Coral Reef Surveys Research Articles

Unifying Coral Reef States Through Space and Time Reveals a Changing Ecosystem

ABSTRACTAimEcological state shifts that alter the structure and function of entire ecosystems are a concerning consequence of human impact. Yet, when, where and why discrete ecological states emerge remains difficult to predict and monitor, especially in high‐diversity systems. We sought to quantify state shifts and their drivers through space and time in the most ecologically complex marine ecosystem: tropical coral reefs.LocationWorldwide.Time Period1987–2019.Major Taxa StudiedCoral reef communities.MethodsUsing a global dataset of 3375 coral reef surveys, along with 13 time series datasets ranging between 1987 and 2019, we applied a novel double‐dichotomy approach to classify coral reefs into four simplified and discrete states based on the relative contributions of corals versus algae to benthic cover and small‐bodied versus large‐bodied fishes to fish standing stock. We then examined state shifts considering a range of spatial predictors and tested whether states have shifted directionally over time, and the nature of the most common transitions.ResultsWe show that geographic, environmental and anthropogenic context fundamentally shapes coral reef states at the local scale, which explains disparities among case studies, and stakes out critical baseline expectations for regional management efforts. We also reveal clear multi‐decadal state shifts on coral reefs: over time, systems dominated by reef‐building corals and small‐bodied, planktivorous fishes tend to have been replaced with reefs characterised by algae and larger‐bodied fishes.Main ConclusionsOur results suggest a previously unrecognised transition from systems that harness external subsidies through small‐bodied consumers associated with structurally complex live corals, to herbivore‐dominated systems with stronger bottom‐up dynamics. Overall, the partitioning of complex reef ecosystems into a small suite of discrete ecological states suggests that spatial context‐dependency, shifting baselines and changes in reef functioning are crucial considerations for coral reef management in the 21st century.

Drivers of nutrient intakes from fisheries in French Polynesia

ABSTRACT Small-scale fisheries provide nutrients to hundreds of millions of people worldwide, with yields dependent on the condition of marine habitats such as coral reefs. Small-scale fisheries are a particularly important food source in societies with nutrient deficiencies and where unhealthy food alternatives are widely available. Using data from coral reef surveys around two islands in French Polynesia (Moorea and Raiatea), we show how the availability of nutrients to fisheries changed in relation to the condition of coral habitat. Fish biomass and nutrient availability were highest when coral cover was low around both islands, driven predominantly by abundant herbivorous reef fish. We also investigated the importance of fish in people’s diets, to determine if fish consumption was aligned with available fisheries resources on local reefs and if nutrient intakes from fish could be explained by people’s socioeconomic background. People ate a higher diversity of reef fish in Raiatea, however nutrient intakes from fish were higher in Moorea. Most people ate more fish than meat on both islands, however fish consumption declined over generations. People from fishing households had higher nutrient intakes from reef and pelagic fish, and people from farming households had higher intakes from reef fish. Preference for eating reef fish over pelagic fish was also associated with higher total nutrient intakes. Promoting traditional diets rich in fish could be key to meeting people’s nutritional needs in French Polynesia while reducing diet-related health issues linked to the overconsumption of fat. French and Tahitian versions of the are available in Supplementary Material.

Reef fish community structure in the waters of small islands Central Bangka Regency

This study aimed to analyze the community structure of reef fish in the small island waters of Central Bangka. The research was conducted in March 2022 in the waters of Bebuar Island, Ketugar Island, Ketawai Island, and Gusung Asam Central Bangka Regency, Bangka Belitung Islands Province. The coral reef survey method uses purposive sampling and the coral reef fish visual census with data analysis of abundance, diversity index, uniformity, and dominance. In-site water quality measurements included six parameters: temperature, salinity, current, brightness, depth, and pH. The results showed that coral reef cover from 44.60 - 87.00% with the medium to very good category. The abundance of reef fish from 1 to 3 individuals/m2 was dominated by 18 species of the Pomacentridae family. The reef fish diversity index ranged from 2.47 to 2.90, including the medium category. The uniformity index value ranged from 0.79 - 0.94, including the high category, indicating that the species found were evenly distributed across all stations. The dominance index value ranges from 0.07 to 0.15, including low, where no species dominates significantly and the fish are evenly distributed. Temperature, brightness, pH, and salinity are factors that support the growth of coral and reef fish. A water current speed of 0.05 – 0.20 m/s is quite helpful in cleaning coral reefs from mud and can supply oxygen. Water conditions were categorized as good and fulfilled the seawater quality standards.

Assessing the consistency and reliability of the line intercept transect method in coral cover estimation using structure from motion photogrammetry techniques

Appropriate coral reef monitoring methods and descriptors determine the effectiveness of ecosystem status assessment. We combined line intercept transect (LIT) and SfM technologies for image acquisition, and the POS information of images is defined and assigned in the relative coordinate system we build. Then, constructed high-resolution orthomosaics of coral reefs along measuring tapes in Metashape. We compared the estimates of coral cover by three methodologies (LIT, LIT on orthomosaic (LITO), surface analyses on orthomosaic (SAO)) and used virtual transects on orthomosaics and their estimates of coral cover to assess the consistency and reliability of LIT. The results show that the estimation of coral cover by LITO or LIT is more consistent and reliable when coral cover is higher, and the probability of overestimation is lower. SfM technology is increasingly used in coral reef survey and assessment, and has the potential to become the new standard for coral reef survey.

Adopting Marine Spatial Planning (MSP) using coral health assessment as indicator: A case study in Pulau Redang Marine Park, Malaysia

Pulau Redang is a marine park island that serves as one of Malaysian tourism hot spots harbouring clear underwater scenery of coral reef ecosystem. Apart from providing ecological services to marine organisms, this ecosystem appeal has contributed significantly to tourism development in Pulau Redang. Nonetheless, despite being gazetted as a marine protected area (MPA), the coral reef ecosystem surrounding the island is being threatened by natural and anthropogenic disturbances leading to coral degradation most predominantly in areas close to tourism development. Hence, this paper aims to identify the status of coral health in Pulau Redang as an indicator in supporting management decision to adopt Marine Spatial Planning as a tool for the conservation of reefs in the island. The coral reef datasets were obtained from published articles and a report as well as in-situ data collection through Coral Video Transect at two different areas classified as “near to tourism development” and “far from human activities”. Overall, based on published data and the present coral reef survey from 33 surveyed sites indicated that majority of the reefs can be classified as in ‘fair’ condition. However, reefs located in areas where there are intense human disturbances are found to be in ‘poor’ condition. It can be deduced that natural disturbances, such as the tropical storm in 2019, and anthropogenic activities from nearby tourism area are potentially threatening the coral reef. Therefore, an ecosystem-based and integrated management approach of Marine Spatial Planning (MSP) is recommended in order to conserve the environment, promote ecosystem recovery while maintaining the socio-economic development on the island.

STRUKTUR KOMUNITAS IKAN DAN TERUMBU KARANG PULAU TUNDA, KABUPATEN SERANG, BANTEN

Tunda Island is one of the leading marine destinations in Banten Province which has high potential biodiversity. This study aimed to determine the health condition of the Tunda Island coral reef ecosystem. The method used in this study was Line Intercept Transect (LIT) method for coral reef and Belt Transect method for reef fish. Based on coral reef survey, the percentage of coral coverage on Tunda Island was 34.7%. From this value the coral reefs of Tunda Island were included in the sufficient category. The results of a survey of fish showed that there were 57 species from 17 families, which is dominated from Pomacentridae. The diversity index value (H ') of reef fish was 3.143, which showed that the diversity of reef fish around Tunda Island was high, and the uniformity index value (e) was 0.777, which showed that in Tunda Island waters the spread of fish species was stable.

Oceanic differences in coral-bleaching responses to marine heatwaves

Anomalously high ocean temperatures have increased in frequency, intensity, and duration over the last several decades because of greenhouse gas emissions that cause global warming and marine heatwaves. Reef-building corals are sensitive to such temperature anomalies that commonly lead to coral bleaching, mortality, and changes in community structure. Yet, despite these overarching effects, there are geographical differences in thermal regimes, evolutionary histories, and past disturbances that may lead to different bleaching responses of corals within and among oceans. Here we examined the overall bleaching responses of corals in the Atlantic, Indian, and Pacific Oceans, using both a spatially explicit Bayesian mixed-effects model and a deep-learning neural-network model. We used a 40-year global dataset encompassing 23,288 coral-reef surveys at 11,058 sites in 88 countries, from 1980 to 2020. Focusing on ocean-wide differences we assessed the relationships between the percentage of bleached corals and different temperature-related metrics alongside a suite of environmental variables. We found that while high sea-surface temperatures were consistently, and strongly, related to coral bleaching within all oceans, there were clear geographical differences in the relationships between coral bleaching and most environmental variables. For instance, there was an increase in coral bleaching with depth in the Atlantic Ocean whereas the opposite was observed in the Indian Ocean, and no clear trend could be seen in the Pacific Ocean. The standard deviation of thermal-stress anomalies was negatively related to coral bleaching in the Atlantic and Pacific Oceans, but not in the Indian Ocean. Globally, coral bleaching has progressively occurred at higher temperatures over the last four decades within the Atlantic, Indian, and Pacific Oceans, although, again, there were differences among the three oceans. Together, such patterns highlight that historical circumstances and geographical differences in oceanographic conditions play a central role in contemporary coral-bleaching responses.

Spatial variation in the benthic community structure of a coral reef system in the central Philippines: Highlighting hard coral, octocoral, and sponge assemblages

Coral reefs are complex habitats that contain very high biodiversity and provide different ecosystem services. In the Coral Triangle, however, various major benthic components are still understudied. This can limit our understanding of coral reef community dynamics, especially in the presence of a changing climate coupled with local disturbances (e.g., decreased water quality). This study describes the benthic community structure of an ecologically and economically important coral reef system in the central Philippines through characterizing the assemblages of three major components (hard corals, octocorals, and sponges) among sites and stations with varying environmental conditions (i.e., exposure to monsoons, water quality levels). Results reveal significant variations in the mean percentage covers of hard corals, octocorals, and sponges at the site and station levels (ANOVA, p < 0.05), with hard corals dominating in Site 1, which is more exposed to the southwest monsoon, and Site 3, which is an embayed and unexposed site with low water quality, while soft corals dominated in Site 2, which is more exposed to the northeast monsoon. Multivariate analyses also revealed significant variations in the benthic community structure at different spatial scales (ANOSIM, p < 0.05). Interestingly, even stations within a site had significant variations in community structure, with different taxa being dominant. This study highlights the importance of conducting more detailed analyses of understudied taxa (i.e., octocorals and sponges) during coral reef surveys to improve our understanding of coral reef community dynamics that is very important for management.

Detection and impact of sewage pollution on South Kohala's coral reefs, Hawai‘i

Sewage pollution from on-site sewage disposal systems and injection wells is impacting coral reefs worldwide. Our study documented the presence and impact of sewage on South Kohala's coral reefs, on Hawai‘i Island, through benthic water quality and macroalgal sampling (fecal indicator bacteria, nutrients, δ15N macroalgal tissue), NO3− stable isotope mixing models, water motion measurements, and coral reef surveys. Sewage pollution was moderate on the offshore reef from benthic seeps, and water motion mixed and diluted it across the benthos. These conditions likely contribute to the dominance of turf algae cover, and the severity and prevalence of growth anomalies and algal overgrowth on corals. Use of multiple indicators and studying water motion was necessary to assess sewage pollution and identify environmental drivers associated with impaired coral health conditions. Methods used in this study can be utilized by natural resource managers to identify and reduce anthropogenic stressors to coral reefs.

Comparison of coral reef communities in proximity to ocean effluent pipes off the north coast of Puerto Rico.

Coral reefs are declining globally as a result of multiple stressors, including land-based stressors, such as sedimentation and pollution, and those that are related to a changing climate, such as increases in ocean acidification. Degradation of US Caribbean coral reef biota has been associated with exposure to sewage effluent from wastewater treatment plants (WWTPs). The Puerto Rico Aqueduct and Sewer Authority (PRASA) maintains WWTPs on the north coast of Puerto Rico, which release effluent into the marine environment in the vicinity of coral reefs. Using data collected by PRASA surveys conducted from 1999 to 2013, we examined coral reef condition at survey sites to identify potential changes or differences in reefs with respect to their proximity to the WWTP effluent pipes (e.g., upstream, downstream). The proportion of coverage represented by all coral, sensitive taxa, and tolerant taxa were compared across sites located upstream and downstream of WWTP effluent pipes using multivariate approaches and analysis of variance. The proportion of healthy, sensitive coral species and invasive or tolerant coral species were not different at sites downstream of the WWTP effluent pipe compared to upstream. These results are caveated by the limited sampling design, highly variable communities across WWTP locations, and the sparsity or absence of well-developed coral reef communities at most stations. We evaluate the strengths and weaknesses of the survey design and provide recommendations for future coral reef surveys investigating potential impacts of WWTP effluent.

Digitizing the coral reef: Machine learning of underwater spectral images enables dense taxonomic mapping of benthic habitats

Abstract Coral reefs are the most biodiverse marine ecosystems, and host a wide range of taxonomic diversity in a complex spatial community structure. Existing coral reef survey methods struggle to accurately capture the taxonomic detail within the complex spatial structure of benthic communities. We propose a workflow to leverage underwater hyperspectral image transects and two machine learning algorithms to produce dense habitat maps of 1150 m2 of reefs across the Curaçao coastline. Our multi‐method workflow labelled all 500+ million pixels with one of 43 classes at taxonomic family, genus or species level for corals, algae, sponges, or to substrate labels such as sediment, turf algae and cyanobacterial mats. With low annotation effort (only 2% of pixels) and no external data, our workflow enables accurate (Fbeta of 87%) survey‐scale mapping, with unprecedented thematic detail and with fine spatial resolution (2.5 cm/pixel). Our assessments of the composition and configuration of the benthic communities of 23 image transects showed high consistency. Digitizing the reef habitat and community structure enables validation and novel analysis of pattern and scale in coral reef ecology. Our dense habitat maps reveal the inadequacies of point sampling methods to accurately describe reef benthic communities.

The dynamic coverage of coral reef habitat in Kapoposang Marine Tourism Park, Spermonde Island – Makassar Strait, Indonesia

Around 20 percent of coral reef coverage and its high biodiversity in Spermonde Island has been declining in the last 12 years, where the dominant loss is the hard coral. However, only few studies use multi-scale accuracy methods to estimate the loss of hard corals in Kapoposang Marine Tourism Park. Hence, this study aims to map and analyze the dynamics of coral reef covers in Kapoposang Marine Tourism Park of Spermonde Islands for the past two decades (from 2000 to 2019). Data was obtained from the coral reef survey, to validate the Landsat imageries (TM dan ETM+), which were acquired and selected based on similar tides conditions. Gap fills on Landsat ETM+ are managed using Frame and Fill software, then analyzed using Lyzenga algorithm and validated with ground truth data. This study reveals that the coral reef coverage in Kapoposang Marine Tourism Park increased about 9,61% from 2000 to 2015, then declined about 7,41% from 2015 to 2019.

Local anthropogenic stress does not exacerbate coral bleaching under global climate change

AbstractAimRising ocean temperatures are widely recognized as the dominant driver behind the rapid degradation of coral reefs via the process of coral bleaching (the expulsion of photosynthetic endosymbionts, which reveals the coral skeleton). However, bleaching of hard corals is often assumed to be further aggravated by the effect of local‐scale stressors from anthropogenic activity, accelerating coral reef decline where these stressors are stronger. Despite the importance of this hypothesis, the interaction between climate change and local stressors for driving coral bleaching has only been investigated in a handful of studies, with no large scale (regional or global) test conducted thus far. We investigate the impact of human population density (HPD) – a proxy for local stressors – in both protected and non‐protected marine regions, and their interaction under heat stress as drivers of coral bleaching.LocationGlobal.Time period2002–2018.Major taxa studiedScleractinia corals.MethodsUsing 9,170 coral reef surveys worldwide, we performed Bayesian modelling to assess the probability of coral bleaching in response to local‐scale stressors in interaction with global warming.ResultsLocal HPD does not exacerbate coral bleaching, either independently or under thermal stress from climate change. Rather, the relationship between HPD and temperature stress appears weakly antagonistic for coral bleaching, contradicting the expectation that HPD increases sensitivity of corals to bleaching under thermal stress.Main conclusionsLocal HPD does not interact with global warming for degrading coral reefs. However, regional variation in bleaching patterns exists. Consequently, bleaching will continue to occur on most coral reefs globally regardless of local HPD. Thus, it is likely that even isolated, well‐protected, coral reefs will continue to decline because of climate warming‐induced bleaching. Therefore, tackling the source of global warming remains the most effective way to mitigate coral reef decline via coral bleaching.

Kondisi Terkini Presentase Tutupan Terumbu Pada Masa Pandemi Covid-19 di Gili Air, Taman Wisata Perairan Gili Matra, Nusa Tenggara Barat

Gili Matra Aquatic Tourism Park has two conservation targets, namely biological targets and social, cultural and economic targets. Coral reef ecosystems, apart from being a conservation target, are also an attraction for tourists to visit. This research was conducted to determine the condition of the coral reef ecosystem to be used as the basis for the management of conservation areas. The research was conducted by collecting coral reef data either through surveys or secondary data from the results of previous studies. Coral reef survey using the standard Line Intercept Transect method. The survey results show that the condition of coral reefs in the utilization zone is better than the core zone. Live coral cover in the utilization zone reached 71% so it was categorized as good, while in the core zone it only reached 8% so it was categorized as bad. Coral reefs in the core zone are unable to recover even though the number of tourists has decreased during the Covid-19 pandemic. Therefore, the location of the core zone on Gili Air needs to be evaluated further so that the effectiveness of Gili Matra TWP management can be improved. Key words: coral reefs; Gili Matra; Conservation

Development of a multi-excitation fluorescence (MEF) imaging method to improve the information content of benthic coral reef surveys

Benthic surveys are a key component of monitoring and conservation efforts for coral reefs worldwide. While traditional image-based surveys rely on manual annotation of photographs to characterise benthic composition, automatic image annotation based on computer vision is becoming increasingly common. However, accurate classification of some benthic groups from reflectance images presents a challenge to local ecologists and computers alike. Most coral reef organisms produce one or a combination of fluorescent pigments, such as Green Fluorescent Protein (GFP)-like proteins found in corals, chlorophyll-a found in all photosynthetic organisms, and phycobiliproteins found in red macroalgae, crustose coralline algae (CCA) and cyanobacteria. Building on the potential of these pigments as a target for automatic image annotation, we developed a novel imaging method based on off-the-shelf components to improve classification of coral and other biotic substrates using a multi-excitation fluorescence (MEF) imaging system. We used RGB cameras to image the fluorescence emission of coral and algal pigments stimulated by narrow-waveband blue and green light, and then combined the information into three-channel pseudocolour images. Using a set of a priori rules defined by the relative pixel intensity produced in different channels, the method achieved successful classification of organisms into three categories based on the dominant fluorescent pigment expressed, facilitating discrimination of traditionally problematic groups. This work provides a conceptual foundation for future technological developments that will improve the cost, accuracy and speed of coral reef surveys.

Global decline in capacity of coral reefs to provide ecosystem services

Global decline in capacity of coral reefs to provide ecosystem services

Which Method for Which Purpose? A Comparison of Line Intercept Transect and Underwater Photogrammetry Methods for Coral Reef Surveys

The choice of ecological monitoring methods and descriptors determines the effectiveness of a program designed to assess the state of coral reef ecosystems. Here, we comparer the relative performance of the traditional Line Intercept Transect (LIT) method with three methods derived from underwater photogrammetry: LIT on orthomosaics, photoquadrats from orthomosaics, and surface analyses on orthomosaics. The data were acquired at Reunion Island on five outer reef slopes and two coral communities on underwater lava-flows. Coral cover was estimated in situ using the LIT method and with LITs and photoquadrats digitized on orthomosaic. Surface analyses were done on the same orthomosaics. Structural complexity of the surveyed sites was calculated from digital elevation models using three physical descriptors (fractal dimension, slope, surface complexity), and used to explore their possible influence in coral cover estimates. We also compared the methods in terms of scientific outputs, the human expertise and time required. Coral cover estimates obtained with in situ LITs were higher than those obtained with digitized LITs and photoquadrats. Surfaces analyses on orthomosaics yielded the lowest but most the precise cover estimates (i.e., lowest sample dispersion). Sites with the highest coral cover also had the highest structural complexity. Finally, when we added scientific outputs, and requirements for human expertise and time to our comparisons between methods, we found that surface analysis on the orthomosaics was the most efficient method. Photoquadrats were more time-consuming than both in situ and digitized LITs, even though they provided coral cover estimates similar to those of digitized LITs and yielded more than one descriptor. The LIT in situ method remains the least time-consuming and most effective for species-level taxonomic identifications but is the most limited method in terms of data outputs and representativeness of the ecosystem.

Community structure and size-frequency distribution of soft corals in a heavily disturbed reef system in northwestern Philippines

Soft corals in the Philippines have received little attention. In this study, community structure and size-frequency distribution of soft corals were assessed via quantitative surveys in a heavily disturbed reef system in northwestern Philippines. Relationships between selected environmental parameters and benthic components were also investigated. Results reveal that soft coral cover, density, and taxa richness were lowest at stations nearest a fish farming area, characterized by the poorest water quality. Differences in dominance of taxonomic groups may indicate differences in environmental preference or tolerance. Exposure to waves and water clarity were determined to have high correlations with the distribution of different taxa. Symmetrical size distributions of selected alcyoniids were indicative of healthy populations. However, the negative skewness of Lobophytum may indicate an eventual population decline caused by unfavorable environmental conditions. The study's findings suggest the need to conduct a detailed analysis of the different soft coral variables during coral reef surveys to improve data interpretations necessary for coral reef management in the Philippines.

Some features of marine dynamics caused by damrey typhoon (11/2017) and its impacts on coral reef in Ninh Van waters, Khanh Hoa province

Typhoon Damrey (Vietnamese name is Typhoon No.12 in 2017) landed in South Phu Yen - North Khanh Hoa provinces in the morning of 4th Nov 2017 causing severe damage to people, material and serious consequences on the social and economy of the region (especially Khanh Hoa Province). So far, there have been no published papers and reports on the results of analysis of observing and monitoring data, calculations on marine dynamics as well as their impact on some marine ecosystems. Based on the results of coral reef survey in the study area before and after storm as well as hydrodynamic model results, the paper presents some results of data analysis of monitoring water level, calculations of wave field, currents caused by Damrey Typhoon in coastal waters of Khanh Hoa Province. On that basis, there have initial comments on the impact of storm on the coral reef of this region for management, forecasting and mitigation of local natural disaster damage in the future.

Shallow-water hard corals (Hexacorallia: Scleractinia) from Bangka Belitung Islands Waters, Indonesia

Bangka Belitung Islands (Sumatra, Indonesia) has various coastal resources, e.g., coral reefs, seagrass beds, mangrove forests. However, the coral community has been threatened by anthropogenic activities, i.e., tin mining and illegal tin mining. Threatened species assessment is important for mitigation of coral losses and management. The ojective of the present study was to examine the status of Scleractinian corals in Bangka Belitung Islands, Indonesia. A line intercept transect was performed for the coral reef survey. Live and dead coral cover were recorded in the three locations. Corals species were identified following taxonomic revisions. The results showed that there were 142 species of Scleractinian corals recorded from Bangka Belitung Islands. Of these, 22 species are the new report from the areas of the the eastern part of Belitung Island. Family of Merulinidae, Acroporidae, and Poritidae were predominant group in this region. It is concluded that the condition of the coral reef ecosystem in the Belitung Islands is relatively good, but fair in Gaspar Strait and Bangka Island. Keywords: Coral cover, coral diversity, hard coral, Scleractinia