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Aim: Spatial compositional turnover varies considerably among co-occurring assemblages of organisms, presumably shaped by common processes related to species traits. We investigated patterns of spatial turnover in a diverse set of marine assemblages using zeta diversity, which extends traditional pairwise measures of turnover to capture the roles of both rare and common species in shaping assemblage turnover. We tested the generality of hypothesized patterns related to ecological traits and provide insights into mechanisms of biodiversity change. Location: Temperate pelagic and benthic marine assemblages of micro- and macroorganisms along south-eastern Australia (30–36° S latitude). Time period: 2008–2021. Major taxa studied: Bacteria, phytoplankton, zooplankton, fish, and macrobenthic groups. Methods: Six marine datasets spanning bacteria to fishes were collated for measures of “species” occurrence, with a 1° latitude grain. For each assemblage, ecological traits of body size, habitat and trophic level were analysed for the form and rate of decline in zeta diversity and for the species retention rate. Results: Species at higher trophic levels showed two to three times the rate of zeta diversity decline compared with lower trophic levels, indicating an increase in turnover from phytoplankton to carnivorous fishes. Body size showed the hypothesized unimodal relationship with rates of turnover for macroorganisms. Patterns of bacterial turnover contrasted with those found for macroorganisms, with the highest levels of turnover in pelagic habitats compared with benthic (kelp-associated) habitats. The shape of retention rate curves showed the importance of both rare and common species in driving turnover; a finding that would not have been observable using pairwise (beta diversity) measures of turnover. Main conclusions: Our results support theoretical predictions for phytoplankton and macroorganisms, showing an increase in turnover rate with trophic level, but these predictions did not hold for bacteria. Such deviations from theory need to be investigated further to identify underlying processes that govern microbial assemblage dynamics.

Globally, critical habitats are in decline, threatening ecological, economic and social values and prompting calls for "future proofing" efforts that enhance resilience to climate change. Such efforts rely on predicting how neutral and adaptive genomic patterns across a species' distribution will change under future climate scenarios, but data is scant for most species of conservation concern. Here, we use seascape genomics to characterize genetic diversity, structure and gene-environmental associations in a dominant forest-forming seaweed, Phyllospora comosa, along its entire latitudinal (12° latitude), and thermal (~14°C) range. Phyllospora showed high connectivity throughout its central range, with evidence of genetic structure and potential selection associated with sea surface temperatures at its rear and leading edges. Rear and leading-edge populations harboured only half the genetic diversity of central populations. By modelling genetic turnover as a function of sea surface temperature, we assessed the genomic vulnerability across Phyllospora's distributional range under climate change scenarios. Despite low diversity, range-edge populations were predicted to harbour beneficial adaptations to marginal conditions and overall adaptability of the species may be compromised by their loss. Assisted gene flow from range edge populations may be required to enhance adaptation and increase resilience of central and leading-edge populations under warming oceans. Understanding genomic vulnerability can inform proactive restoration and future-proofing strategies for underwater forests and ensure their persistence in changing oceans.

Incidence, or compositional, matrices are generated for a broad range of research applications in biology. Zeta diversity provides a common currency and conceptual framework that links incidence-based metrics with multiple patterns of interest in biology, ecology, and biodiversity science. It quantifies the variation in species (or OTU) composition of multiple assemblages (or cases) in space or time, to capture the contribution of the full suite of narrow, intermediate, and wide-ranging species to biotic heterogeneity. Here we provide a conceptual framework for the application and interpretation of patterns of continuous change in compositional diversity using zeta diversity. This includes consideration of the survey design context, and the multiple ways in which zeta diversity decline and decay can be used to examine and test turnover in the identity of elements across space and time. We introduce the zeta ratio-based retention rate curve to quantify rates of compositional change. We illustrate these applications using 11 empirical data sets from a broad range of taxa, scales, and levels of biological organization-from DNA molecules and microbes to communities and interaction networks-including one of the original data sets used to express compositional change and distance decay in ecology. We show (1) how different sample selection schemes used during the calculation of compositional change are appropriate for different data types and questions, (2) how higher orders of zeta may in some cases better detect shifts and transitions, and (3) the relative roles of rare vs. common species in driving patterns of compositional change. By exploring the application of zeta diversity decline and decay, including the retention rate, across this broad range of contexts, we demonstrate its application for understanding continuous turnover in biological systems.

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. © 2016 Society for Ecological Restoration.

Summary 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.

Despite the importance of consumers in structuring communities, and the widespread assumption that consumption is strongest at low latitudes, empirical tests for global scale patterns in the magnitude of consumer impacts are limited. In marine systems, the long tradition of experimentally excluding herbivores in their natural environments allows consumer impacts to be quantified on global scales using consistent methodology. We present a quantitative synthesis of 613 marine herbivore exclusion experiments to test the influence of consumer traits, producer traits and the environment on the strength of herbivore impacts on benthic producers. Across the globe, marine herbivores profoundly reduced producer abundance (by 68% on average), with strongest effects in rocky intertidal habitats and the weakest effects on habitats dominated by vascular plants. Unexpectedly, we found little or no influence of latitude or mean annual water temperature. Instead, herbivore impacts differed most consistently among producer taxonomic and morphological groups. Our results show that grazing impacts on plant abundance are better predicted by producer traits than by large-scale variation in habitat or mean temperature, and that there is a previously unrecognised degree of phylogenetic conservatism in producer susceptibility to consumption.

Disease is emerging as an important impact of global climate change, due to the effects of environmental change on host organisms and their pathogens. Climate-mediated disease can have severe consequences in natural systems, particularly when ecosystem engineers, such as habitat-formers or top predators are affected, as any impacts can cascade throughout entire food webs. In temperate marine ecosystems, seaweeds are the dominant habitat-formers on rocky reefs. We investigated a putative bleaching disease affecting Delisea pulchra, a chemically defended seaweed that occurs within a global warming 'hot-spot' and assessed how patterns of this phenomenon were influenced by ocean temperature, solar radiation, algal chemical defences and microbial pathogens. Warmer waters were consistently and positively correlated with higher frequencies of bleaching in seaweed populations, but patterns of bleaching were not consistently influenced by light levels. Bleached thalli had low levels of antibacterial chemical defences relative to healthy conspecifics and this was observed across entire thalli of partially bleached algae. Microbial communities associated with bleached algae were distinct from those on the surfaces of healthy seaweeds. Direct testing of the importance of algal chemical defences, done here for the first time in the field, demonstrated that they protected the seaweed from bleaching. Treatment of algal thalli with antibiotics reduced the severity of bleaching in experimental algae, especially at high water temperatures. These results indicate that bleaching in D. pulchra is the result of temperature-mediated bacterial infections and highlight the potential for warming to influence disease dynamics by stressing hosts. Understanding the complex ways in which global change may affect important organisms such as habitat-forming seaweeds, is essential for the management and conservation of natural resources. © 2011 Blackwell Publishing Ltd.

Host-pathogen interactions have been widely studied in humans and terrestrial plants, but are much less well explored in marine systems. Here we show that a marine macroalga, Delisea pulchra, utilizes a chemical defence - furanones - to inhibit colonization and infection by a novel bacterial pathogen, Ruegeria sp. R11, and that infection by R11 is temperature dependent. Ruegeria sp. R11 formed biofilms, invaded and bleached furanone-free, but not furanone-producing D. pulchra thalli, at high (24°C) but not low (19°C) temperatures. Bleaching is commonly observed in natural populations of D. pulchra near Sydney, Australia, during the austral summer when ocean temperatures are at their peak and the chemical defences of the alga are reduced. Furanones, produced by D. pulchra as a chemical defence, inhibit quorum sensing (QS) in bacteria, and this may play a role in furanone inhibition of R11 infection of furanone-free thalli as R11 produces QS signals. This interplay between temperature, an algal chemical defence mechanism and bacterial virulence demonstrates the complex impact environmental change can have on an ecosystem. © 2010 Society for Applied Microbiology and Blackwell Publishing Ltd.

Summary 1 Herbivory is particularly intense in marine environments, with a higher proportion of primary productivity removed than in terrestrial habitats. Experimental manipulation of large herbivores (fish, urchins) has clearly documented their grazing impacts on algal and seagrass beds. Grazing impacts of mesograzers (small invertebrates such as amphipods and isopods) are, however, less understood due to the practical difficulties in manipulating their abundance in field conditions. 2 We developed a novel technique that successfully manipulated the abundance of herbivorous amphipods on macroalgae without the potential artefacts associated with exclusion cages or mesocosms. We then used this technique to test the effects of reduced amphipod grazing over extended periods on the structure of a temperate algal assemblage. We tested grazer effects on growth rates and epiphyte cover of the brown alga Sargassum linearifolium, and on developing assemblages on bare substrates. 3 Large reductions in the abundance of herbivorous amphipods affected neither the growth rates of S. linearifolium, the cover of its epiphytes, nor the structure of algal assemblages. This result contrasts strongly to previous studies in mesocosms documenting strong impacts of mesograzers on community structure, and we discuss differences in the experimental approaches and biology of the systems that could give rise to the observed differences in grazer impacts. 4 Synthesis. Marine macroalgae and seagrasses support very high densities of small herbivores whose ecological role in these habitats is poorly understood. We have provided the first, replicated experiment that directly manipulates their density in situ to quantify grazer impacts without caging artefacts. Our results indicate that strong impacts are not likely with the naturally occurring amphipod densities in the temperate algal bed studied. Further such experimental tests in field conditions are required to understand the properties of grazer and plant communities that can predict grazer impacts.