increasingly dominated by tropical herbivores. Feeding assays identified two key tropical/subtropical herbivores that consumed transplanted kelp within hours at these sites. There was also a distinct increase in the abundance of fishes that consume epilithic algae, and much higher bite rates by this group at sites without kelp, suggesting a key role for these fishes in maintaining reefs in kelp-free states by removing kelp recruits. Changes in kelp abundance showed no direct relationship to seawater temperatures over the decade and were also unrelated to other measured abiotic factors (nutrients and storms). Our results show that warming-mediated increases in fish herbivory pose a significant threat to kelp-dominated ecosystems in Australia and, potentially, globally.

Declines of habitat-forming organisms in terrestrial and marine systems can lead to changes in community-wide biodiversity. The dominant habitat-forming macroalga Phyllospora comosa (Fucales) went locally extinct along the metropolitan coastline of Sydney in the 1980s. However, the consequences of that disappearance to the associated faunal diversity in these habitats, and whether Phyllospora is ecologically redundant with respect to the biodiversity it supports, are not known. Efforts are underway to restore Phyllospora, and the capacity to enhance local biodiversity is an important component of the rationale for restoration. We compared epifaunal diversity (abundances and composition) between Phyllospora and two other co-occurring habitat-forming algae, the kelp Ecklonia radiata and the fucoid Sargassum vestitum, and determined whether Phyllospora transplanted to Sydney developed different epifaunal communities than undisturbed thalli and controls. Where the 3 species naturally co-occurred, Phyllospora supported different abundances of taxa than Ecklonia and Sargassum, as well as different composition at finer scales, which suggests that this species is not completely redundant and that its disappearance may have affected local biodiversity. Similarly, assemblages on transplanted Phyllospora differed from those on Ecklonia and Sargassum at restored sites, but did not always resemble assemblages from extant natural Phyllospora populations, even 18 months after transplantation. These experiments indicate that restoration of key habitat-forming seaweeds not only recovers the algal species but also reduces risks of losing habitat diversity for epifauna and their consumers. However, restoration of all the original biodiversity associated with these seaweeds can be a difficult, complex, and long-term process.

Sydney Harbour is a global hotspot for marine and estuarine diversity. Despite its social, economic and biological value, the available knowledge has not previously been reviewed or synthesised. We systematically reviewed the published literature and consulted experts to establish our current understanding of the Harbour's natural systems, identify knowledge gaps, and compare Sydney Harbour to other major estuaries worldwide. Of the 110 studies in our review, 81 focussed on ecology or biology, six on the chemistry, 10 on geology and 11 on oceanography. Subtidal rocky reef habitats were the most studied, with a focus on habitat forming macroalgae. In total 586 fish species have been recorded from the Harbour, which is high relative to other major estuaries worldwide. There has been a lack of process studies, and an almost complete absence of substantial time series that constrains our capacity to identify trends, environmental thresholds or major drivers of biotic interactions. We also highlight a lack of knowledge on the ecological functioning of Sydney Harbour, including studies on microbial communities. A sound understanding of the complexity, connectivity and dynamics underlying ecosystem functioning will allow further advances in management for the Harbour and for similarly modified estuaries around the world.

Ecosystems modified by human activities are generally predicted to be biologically impoverished. However, much pollution impact theory stems from laboratory or small-scale field studies, and few studies replicate at the level of estuary. Furthermore, assessments are often based on sediment contamination and infauna, and impacts to epibiota (sessile invertebrates and algae) are seldom considered. We surveyed epibiota in six estuaries in south-east Australia. Half the estuaries were relatively pristine, and half were subject to internationally high levels of contamination, urbanisation, and industrialisation. Contrary to predictions, epibiota in modified estuaries had greater coverage and were similarly diverse as those in unmodified estuaries. Change in epibiota community structure was linearly correlated with sediment-bound copper, and the tubeworm Hydroides elegans showed a strong positive correlation with sediment metals. Stressors such as metal contamination can reduce biodiversity and productivity, but others such as nutrient enrichment and resource provision may obscure signals of impact.

This Australian benthic data set (BENTHOZ-2015) consists of an expert-annotated set of georeferenced benthic images and associated sensor data, captured by an autonomous underwater vehicle (AUV) around Australia. This type of data is of interest to marine scientists studying benthic habitats and organisms. AUVs collect georeferenced images over an area with consistent illumination and altitude, and make it possible to generate broad scale, photo-realistic 3D maps. Marine scientists then typically spend several minutes on each of thousands of images, labeling substratum type and biota at a subset of points. Labels from four Australian research groups were combined using the CATAMI classification scheme, a hierarchical classification scheme based on taxonomy and morphology for scoring marine imagery. This data set consists of 407,968 expert labeled points from around the Australian coast, with associated images, geolocation and other sensor data. The robotic surveys that collected this data form part of Australia's Integrated Marine Observing System (IMOS) ongoing benthic monitoring program. There is reuse potential in marine science, robotics, and computer vision research.

Sea-ice is a key physical driver of Antarctic marine ecosystems. Understanding ecological effects of sea-ice is particularly important given current and future climate change, but a major obstacle is the impracticality of manipulating sea-ice at a relevant scale. However, large-scale anomalous events, such as those occurring in Commonwealth Bay, East Antarctica, provide opportunities for natural experiments. Historically, katabatic winds have kept Commonwealth Bay ice-free for most of each year, but since 2010, a massive grounded iceberg has resulted in year-round sea-ice cover. We surveyed benthic communities in Commonwealth Bay approximately 3 years after continuous sea-ice cover began and found algal bed communities in severe decline. The majority (~75 %) of large macroalgae were decomposing, and the remainder were discoloured or bleached, while approximately 40 % of encrusting coralline algae were bleached. Accompanying this, the presence of invertebrates such as ophiuroids and polychaetes suggests that communities are in the early stages of transitioning to an invertebrate-dominated state. With a known start date, monitoring benthic communities in Commonwealth Bay will allow quantification of rates of benthic regime shifts in response to sea-ice cover, and improve understanding of the vulnerability of polar ecosystems to climate change.

Interactions between hosts and associated microbial communities can fundamentally shape the development and ecology of ‘holobionts’, from humans to marine habitat-forming organisms such as seaweeds. In marine systems, planktonic microbial community structure is mainly driven by geography and related environmental factors, but the large-scale drivers of host-associated microbial communities are largely unknown. Using 16S-rRNA gene sequencing, we characterized 260 seaweed-associated bacterial and archaeal communities on the kelp Ecklonia radiata from three biogeographical provinces spanning 10° of latitude and 35° of longitude across the Australian continent. These phylogenetically and taxonomically diverse communities were more strongly and consistently associated with host condition than geographical location or environmental variables, and a ‘core’ microbial community characteristic of healthy kelps appears to be lost when hosts become stressed. Microbial communities on stressed individuals were more similar to each other among locations than those on healthy hosts. In contrast to biogeographical patterns of planktonic marine microbial communities, host traits emerge as critical determinants of associated microbial community structure of these holobionts, even at a continental scale.

Macroalgal surfaces support abundant and diverse microorganisms within biofilms, which are often involved in fundamental functions relating to the health and defense of their seaweed hosts, including algal development, facilitation of spore release, and chemical antifouling. Given these intimate and important interactions, environmental changes have the potential to negatively impact macroalgae by disrupting seaweed-microbe interactions. We used the disappearance of the dominant canopy-forming fucoid Phyllospora comosa from the metropolitan coast of Sydney, NSW, Australia as a model system to study these interactions. We transplanted Phyllospora individuals from nearby, extant populations back onto reefs in Sydney to test whether bacterial assemblages associated with seaweed surfaces would be influenced by (i) the host itself, independently of where it occurs, (ii) the type of habitat where the host occurs, or (iii) site-specific differences. Analyses of bacterial DNA fingerprints (terminal fragment length polymorphisms) indicated that assemblages of bacteria on Phyllospora were not habitat-specific. Rather, they were primarily influenced by local, site-specific conditions with some evidence for host-specificity in some cases. This could suggest a lottery model of host-surface colonization, by which hosts are colonized by 'suitable' bacteria available in the local species pool, resulting in high variability in assemblage structure across sites, but where some species in the community are specific to the host and possibly influenced by differences in host traits.

Networks of engineered waterways are critical in meeting the growing water demands in megacities. To capture and treat rainwater in an energy-efficient manner, approaches can be developed for such networks that use ecological services from microbial communities. Traditionally, engineered waterways were regarded as homogeneous systems with little responsiveness of ecological communities and ensuing processes. This study provides ecogenomics-derived key information to explain the complexity of urban aquatic ecosystems in well-managed watersheds with densely interspersed land-use patterns. Overall, sedimentary microbial communities had higher richness and evenness compared to the suspended communities in water phase. On the basis of PERMANOVA analysis, variation in structure and functions of microbial communities over space within same land-use type was not significant. In contrast, this difference was significant between different land-use types, which had similar chemical profiles. Of the 36 environmental parameters from spatial analysis, only three metals, namely potassium, copper and aluminum significantly explained between 7% and 11% of the variation in taxa and functions, based on distance-based linear models (DistLM). The ecogenomics approach adopted here allows the identification of key drivers of microbial communities and their functions at watershed-scale. These findings can be used to enhance microbial services, which are critical to develop ecologically friendly waterways in rapidly urbanizing environments.

© 2014 Campbell, Marzinelli, Gelber and Steinberg. Macroalgal surfaces support abundant and diverse microorganisms within biofilms, which are often involved in fundamental functions relating to the health and defence of their seaweed hosts, including algal development, facilitation of spore release and chemical antifouling. Given these intimate and important interactions, environmental changes have the potential to negatively impact macroalgae by disrupting seaweed-microbe interactions. We used the disappearance of the dominant canopy-forming fucoid Phyllospora comosa from the metropolitan coast of Sydney, Australia as a model system to study these interactions. We transplanted Phyllospora individuals from nearby, extant populations back onto reefs in Sydney to test whether bacterial assemblages associated with seaweed surfaces would be influenced by (i) the host itself, independently of where it occurs, (ii) the type of habitat where the host occurs or (iii) site-specific differences. Analyses of bacterial DNA fingerprints (TRFLPs) indicated that assemblages of bacteria on Phyllospora were not habitat-specific. Rather, they were primarily influenced by local, site-specific conditions with some evidence for host-specificity in some cases. This could suggest a lottery model of host-surface colonisation, by which hosts are colonised by 'suitable' bacteria available in the local species pool, resulting in high variability in assemblage structure across sites, but where some species in the community are specific to the host and possibly influenced by differences in host traits.

Climate-driven changes in biotic interactions can profoundly alter ecological communities, particularly when they impact foundation species. In marine systems, changes in herbivory and the consequent loss of dominant habitat forming species can result in dramatic community phase shifts, such as from coral to macroalgal dominance when tropical fish herbivory decreases, and from algal forests to 'barrens' when temperate urchin grazing increases. Here, we propose a novel phase-shift away from macroalgal dominance caused by tropical herbivores extending their range into temperate regions. We argue that this phase shift is facilitated by poleward-flowing boundary currents that are creating ocean warming hotspots around the globe, enabling the range expansion of tropical species and increasing their grazing rates in temperate areas. Overgrazing of temperate macroalgae by tropical herbivorous fishes has already occurred in Japan and the Mediterranean. Emerging evidence suggests similar phenomena are occurring in other temperate regions, with increasing occurrence of tropical fishes on temperate reefs. © 2014 The Author(s) Published by the Royal Society. All rights reserved.