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Globally, coral reefs are under pressure from climate change, with concerning declines in coral abundance observed due to increasing cumulative impacts. Active intervention measures that mitigate the declines are increasingly being applied to buy time for coral reefs as the world transitions to a low-carbon economy. One such mitigation strategy is coral restoration based on large-scale coral aquaculture to provide stock for reseeding reefs, with the added potential of selecting corals that better tolerate environmental stress. Application of probiotics during production and deployment, to modulate the naturally occurring bacteria associated with corals, may confer health benefits such as disease resistance, increased environmental tolerance or improved coral nutrition. Here, we briefly describe coral associated bacteria and their role in the coral holobiont, identify probiotics traits potentially beneficial to coral, and discuss current research directions required to develop, test and verify the feasibility for probiotics to improve coral aquaculture at industrial scales.

Crown-of-thorns sea stars (Acanthaster sp.) are among the most studied coral reef organisms, owing to their propensity to undergo major population irruptions, which contribute to significant coral loss and reef degradation throughout the Indo-Pacific. However, there are still important knowledge gaps pertaining to the biology, ecology, and management of Acanthaster sp. Renewed efforts to advance understanding and management of Pacific crown-of-thorns sea stars (Acanthaster sp.) on Australia’s Great Barrier Reef require explicit consideration of relevant and tractable knowledge gaps. Drawing on established horizon scanning methodologies, this study identified contemporary knowledge gaps by asking active and/or established crown-of-thorns sea star researchers to pose critical research questions that they believe should be addressed to improve the understanding and management of crown-of-thorns sea stars on the Great Barrier Reef. A total of 38 participants proposed 246 independent research questions, organized into 7 themes: feeding ecology, demography, distribution and abundance, predation, settlement, management, and environmental change. Questions were further assigned to 48 specific topics nested within the 7 themes. During this process, redundant questions were removed, which reduced the total number of distinct research questions to 172. Research questions posed were mostly related to themes of demography (46 questions) and management (48 questions). The dominant topics, meanwhile, were the incidence of population irruptions (16 questions), feeding ecology of larval sea stars (15 questions), effects of elevated water temperature on crown-of-thorns sea stars (13 questions), and predation on juveniles (12 questions). While the breadth of questions suggests that there is considerable research needed to improve understanding and management of crown-of-thorns sea stars on the Great Barrier Reef, the predominance of certain themes and topics suggests a major focus for new research while also providing a roadmap to guide future research efforts.

Up to one-third of all described marine species inhabit coral reefs, but the future of these hyperdiverse ecosystems is insecure due to local and global threats, such as overfishing, eutrophication, ocean warming, and acidification. Although these impacts are expected to have a net detrimental effect on reefs, it has been shown that some organisms like octocorals may remain unaffected, or benefit from, anthropogenically induced environmental change, and may replace stony corals in future reefs. Despite their potential importance in future shallow-water coastal environments, the molecular mechanisms leading to the resilience to anthropogenic-induced stress observed in octocorals remain unknown. Here, we use manipulative experiments, proteomics, and transcriptomics to show that the molecular toolkit used by Pinnigorgia flava, a common Indo-Pacific gorgonian octocoral, to deposit its calcium-carbonate skeleton is resilient to heat and seawater acidification stress. Sublethal heat stress triggered a stress response in P. flava but did not affect the expression of 27 transcripts encoding Skeletal Organic Matrix (SOM) proteins. Exposure to seawater acidification did not cause a stress response but triggered the downregulation of many transcripts, including an osteonidogen homolog present in the SOM. The observed transcriptional decoupling of the skeletogenic and stress-response toolkits provides insights into the mechanisms of resilience to anthropogenically-driven environmental change observed in octocorals.

Urbanized coral reefs are often chronically affected by sedimentation and reduced light levels, yet many species of corals appear to be able to thrive under these highly disturbed conditions. Recently, these marginal ecosystems have gained attention as potential climate change refugia due to the shading effect of suspended sediment, as well as potential reservoirs for stress-tolerant species. However, little research exists on the impact of sedimentation on coral physiology, particularly at the molecular level. Here, we investigated the transcriptomic response to sediment stress in corals of the family Merulinidae from a chronically turbid reef (one genet each of Goniastrea pectinata and Mycedium elephantotus from Singapore) and a clear-water reef (multiple genets of G. pectinata from the Gulf of Aqaba/Eilat). In two ex-situ experiments, we exposed corals to either natural sediment or artificial sediment enriched with organic matter and used whole-transcriptome sequencing (RNA sequencing) to quantify gene expression. Analysis revealed a shared basis for the coral transcriptomic response to sediment stress, which involves the expression of genes broadly related to energy metabolism and immune response. In particular, sediment exposure induced upregulation of anaerobic glycolysis and glyoxylate bypass enzymes, as well as genes involved in hydrogen sulphide metabolism and in pathogen pattern recognition. Our results point towards hypoxia as a probable driver of this transcriptomic response, providing a molecular basis to previous work that identified hypoxia as a primary cause of tissue necrosis in sediment-stressed corals. Potential metabolic and immunity trade-offs of corals living under chronic sedimentation should be considered in future studies on the ecology and conservation of turbid reefs.

Coral reefs are increasingly threatened by heat stress events leading to coral bleaching. In 2016, a mass bleaching event affected large parts of the Great Barrier Reef (GBR). Whilst bleaching severity and coral mortality are usually monitored throughout major bleaching events, other health indicators, such as changes in microbial partners, are rarely assessed. We examined the impact of the 2016 bleaching event on the composition of the microbial communities in the coral Pocillopora acuta at Havannah Island Pandora reef, separated by 12 km on the inshore central GBR. Corals experienced moderate heat stress (3.6 and 5.3 degree heating weeks), inducing major bleaching (30–60%) at the coral community level. Samples were partitioned according to Symbiodiniaceae densities into three bleaching severity categories (mild, moderate, and severe). Whilst Symbiodiniaceae densities were similar at both reef locations, sequencing of the Symbiodiniaceae ITS2 and prokaryotic 16S rRNA genes revealed that microbial communities were significantly different between reefs, but not according to bleaching severity. Symbiodiniaceae composition was dominated by the genus Cladocopium with low abundances of Durusdinium detected in moderately and severely bleached colonies at both sites, despite site-specific ITS2 profiles. Bacterial communities were dominated by Proteobacteria and were almost entirely lacking the common Pocilloporid associate Endozoicomonas regardless of bleaching severity. Strikingly, only 11.2% of the bacterial Amplicon Sequencing Variants (ASVs) were shared between sites. This reef specificity was driven by 165 ASVs, mainly from the family Rhodobacteraceae. Comparison with previous studies suggests that the moderate heat stress experienced on the central GBR in 2016 caused the near-complete absence of Endozoicomonas. Symbiodiniaceae and bacteria (particularly Rhodobacteraceae) can be vertically transmitted in P. acuta, and larval propagation can be spatially restricted for this brooding species. Our results demonstrate that, unlike bleaching severity, location-specific factors and species-specific life history traits might have been paramount in shaping the P. acuta microbiome.

Coral reef ecosystem is one of the most complex, rich and productive environments. In Visakhapatnam coast a patch of coral reef bed is found (in between Santapalli to Kalingapatnam). This environment provides a rich coral reef fish biodiversity in the region. Also the shipwrecks found in the area work as an artificial reef and the growth of algae and other organisms and attracting reef fish communites in the area. During the study period 127 species of coral reef inhabiting fishes were recorded in Visakhapatnam fishing harbour. The present paper describes the report of six reef-associated fishes which are new records in Visakhapatnam coastal waters viz. Lepidotrigla bispinosa Steindachner, 1898, Stethojulis trilineata (Bloch & Schneider, 1801), Pristigenys refulgens (Valenciennes, 1862), Apogonichthyoides sialis (Jordan & Thompson, 1914), Pseudanthias marcia Randall & Hoover, 1993 and Acanthocepola indica (Day, 1888) out of which two are new to the Bay of Bengal coast of Indian mainland and another four are new distributional record to Bay of Bengal.

Small-scale reef fisheries are important commercial and subsistence activities that support the livelihoods of millions of people in tropical regions. Tropical marine fisheries typically target a diversity of species caught with a matching diversity of fishing gears and practices. Here, we explored how multiple fishing gears select for distinct functional traits of fish assemblages inside a large multiple use marine environmental protected area off northeastern Brazil. In 1833 landing interviews with local fishers, we identified 101 species, which were categorized according to six traits: body size, schooling behavior, mobility, position in the water column, diet and period of activity. Our research is the first to explore the broad patterns of gear selectivity with regards to fish functional traits for different habitat types. While gears used in reef habitats were highly selective of sedentary and benthic species that form schools with few individuals, gears used in coastal lagoons were selective of highly mobile pelagic species that form large schools. We found a low competitive interaction between different gear types, meaning there was a low overlap in trait selectivity between fishing gears. We also found direct associations between gears and fish functional traits: hooks and line targeted species that exhibit limited mobility capabilities, making these species more vulnerable to local levels of fishing effort. In contrast, nets and fish corrals targeted mobile species that exhibited a greater diversity of functional traits. Some of our results contrasted with the current literature on the topic, with differences highlighting the need for more research to clarify global patterns of trait selectivity by gear type. Our results have implications for fisheries management in northeastern Brazil: gear bans and effort caps are commonly used management measures that can foster fisheries sustainability by minimizing impacts to fish assemblage functions.

Species identification is key for coral reef conservation and restoration. Recent coral molecular-morphological studies have indicated the existence of many cryptic species. Coelastrea aspera (Verrill, 1866) is a zooxanthellate scleractinian coral that is widely distributed in the Indo-Pacific. In Japan, this species is distributed from the subtropical reef region to the high-latitudinal non-reef region. Previous studies have reported that C. aspera colonies in the non-reef region release egg-sperm bundles (bundle type), whereas those in the reef region release eggs and sperm separately (non-bundle type) and release planula larvae after spawning. This difference in reproduction might be relevant to species differences. To clarify the species delimitation of C. aspera, the reproduction, morphology and molecular phylogeny of C. aspera samples collected from reef and non-reef regions in Japan were analysed, along with additional morphological and molecular data of samples from northern Taiwan. The results show that C. aspera is genetically and morphologically separated into two main groups. The first group is the non-bundle type, distributed only in reef regions, whereas the second group is the bundle type, widely distributed throughout the reef and non-reef regions. Examination of type specimens of the taxon’s synonyms leads us to conclude that the first group represents the true C. aspera, whereas the second is Coelastrea incrustans comb. nov., herein re-established, that was originally described as Goniastrea incrustans Duncan, 1886, and had been treated as a junior synonym of C. aspera.

Coral reef fish perform numerous important functional roles on coral reefs. Of these, carbonate sediment production, as a by‐product of parrotfish feeding, is especially important for contributing to reef framework construction and reef‐associated landform development. However, only limited data exist on: (i) how production rates vary among reef habitats as a function of parrotfish assemblages, (ii) the relative importance of sediment produced from eroded, reworked, and endogenous sources, or (iii) the size fractions of sediment generated by different parrotfish species and size classes. These parameters influence not only overall reef‐derived sediment supply, but also influence the transport potential and depositional fate of this sedimentary material. Here, we show that parrotfish sediment production varies significantly between reef‐platform habitats on an atoll‐margin Maldivian reef. Highest rates of production (over 0.8 kg m−2 year−1) were calculated in three of the eight platform habitats; a rubble‐dominated zone, an Acropora spp. dominated zone, and a patch reef zone. Habitat spatial extent and differences in associated parrotfish assemblages strongly influenced the total quantities of sediment generated within each habitat. Nearly half of total parrotfish sediment production occurred in the rubble habitat, which comprised only 8% of the total platform area. Over 90% of this sedimentary material originated from eroded reef framework as opposed to being reworked existing or endogenously produced sediment, and comprised predominantly coral sands (predominantly 125–1000 µm in diameter). This is comparable to the dominant sand types and size fractions found on Maldivian reef islands. By contrast, nearly half of the sediment egested by parrotfish in the Acropora spp. dominated and patch reef habitats resulted from reworked existing sediments. These differences between habitats are a result of the different parrotfish assemblages supported. Endogenous carbonate production was found to be insignificant compared to the quantity of eroded and reworked material. Our findings have important implications for identifying key habitats and species which act as major sources of sediment for reef‐island systems., Our findings show that parrotfish sediment production varies between reef habitat types as a function of the species assemblages and fish sizes supported. The origins of this material (i.e., bioerosion of reef substrate, sediment reworking, or endogenous production) also varies between habitat types because of the species and sizes of parrotfish present. In addition, we show that all species studied produce sediment size fractions suitable for shoreline maintenance.

The apparent ability of corals to acquire and maintain enhanced stress tolerance through a dose-dependent environmental memory, which may persist for multiple years, has critical implications for coral reef conservation research. Such responses are variable across coral species and environmental stressors, with primed corals exhibiting a modified response to secondary stress exposures. While the mechanisms underlying coral memory responses are poorly understood, they likely involve both the coral host and microbiome. With advances in molecular technologies, it is now possible to investigate potential memory mechanisms in non-model organisms, including transcriptional regulation through epigenetic modifications. We integrate evidence of coral environmental memory and suggest future research directions to evaluate the potential for this process to enhance coral resilience under climate change.

Giant clam shell mining (GCSM), a unique phenomenon occurring at remote coral reefs in the southern South China Sea (SCS), forms striking scars on the reef flats and damages the reef flat substrate. Through image analyses at three times (2004.02.02, 2014.02.26, and 2019.04.10) and in situ surveys at Ximen Reef, a representative site that has experienced GCSM, we quantified the GCSM-generated substrate damage and the corresponding recovery. GCSM was estimated to have occurred sometime between 2012 and 2014, causing reduction in live coral subarea and formation of micro-relief as trenches and mounds. GCSM-generated damage was restricted to the reef flat. After GCSM, coral and algae subarea increased, and the trenches and mounds tended to be filled and eroded, representing a natural recovery of the substrate. The legal prohibition on human disturbances at the coral reefs contributed to substrate recovery at Ximen Reef. This case also implied that recovery of the other coral reefs that suffered from GCSM is possible.

Economic valuation plays an important role as a comprehensive instrument to assess prices (price tags) on the existence of goods and services of an ecosystem. This research aims to analyze utilization conditions including utilization value, non-utilization value and total economic value of coral reef resources and formulate a strategy for managing the reef ecosystem of Warbal Island and surrounding waters. The research on the economic valuation of warbal island coral reef ecosystem and surrounding waters was conducted in July-November 2019. Primary data collection was done through field observations and interviews, while secondary data was obtained through references from the Village Government, Southeast Maluku Fisheries Service, WWF Indonesia and scientific publications. Data was analyzed using methods of analysis of total economic value from use valueand non-use value. Based on the results of the study obtained the total economic value of the utilization and non-utilization of coral reef resources in Warbal Island and surrounding waters reached IDR. 7.275.603.819/year. The value of utilization of coral reef resources of Warbal Island and surrounding waters amounted to IDR. 7.257.318.819/year, while the non-utilization value of coral reef resources amounted to IDR. 18.250.000/year. At least, there are 11 strategies and 22 management directives recommended for the management of Warbal Island coral reef resources and surrounding waters. ABSTRAK Valuasi ekonomi berperan penting sebagai instrument yang komperhensif untuk memberi penilaian harga (price tag) terhadap keberadaan barang dan jasa suatu ekosistem. Penelitian ini bertujuan untuk menganalisisnilai pemanfaatan, nilai non pemanfaatan dan nilai ekonomi total sumberdaya terumbu karang serta merumuskan strategi pengelolaan ekosistem terumbu kawasan Pulau Warbal dan perairan sekitarnya. Penelitian tentang valuasi ekonomi ekosistem terumbu karang Pulau Warbal dan perairan sekitarnya dilakukan pada Juli-Nopember 2019. Pengumpulan data primer dilakukan melalui pengamatan lapangan dan wawancara, sedangkan data sekunder diperoleh melalui referensi dari Pemerintah Desa, Dinas Perikanan Maluku Tenggara, WWF Indonesia dan publikasi ilmiah. Data dianalisis menggunakan metode analisis nilai ekonomi total dari use value dan non use value. Berdasarkan hasil penelitian diperoleh nilai ekonomi total dari pemanfaatan dan non pemanfaatan sumberdaya terumbu karang kawasan Pulau Warbal dan perairan sekitarnya mencapai Rp. 7.275.603.819/tahun. Nilai pemanfaatan sumberdaya terumbu karang Pulau Warbal dan perairan di sekitarnya sebesar Rp. 7.257.318.819/tahun, sedangkan nilai non pemanfaatan sumberdaya terumbu karang sebesar Rp. 18.250.000/tahun. Terdapat 11 strategi dan 22 arahan pengelolaan yang direkomendasikan untuk pengelolaan sumberdaya terumbu karang Pulau Warbal dan perairan di sekitarnya. Kata kunci: valuasi ekonomi, ekonomi total, nilai pemanfaatan, terumbu karang, Maluku Tenggara

The world's coral reefs are under threat as climate change causes increases in frequency and severity of acute thermal stress. This is compounded by chronic pressures including rises in sea surface temperature, overfishing and decline in water quality. Monitoring to understand the recovery dynamics of corals is paramount to enable effective management of coral reefs. While detailed mechanistic models provide insight into reef recovery patterns, colony scale monitoring is not viable for reefs over a large geographical extent, such as the Great Barrier Reef (GBR). Consequently, aggregated coral cover data are utilised in practice and phenomenological analysis directly applicable to these monitoring programmes is essential for reef health reporting. These analyses are especially challenging for assessment of recovery potential of reefs reduced to very low coral cover (

The structural complexity of coral reefs provides important ecosystem functions, such as wave attenuation for coastal protection, surfaces for coral growth, and habitat for other organisms. Corals build much of this structure, but an understanding of how colonies of different species and sizes contribute to complexity is lacking. We quantified three interdependent descriptors of complexity—rugosity, fractal dimension, and height range—for reef patches as well as the corals growing upon them in Kāne‘ohe Bay (O‘ahu, Hawai‘i). Despite similar levels of reef-scale complexity throughout the bay, we found marked differences in how species contribute to this complexity. Variation in complexity among species was closely tied to colony morphology, but not to colony size. Together, our results show that no one species is sufficient to generate the full spectrum of habitat complexities we see on coral reefs, which has direct implications for reef recovery and restoration.

The decline of coral reefs has fueled interest in determining whether mesophotic reefs can shield against disturbances and help replenish deteriorated shallower reefs. In this study, we characterized spatial (horizontal and vertical) and seasonal patterns of diversity in coral recruits from Dabaisha and Guiwan reefs at Ludao, Taiwan. Concrete blocks supporting terra‐cotta tiles were placed at shallow (15m) and mesophotic (40m) depths, during 2016–2018. Half of the tiles were retrieved and replaced biannually over three 6‐month surveys (short‐term); the remainder retrieved at the end of the 18‐month (long‐term) survey. 451 recruits were located using fluorescent censusing and identified by DNA barcoding. Barcoding the mitochondrial cytochrome oxidase I (COI) gene resulted in 17 molecular operational taxonomic units (MOTUs). To obtain taxonomic resolution to the generic level, Pocillopora were phylotyped using the mitochondrial open reading frame (ORF), resolving eight MOTUs. Acropora, Isopora, and Montipora recruits were identified by the nuclear PaxC intron, yielding ten MOTUs. Overall, 35 MOTUs were generated and were comprised primarily of Pocillopora and, in fewer numbers, Acropora, Isopora, Pavona, Montipora, Stylophora, among others. 40% of MOTUs recruited solely within mesophotic reefs while 20% were shared by both depth zones. MOTUs recruiting across a broad depth distribution appear consistent with the hypothesis of mesophotic reefs acting as a refuge for shallow‐water coral reefs. In contrast, Acropora and Isopora MOTUs were structured across depth zones representing an exception to this hypothesis. This research provides an imperative assessment of coral recruitment in understudied mesophotic reefs and imparts insight into the refuge hypothesis., We characterized spatial (horizontal and vertical) and seasonal patterns of diversity in coral recruits at shallow and mesophotic reefs in Ludao, Taiwan, using DNA barcoding of the COI, PAXC, and ORF regions. Thirty‐five MOTUs were generated and were comprised primarily of Pocillopora and, in fewer numbers, Acropora, Isopora, Pavona, Montipora, Stylophora, among others. MOTUs recruiting across a broad depth distribution appear consistent with the hypothesis of mesophotic reefs acting as a refuge for shallow‐water coral reefs.

Coral cover and community structure in the Arabian Gulf have changed considerably in recent decades. Recurrent bleaching events have dramatically reduced the abundance of previously dominant Acropora corals and have given space to other more thermally resistant coral taxa. The loss of Acropora spp. has reduced reef structural complexity and associated biodiversity. Sir Bu Nair Island (SBN) is a nature reserve in the United Arab Emirates that sustains some of the last dense and extensive Acropora stands in the southern Gulf. This study investigated coral recruitment at a southern coral reef on SBN and examined larval dispersal and reef connectivity between SBN and other local and regional reefs through an agent-based model coupled with a 3D hydrodynamic model. Recruitment was surveyed with settlement tiles deployed from April to September 2019. Contrary to other reefs in the Gulf, we found that Acropora is indeed the major coral recruiter settling at SBN reefs, followed by Porites. The models indicate that SBN reefs are mostly self-seeding but also connected to other reefs in the Gulf. SBN can supply coral larvae to the neighbouring islands Siri and Abu Musa, and nearby reefs along with the north-eastern Emirates, Iranian coast and Strait of Hormuz. Findings highlight the importance of SBN to protect remnant populations of the locally almost extinct Acropora in a region where natural coral recovery is increasingly sparse.

Marine ecosystems, particularly coastal environments, are rapidly changing due to anthropogenic impacts resulting in increased global climate change (ocean warming), ocean acidification, hypoxia, and eutrophication. On coral reefs, symbiont-bearing large benthic foraminifera (LBFs) can play a key role as reef constituents and carbonate producers, contributing up to 5% of reef-scale carbonate budgets. However, projected climate change, particularly ocean warming, has the potential to significantly alter the conditions in which marine organisms persist. While the response of LBFs to elevated thermal stress is well documented in laboratory studies, the potential influence of adaptation or acclimatization through prior environmental thermal history on this response remains largely unknown. In this study, specimens of Calcarina gaudichaudii, an LBF from the Penghu Islands, Taiwan, were collected from thermally variable intertidal and thermally stable subtidal (~ 6 m depth) environments representing thermal history. LBFs were then acclimated to laboratory conditions at ambient (25 °C) and elevated (28 °C) temperatures for three weeks, and subsequently exposed to control and heat stress treatments (25 °C, 28 °C, 30 °C, 33 °C) for an additional one week. Photosynthetic rates (determined through oxygen flux measurements) of C. gaudichaudii significantly decreased in specimens collected at subtidal depths acclimated at 25 °C when compared to those acclimated at 28 °C, whereas there was no effect of thermal history on respiration, indicating that symbiont and holobiont responses may differ in LBFs. Additionally, maximum photochemical efficiency (Fv/Fm) significantly decreased as a result of heat stress, although bleaching was not visually observed after one week. These results highlight the plastic responses of the algal microbiome and indicate that thermal history, acclimatization temperature, and heat stress interact to affect the physiological status of C. gaudichaudii. This study adds to the growing literature which highlights the larger implications of understanding thermal history as an important factor to consider to better understand how ecosystem processes (e.g., carbonate production) are altered on modern coral reefs.

Globally, coral reefs are threatened by ocean warming and acidification. The degree to which acidification will impact reefs is dependent on the local hydrodynamics, benthic community composition, and biogeochemical processes, all of which vary on different temporal and spatial scales. Characterizing the natural spatiotemporal variability of seawater carbonate chemistry across different reefs is critical for elucidating future impacts on coral reefs. To date, most studies have focused on select habitats, whereas fewer studies have focused on reef scale variability. Here, we investigate the temporal and spatial seawater physicochemical variability across the entire Heron Island coral reef platform, Great Barrier Reef, Australia, for a limited duration of six days. Autonomous sensor measurements at three sites across the platform were complemented by reef-wide boat surveys and discrete sampling of seawater carbonate chemistry during the morning and evening. Variability in both temporal and spatial physicochemical properties were predominantly driven by solar irradiance (and its effect on biological activity) and the semidiurnal tidal cycles but were influenced by the local geomorphology resulting in isolation of the platform during low tide and rapid flooding during rising tides. As a result, seawater from previous tidal cycles was sometimes trapped in different parts of the reef leading to unexpected biogeochemical trends in space and time. This study illustrates the differences and limitations of data obtained from high-frequency measurements in a few locations compared to low-frequency measurements at high spatial resolution and coverage, showing the need for a combined approach to develop predictive capability of seawater physicochemical properties on coral reefs.

Past environmental changes are expected to have profoundly impacted diversity dynamics through time. While some previous studies showed an association between past climate changes or tectonic events and important shifts in lineage diversification, it is only recently that past environmental changes have been explicitly integrated in diversification models to test their influence on diversification rates. Here, we used a global reconstruction of tropical reef habitat dynamics during the Cenozoic and phylogenetic diversification models to test the influence of (i) major geological events, (ii) reef habitat fragmentation and (iii) reef area on the diversification of 9 major clades of tropical reef fish (Acanthuridae, Balistoidea, Carangoidea, Chaetodontidae, Haemulinae, Holocentridae, Labridae, Pomacentridae and Sparidae). The diversification models revealed a weak association between paleo-habitat changes and diversification dynamics. Specifically, the fragmentation of tropical reef habitats over the Cenozoic was found to be a driver of tropical reef fish diversification for 2 clades. However, overall, our approach did not allow the identification of striking associations between diversification dynamics and paleo-habitat fragmentation in contrast with theoretical model’s predictions.

Planktivorous reef-associated fishes provide a significant nutrient input to the reef, linking pelagic and reef environments. Highly mobile and relatively large body-sized fusiliers (Lutjanidae) often dominate reef fish biomass, but their role in ecosystem processes is poorly understood. We therefore combined fish counts and behavioural observations at Lizard Island, Great Barrier Reef, to investigate: (1) the spatial distribution and biology of fusiliers on a lagoonal coral reef system, and (2) how does fusilier behaviour and size distribution change from exposed to sheltered locations. We found higher abundances of large-sized fusiliers (≥ 20 cm total length) on exposed reef sites. Sheltered sites had almost exclusively small individuals (

Structural complexity provided by the living coral reef framework is the basis of the rich and dynamic biodiversity in coral reefs. In many cases today, the reduction in habitat complexity, from live coral to dead coral and rubble, has altered the abundance and diversity of many reef species with impacts on community structure, food webs and ecosystem functioning. Yet, the complex microhabitat provided by rubble can too support a great density and diversity of reef organisms, often with explicit roles in ecosystem functioning. This literature review synthesises available knowledge on the biology and ecology of coral rubble. We highlight key methodologies used to sample rubble communities, and the biological and ecological consequences of ongoing habitat degradation from coral to rubble reefs under future scenarios. We conclude with a number of key research themes that may enhance our capacity to understand the current contribution of rubble communities to reef functioning and predict their ability to modulate future impacts as net framework erosion amplifies.

The Gulf of Mannar (GoM) in southeast India is known for its coral reefs and associated biodiversity. Multiple coral bleaching events driven by global climate change and subsequent space competition have damaged the coral reefs of GoM during the past couple of decades. Certain marine sponges are space competitors to corals and can outgrow corals by overgrowing. Spongivore fishes play vital role in regulating sponge abundance in a reef. The present study was aimed to identify spongivore fishes at Pattinamaruthoor patch reef (55.25% coral cover) in Tuticorin coast of GoM. Gut content analysis and underwater assessment were carried out between March and September 2019. Known spongivores such as Apolemichthys xanthurus, Pomacanthus annularis and P. imperator had about 75, 50 and 80% of their diet as sponge. Other fishes such as Sargocentron rubrum (30%), Myripristis murdjan (30%) and Scarus ghobban (10%) were also found to feed on sponges which are not regular sponge feeders. It is presumed that increased availability of sponges as a result of climate change has made these fishes opportunistically feed on sponges. A total of 58 reef fish species including obligate and opportunistic sponge feeders were observed at Pattinamaruthoor patch reef. Protection of spongivore fishes from overexploitation is critical as it could allow corals to recover from climate change implications.

In a time of unprecedented ecological change, understanding natural biophysical relationships between reef resilience and physical drivers is of increasing importance. This study evaluates how wave forcing structures coral reef benthic community composition and recovery trajectories after the major 2015/2016 bleaching event in the remote Chagos Archipelago, Indian Ocean. Benthic cover and substrate rugosity were quantified from digital imagery at 23 fore reef sites around a small coral atoll (Salomon) in 2020 and compared to data from a similar survey in 2006 and opportunistic surveys in intermediate years. Cluster analysis and principal component analysis show strong separation of community composition between exposed (modelled wave exposure > 1000 J m−3) and sheltered sites (−3) in 2020. This difference is driven by relatively high cover of Porites sp., other massive corals, encrusting corals, soft corals, rubble and dead table corals at sheltered sites versus high cover of pavement and sponges at exposed sites. Total coral cover and rugosity were also higher at sheltered sites. Adding data from previous years shows benthic community shifts from distinct exposure-driven assemblages and high live coral cover in 2006 towards bare pavement, dead Acropora tables and rubble after the 2015/2016 bleaching event. The subsequent recovery trajectories at sheltered and exposed sites are surprisingly parallel and lead communities towards their respective pre-bleaching communities. These results demonstrate that in the absence of human stressors, community patterns on fore reefs are strongly controlled by wave exposure, even during and after widespread coral loss from bleaching events.

Distinguishing coral species is not only crucial for physiological, ecological, and evolutionary studies but also to enable effective management of threatened reef ecosystems. However, traditional hypotheses that delineate coral species based on morphological traits from the coral skeleton are frequently at odds with tree-based molecular approaches. Additionally, a dearth of species-level molecular markers has made species delimitation particularly challenging in species-rich coral genera, leading to the widespread assumption that interspecific hybridization might be responsible for this apparent conundrum. Here, we used three lines of evidence—morphology, breeding trials, and molecular approaches—to identify species boundaries in a group of ecologically important tabular Acropora corals. In contrast to previous studies, our morphological analysis yielded groups that were congruent with experimental crosses as well as with coalescent-based and allele sharing-based multilocus approaches to species delimitation. Our results suggest that species of the genus Acropora are reproductively isolated and independently evolving units that can be distinguished morphologically. These findings not only pave the way for a taxonomic revision of coral species but also outline an approach that can provide a solid basis to address species delimitation and provide conservation support to a wide variety of keystone organisms. [Acropora; coral reefs; hybridization; reproductive isolation; taxonomy.]

In 1917, Alfred Mayor surveyed a 270 m transect on a reef flat on American Samoa. Eleven surveys were conducted on the transect from 1917 to 2019. The coral community on the reef crest was resilient over the century, occasionally being seriously damaged but always recovering rapidly. In contrast, the originally most dense coral community on the reef flat has been steadily deteriorating throughout the century. Resilience of coral communities in regions of high wave energy on the reef crests was associated with the important binding function of the crustose coralline alga (CCA) Porolithon onkodes. Successful coral recruits were found on CCA 94% of the time, yet living coral cover correlated negatively with CCA cover as they became alternative winners in competition. Mayor drilled a core from the transect on the surface to the basalt base of the reef 48 m below. Communities on Aua reef were dominated by scleractinians through the Holocene, while cores on another transect 2 km away showed the reef was occupied by alcyonaceans of the genus Sinularia, which built the massive reef with spiculite to the basalt base 37 m below. Despite periods of sea levels rising 9 to 15 times the rate of reef accretion, the reefs never drowned. The consistency of scleractinians on Aua reef and Sinularia on Utulei Reef 2 km away during the Holocene was because the shape of the bay allowed more water motion on Aua reef. After 10700 yr of reef building by octocorals, coastal construction terminated this spiculite-reef development.

Throughout the Caribbean, coral reefs are transitioning from rugose, coral-dominated communities to flat, soft coral-dominated habitats, triggering declines in biodiversity. To help mitigate these losses, artificial structures have been used to re-create substrate complexity and support reef inhabitants. This study used natural and artificial structures to investigate the factors influencing the use of habitat by reef fish. During 2018 and 2019, divers added artificial structures and monitored the fish assemblages associating with both the artificial structures and naturally occurring corals. Overall, there were more fish on natural structures than on artificial structures. While structure shape did not influence fish use, there was a non-significant trend for increased use of larger structures. Fish observations did not differ across a gradient of shallow, complex reefs to deeper, flatter reefs, however, analyses of feeding guilds revealed clearer patterns: herbivores and omnivores were positively associated with low rugosity reefs where macroalgal abundance was higher, whereas invertivores preferred more rugose reefs. These results suggest that as reefs lose structural complexity, fish communities may become dominated by herbivores and omnivores. It also appears that the addition of artificial structures of the type used here may not mitigate the effects of structure loss on reef fish assemblages.

To better understand the decline of one of earth’s most biodiverse habitats, coral reefs, many survey programs employ regular photographs of the benthos. An emerging challenge is the time required to annotate the large volume of digital imagery generated by these surveys. Here, we leverage existing machine-learning tools (CoralNet) and develop new fit-to-purpose programs to process and score benthic photoquadrats using five years of data from the Smithsonian MarineGEO Network’s biodiversity monitoring program at Carrie Bow Cay, Belize. Our analysis shows that scleractinian coral cover on forereef sites (at depths of 3–10 m) along our surveyed transects increased significantly from 6 to 13% during this period. More modest changes in macroalgae, turf algae, and sponge cover were also observed. Community-wide analysis confirmed a significant shift in benthic structure, and follow-up in situ surveys of coral demographics in 2019 revealed that the emerging coral communities are dominated by fast-recruiting and growing coral species belonging to the genera Agaricia and Porites. While the positive trajectory reported here is promising, Belizean reefs face persistent challenges related to overfishing and climate change. Open-source computational toolkits offer promise for increasing the efficiency of reef monitoring, and therefore our ability to assess the future of coral reefs in the face of rapid environmental change.

Baited drumlines were employed to assess the relative abundance and demographics of sharks in three distinct but contiguous areas of the sublittoral environment of the eastern Caicos Bank, with a view to equipping policy-makers in the Turks and Caicos Islands with information pertinent to the conservation of local shark populations. Overall, the catch was dominated by nurse Ginglymostoma cirratum and Caribbean reef Carcharhinus perezi sharks, but tiger Galeocerdo cuvier, lemon Negaprion brevirostris, blacknose Carcharhinus acronotus and great hammerhead Sphyrna mokarran sharks were also captured. Size distributions were consistent with a combination of sexually mature and immature animals for most of these species. The results confirm that shallow sand flat, deep sand flat and coral reef environments are utilised by a variety of shark species and life stages, including the movement of individuals between these areas. Therefore, current marine protected areas in the Turks and Caicos Islands, which mostly centre on nearshore and coral reef environments, probably afford local shark populations only partial protection.

Coral reefs offer valuable ecosystem goods and services, such as coastal protection, erosion regulation, fishery, biodiversity, habitat and nursery grounds. However, they face threats from anthropogenic activities, including poor water quality, global warming, coastal development and unsustainable fisheries. Marine Protected Areas (MPAs) provide a structured and holistic approach in addressing these threats. Regular monitoring and assessment of these MPAs are crucial components in evaluating the MPAs design and effectiveness. Two coral reefs (i.e. Poblacion and Kadurong Reefs) were established as MPAs in Liloan, Cebu, Philippines to protect crucial habitat and biodiversity with the hope of improving fisheries by avoiding fish stock disintegration. These coral reefs provide shelter to many commercially-significant fish species, supporting subsistence and livelihood in the community. These MPAs are not only biologically rich, but they also support socio-economic stability. Hence, management and protection of the coral reefs in the MPAs of Liloan, Cebu is of paramount importance. To formulate conservation and applicable management measures, research and monitoring should be in place. This paper presents the data collected from the short term monitoring in the Poblaction and Kadurong Reefs. The paper describes an important set of data that can be used by the stakeholders to benchmark biophysical assessments for management of marine-protected areas in Liloan. This data paper provides baseline information on the health of the coral reefs of the MPAs in Liloan, Cebu. Datasets covering physico-chemical and biological parameters inclusive of water quality, coral reef cover, fish and plankton occurrence and abundance were determined using the standard protocols for surveying tropical marine resources. The results will serve as a benchmark in formulating guidelines and implementing relevant policies for the effective management and protection of the MPAs in Liloan, Cebu, Philippines.

Background Crustose coralline algae (CCA) are calcifying red macroalgae that play important ecological roles including stabilisation of reef frameworks and provision of settlement cues for a range of marine invertebrates. Previous research into the responses of CCA to ocean warming (OW) and ocean acidification (OA) have found magnitude of effect to be species-specific. Response to OW and OA could be linked to divergent underlying molecular processes across species. Results Here we show Sporolithon durum, a species that exhibits low sensitivity to climate stressors, had little change in metabolic performance and did not significantly alter the expression of any genes when exposed to temperature and pH perturbations. In contrast, Porolithon onkodes, a major coral reef builder, reduced photosynthetic rates and had a labile transcriptomic response with over 400 significantly differentially expressed genes, with differential regulation of genes relating to physiological processes such as carbon acquisition and metabolism. The differential gene expression detected in P. onkodes implicates possible key metabolic pathways, including the pentose phosphate pathway, in the stress response of this species. Conclusions We suggest S. durum is more resistant to OW and OA than P. onkodes, which demonstrated a high sensitivity to climate stressors and may have limited ability for acclimatisation. Understanding changes in gene expression in relation to physiological processes of CCA could help us understand and predict how different species will respond to, and persist in, future ocean conditions predicted for 2100.

Territorial Use Rights for Fisheries-Reserve (TURF-Reserve) adalah salah satu bentuk dari pendekatan pengelolaan sumber daya perikanan berbasis hak yang dapat meningkatkan efektivitas dan upaya konservasi ekosistem terumbu karang di kawasan konservasi perairan (KKP). Dewan Adat Suku Maya dan masyarakat adat di Teluk Mayalibit mendeklarasikan Kelola Perikanan Adat (KPA), suatu bentuk pengelolaan sumber daya perikanan yang mengombinasikan hak ulayat laut, kearifan ekologi tradisional, dan prinsip-prinsip TURF-Reserve. Tujuan penelitian ini adalah mengukur kondisi kesehatan ekosistem terumbu karang untuk melihat efektivitas KPA dalam menjaga kondisi ekosistem terumbu karang di Teluk Mayalibit. Penelitian ini menggunakan metode Point Intercept Transect (PIT) dan transek sabuk ikan untuk mengumpulkan data kesehatan terumbu karang. Kondisi ekosistem terumbu karang diukur menggunakan lima indikator dengan ambang batas ekologi. Hasil penelitian menunjukkan adanya peningkatan nilai biomassa ikan karang dan proporsi biomassa ikan herbivor dari kondisi sebelumnya, hal ini mengindikasikan ekosistem terumbu karang yang sehat. Nilai rasio makroalga: karang keras hidup serta rasio fished: unfished yang menurun jika dibandingkan dengan kondisi sebelumnya mengindikasikan ekosistem terumbu karang yang berstatus moderat. Berdasarkan hasil analisis, disimpulkan bahwa ekosistem terumbu karang di Teluk Mayalibit masih berada dalam kondisi yang sehat dan aktivitas perikanan karang masih terkendali di dalam batas yang mendukung kelestarian. Hal ini memberikan indikasi bahwa KPA masih efektif dalam menjaga kondisi ekosistem terumbu karang dan membantu upaya konservasi serta pengelolaan sumber daya perikanan karang di Teluk Mayalibit.

This paper proposes a theoretical method that can be used in calculating the stability of coral reefs or artificial islands. In this work, we employ the variational limiting equilibrium procedure to theoretically determine the slope stability of coral reefs covered with hard reef shells as a result of horizontal wave loads. A reasonable functional is proposed and its extremum is calculated based on the conservation of energy. Then, we deduce the stability factor Ns of coral reefs under combined vertical self-gravity and horizontal wave loads, which is consistent with the published results. We compare some classic examples of homogeneous slopes without hard shells in order to analyze the accuracy of results generated by this variational procedure. The variational results are accurate and reliable according to the results of a series of detailed calculations and comparisons. Simultaneously, some other influence parameters on the reef stability, including the top-layer tensile strength of coral reef, the amplitude of wave loading, and the tensile crack, are calculated and discussed in detail. The analysis results reveal that the existence of a hard reef shell could enhance the stability of reef slope and that there is a nonlinear relationship between the stability factor Ns, the shear strength, and the thickness Ds of the covered coral reef shell. Furthermore, the emergence of top-layer tensile cracks on the coral reefs reduces their stability, and the action of horizontal wave loads greatly decreases the stability of coral reefs. Thus, the hard shell strength and its thickness Ds, surface tensile crack, and wave loading require more careful attention in the field of practical engineering.

Sea urchins can play a critical ecological role in the functioning of marine benthic ecosystems, mediating competitive interactions between corals and algae. Yet, little is known about factors affecting urchin distribution in intact coral reef systems. This study aims to determine the spatial distribution of two sympatric urchin species, Echinometra mathaei and Echinostrephus molaris, and potential factors contributing to this, within the intact coral reef system of Ningaloo Marine Park, north-western Western Australia. Benthic photographs and surveys were conducted on SCUBA at 126 sites across the Park to determine urchin presence, rugosity, substrate cover, water velocity, and fish predation for each site. Generalised additive models found that E. mathaei presence was positively related to algal cover, rugosity and non-sanctuary zones, suggesting that distribution may be driven by foraging behaviour, habitat complexity and predation. Echinostrephus molaris presence was positively related to habitat and region, suggesting its distribution may be largely driven by hydrodynamics, feeding strategy and regional variation. This study highlighted species-habitat associations and the complexities of these in structuring urchin communities. Although occupying similar niches, the predominantly non-overlapping feeding preferences, and morphological and behavioural differences between E. mathaei and E. molaris enable these species to coexist within the intact reef system of Ningaloo Marine Park.

Coral reefs are on the brink of collapse from global warming and associated coral bleaching. Coral bleaching is the loss of algal symbionts from the coral tissue. The reduction in photosynthates produced by the symbionts makes the survival of the coral dependent on heterotrophy and stored resources, which are catabolized into available energy, i.e., Adenosine Triphosphate (ATP). The present study examined how an increase in water temperature affects energetic reserves and available ATP in the Red Sea coral Stylophora pistillata. Following a 9-d hold at 1, 3, 5 °C above ambient summer temperature (~ 26 °C), ATP levels in the coral tissue remained constant. Similarly, no significant differences in the stored energy (proteins, carbohydrates, and lipids) of the holobiont were measured. However, half of the coral nubbins in the + 7 °C treatment experienced tissue dissociation, while the remaining nubbins bleached with a 34% decline in stored energy and a decline in respiration and photosynthesis rates by 69 and 72%, respectively. The + 7 °C treated coral nubbins had 75% lower carbohydrates compared to nubbins at ambient conditions and the lowest carbohydrates to lipid and protein ratio. This study demonstrates that exceeding the high bleaching threshold of S. pistillata in the Gulf of Aqaba is associated with a catabolic response to maintain ATP levels and highlights the energetic cost of thermal stress. Understanding anabolic and catabolic processes in corals under environmental stress is key to understanding their capacity to survive future thermal stress scenarios.

Widespread coral mortality is leading to coral reef degradation worldwide. Many juvenile reef fishes settle on live coral, and their predator-avoidance behaviour is disrupted in seawater exposed to dead corals, ultimately increasing predation risk. Gnathiid isopods are micropredatory fish ectoparasites that occur in higher abundances in dead coral. However, the effect of seawater associated with dead coral on the susceptibility of fish to micropredators has never been investigated. We tested whether the infection rate of cultured gnathiid ectoparasites on individual damselfish, Pomacentrus amboinensis Bleeker 1868, from two different ontogenetic stages (juveniles and adults) was influenced by seawater exposed to three different treatments: dead coral, live coral, or no coral. Seawater treatments were presumed to contain different chemical properties and are meant to represent environmental changes associated with habitat degradation on coral reefs. Gnathiid infection of juvenile fish in seawater exposed to dead coral was twice as high as that of fish in live coral or no coral. Infection rates did not significantly differ between live coral and no coral treatments. In contrast to juveniles, the susceptibility of adults to gnathiids was not affected by seawater treatment. During experiments, juvenile fish mortality was relatively low, but was higher for infected fish (9.7%), compared to fish held without exposure to gnathiids (1.7%). No mortality occurred in adult fish that became infected with gnathiids. Our results suggest that chemical cues released from dead corals and/or dead coral colonisers affect the ability of juvenile, but not adult fish to avoid parasite infection. Considering increased habitat degradation on coral reefs and that gnathiids are more abundant in dead coral substrate, it is possible that wild juvenile fish may experience increased susceptibility to parasitic infection and reduced survival rate. This highlights the importance of including parasitism in ecological studies of global environmental change.

While diversity of symbiodiniacean dinoflagellates has been a focus of coral reef ecological research, information on the diversity of planktonic dinoflagellates in reef ecosystems remains limited. We used dinoflagellate-targeted PCR to investigate dinoflagellate diversity for a coral reef ecosystem. In the summer of 2007, plankton samples were collected from a lagoon, atoll, and open sea area of Zhubi Reef in the Nansha Islands, South China Sea. Sequencing of dinoflagellate-specific SSU rDNA clone libraries from samples in each of these habitats revealed high diversity and numerous novel dinoflagellate lineages. Gymnodiniales were most abundantly represented in all three water areas. Lagoon assemblages were co-dominated by Syndiniales and Gonyaulacales, the atoll by Gonyaulacales and Peridiniales, and the open sea by Syndiniales and Prorocentrales taxa. Species in the Syndiniales (group II) genus Amoebophrya were represented by eight new sequences and 13 previously described clades and were dominated by species reported to infect Gymnodiniales, Gonyaulacales, Peridiniales, and Prorocentrales taxa. And Amoebophrya were particularly abundant and diverse in the lagoon. Our results suggest that Amoebophrya probably play an important role in regulating dynamics of dinoflagellate assemblages in the Zhubi Reef coral ecosystem. In contrast, the few symbiodiniacean taxa detected occurred only in the open sea, suggesting planktonic aposymbiotic Symbiodiniaceae rarely occur in the reef ecosystem. We demonstrate the usefulness of a dinoflagellate-specific molecular technique for profiling dinoflagellate communities, and uncover diversity and the potential importance of parasitic lineages in a coral reef ecosystem.

Ecosystems have always been shaped by disturbances, but many of these events are becoming larger, more severe and more frequent. The recovery capacity of depleted populations depends on the frequency of disturbances, the spatial distribution of mortality and the scale of dispersal. Here, we show that four mass coral bleaching events on the Great Barrier Reef (in 1998, 2002, 2016 and 2017) each had markedly larger disturbance footprints and were less patchy than a severe category 5 tropical cyclone (Cyclone Yasi, 2011). Severely bleached reefs in 2016 and 2017 were isolated from the nearest lightly affected reefs by up to 146 and 200 km, respectively. In contrast, reefs damaged by Cyclone Yasi were on average 20 km away from relatively undisturbed reefs, well within the estimated range of larval dispersal for most corals. Based on these results, we present a model of coral reef disturbance and recovery to examine (1) how the spatial clustering of disturbances modifies large-scale recovery rates; and (2) how recovery rates are shaped by species' dispersal abilities. Our findings illustrate that the spatial footprint of the recent mass bleaching events poses an unprecedented threat to the resilience of coral species in human history, a threat that is even larger than the amount of mortality suggests.

13 pages, 4 figures, supporting Information https://doi.org/10.1111/ecog.05606.-- Data availability statement: Data available from the Dryad Digital Repository: https://dx.doi.org/10.5061/dryad.zs7h44j8s (Figuerola et al. 2021), Coastal hypoxia has become an increasingly acknowledged threat to coral reefs that is potentially intensifying because of increased input of anthropogenic nutrients. Almirante Bay (Caribbean Panama) is a semi-enclosed system that experiences hypoxia in deeper waters which occasionally shoals onto shallow coral reefs, suffocating most aerobic benthic life. To explore the long-term history of reefs in the bay we extracted reef matrix cores from two reefs that today experience contrasting patterns of oxygenation. We constructed a 1800-year-long record of gastropod assemblages and isotope compositions from six U-Th chronologically-constrained reef matrix cores. We extracted two cores from each reef at 3 m water depth and two additional cores from a deeper part (4.8 m) of the hypoxia-exposed reef. Results show that the deeper part of the hypoxic reef slowed in growth and stopped accreting approximately 1500 years BP while the shallow part of the reef continued to accrete to the present day, in agreement with a model of expanding hypoxia at this time. Our proxy-based approach suggests that the patterns of increasing herbivores and decreasing carbon isotope values in the deeper part of the hypoxic reef may have been driven by an increase in hypoxia via eutrophication caused by either natural changes or human impacts. Similar patterns in these paleoindicators occurred in the shallow part of the hypoxic reef during the last few decades. This suggests that the deep water hypoxia may be expanding to depths as shallow as 3 m and that shallow reefs are at greater risk due to increased human activity, This project and the research visit of BF to Texas A&M Univ. were financially supported by the Secretaría Nacional de Ciencia y Tecnología e Innovación (SENACYT; 47-2017-4-FID16-239), Sistema Nacional de Investigación (SENACYT), the Scholarly Studies Program (Smithsonian Institution), Smithsonian Tropical Research Institute (STRI), Texas A&M University and donations from M. Selin and family, J. Bilyk, V. and B. Anders, J. and M. Bytnar and the Young Presidents Organization (Los Angeles Gold Chapter). BF was supported by a STRI postdoctoral fellowship and the postdoctoral fellowships programme Beatriu de Pinós funded by the Secretary of Universities and Research (Government of Catalonia) and by the Horizon 2020 programme of research and innovation of the European Union under the Marie Skłodowska-Curie grant agreement no. 801370 (Incorporation grant 2019 BP 00183) and the Juan de la Cierva programme funded by the Ministry of Science and Innovation (Incorporation grant IJCI-2017-31478). With the institutional support of the ‘Severo Ochoa Centre of Excellence' accreditation (CEX2019-000928-S)

Herbivorous fish are key to maintaining a balance between coral and algae on reefs, where reefs with greater herbivore biomass often show lower algal cover. For reefs worldwide, algal turf cover is expanding and is increasingly used as an indicator of disturbance. Water depth affects reef fish composition; thus, it may be expected that herbivory could also differ by depth. We examined relationships between algal turf cover and biomass (g m−2), density (# m−2) and size (cm) of herbivore groups (grazers, browsers and scrapers) across shallow (

Genetic population patterns in coral reefs are important for understanding biodiversity and forecasting recovery following disturbance. Studying gene flow between small and disrupted marine ecosystems, such as the reefs along the Singapore Strait, is especially crucial due to their fragile nature. Here we sampled the ubiquitous coral species complex Pachyseris speciosa from seven sites in Singapore and applied genotyping-by-sequencing (nextRAD) for a fine-scale population genomic assessment. Our results confirm the existence of two clearly distinct, possibly cryptic, lineages that occur sympatrically at each of the seven sampling sites and are related to the “blue” and “green” lineages found in other parts of the Indo-Pacific. The closely related lineages show contrasting patterns characterised by panmixia and substantial (but unexplained) substructuring, respectively. Analysis of barriers and corridors to gene flow reveals limited connectivity between the two largest clusters of reefs at the eastern and western sectors of Singapore’s southern coastal waters. Our results extend the geographic range of the two recently uncovered P. speciosa species, further confirming their status as distinct and widespread species. More broadly, our findings highlight how conservation and management strategies may maximise connectivity among Singapore’s urbanised reef ecosystems.

Ocean warming and acidification pose serious threats to cold-water corals (CWCs) and the surrounding habitat. Yet, little is known about the role of natural short-term and seasonal environmental variability, which could be pivotal to determine the resilience of CWCs in a changing environment. Here, we provide continuous observational data of the hydrodynamic regime (recorded using two benthic landers) and point measurements of the carbonate and nutrient systems from five Lophelia pertusa reefs in the Langenuen Fjord, southwestern Norway, from 2016 to 2017. In this fjord setting, we found that over a tidal (&lt, 24 h) cycle during winter storms, the variability of measured parameters at CWC depths was comparable to the intra-annual variability, demonstrating that single point measurements are not sufficient for documenting (and monitoring) the biogeochemical conditions at CWC sites. Due to seasonal and diurnal forcing, parts of the reefs experienced temperatures up to 4 °C warmer (i.e., &gt, 12 °C) than the mean conditions and high CT concentrations of 20 µmol kg−1 over the suggested threshold for healthy CWC reefs (i.e., &gt, 2170 µmol kg−1). Combined with hindcast measurements, our findings indicate that these shallow fjord reefs may act as an early hotspot for ocean warming and acidification. We predict that corals in Langenuen will face seasonally high temperatures (&gt, 18 °C) and hypoxic and corrosive conditions within this century. Therefore, these fjord coral communities could forewarn us of the coming consequences of climate change on CWC diversity and function.

Surprisingly, little is known about basic life history of the largest moray eel species in the Caribbean region, the green moray eel (Gymnothorax funebris). Sixteen eels were captured from the mangrove fringe in multiple bays on St. Croix, USVI, implanted with coded acoustic transmitters, and their movements were tracked for up to 11 months using an array of 37 stationary acoustic receivers. They exhibited high site fidelity in the bays during their residence, using the same general parts of individual bays and did not switch bays except for one individual. There was no relationship between eel size (mean TL = 83 cm, range = 54–126 cm) and home range size (mean area of 95% KUD = 5.8 ha ± 0.7 SE). Most individuals were more frequently detected at night than during the day suggesting greater nocturnal activity. Several of the larger eels (mean TL = 93 cm ± 5.9 SE) showed clear and permanent emigration tracks out of the mangrove estuary to coral reef habitats offshore. For some individuals, these habitat shifts were preceded by exploratory movements away from the eel’s typical home range the night before emigration. All final emigration events took place nocturnally, happened during a single night, and occurred during months from December to May. Mean emigration speed was 3.4 km/h. This study is the first documentation of an ontogenetic habitat shift in moray eels, as well as the first determination of home range size for this species and their site fidelity in mangrove habitats.

Sri Lanka, an island nation located off the southeast coast of the Indian sub-continent, has an unappreciated diversity of corals and other reef organisms. In particular, knowledge of the status of coral reefs in its northern region has been limited due to 30 years of civil war. From March 2017 to August 2018, we carried out baseline surveys at selected sites on the northern coastline of the Jaffna Peninsula and around the four largest islands in Palk Bay. The mean percentage cover of live coral was 49 ± 7.25% along the northern coast and 27 ± 5.3% on the islands. Bleaching events and intense fishing activities have most likely resulted in the occurrence of dead corals at most sites (coral mortality index &gt, 0.33). However, all sites were characterised by high values of diversity (H’ ≥ 2.3) and evenness (E ≥ 0.8). The diversity index increased significantly with increasing coral cover on the northern coast but showed the opposite trend on the island sites. One hundred and thirteen species of scleractinian corals, representing 16 families and 39 genera, were recorded, as well as seven soft coral genera. Thirty-six of the scleractinian coral species were identified for the first time on the island of Sri Lanka. DNA barcoding using the mitochondrial cytochrome oxidase subunit I gene (COI) was employed to secure genetic confirmation of a few difficult-to-distinguish new records: Acropora aspera, Acropora digitifera, Acropora gemmifera, Montipora flabellata, and Echinopora gemmacea.

Coral reefs provide important ecosystem services as well as economic and cultural benefits to society. Yet they are under significant threat from anthropogenic and natural threats, including climate change. Australia’s Great Barrier Reef (GBR) is one such reef undergoing significant change. More radical interventions that go beyond traditional forms of management are being considered to help repair and restore the GBR. These are based on science and technologies that have yet to be widely tested. This paper reports on a study that seeks to identify and understand support for such interventions, and to understand the antecedents that explain support. The Norm Activation Model (NAM) was extended with a sample of 468 domestic and international tourists to Cairns, Australia. Personal norms had the largest direct influence on support for interventions, followed by attitudes. Awareness of consequences had a large positive impact on personal norms and a smaller positive impact on attitudes. A negative relationship was found between information and attitudes. Personal norms and attitudes also acted as mediators between awareness of consequences, information and support. No differences were found between domestic and international tourists. The results are discussed and theoretical and practical implications outlined.

Climate change is increasing the frequency of marine heatwaves around the world, causing widespread degradation of coral reefs. Endolithic microalgae inhabiting the coral skeleton have been highlighted as potentially important mediators of the consequences of heatwaves on coral reefs. These microalgae often bloom during heat stress due to greater light availability, theoretically delaying coral starvation by providing photoassimilates. However, these microalgae also dissolve coral skeletons at an accelerated rate during marine heatwaves, affecting the structural complexity of the reef. Despite their ecological role, no studies have examined endolithic algal blooms during a natural bleaching event. We quantified blooms of endolithic microalgae in the skeletons of lagoon corals bleaching on Heron Island in the austral summer of 2020. At the peak of heat stress, 20–30% of bleached corals across 9 genera at 3 sites had blooms. They were predominantly seen in branching Acropora spp. (37.8, 65.7 and 66.7% at three sites), which are primary reef builders at Heron Island. At the end of the bleaching event, the overall prevalence varied between 5 and 42%, and nearly all blooms were observed in acroporids. The relative high frequency of these blooms highlights the ongoing need to understand the role of these microbes during coral bleaching events.

St. Martin’s Island is a small sedimentary island situated at the southernmost part of Bangladesh (20°37.6′ N and 92°19.3′ E). The island is surrounded by rocky reefs composed of Neogene bedrock consisting of moderately hard and soft sandstones and conglomerates belonging to the Tipam Sandstone (Islam in Bangladesh J Univ Sheffield Geol Soc 7:269–275, 1980). The rocky reefs are covered by fields of conglomerate boulders and calcareous concretions that provide a suitable substrate for coral settlement and the establishment of coral communities. Before 1997 it was reported that St. Martin’s Island was a coral island surrounded by coral reefs (Ahmed in Bangladesh J Environ Sci 1:67–73, 1995; Anwar in National workshop on coastal area resource development and management, Part II. CARDMA, BRAC Printers Bangladesh, Dhaka, pp 36–66, 1988; UNEP/IUCN in Indian Ocean, Red Sea and Gulf. UNEP regional seas and bibliographies. IUCN, Gland, 1988). However, the first underwater survey conducted in 1997 did not find any evidence of coral reefs (Tomascik in Management plan for coral resources of Narikel Jinjira (St. Martin's Island). National Conservation Strategy Implementation Project-1, Ministry of Environment and Forest, Government of the People’s Republic of Bangladesh, p 125, 1997). The island has become an important tourism destination and concerns have been raised about the impact of local development on its coral resources (Tomascik 1997). Recently a paper was published on the degradation of coral reefs on St. Martin’s Island (Gazi et al. in Ocean Sci J 55(3):419–431, 2020) that makes many factually incorrect assertions. The rocky reefs that surround the island have been misclassified by Gazi et al. (2020) as “coral reefs”. Here, we discuss Gazi et al. (2020) and examine if the results and conclusions provide factual evidence of spatiotemporal coral reef degradation.

The impacts of invasive lionfish (Pterois volitans/miles) on native coral reef populations in the Western Atlantic Ocean and Caribbean Sea can be enormous. However, how much lionfish differ from native predators and whether their effects outweigh the abundant mesopredators that occupy many reefs invite continued examination. Here, we present empirical evidence from Caribbean Panama and beyond suggesting that lionfish are less abundant than native mesopredators. Furthermore, we show that their direct impacts on survivorship and size distributions of one native prey species are similar to those of a native mesopredator. These results support calls for lionfish management that considers evolving local ecological and social dynamics, including prey community composition, the roles of native mesopredators, and regional goals for conservation and fisheries. Recognition of regional context creates the potential for synergies between conservation actions aimed both at the invasion and other consequential problems such as overexploitation and climate change.

Ocean warming induced by climate change is the greatest threat to the persistence of coral reefs globally. Given the current rate of ocean warming, there may not be sufficient time for natural acclimation or adaptation by corals. This urgency has led to the exploration of active management techniques aimed at enhancing thermal tolerance in corals. Here, we test the capacity for transgenerational acclimation in the reef-building coral Pocillopora acuta as a means of increasing offspring performance in warmer waters. We exposed coral colonies from a reef influenced by intermittent upwelling and constant warm-water effluent from a nuclear power plant to temperatures that matched (26 °C) or exceeded (29.5 °C) season-specific mean temperatures for three reproductive cycles; offspring were allowed to settle and grow at both temperatures. Heated colonies reproduced significantly earlier in the lunar cycle and produced fewer and smaller planulae. Recruitment was lower at the heated recruitment temperature regardless of parent treatment. Recruit survival did not differ based on parent or recruitment temperature. Recruits from heated parents were smaller and had lower maximum quantum yield (Fv/Fm), a measurement of symbiont photochemical performance. We found no direct evidence that thermal conditioning of adult P. acuta corals improves offspring performance in warmer water; however, chronic exposure of parent colonies to warmer temperatures at the source reef site may have limited transgenerational acclimation capacity. The extent to which coral response to this active management approach might vary across species and sites remains unclear and merits further investigation. Supplementary Information The online version contains supplementary material available at 10.1007/s00338-021-02123-9.

Global- and local-scale anthropogenic stressors have been the main drivers of coral reef decline, causing shifts in coral reef community composition and ecosystem functioning. Excess nutrient enrichment can make corals more vulnerable to ocean warming by suppressing calcification and reducing photosynthetic performance. However, in some environments, corals can exhibit higher growth rates and thermal performance in response to nutrient enrichment. In this study, we measured how chronic nutrient enrichment at low concentrations affected coral physiology, including endosymbiont and coral host response variables, and holobiont metabolic responses of Pocillopora spp. colonies in Mo'orea, French Polynesia. We experimentally enriched corals with dissolved inorganic nitrogen and phosphate for 15 months on an oligotrophic fore reef in Mo'orea. We first characterized symbiont and coral physiological traits due to enrichment and then used thermal performance curves to quantify the relationship between metabolic rates and temperature for experimentally enriched and control coral colonies. We found that endosymbiont densities and total tissue biomass were 54% and 22% higher in nutrient-enriched corals, respectively, relative to controls. Algal endosymbiont nitrogen content cell−1 was 44% lower in enriched corals relative to the control colonies. In addition, thermal performance metrics indicated that the maximal rate of performance for gross photosynthesis was 29% higher and the rate of oxygen evolution at a reference temperature (26.8 °C) for gross photosynthesis was 33% higher in enriched colonies compared to the control colonies. These differences were not attributed to symbiont community composition between corals in different treatments, as C42, a symbiont type in the Cladocopium genus, was the dominant endosymbiont type found in all corals. Together, our results show that in an oligotrophic fore reef environment, nutrient enrichment can cause changes in coral endosymbiont physiology that increase the performance of the coral holobiont.

Global change is threatening coral reefs, with rising temperatures leading to repeat bleaching events (dysbiosis of coral hosts and their symbiotic algae) and ocean acidification reducing net coral calcification. Although global-scale mass bleaching events are revealing fine-scale patterns of coral resistance and resilience, traits that lead to persistence under environmental stress remain elusive. Here, we conducted a 95-day controlled-laboratory experiment to investigate how duration of exposure to ocean warming (28, 31{degrees}C), acidification (pCO2 = 400-2800 atm), and their interaction influence the physiological responses of two Caribbean reef-building coral species (Siderastrea siderea, Pseudodiploria strigosa) from two reef zones of the Belize Mesoamerican Barrier Reef System. Every 30 days, calcification rate, total host protein and carbohydrate, chlorophyll a pigment concentration, and symbiont cell density were quantified for the same coral colony to characterize acclimatory responses of each genotype. Physiologies of the two species were differentially affected by these stressors, with exposure duration modulating responses. Siderastrea siderea was most affected by extreme pCO2 (~2800 atm), which resulted in reduced calcification rate, symbiont density, and chlorophyll a concentration. Siderastrea siderea calcification rate initially declined under extreme pCO2 but recovered by the final time point, and overall demonstrated resistance to next-century pCO2 and temperature stress. In contrast, P. strigosa was more negatively impacted by elevated temperature (31{degrees}C). Reductions in P. strigosa calcification rate and total carbohydrates were consistently observed over time regardless of pCO2 treatment, with the greatest reductions observed under elevated temperature. However, nearshore colonies of P. strigosa maintained calcification rates under elevated temperature throughout all exposure durations, suggesting individuals from this environment may be locally adapted to the warmer temperatures characterizing their natal reef zone. This experiment highlights how tracking individual coral colony physiology across broad exposure durations can capture acclimatory responses of corals to global change stressors.