Search Results (228)

Macroalgae provide key ecosystem services, forming habitats such as kelp and fucoid forests, rhodolith beds, and coralline reefs that sustain high biodiversity. However, multiple stressors, including climate change, harmful fishery practices, and pollution and coastal urbanization are driving macroalgal diversity loss and changing species composition and abundance. This study aims to assess macroalgal representativeness, richness and endemism in 16 Marine Protected Areas (MPAs), including four oceanic islands, and test if macroalgal assemblages in MPAs are distributed along a latitudinal gradient (0–29° S) in the Southwest Atlantic. To investigate the processes underlying community patterns, β-diversity was decomposition turnover and nestedness components. The complexity of taxonomic structure was measured by taxonomic distinctness. Overall, the studied MPAs comprised 695 macroalgal taxa, about 69% of Brazilian taxa, and 36% of the endemics. Rhodophyta were dominant (449 species) in most studied areas, except at Trindade and Martim Vaz Archipelago MPA, followed by Chlorophyta (158 species) and Ochrophyta (88 species). Macroalgal species composition in MPAs varied with latitude, and not with area size. They were continuously distributed across northeastern, eastern and southeastern Brazil and oceanic island ecoregions, between Fernando de Noronha (3° S) and São Paulo Litoral Norte (23° S) MPAs. Macroalgal diversity dissimilarity among MPAs was 92%, dominated by the turnover component (88%) and nestedness as a minor component (4%), indicating that dissimilarities are mainly driven by the replacement of species, rather than a gradual loss or gain of species. Effective protection of these MPAs should be prioritized as they harbor highly diverse, unique, and heterogeneous macroalgal assemblages along the SWA, surrounded by heavily impacted areas. Assessment of human impacts on macroalgal habitats in MPAs would contribute to defining effective management actions. Mid- and offshore shelf macroalgal habitats, particularly rhodolith beds, which harbor rare kelp species and mesophotic reefs, remain underprotected, and should be integrated into marine spatial planning for biodiversity conservation. Full article

Understanding connectivity between populations is key to identifying hotspots of diversity, dispersal sinks and sources, and effective management units for natural resources. Multi-species connectivity seeks to overcome species-specific idiosyncrasies to identify shared patterns that are most critical to spatial management. The linear Hawaiian archipelago provides an excellent platform to assess multi-species connectivity patterns, with shared boundaries to gene flow identified across a majority of the 41 coral reef species surveyed to date. Here, we evaluate genome-scale data by comparing consistency and resolution to previous connectivity studies using far fewer loci. We used pool-seq to genotype 22,503–232,730 single nucleotide polymorphisms per species (625,215 SNPs total) from the same individuals published in previous studies of two fishes, two corals, and two lobsters. Additionally, one coral species (Pocillopora meandrina) without previous archipelago-wide population genetic data was included. With greater statistical power, most genetic differences between pairwise comparisons of islands were significant (250 of 308), consistent with the most recent larval dispersal models for the Hawaiian Archipelago. These data reveal significant differentiation at a finer scale than previously reported using single-marker studies, yet did not overturn any of the conclusions or management implications drawn from previous studies. We confirm that population genomic datasets are consistent with previously reported patterns of multispecies connectivity but add a finer layer of population resolution that is pertinent to management. Full article

Coral reefs play a crucial role in tropical coastal ecosystems, even though these environments are difficult to monitor due to their diversity and morphological complexity and due to their shallowness in some cases. This study used two approaches for acquiring very-high-resolution bathymetric data: underwater structure-from-motion (SfM) photogrammetry collected from a low-cost platform and unmanned/uncrewed aerial vehicle (UAV)-based SfM photogrammetry. While underwater photogrammetry avoids the distortions caused by refraction at air/water interface, it remains limited in spatial coverage (about 0.04 ha in 1 h of survey). In contrast, UAV photogrammetry allows for covering extensive areas (more than 20 ha/h) but requires applying refraction correction in order to accurately compute bathymetry and roughness values. An analytical approach based on Snell laws and an empirical approach based on linear regression (calibrated using a batch of points whose depths are representative of the depth range of the surveyed areas) are tested to correct the apparent depth on the raw UAV digital elevation model (DEM). Comparison to underwater photogrammetry shows that correcting refraction reduces the root mean square error (RMSE) by more than 50% (up to 62%) on bathymetric models, with RMSE lower than 0.13 m for the analytical approach and down to 0.09 m for the regression method. The linear-regression-based refraction correction proved most effective in restoring accurate seabed roughness, with a mean error on roughness lower than 17% (vs. 30% for analytical refraction correction and 48% for apparent bathymetry). Full article

Coral reefs are increasingly impacted by marine heatwaves and global warming, with the 2023–2024 El Niño–Southern Oscillation (ENSO) event causing unprecedented thermal stress across the Eastern Tropical Pacific. This study assessed the effects of this event on coral reefs in the Gulf of Papagayo, Costa Rica. Sea surface temperatures exceeded the bleaching threshold for seven months, reaching a record 10.2 Degree Heating Weeks—twice the levels recorded during the 1997–1998 ENSO. Benthic and fish community surveys revealed severe coral mortality, particularly in Pocillopora-dominated reefs, with some sites losing over 90% of live coral cover. Resilience varied across sites, likely influenced by factors such as local water circulation, coral genetic diversity, symbiont type, and heterotrophic capacity. Reefs with higher genetic diversity and thermally tolerant Durusdinium symbionts showed partial recovery. Seasonal upwelling appeared to buffer thermal stress in some areas, potentially acting as a natural climate refuge. Bleaching also impacted reef fish communities, with a notable decline in invertebrate-feeding species on degraded reefs. These findings highlight the interplay between prolonged thermal stress, coral biology, and local oceanographic processes in shaping reef resilience. Identifying and protecting such climate refugia will be critical for coral conservation under future climate change scenarios. Full article

Coral reef microbial communities play pivotal roles in ecosystem functioning but remain understudied, particularly across spatial gradients and domains. Here, we use environmental DNA (eDNA) metabarcoding of 16S and 18S rRNA genes to profile bacterial and protistan communities in surface sediments from six coral reefs along the central Red Sea. At each reef, we sampled both exposed (seaward) and sheltered (shoreward) sites, enabling a multiscale analysis of diversity and community composition. We found significant differences in alpha and beta diversity between reefs and between exposure sites within reefs for both microbial groups. Redundancy analysis (RDA) and PERMANOVA revealed reef identity and exposure category as key structuring factors. Indicator species analysis and Random Forest classification identified microbial taxa predictive of exposure gradients, with several exact sequence variants (ESVs) serving as robust bioindicators in both methods. Bacterial and protistan communities exhibited overlapping but distinct patterns, highlighting their complementary ecological roles. Our results underscore the importance of fine-scale habitat heterogeneity in shaping reef microbial assemblages and support the integration of multi-domain eDNA data into coral reef monitoring frameworks. Full article

Fears regarding the future of coral reefs are reflected in a growing scientific effort, worldwide, to help corals survive and adapt to the impacts of climate change through new management strategies. To be viable, these strategies must not only be ecologically beneficial and technically feasible; they must be developed in partnership with Indigenous peoples and sensitive to the needs and aspirations of local communities, stakeholders and broader publics. This paper synthesizes insights from a comprehensive program of qualitative and quantitative social research, conducted through Australia’s Reef Restoration and Adaptation Program, exploring local community and public perspectives on the Great Barrier Reef (GBR) and the prospect of assisted adaptation. While the results of this research indicate strong support for prospective interventions to help the GBR, they also demonstrate that local communities and the broader Australian public hold multiple visions for the GBR’s future and engage in careful processes to imagine and evaluate assisted adaptation. We discuss the implications of this complexity for the development of technically robust and socially responsible adaptation intervention in the GBR, emphasizing the opportunities it presents for robust and inclusive dialogue, knowledge building, and governance around these strategies. Community and public support, we conclude, is contingent on moving beyond the seemingly straightforward question of whether or not people support intervention and towards forms of engagement that allow space for social and cultural diversity and the co-creation of ethically grounded adaptation pathways. Full article

Soft robots demonstrate great potential for underwater exploration, particularly in tasks such as locomotion and biological sampling in fragile marine habitats. However, developing new forms of interaction with underwater life remains a challenge due to inadequate soft mechanisms for studying the behavior of marine invertebrates. We present a 7-cm in diameter anemone robot (“Soromone”) capable of performing biological sea anemones’ wiggling behavior under the water. Inspired by the body forms of adult cnidaria, we developed a morphing mechanism that serves as both structure and actuator for the Soromone’s behavior using a soft tectonics approach—a multistep, multiscale, heterogeneous soft material fabrication technique. As an actuator, the morphing mechanism can precisely control the Soromone via a fluid system; as a structure, it can reinstate the Soromone’s original shape by incorporating various degrees of stiffness or softness into a single piece of material during fabrication. Our study demonstrates the advantages of applying a Soromone under water, including increasing water flow for enhanced nutrient uptake, waste removal, and gas exchange. This cnidaria-inspired soft robot could potentially be adapted for interaction with coral reef ecosystems by providing a safe environment for diverse species. Future soft robotics design paradigms based on a soft tectonics approach could expand the variability and applicability of soft robots for underwater exploration and habitation. Full article

Coral reefs, with their high biodiversity and ecological service functions, face significant threats due to climate change, overfishing, and pollution. The South China Sea (SCS) hosts rich coral biodiversity, particularly Acropora hyacinthus, a critical species for reef restoration. However, the region’s coral reefs are increasingly degraded, highlighting the urgent need for conservation efforts. In the present study, the genetic diversity and population structure of A. hyacinthus were examined based on two types of data: double-digest restriction-site-associated DNA (ddRAD) sequencing data and mitochondrial putative control region DNA (mtCR) sequences. Coral tissue samples were collected from 74 colonies inhabiting two inshore reefs (Sanya) and three offshore reefs (Xisha islands), and 748 single nucleotide polymorphisms (SNPs) and 74 mtCR sequences were obtained and utilized for downstream analysis. The results were consistent in analyses and did not cluster into two geographical groups for the inshore and offshore sites. Phylogenetic analysis showed that individuals of A. hyacinthus inhabiting the five detected sites were likely cryptic species HyaD. Furthermore, AMOVA and pairwise F_ST estimations based on both data types revealed no differentiation among five populations and between inshore and offshore reefs, which could be due to the reproductive mode of broadcast spawning for this species. However, a prevalent low level of genetic diversity was observed when compared with nearby Taiwan regions and Japan, and the geographic history results showed that the effective population size (N_e) had been decreasing for the past 300 years. Thus, we speculated that the populations of A. hyacinthus inhabiting the SCS lack the potential to cope with future climate change adequately, and multiple conservation measures should be implemented based on considering genetic diversity. Full article

Habitat complexity plays a critical role in coral reef ecosystems by enhancing habitat availability, increasing ecological resilience, and offering coastal protection. Structure-from-motion (SfM) photogrammetry has become a standard approach for quantifying habitat complexity in reef monitoring programs. However, a major bottleneck remains in the two-dimensional (2D) classification of benthic cover in three-dimensional (3D) models, where experts are required to manually annotate individual colonies and identify coral species or taxonomic groups. With recent advances in deep learning and computer vision, automated classification of benthic habitats is possible. While some semi-automated tools exist, they are often limited in scope or do not provide semantic segmentation. In this investigation, we trained a convolutional neural network with the ResNet101 architecture on three years (2015, 2017, and 2019) of human-annotated 2D orthomosaics from Kiritimati, Kiribati. Our model accuracy ranged from 71% to 95%, with an overall accuracy of 84% and a mean intersection of union of 0.82, despite highly imbalanced training data, and it demonstrated successful generalizability when applied to new, untrained 2023 plots. Successful automation depends on training data that captures local ecological variation. As coral monitoring efforts move toward standardized workflows, locally developed models will be key to achieving fully automated, high-resolution classification of benthic communities across diverse reef environments. Full article

The Mediterranean Sea hosts highly diverse habitats such as Posidonia oceanica meadows, coralligenous communities, and gorgonian forests. Stressors including warming, eutrophication, pollution, and overfishing are driving shifts towards algae-dominated systems, often with reduced biodiversity. Among these, recent research surprisingly revealed that the mat-forming red alga Phyllophora crispa, which overgrows seagrass and gorgonian habitats, supports high sessile invertebrate diversity. However, little is known about its associated non-sessile fauna. This study thus investigated non-sessile invertebrates in P. crispa using a newly designed appropriate sampling technique at two study sites around Giglio Island (Italy), Fenaio, and Secca II (distance ca. 600 m from each other). Across all samples, 5464 organisms were identified, mostly to family level. We recorded 169 non-sessile taxa, including 96 families, 41 copepod morphotypes, 21 ostracod morphotypes, and 11 unclassified taxa. The dominant phyla were Arthropoda (67%), Mollusca (14%), Annelida (9%), and Nematoda (5%). The most abundant families were Calliopiidae (Amphipoda), Leptognathiidae (Malacostraca), and Mytilidae (Bivalvia). Of the 169 taxa, 128 occurred at both sites, while 20 were unique to Fenaio and 21 to Secca II, suggesting high connectivity likely linked to mobility. Organism abundances ranged from 1315 to 5759 individuals per m² seafloor. Diversity indices were as follows: Shannon 1.5–3.4, Simpson 0.6–1.0, and Pielou 0.6–0.9. These values are similar or even exceed previously reported values for sessile invertebrates (Shannon 2.2–2.5). Notably, P. crispa supported diversity levels higher than those reported for seagrass meadows (Shannon 2.0–2.1) and even tropical coral reefs (2.0). Our study thus confirms P. crispa as a biodiversity hotspot and suggests that these algae mats should be considered in biodiversity conservation strategies. Full article

Increased seawater temperatures and nutrient loading are stressors that affect coral reefs and their microbiomes. In this study, filamentous algae were collected and exposed to different temperatures and nutrient concentrations through a laboratory experiment. Microbial DNA was extracted and analyzed using amplicon sequencing of the V3-V4 hypervariable region of the 16S rRNA gene. In total, 1 domain, 51 phyla, 131 classes, 335 orders, 549 families, and 1905 species were identified. Proteobacteria and Bacteroidota were the dominant taxa reported. Elevated seawater temperatures and nutrient enrichment impacted microbial communities associated with turf algae under laboratory culture. Bacterial species diversity and abundance differed under different temperature and nutrient conditions. Proteobacteria and Actinobacteria were abundant in lower-temperature conditions, while Desulfobacterota, Spirochaetota, and Firmicutes were abundant in higher-temperature conditions. Ruegeria was abundant in low-temperature conditions, whereas Vibrio abundance was low. Regarding nutrient conditions, Proteobacteria and Cyanobacteria were abundant under high-nutrient conditions, while Firmicutes and Desulfobacterota were abundant under ambient-nutrient conditions. The higher nutrient concentration increased the abundance of pathogenic bacteria, such as Vibrio and Photobacterium, while Pseudoalteromonas, which is beneficial for reefs, was present under ambient nutrient conditions. This study demonstrates that temperature and nutrient enrichment can shape microbial communities under laboratory conditions, providing an experimental setting for further studies of bacterial functions and metabolic processes in natural conditions under thermal and nutrient stresses. Full article

Macroalgal–coral interactions (MCI) are an integral yet understudied component of coral reef ecology, particularly in healthy systems where they may represent stable coexistence rather than competition. This study provides the first comprehensive assessment of MCI diversity, abundance, and spatial patterns in the South West Lagoon of New Caledonia (SWLNC). Across 26 coral-dominated habitats, MCI accounted for an average of 16.4% of the benthic cover, with local values reaching 70% in high-interaction areas. A total of 43 unique macroalgal–coral genus pairings were documented, involving 16 macroalgal and 10 coral genera. Lobophora (47%), Halimeda (20%), and Hypnea (9%) were the dominant macroalgae, while Acropora (61%), Montipora (19%), Seriatopora (13%), and Porites (5%) were the most frequent coral interactants. The most abundant specific interactions were Lobophora–Acropora (29%), Hypnea–Acropora (15%), Halimeda–Montipora (10%), Lobophora–Seriatopora (10%), and Halimeda–Acropora (10%). MCI abundance varied markedly among habitat levels, differing across reef types, zonation, and benthic cover. Six recurrent typologies of physical association were identified, and the Coralgal Biotic Interaction Compass (CBIC) is introduced as a conceptual framework to distinguish the nature of macroalgal-coral associations. Overall, the study demonstrates that MCI in the SWLNC are diverse, structured, and non-random, shaped by both interactant identity and habitat filtering rather than ubiquity, providing a robust ecological baseline for future analyses of macroalgal-coral dynamics in Indo-Pacific reef systems. Full article

Coral reef ecosystems are biodiversity hotspots that provide essential ecological and environmental services but are increasingly threatened by anthropogenic pressure and climate change. Effective conservation of reef systems within Marine Protected Areas (MPAs) can be enhanced using spatially explicit approaches that integrate habitat mapping and ecological metrics at seascape scales. In this study, we characterized the benthic seascape of Cayo Arenas and identified optimal priority conservation zones in one of the core zones of the recently established Southern Gulf of Mexico Reefs National Park (SGMRNP). In July 2023, ground-truthing was performed to quantify the cover of sand, calcareous matrix, macroalgae, hard corals and octocorals. Cluster analysis of quantitative data and ecological similarity between classes was used to identify the main benthic habitat classes. Object-based and supervised classification algorithms on a PlanetScope image were used to construct a thematic map of the benthic reef system. Based on the thematic map, habitat connectivity, β-diversity, patch compactness, and availability for commercial species were estimated. In addition, a benthic change analysis (2017–2013), based on the spectral characteristics of PlanetScope images, was performed. The layers obtained were then used to perform an iterative weighted overlay analysis (WOA) using 126 combinations. Six main habitat classes, with different coverages of hard corals, calcareous matrix, macroalgae, and sand, were identified. Habitats with calcareous matrix and sandy substrates dominated the seascape. High habitat compactness, connectivity, and β-diversity values were observed, suggesting habitat stability and ecologically dynamic areas. Based on the WOA, eight optimal priority areas for conservation were recognized. These areas are characterized by heterogeneous habitats, moderate coral cover, and high connectivity. We provide a spatially explicit approach that can strengthen conservation planning within the SGMRNP and other MPAs, particularly by assisting zonation and sub-zonation processes. Full article

In the face of recent setbacks to coral reef conservation and restoration due to intensifying marine heat waves, new coral-focused strategies have been developed to accelerate natural processes of coral reef adaptation and recovery. In 2024, these “Reefs of Hope” strategies were endorsed by UNESCO as an Ocean Decade. This paper shares the progress made and methods used and translates the new paradigm into a proposed national coral-focused adaptation plan using Fiji as an example. The primary goal of any coral-focused adaptation plan should be to keep coral species alive despite increasingly lethal temperatures due to ocean warming and, in doing so, to retain as much genetic diversity as possible. This is done by translocating corals locally to secure cooler-water gene bank nurseries, with a focus on heat-adapted, bleaching-resistant corals, which are vital to adaptation. Secondary goals are to restore sexual reproduction to declining and rare coral species and to support natural larval-based recovery and adaptation processes via the creation of “regeneration patches”, which enhance and restore natural recovery processes while facilitating the spread of heat-adapted genetic diversity of both host and symbionts. The proposed plans create a new model of proactive coral-focused adaptation that other reef-owning nations might study, modify to national conditions, and seek funding to implement. These Fiji-based plans are now ready for the next step of national stakeholder input and refinements toward approval by the government and the coral reef conservation community. Full article

Coral reefs provide environmental goods and services that support biodiversity and people but face diverse threats. To assess the human factors that might be influencing the status of Cuban coral reefs, we collected and analyzed data from three sources: observations made on a research cruise that circumnavigated Cuba’s waters, expert knowledge, and updated published information. Our results show that small-scale fisheries are predominant among human factors influencing Cuban coral reefs, with more than 97% of the fishing incidents detected in situ during the expedition. Many Cuban reefs are heavily fished, have low levels of contamination, and enjoy high legal protection but experience inadequate enforcement. Tourism occurs on many reefs but could be sustainably increased based on its role in supporting enforcement and compliance and reducing fishing pressure. Densities of marine debris were generally lower in Cuban waters than other Caribbean locations and even lower within protected areas. Many human factors are likely acting synergistically, making management a challenge. This is the first at-sea comprehensive visual survey of human factors in Cuban waters and evaluation of marine debris on Cuba’s reefs, establishing a baseline for future assessments. These findings highlight potential human impacts that must be addressed to safeguard the health of Cuba’s marine ecosystem. Full article