Rapid collapse of extensive kelp forests and a regime shift to tropicalized temperate reefs followed extreme heatwaves and decades of gradual warming. Abstract:Ecosystem reconfigurations arising from climate driven changes in species distributions are expected to have profound ecological, social and economic implications. Here, we reveal a rapid climate driven regime shift of Australian temperate reef communities, which lost their defining kelp forests and became dominated by persistent seaweed turfs. Following decades of ocean warming, extreme marine heatwaves forced a 100 km range contraction of extensive kelp forests, and saw temperate species replaced by seaweeds, invertebrates, corals and fishes characteristic of subtropical and tropical waters. This community wide tropicalization fundamentally altered key ecological processes, suppressing the recovery of kelp forests. Main Text:Broad scale losses of species which provide the foundations for habitats cause dramatic shifts in ecosystem structure because they support core ecological processes (1-3). Such habitat loss can lead to a regime shift where reinforcing feedback mechanisms intensify to provide resilience to an alternate community configuration, often with profound ecological, social and economic consequences (4-6). Benthic marine regime shifts have been associated with the erosion of ecological resilience through overfishing or eutrophication, altering the balance between consumers and resources, rendering ecosystems vulnerable to major disturbances (1, 2,6,7). Now, climate change is also contributing to the erosion of resilience (8,9), where increasing temperatures are modifying key physiological, demographic and community scale processes (8, 10), driving species redistribution at a global scale and rapidly breaking down long-standing biogeographic boundaries (11,12). These processes culminate in novel ecosystems where tropical and temperate species interact with unknown implications (13). Here we document how a marine heatwave caused the loss of kelp forests across ~2,300 km 2 of Australia's Great Southern Reef, forcing a regime shift to seaweed turfs. We demonstrate a rapid 100 km rangecontraction of kelp forests and a community-wide shift toward tropical species with ecological processes suppressing kelp forest recovery.To document ecosystem changes we surveyed kelp forests, seaweeds, fish, mobile invertebrates and corals at 65 reefs across a ~2,000 km tropical to temperate transition zone in western Australia (14). Surveys were conducted between 2001 to 2015, covering the years before and after an extreme marine heatwave impacted the region.The Indian Ocean adjacent to western Australia is a 'hotspot' where the rate of ocean warming is in the top 10% globally (15), and isotherms are shifting poleward at a rate of 20 -50 km per decade (16). Until recently, kelp forests were dominant along >800 km of the west coast (8), covering 2,266 km 2 of rocky reefs between 0 -30 m depth south of 27.7°S (Fig. 1). Kelp forests along the midwest section of this ...

Climate-mediated changes to biotic interactions have the potential to fundamentally alter global ecosystems. However, the capacity for novel interactions to drive or maintain transitions in ecosystem states remains unresolved. We examined temperate reefs that recently underwent complete seaweed canopy loss and tested whether a concurrent increase in tropical herbivores could be maintaining the current canopy-free state. Turf-grazing herbivorous fishes increased in biomass and diversity, and displayed feeding rates comparable to global coral reefs. Canopy-browsing herbivores displayed high (~ 10,000 g 100 m(-2) ) and stable biomass between 2006 and 2013. Tropical browsers had the highest abundance in 2013 and displayed feeding rates approximately three times higher than previously observed on coral reefs. These observations suggest that tropical herbivores are maintaining previously kelp-dominated temperate reefs in an alternate canopy-free state by grazing turfs and preventing kelp reestablishment. This remarkable ecosystem highlights the sensitivity of biotic interactions and ecosystem stability to warming and extreme disturbance events.

Marine ecosystems are changing rapidly as the oceans warm and become more acidic. The physical factors and the changes to ocean chemistry that they drive can all be measured with great precision. Changes in the biological composition of communities in different ocean regions are far more challenging to measure because most biological monitoring methods focus on a limited taxonomic or size range. Environmental DNA (eDNA) analysis has the potential to solve this problem in biological oceanography, as it is capable of identifying a huge phylogenetic range of organisms to species level. Here we develop and apply a novel multi-gene molecular toolkit to eDNA isolated from bulk plankton samples collected over a five-year period from a single site. This temporal scale and level of detail is unprecedented in eDNA studies. We identified consistent seasonal assemblages of zooplankton species, which demonstrates the ability of our toolkit to audit community composition. We were also able to detect clear departures from the regular seasonal patterns that occurred during an extreme marine heatwave. The integration of eDNA analyses with existing biotic and abiotic surveys delivers a powerful new long-term approach to monitoring the health of our world’s oceans in the context of a rapidly changing climate.

1. Baited remote underwater stereo-video systems (stereo-BRUVs) are a popular tool to sample demersal fish assemblages and gather data on their relative abundance and body size structure in a robust, cost-effective and non-invasive manner. Given the rapid uptake of the method, subtle differences have emerged in the way stereo-BRUVs are deployed and how the resulting imagery is annotated. These disparities limit the interoperability of datasets obtained across studies, preventing broadscale insights into the dynamics of ecological systems. This is an open access article under the terms of the Creative Commons Attribution License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited.

Dredging can have significant impacts on aquatic environments, but the direct effects on fish have not been critically evaluated. Here, a meta-analysis following a conservative approach is used to understand how dredging-related stressors, including suspended sediment, contaminated sediment, hydraulic entrainment and underwater noise, directly influence the effect size and the response elicited in fish across all aquatic ecosystems and all life-history stages. This is followed by an in-depth review summarizing the effects of each dredging-related stressor on fish. Across all dredging-related stressors, studies that reported fish mortality had significantly higher effect sizes than those that describe physiological responses, although indicators of dredge impacts should endeavour to detect effects before excessive mortality occurs. Studies examining the effects of contaminated sediment also had significantly higher effect sizes than studies on clean sediment alone or noise, suggesting additive or synergistic impacts from dredging-related stressors. The early life stages such as eggs and larvae were most likely to suffer lethal impacts, while behavioural effects were more likely to occur in adult catadromous fishes. Both suspended sediment concentration and duration of exposure greatly influenced the type of fish response observed, with both higher concentrations and longer exposure durations associated with fish mortality. The review highlights the need for in situ studies on the effects of dredging on fish which consider the interactive effects of multiple dredging-related stressors and their impact on sensitive species of ecological and fisheries value. This information will improve the management of dredging projects and ultimately minimize their impacts on fish. K E Y W O R D Scontaminated sediment, dredging impacts, fisheries, meta-analysis, noise pollution, suspended sediment

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There has been rapid uptake of stereo‐video‐based sampling techniques to collect species, abundance and body‐size information on fish assemblages and their associated habitats. Stereo‐video methods provide highly accurate estimates of body‐size, range and sampling area as well as a permanent record that can be cross‐checked or resampled for additional data. Due to these advantages, diver‐operated stereo‐video (stereo‐DOV) is becoming an increasingly popular alternative to underwater visual census. We provide a comprehensive guide for researchers using stereo‐DOVs to survey fish assemblages and their associated habitat. Information on stereo‐DOV design, video camera settings, field operations and video analysis are outlined. Stereo–DOV surveys permit rapid and simultaneous collection of data on fish diversity, abundance, length and behaviour as well as their associated habitat. However, biases associated with diver presence in the water and variation in detectability should be considered and are dependent on the location and focal species of the survey. We recommend using stereo‐DOVs for diver‐based surveys of non‐cryptic fish assemblages, given the advantages described. An increased uptake of this methodology, following the standard procedures described herein, will reduce variation in methodology, assist in the synthesis of data on continental and global scales and provide accurate information to improve fisheries management and conservation.