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Microbial diversity has been extensively explored in reef-building corals. However, the functional roles of coral-associated microorganisms remain poorly elucidated. Here, we recover 191 bacterial and 10 archaeal metagenome-assembled genomes (MAGs) from the coral Acropora kenti (formerly A. tenuis) and adjacent seawater, to identify microbial functions and metabolic interactions within the holobiont. We show that 82 MAGs were specific to the A. kenti holobiont, including members of the Pseudomonadota, Bacteroidota, and Desulfobacterota. A. kenti-specific MAGs displayed significant differences in their genomic features and functional potential relative to seawater-specific MAGs, with a higher prevalence of genes involved in host immune system evasion, nitrogen and carbon fixation, and synthesis of five essential B-vitamins. We find a diversity of A. kenti-specific MAGs encode the biosynthesis of essential amino acids, such as tryptophan, histidine, and lysine, which cannot be de novo synthesised by the host or Symbiodiniaceae. Across a water quality gradient spanning 2° of latitude, A. kenti microbial community composition is correlated to increased temperature and dissolved inorganic nitrogen, with corresponding enrichment in molecular chaperones, nitrate reductases, and a heat-shock protein. We reveal mechanisms of A. kenti-microbiome-symbiosis on the Great Barrier Reef, highlighting the interactions underpinning the health of this keystone holobiont. This study provides insights into the functional roles of microbial symbionts within the reef-building coral Acropora kenti. The findings reveal molecular mechanisms underpinning coral health and adaptation to local environmental stressors, which may support host resilience in the face of anthropogenic climate change and pollution. [ABSTRACT FROM AUTHOR]

Coral reef ecosystems globally are under threat, leading to declining coral cover and macroalgal proliferation. Manually removing macroalgae (i.e. 'sea‐weeding') may promote local‐scale coral recovery by reducing a biological barrier, though the impact of removal on community composition of benthic reef organisms has not been quantified.In this three‐year study (2018–2021), fleshy macroalgae (predominantly Sargassum spp.) were periodically removed from 25 m2 experimental plots on two inshore fringing reefs of Yunbenun (Magnetic Island) in the central Great Barrier Reef.By the end of the study, coral cover in removal plots (n = 12 plots) assessed through in‐field transects increased by at least 47% (2019 mean: 25.5%, 2021 mean: 37.4%), and macroalgal cover decreased by more than half. In contrast, in control plots (n = 12 plots), there was no change in macroalgal cover while coral cover remained stable (2019 mean: 16.4%, 2021 mean: 13.6%).Changes in benthic cover were supported by photoquadrat data, with Bayesian probability modelling indicating a 100% likelihood that coral cover more than doubled in removal plots over the study period, compared to only a 29% chance of increased coral cover in control plots.Synthesis and applications. Manual macroalgal removal can provide rapid benefits and enhance inshore coral reef recovery. Through involvement of community groups and citizen scientists, larger scale removal of macroalgae is a low‐tech, high‐impact, and achievable method for local reef management. [ABSTRACT FROM AUTHOR]

While coral reefs in Australia have historically been a showcase of conventional management informed by research, recent declines in coral cover have triggered efforts to innovate and integrate intervention and restoration actions into management frameworks. Here we outline the multi-faceted intervention approaches that have developed in Australia since 2017, from newly implemented in-water programs, research to enhance coral resilience and investigations into socio-economic perspectives on restoration goals. We describe in-water projects using coral gardening, substrate stabilisation, coral repositioning, macro-algae removal, and larval-based restoration techniques. Three areas of research focus are also presented to illustrate the breadth of Australian research on coral restoration, (1) the transdisciplinary Reef Restoration and Adaptation Program (RRAP), one of the world's largest research and development programs focused on coral reefs, (2) interventions to enhance coral performance under climate change, and (3) research into socio-cultural perspectives. Together, these projects and the recent research focus reflect an increasing urgency for action to confront the coral reef crisis, develop new and additional tools to manage coral reefs, and the consequent increase in funding opportunities and management appetite for implementation. The rapid progress in trialling and deploying coral restoration in Australia builds on decades of overseas experience, and advances in research and development are showing positive signs that coral restoration can be a valuable tool to improve resilience at local scales (i.e., high early survival rates across a variety of methods and coral species, strong community engagement with local stakeholders). RRAP is focused on creating interventions to help coral reefs at multiple scales, from micro scales (i.e., interventions targeting small areas within a specific reef site) to large scales (i.e., interventions targeting core ecosystem function and social-economic values at multiple select sites across the Great Barrier Reef) to resist, adapt to and recover from the impacts of climate change. None of these interventions aim to single-handedly restore the entirety of the Great Barrier Reef, nor do they negate the importance of urgent climate change mitigation action. [ABSTRACT FROM AUTHOR]

Declining coral cover on tropical coral reefs often results in a concomitant increase in macroalgae. When proliferation of macroalgae persists outside regular seasonal growth, it can shift the ecosystem dominance away from corals into a permanently altered system. Such an altered system is unlikely to recover naturally, despite ample supply of coral larvae, as coral settlement and survival is reduced by the presence of macroalgae. Physical removal of macroalgae has been proposed to overcome this biotic barrier to recovery, although empirical evidence demonstrating the effects of removal on phase‐shifted reefs is lacking. Here, we manually removed macroalgae from twelve 25 m2 experimental plots (88.5 ± 6.2 kg wet weight per plot; 90% benthic cover decrease) on a degraded reef prior to coral mass spawning across 2 years and recorded the number of coral recruits to settlement tiles and natural substrata. Four months after each spawning event, we found a threefold increase in coral recruits to tiles in plots where macroalgae had been removed (n = 12 plots; February 2019: mean 45.9 ± 12.7 recruits per tile; February 2020: mean 53.9 ± 5.9 recruits per tile) compared to control plots where macroalgae remained (n = 12 plots; February 2019 mean: 13.6 ± 2.8 recruits per tile; February 2020 mean: 17.5 ± 3.5 recruits per tile). These results suggest that, at small scales, macroalgae removal may be a useful intervention to boost recruitment on degraded reefs. Longer‐term monitoring is needed to document if coral survivorship, growth, and subsequent reef recovery occurs. [ABSTRACT FROM AUTHOR]

On the Great Barrier Reef (GBR), persistent changes to reef communities have begun to be documented, and on inshore reefs these shifts may favour the proliferation of macroalgae. Critical to understanding changes to reef community structure in response to anthropogenic impacts is developing effective methods to accurately document the abundance of different reef organisms. Effective monitoring must be time and cost efficient, replicable, and able to sufficiently and accurately detect disturbances to allow development of strategies to mitigate their impacts. Traditional techniques to document coral reef communities (i.e. photo-quadrats, benthic intercept transects) rely on planar views, which tend to either over- or under-represent canopy-forming organisms. As canopy-forming organisms are likely to be affected by anthropogenic influences (corals negatively, algae positively), it is essential for monitoring programs to implement methods sufficient to document changes to the vertical dimension of coral reefs. Here we build on previous work to document the canopy effect in coral-dominated ecosystems and propose a new survey approach suitable for implementation in algal-dominated systems. A vertically stratified transect, modified from a traditional point intercept transect, captures benthic and canopy-forming members of reef communities and provides information on three-dimensional complexity. To test the capability of the new method to detect changes in vertical reef structure, seaweed was removed from experimental quadrats and monitoring techniques were applied before and after four months of regrowth. A stratified method more accurately captured the three-dimensional change resulting from algal canopy growth, while resolving the over- and under-representation of algal biomass in two traditional techniques. We propose that a stratified transect method improves abundance estimates of canopy-forming organisms whilst maintaining data compatibility with traditional methods. [ABSTRACT FROM AUTHOR]

Corals are associated with diverse microbial assemblages; however, the spatialtemporal dynamics of intra-species microbial interactions are poorly understood. The coral-associated microbial community varies substantially between tissue and mucus microhabitats; however, the factors controlling the occurrence, abundance, and distribution of microbial taxa over time have rarely been explored for different coral compartments simultaneously. Here, we test (1) differentiation in microbiome diversity and composition between coral compartments (surface mucus and tissue) of two Acropora hosts (A. tenuis and A. millepora) common along inshore reefs of the Great Barrier Reef, as well as (2) the potential linkage between shifts in individual coral microbiome families and underlying host and environmental parameters. Amplicon based 16S ribosomal RNA gene sequencing of 136 samples collected over 14 months, revealed significant differences in bacterial richness, diversity and community structure among mucus, tissue and the surrounding seawater. Seawater samples were dominated by members of the Synechococcaceae and Pelagibacteraceae bacterial families. The mucus microbiome of Acropora spp. was dominated by members of Flavobacteriaceae, Synechococcaceae and Rhodobacteraceae and the tissue was dominated by Endozoicimonaceae. Mucus microbiome in both Acropora species was primarily correlated with seawater parameters including levels of chlorophyll a, ammonium, particulate organic carbon and the sum of nitrate and nitrite. In contrast, the correlation of the tissue microbiome to the measured environmental (i.e., seawater parameters) and host health physiological factors differed between host species, suggesting host-specific modulation of the tissue-associated microbiome to intrinsic and extrinsic factors. Furthermore, the correlation between individual coral microbiome members and environmental factors provides novel insights into coral microbiome-by-environment dynamics and hence has potential implications for current reef restoration and management efforts (e.g. microbial monitoring and observatory programs). [ABSTRACT FROM AUTHOR]

Coral recovery (the restoration of abundance and composition of coral communities) after disturbance is a key process that determines the resilience of reef ecosystems. To understand the mechanisms underlying the recovery process of coral communities, colony abundance and size distribution were followed on reefs around Pelorus Island, located in the inshore central region of the Great Barrier Reef, following a severe tropical cyclone in 2011 that caused dramatic loss of coral communities. Permanent quadrats (600 m2) were monitored biannually between 2012 and 2016, and individual coral colonies were counted, sized and categorized into morphological types. The abundance of coral recruits and coral cover were also examined using permanent quadrats and random line intercept transects, respectively. The number of colonies in the smallest size class (4-10 cm) increased substantially during the study period, driving the recovery of coral populations. The total number of coral colonies 5 yr post-cyclone reached between 73 and 122% of pre-cyclone levels though coral cover remained between 16 and 31% of pre-cyclone levels, due to the dominance of small coral colonies in the recovering communities. Temporal transitions of coral demography (i.e., colony-size distributions) illustrated that the number of recently established coral populations overtook communities of surviving colonies. Coral recruits (< 4 cm in size) also showed increasing patterns in abundance over the study period, underscoring the importance of larval supply in coral recovery. A shift in morphological composition of coral communities was also observed, with the relative abundance of encrusting corals reduced post-cyclone in contrast to their dominance prior to the disturbance. This study identifies the fine-scale processes involved in the initial recovery of coral reefs, providing insights into the dynamics of coral demography that are essential for determining coral reef resilience following major disturbance. [ABSTRACT FROM AUTHOR]

Diazotrophic bacteria potentially play an important functional role in supplying fixed nitrogen to the coral holobiont, but the value of such a partnership depends on the stability of the association. Here we evaluate the composition of diazotroph assemblages associated with the coral A cropora millepora throughout four seasons and at two reefs, an inshore and an offshore (mid-shelf) reef on the Great Barrier Reef, Australia. Amplicon pyrosequencing of the nifH gene revealed that diazotrophs are ubiquitous members of the bacterial community associated with A . millepora. Rhizobia (65% of the overall nifH sequences retrieved) and particularly B radyrhizobia sp .-affiliated sequences (> 50% of rhizobia sequences) dominated diazotrophic assemblages across all coral samples from the two sites throughout the year. In contrast to this consistency in the spatial and temporal patterns of occurrence of diazotroph assemblages, the overall coral-associated bacterial community, assessed through amplicon sequencing of the general bacterial 16S ribosomal RNA gene, differed between inshore and mid-shelf reef locations. Sequences associated with the O ceanospirillales family, particularly with E ndozoicomonas sp., dominated bacterial communities associated with inshore corals. Although rhizobia represented a variable and generally small fraction of the overall bacterial community associated with A. millepora, consistency in the structure of these diazotrophic assemblages suggests that they have a functional role in the coral holobiont. [ABSTRACT FROM AUTHOR]

Summary Understanding the effects of elevated seawater temperatures on each member of the coral holobiont (the complex comprised of coral polyps and associated symbiotic microorganisms, including Bacteria, viruses, Fungi, Archaea and endolithic algae) is becoming increasingly important as evidence accumulates that microbial members contribute to overall coral health, particularly during thermal stress. Here we use a metagenomic approach to identify metabolic and taxonomic shifts in microbial communities associated with the hard coral Acropora millepora throughout a natural thermal bleaching event at Magnetic Island (Great Barrier Reef). A direct comparison of metagenomic data sets from healthy versus bleached corals indicated major shifts in microbial associates during heat stress, including Bacteria, Archaea, viruses, Fungi and micro-algae. Overall, metabolism of the microbial community shifted from autotrophy to heterotrophy, including increases in genes associated with the metabolism of fatty acids, proteins, simple carbohydrates, phosphorus and sulfur. In addition, the proportion of virulence genes was higher in the bleached library, indicating an increase in microorganisms capable of pathogenesis following bleaching. These results demonstrate that thermal stress results in shifts in coral-associated microbial communities that may lead to deteriorating coral health. [ABSTRACT FROM AUTHOR]

Integron cassette arrays in a dozen cultivars of the most prevalent group of Vibrio isolates obtained from mucus expelled by a scleractinian coral (Pocillopora damicornis) colony living on the Great Barrier Reef were sequenced and compared. Although all cultivars showed >99% identity across recA, pyrH and rpoB genes, no two had more than 10% of their integron-associated gene cassettes in common, and some individuals shared cassettes exclusively with distantly-related members of the genus. Of cassettes shared within the population, a number appear to have been transferred between Vibrio isolates, as assessed by phylogenetic analysis. Prominent among the mucus Vibrio cassettes with potentially inferable functions are acetyltransferases, some with close similarity to known antibiotic-resistance determinants. A subset of these potential resistance cassettes were shared exclusively between the mucus Vibrio cultivars, Vibrio coral pathogens and human pathogens, thus illustrating a direct link between these microbial niches through exchange of integron-associated gene cassettes. [ABSTRACT FROM AUTHOR]

Cyanobacterial toxins (i.e. microcystins) produced within the microbial mat of coral black band disease (BBD) have been implicated in disease pathogenicity. This study investigated the presence of toxins within BBD lesions and other cyanobacterial patch (CP) lesions, which, in some instances (∼19%), facilitated the onset of BBD, from an outbreak site at Pelorus Island on the inshore, central Great Barrier Reef (GBR). Cyanobacterial species that dominated the biomass of CP and BBD lesions were cultivated and identified, based on morphology and 16S rRNA gene sequences, as Blennothrix- and Oscillatoria-affiliated species, respectively, and identical to cyanobacterial sequences retrieved from previous molecular studies from this site. The presence of the cyanotoxins microcystin, cylindrospermopsin, saxitoxin, nodularin and anatoxin and their respective gene operons in field samples of CP and BBD lesions and their respective culture isolations was tested using genetic (PCR-based screenings), chemical (HPLC-UV, FTICR-MS and LC/MSn) and biochemical (PP2A) methods. Cyanotoxins and cyanotoxin synthetase genes were not detected in any of the samples. Cyanobacterial species dominant within CP and BBD lesions were phylogenetically distinct from species previously shown to produce cyanotoxins and isolated from BBD lesions. The results from this study demonstrate that cyanobacterial toxins appear to play no role in the pathogenicity of CP and BBD at this site on the GBR. [ABSTRACT FROM AUTHOR]

Patterns in the diversity of bacterial communities associated with three species of Acropora ( Acropora millepora, Acropora tenuis and Acropora valida) were compared at two locations (Magnetic Island and Orpheus Island) on the Great Barrier Reef to better understand the nature and specificity of coral–microbial symbioses. Three culture-independent techniques demonstrated consistent bacterial communities among replicate samples of each coral species, confirming that corals associate with specific microbiota. Profiles were also conserved among all three species of Acropora within each location, suggesting that closely related corals of the same genus harbor similar bacterial types. Bacterial community profiles of A. millepora at Orpheus Island were consistent in samples collected throughout the year, indicating a stable community despite temporal changes. However, DGGE and T-RFLP profiles differed on corals from different reefs. Nonmetric multidimensional scaling of T-RFLP profiles showed that samples grouped according to location rather than coral species. Although similar sequences were retrieved from clone libraries of corals at both Magnetic and Orpheus Island, differences in the relative dominant bacterial ribotypes within the libraries drive bacterial community structure at different geographical locations. These results indicate certain bacterial groups associated specifically with corals, but the dominant bacterial genera differ between geographically-spaced corals. [ABSTRACT FROM AUTHOR]

Macroalgae play an intricate role in microbial-mediated coral reef degradation processes due to the release of dissolved nutrients. However, temporal variabilities of macroalgal surface biofilms and their implication on the wider reef system remain poorly characterized. Here, we study the microbial biofilm of the dominant reef macroalgae Sargassum over a period of one year at an inshore Great Barrier Reef site (Magnetic Island, Australia). Monthly sampling of the Sargassum biofilm links the temporal taxonomic and putative functional metabolic microbiome changes, examined using 16S rRNA gene amplicon and metagenomic sequencing, to the pronounced growth-reproduction-senescence cycle of the host. Overall, the macroalgal biofilm was dominated by the heterotrophic phyla Firmicutes (35% ± 5.9% SD) and Bacteroidetes (12% ± 0.6% SD); their relative abundance ratio shifted significantly along the annual growth-reproduction-senescence cycle of Sargassum. For example, Firmicutes were 1.7 to 3.9 times more abundant during host growth and reproduction cycles than Bacteroidetes. Both phyla varied in their carbohydrate degradation capabilities; hence, temporal fluctuations in the carbohydrate availability are potentially linked to the observed shift. Dominant heterotrophic macroalgal biofilm members, such as Firmicutes and Bacteroidetes, are implicated in exacerbating or ameliorating the release of dissolved nutrients into the ambient environment, though their contribution to microbial-mediated reef degradation processes remains to be determined. [ABSTRACT FROM AUTHOR]

Background: White Syndrome (WS), a general term for scleractinian coral diseases with acute signs of advancing tissue lesions often resulting in total colony mortality, has been reported from numerous locations throughout the Indo-Pacific, constituting a growing threat to coral reef ecosystems. Methodology/Principal Findings: Bacterial isolates were obtained from corals displaying disease signs at three WS outbreak sites: Nikko Bay in the Republic of Palau, Nelly Bay in the central Great Barrier Reef (GBR) and Majuro Atoll in the Republic of the Marshall Islands, and used in laboratory-based infection trials to satisfy Henle-Koch's postulates, Evan's rules and Hill's criteria for establishing causality. Infected colonies produced similar signs to those observed in the field following exposure to bacterial concentrations of 16106 cells ml-1. Phylogenetic 16S rRNA gene analysis demonstrated that all six pathogens identified in this study were members of the γ-Proteobacteria family Vibrionacae, each with greater than 98% sequence identity with the previously characterized coral bleaching pathogen Vibrio coralliilyticus. Screening for proteolytic activity of more than 150 coral derived bacterial isolates by a biochemical assay and specific primers for a Vibrio family zincmetalloprotease demonstrated a significant association between the presence of isolates capable of proteolytic activity and observed disease signs. Conclusion/Significance: This is the first study to provide evidence for the involvement of a unique taxonomic group of bacterial pathogens in the aetiology of Indo-Pacific coral diseases affecting multiple coral species at multiple locations. Results from this study strongly suggest the need for further investigation of bacterial proteolytic enzymes as possible virulence factors involved in Vibrio associated acute coral infections. [ABSTRACT FROM AUTHOR]

A ciliate associated with the coral disease brown band (BrB) was identified as a new species belonging to the class Oligohymenophorea, subclass Scuticociliatia. The ciliates were characterized by the presence of large numbers of intracellular dinoflagellates and displayed an elongated, tube-shaped body structure. They had uniform ciliature, except for three distinct cilia in the caudal region, and were typically 200 to 400 μm in length and 20 to 50 μm in width. [ABSTRACT FROM AUTHOR]

Rates of progression and transmission of black band disease (BBD) on the staghorn coral, Acropora muricata, were compared between months for seasonal in situ studies and between temperature treatments in experimental aquaria manipulations at Lizard Island on the Great Barrier Reef (GBR). In situ field experiments demonstrated that BBD progressed along branches approximately twice as fast (1.7–2.4 times) during the austral summer month of January (0.99 ± 0.04 cm/day) than in the cooler months of July (0.58 ± 0.04 cm/day) and May (0.41 ± 0.07 cm/day). Transmission of BBD between colonies was also accelerated in warmer months, with signs of infection becoming visible 1.2 days earlier in January compared to May. The greater seawater temperatures by ∼2 to 3°C and light intensities by up to 650 μE/m2/s in January, suggest that rates of progression and transmission of BBD are linked to one or both of these parameters. Manipulative experiments in summer provide corroborative evidence that elevated temperatures increase rates of BBD progression, with the disease progressing 1.3 times more rapidly in the 32°C elevated temperature treatment than in the 30°C ambient treatment (1.17 ± 0.06 cm/day versus 0.92 ± 0.07 cm/day; F 2,6 = 7.66, P = 0.022). In contrast, although a trend for greatest BBD progression was measured in elevated temperature treatments of 29°C (0.46 ± 0.07 cm/day) and 31°C (0.52 ± 0.06 cm/day) in winter, these rates did not differ significantly ( F 3,7 = 1.72, P = 0.249) from those measured for the ambient 27°C treatment (0.37 ± 0.06 cm/day) or the field controls (0.41 ± 0.09 cm/day). The lower rates of BBD progression in the 31°C winter treatment (0.52 ± 0.06 cm/day) than in the 30°C (0.92 ± 0.07 cm/day) summer treatment, may have been a response to 28-fold decreased light irradiance in the former, suggesting that high irradiance in combination with elevated temperatures may promote progression of BBD. Results from this study indicate that the impact of elevated temperature on BBD progression is complex with a combination of environmental factors including temperature and light playing key roles in progression and transmission of the disease. [ABSTRACT FROM AUTHOR]

The complex symbiotic relationship between corals and their dinoflagellate partner Symbiodinium is believed to be sustained through close associations with mutualistic bacterial communities, though little is known about coral associations with bacterial groups able to fix nitrogen (diazotrophs). In this study, we investigated the diversity of diazotrophic bacterial communities associated with three common coral species (Acropora millepora, Acropora muricata, and Pocillopora damicormis) from three midshelf locations of the Great Barrier Reef (GBR) by profiling the conserved subunit of the nifH gene, which encodes the dinitrogenase iron protein. Comparisons of diazotrophic community diversity among coral tissue and mucus microenvironments and the surrounding seawater revealed that corals harbor diverse nifH phylotypes that differ between tissue and mucus microhabitats. Coral mucus nifH sequences displayed high heterogeneity, and many bacterial groups overlapped with those found in seawater. Moreover, coral mucus diazotrophs were specific neither to coral species nor to reef location, reflecting the ephemeral nature of coral mucus. In contrast, the dominant diazotrophic bacteria in tissue samples differed among coral species, with differences remaining consistent at all three reefs, indicating that coral-diazotroph associations are species specific. Notably, dominant diazotrophs for all coral species were closely related to the bacterial group rhizobia, which represented 71% of the total sequences retrieved from tissue samples. The species specificity of coral-diazotroph associations further supports the coral holobiont model that bacterial groups associated with corals are conserved. Our results suggest that, as in terrestrial plants, rhizobia have developed a mutualistic relationship with corals and may contribute fixed nitrogen to Symbiodinium. [ABSTRACT FROM AUTHOR]

Coral bleaching, the result of loss of endosymbiotic dinoflagellates, as well as post-bleaching recovery can be exacerbated or mitigated by a range of local factors such as depth, turbidity, and natural or artificial shading providing protection for corals during thermal anomalies. On many reefs, losses in coral cover coincide with increases in upright macroalgae growth. Such shifts in benthic communities are generally viewed as negative, whereby macroalgae can outcompete corals for space, and affect adult coral health and fitness. However, the canopy provided by upright macroalgae could reduce solar irradiance and provide refuge for understorey corals during heat events, decreasing coral bleaching and subsequent mortality. To test this hypothesis, this study manually removed macroalgae from experimental plots on a macroalgae-dominated fringing reef at Magnetic Island in the central inshore region of the Great Barrier Reef, comparing the subsequent bleaching during and recovery following a severe heat stress event. In March 2020, sea surface temperature at Magnetic Island reached 31.4 °C, leading to bleaching. Surveys of coral communities undertaken at the peak of accumulated severe heat stress (DHW of 9.3 °C-weeks) in control and macroalgae removal plots showed that, averaged across coral morphological groups, there was no overall difference in bleaching prevalence in algal-removal and control plots (21.1% and 20.8% of the community bleached; respectively). However, bleaching prevalence varied within morphological groups, with massive morphology corals demonstrating higher probability of bleaching in removal plots compared to controls (0.26 and 0.09, respectively). Bleaching severity (i.e. percent of the colony tissue bleached) was consistent across control and removal plots (83.2% and 80.4% of colony area, respectively, averaged across morphologies), with branching corals demonstrating the lowest severity. Surveys were repeated in July after heat stress had dissipated, with coral communities in algal-removal plots displaying greater recovery than controls (i.e. 86.1% and 75.6% healthy, respectively, model estimated mean averaged across morphologies). Encrusting corals in control plots were the slowest to recover. We conclude that macroalgae provided limited refuge for branching and encrusting corals at the height of the thermal event, likely due to the severity of the accumulated heat stress, while massive corals enjoyed some degree of protection from the canopy. Greater recovery of coral communities in removal plots may potentially be explained by reduced competition with adjacent macroalgae. This study provides important insights into the interactions between these two dominant benthic groups and supports previous work finding macroalgae inhibits coral recovery after severe bleaching events. • Coral bleaching can be mitigated by local factors, including the availability of natural or artificial shading. • Upright macroalgae are known competitors with hard corals, though may provide shade to understory corals. • During the 2020 mass bleaching, removal of algal canopies resulted in increased bleaching for massive morphology corals only. • After thermal stress dissipated, macroalgae inhibited recovery of coral communities. • Algal canopies provided little refuge for resident corals experiencing severe bleaching conditions. [ABSTRACT FROM AUTHOR]

Bacterioplankton and phytoplankton dynamics, pelagic respiration, virioplankton abundance, and the diversity of pelagic diazotrophs and other bacteria were examined in relation to water-column nutrients and vertical mixing across the southern Great Barrier Reef (GBR) shelf where sharp inshore to offshore gradients in water chemistry and hydrology prevail. A principal component analysis (PCA) revealed station groups clustered geographically, suggesting across-shelf differences in plankton function and structure driven by changes in mixing intensity, sediment resuspension, and the relative contributions of terrestrial, reef and oceanic nutrients. At most stations and sampling periods, microbial abundance and activities peaked both inshore and at channels between outer shelf reefs of the Pompey Reef complex. PCA also revealed that virioplankton numbers and biomass correlated with bacterioplankton numbers and production, and that bacterial growth and respiration correlated with net primary production, suggesting close virus–bacteria–phytoplankton interactions; all plankton groups correlated with particulate C, N, and P. Strong vertical mixing facilitates tight coupling of pelagic and benthic shelf processes as, on average, 37% and 56% of N and P demands of phytoplankton are derived from benthic nutrient regeneration and resuspension. These across-shelf planktonic trends mirror those of the benthic microbial community. [ABSTRACT FROM AUTHOR]