Habitat degradation and fishing effects on the size structure of coral reef fish communities

Coral reefs: Fishing smarter for optimal nutrition and biodiversity

One of humanity's biggest challenges is to ensure food and nutrition for the growing population, in the face of global change. A new study offers hope, showing how altered coral reefs with reduced fish biomass can offer some of the most nutritious fish.

Quarry rock reef design features influence fish assemblage structure across a systematically heterogenous restoration reef

To restore an area of temperate rocky-reef degraded by sedimentation, scour, and burial, a large quarry rock reef, the Palos Verdes Restoration Reef (PVR), was built with a heterogenous design including high relief elements intended to increase fish biomass productivity and support a diverse reef community. The replicated design features provide a unique opportunity to study the effects of reef design on fish habitat use patterns. To determine how submodule scale habitat features are associated with variation in the assemblage structure of eleven focal fish species on the PVR we conducted diver-operated stereo-video surveys on all 18 PVR modules 9-13 months after construction. The highest mean densities of most focal fish species and highest total fish densities were observed on high and medium-relief reef submodules and their adjacent ecotones positioned on the offshore sides or ends of modules. These included the most abundant species on the PVR, the zooplanktivorous Blacksmith (Chromis punctipinnis), as well as the fishery species Kelp Bass (Paralabrax clathratus) and California Sheephead (Bodianus pulcher). On the inshore side of parallel modules, the reef and ecotone transects on low and medium relief submodules exhibited the lowest total mean fish densities, and consistently lower mean focal fish species densities. Focal fish species assemblages also differed between the reef and sand-rock ecotone transects. Reef-resident planktivorous fishes likely contribute to reef primary and secondary productivity through consumer mediated nutrient transport and are an important consideration in restoration reef design. Future reef restoration designs should consider incorporating replicated heterogeneous design features including the placement of higher relief elements relative to shore and current patterns as a special consideration for providing habitat for planktivorous reef-resident fishes.

Can juvenile supply predict future abundance of large-bodied reef fishes?

The extent to which juvenile abundance can predict future populations of lethrinids at Ningaloo Reef was assessed using size frequency data collected over 13 consecutive years. Annual abundance of juvenile lethrinids (<5 cm TL) was highest in northern Ningaloo during La Niña years, when seawater is warmer and oceanic currents stronger. Juvenile lethrinid abundance explained 35% of the variance in 1-2 year-old Lethrinus nebulosus abundance the following year, a steeper relationship in the north suggesting greater survival of juveniles. Juvenile lethrinid abundance was also positively correlated to abundance of 1-2 year-old L. atkinsoni in the southern region of Ningaloo. Abundance of juvenile lethrinids were however poor predictors of L. nebulosus and L. atkinsoni older than 2 years of age. Post settlement processes likely weaken the link between juvenile supply and abundance of lethrinids >2 years old making it difficult to accurately quantify the overall size of future lethrinid populations.

Exploring the morphological dynamics of Nile tilapia (Oreochromis niloticus Linn. 1758) in Victoria Nile as depicted from geometric morphometrics

BACKGROUND

Various anthropogenic activities continue to threaten the fish biodiversity of the East African water bodies such as the Victoria Nile. Although the Victoria Nile is a significant source of livelihood for human populations, the biology and ecology of Nile tilapia in this ecosystem remain understudied with little or no information on the morphology of the fish given varying and immense anthropogenic activities. Here, we use geometric morphometrics to examine the morphology/shape variations of Nile tilapia populations in Victoria Nile to gain insights into their current ecological state.

RESULTS

Our results indicate unexpectedly smaller Nile tilapia body weights in Victoria Nile than in L. Victoria. Despite this, nearly all the populations displayed a relative condition factor (Kn) of greater ≥1 suggesting a healthy stock. However, two populations, LMF and VN_Bukeeka demonstrated Kn values of less than one (< 1). We also report that some Upper and Lower Victoria Nile populations display morphological similarities. Apart from L. Albert, Nile tilapia populations from Lakes Victoria and Kyoga are morphologically divergent from the riverine ones. We note that Nile tilapia from Nalubale Dam Reservoir is morphologically distinct from the close neighbouring Victoria Nile populations which are likely allied to the influence of the Nalubale Hydroelectric power dam as a barrier.

CONCLUSION

Nile tilapia's morphological variation appears to be influenced by various anthropogenic disturbances notably, overfishing, hydroelectric power dams, and fish translocational history in Uganda. Management should enforce regulatory frameworks to avert human-mediated activities as these are likely to compromise the sustainability of the fisheries. Further studies are required to follow these populations with molecular genetics and environmental data to gain a deeper understanding of the fish species for informed sustainable management and conservation options.

Integrating larval connectivity into the marine conservation decision-making process across spatial scales

Larval dispersal connectivity is typically integrated into spatial conservation decisions at regional or national scales, but implementing agencies struggle with translating these methods to local scales. We used larval dispersal connectivity at regional (hundreds of kilometers) and local (tens of kilometers) scales to aid in design of networks of no-take reserves in Southeast Sulawesi, Indonesia. We used Marxan with Connectivity informed by biophysical larval dispersal models and remotely sensed coral reef habitat data to design marine reserve networks for 4 commercially important reef species across the region. We complemented regional spatial prioritization with decision trees that combined network-based connectivity metrics and habitat quality to design reserve boundaries locally. Decision trees were used in consensus-based workshops with stakeholders to qualitatively assess site desirability, and Marxan was used to identify areas for subsequent network expansion. Priority areas for protection and expected benefits differed among species, with little overlap in reserve network solutions. Because reef quality varied considerably across reefs, we suggest reef degradation must inform the interpretation of larval dispersal patterns and the conservation benefits achievable from protecting reefs. Our methods can be readily applied by conservation practitioners, in this region and elsewhere, to integrate connectivity data across multiple spatial scales.

Climate-induced habitat suitability changes intensify fishing impacts on the life history of large yellow croaker (Larimichthys crocea)

Intense fishing pressure and climate change are major threats to the fish population and coastal fisheries. Larimichthys crocea (large yellow croaker) is a long-lived fish, which performs seasonal migrations from its spawning and nursery grounds along the coast of the East China Sea (ECS) to overwintering grounds offshore. This study used length-based analysis and habitat suitability index (HSI) model to evaluate the current life-history parameters and overwintering habitat suitability of L. crocea, respectively. We compared recent (2019) and historical (1971-1982) life-history parameters and overwintering HSI to analyze the fishing pressure and climate change effects on the overall population and overwintering phase of L. crocea. The length-based analysis indicated serious overfishing of L. crocea, characterized by reduced catch, size truncation, constrained distribution, and advanced maturation causing a recruitment bottleneck. The overwintering HSI modeling results indicated that climate change has led to decreased sea surface temperature during L. crocea overwintering phase over the last half-century, which in turn led to area decrease and an offshore-oriented shifting of optimal overwintering habitat of L. crocea. The fishing-caused size truncation may have constrained the migratory ability, and distribution of L. crocea subsequently led to the mismatch of the optimal overwintering habitat against climate change background, namely habitat bottleneck. Hence, while heavy fishing was the major cause of L. crocea collapse, climate-induced overwintering habitat suitability may have intensified the fishery collapse of L. crocea population. It is important for management to consider both overfishing and climate change issues when developing stock enhancement activities and policy regulations, particularly for migratory long-lived fish that share a similar life history to L. crocea. Combined with China's current restocking and stock enhancement initiatives, we propose recommendations for the future restocking of L. crocea in China.

Checklist of coral reef fishes of Darvel Bay, Sabah, Malaysian Coral Triangle, with a note on the biodiversity and community structure

The Darvel Bay is a large semi-enclosed bay with spectacular natural land and seascape. The inward side of the Bay has only been recently known to be an important foraging ground for the endangered, threatened and protected (ETP) elasmobranch species, such as the Whale Shark and mobulid rays. Following a recent scientific expedition, we present a checklist of the coral reef fishes of Darvel Bay. A note on the biodiversity and community structure is presented, based on our analysis using diversity indices, univariate and multivariate approaches. Seven natural coral reefs comprising two fringing reefs and five patch reefs, were surveyed at 10 m depth using underwater visual census (UVC) and baited remote underwater video station (BRUVS) methods. A diverse list of 66 species of reef fishes from 17 families is recorded. However, this is overwhelmingly dominated by the small-sized omnivorous damselfish, family Pomacentridae (62%; N = 1485 individuals). Species richness and abundance were observed to increase at sites surveyed furthest from the coast within the Bay. Significantly distinct reef fish assemblages were observed between three priori groups, based on proximity to shore (ANOSIM, R = 0.65, p < 0.05). SIMPER analysis further revealed that 22 species of the total reef fish species recorded drive 76% dissimilarities between the groups. The pattern of the reef fish communities observed, reflected as a logseries distribution model, is that commonly found in disturbed habitats or habitats characterised by restricted resources in a community, where the dominant species takes up a high proportion of available resources. The ecological indices (Shannon-Wiener Diversity Index, 2.05; Simpson Index of Diversity, 0.79; Simpson Dominance Index, 0.20; and Pielou's Evenness Index, 0.43), all reflect the relatively low diversity and uneven species distribution of the reef fish community. We conclude that the present status of the coral reef fish community dominating Darvel Bay as having undergone a rapid shift in structure following intense and rampant fishing pressure, as reported by the media.

Effects of human footprint and biophysical factors on the body-size structure of fished marine species

Marine fisheries in coastal ecosystems in many areas of the world have historically removed large-bodied individuals, potentially impairing ecosystem functioning and the long-term sustainability of fish populations. Reporting on size-based indicators that link to food-web structure can contribute to ecosystem-based management, but the application of these indicators over large (cross-ecosystem) geographical scales has been limited to either fisheries-dependent catch data or diver-based methods restricted to shallow waters (<20 m) that can misrepresent the abundance of large-bodied fished species. We obtained data on the body-size structure of 82 recreationally or commercially targeted marine demersal teleosts from 2904 deployments of baited remote underwater stereo-video (stereo-BRUV). Sampling was at up to 50 m depth and covered approximately 10,000 km of the continental shelf of Australia. Seascape relief, water depth, and human gravity (i.e., a proxy of human impacts) were the strongest predictors of the probability of occurrence of large fishes and the abundance of fishes above the minimum legal size of capture. No-take marine reserves had a positive effect on the abundance of fishes above legal size, although the effect varied across species groups. In contrast, sublegal fishes were best predicted by gradients in sea surface temperature (mean and variance). In areas of low human impact, large fishes were about three times more likely to be encountered and fishes of legal size were approximately five times more abundant. For conspicuous species groups with contrasting habitat, environmental, and biogeographic affinities, abundance of legal-size fishes typically declined as human impact increased. Our large-scale quantitative analyses highlight the combined importance of seascape complexity, regions with low human footprint, and no-take marine reserves in protecting large-bodied fishes across a broad range of species and ecosystem configurations.

Protection outcomes for fish trophic groups across a range of management regimes

Understanding how Marine Protected Areas (MPAs) improve conservation outcomes across anthropogenic pressures can improve the benefits derived from them. Effects of protection for coral reefs in the western and central Indian Ocean were assessed using size-spectra analysis of fish and the relationships of trophic group biomass with human population density. Length-spectra relationships quantifying the relative abundance of small and large fish (slope) and overall productivity of the system (intercept) showed inconsistent patterns with MPA protection. The results suggest that both the slopes and intercepts were significantly higher in highly and well-protected MPAs. This indicates that effective MPAs are more productive and support higher abundances of smaller fish, relative to moderately protected MPAs. Trophic group biomass spanning piscivores and herbivores, decreased with increasing human density implying restoration of fish functional structure is needed. This would require addressing fisher needs and supporting effective MPA management to secure ecosystem benefits for coastal communities.

Energy limitation or sensitive predators? Trophic and non-trophic impacts of wastewater pollution on stream food webs

Impacts of environmental stressors on food webs are often difficult to predict because trophic levels can respond in divergent ways, and biotic interactions may dampen or amplify responses. Here we studied food-web level impacts of urban wastewater pollution, a widespread source of degradation that can alter stream food webs via top-down and bottom-up processes. Wastewater may (i) subsidize primary producers by decreasing nutrient limitation, inducing a wide-bottomed trophic pyramid. However, (ii) wastewater may also reduce the quality and diversity of resources, which could decrease energy transfer efficiency by reducing consumer fitness, leading to predator starvation. Additionally, (iii) if higher trophic levels are particularly sensitive to pollution, primary consumers could be released from predation pressure. We tested these hypotheses in 10 pairs of stream sites located upstream and downstream of urban wastewater effluents with different pollutant levels. We found that wastewater pollution reduced predator richness by ~34%. Community Size Spectra (CSS) slopes were steeper downstream than upstream of wastewater effluents-in all except one impact site where predators became locally extinct. Further, variation in downstream CSS slopes were correlated with pollution loads: the more polluted the stream, the steeper the CSS. We estimate that wastewater pollution decreased energy transfer efficiencies to primary consumers by ~70%, limiting energy supply to predators. Additionally, traits increasing vulnerability to chemical pollution were overrepresented among predators, which presented compressed trophic niches (δ¹⁵ N- δ¹³ C) downstream of effluents. Our results show that wastewater pollution can impact stream food webs via a combination of energy limitation to consumers and extirpation of pollution-sensitive top predators. Understanding the indirect (biotically-mediated) vs. direct (abiotic) mechanisms controlling responses to stress may help anticipating impacts of altered water quantity and quality-key signatures of global change.

Fish size spectra are affected by nutrient concentration and relative abundance of non-native species across streams of the NE Iberian Peninsula

Aquatic ecosystems are strongly body-size structured with a decline of numerical abundance with increasing body size (hereafter, the size spectrum). Marine and lake fish studies have reported consistent variations of size spectra in relation to environmental conditions and biotic composition, but little is known about stream fishes. Accordingly, in this study we test several hypotheses about the effects of local water conditions, biotic introductions and cumulative pressures (measured as the IMPRESS index) on the fish size-spectrum slope (that is, the linear rate of decline of fish abundance as body size increase in a log-log scale) and the size-spectrum intercept (commonly used as proxy for carrying capacity) among 118 local fish assemblages in streams of the NE Iberian Peninsula. To our knowledge, this is the first time that an extensive river fish dataset is used in a dendritic network to cover systematic changes of size-spectrum parameters. We find that the slope and intercept of the fish size spectrum are negatively correlated with nutrient concentration (mainly total phosphorus), with a greater relative abundance of small fishes but a decline of overall carrying capacity. Moreover, fish assemblages with greater relative abundance of non-native species have flatter size-spectrum slopes. In contrast, the IMPRESS index and climate-related variables are poor predictors of the shape of the fish size spectra. This study contributes to better understanding of the main factors structuring fish assemblages in lotic environments of the Iberian Peninsula. We encourage more research on this line to further explore the use of fish size structure to evaluate the ecological health of riverine ecosystems.

Assessing Potential Climatic and Human Pressures in Indonesian Coastal Ecosystems Using a Spatial Data-Driven Approach

Blue carbon ecosystems are key for successful global climate change mitigation; however, they are one of the most threatened ecosystems on Earth. Thus, this study mapped the climatic and human pressures on the blue carbon ecosystems in Indonesia using multi-source spatial datasets. Data on moderate resolution imaging spectroradiometer (MODIS) ocean color standard mapped images, VIIRS (visible, infrared imaging radiometer suite) boat detection (VBD), global artificial impervious area (GAIA), MODIS surface reflectance (MOD09GA), MODIS land surface temperature (MOD11A2), and MODIS vegetation indices (MOD13A2) were combined using remote sensing and spatial analysis techniques to identify potential stresses. La Niña and El Niño phenomena caused sea surface temperature deviations to reach −0.5 to +1.2 °C. In contrast, chlorophyll-a deviations reached 22,121 to +0.5 mg m−3. Regarding fishing activities, most areas were under exploitation and relatively sustained. Concerning land activities, mangrove deforestation occurred in 560.69 km2 of the area during 2007–2016, as confirmed by a decrease of 84.9% in risk-screening environmental indicators. Overall, the potential pressures on Indonesia’s blue carbon ecosystems are varied geographically. The framework of this study can be efficiently adopted to support coastal and small islands zonation planning, conservation prioritization, and marine fisheries enhancement.

Reef communities show predictable undulations in linear abundance size spectra from copepods to sharks

Among the more widely accepted general hypotheses in ecology is that community relationships between abundance and body size follow a log-linear size spectrum, from the smallest consumers to the largest predators (i.e. 'bacteria to whales'). Nevertheless, most studies only investigate small subsets of this spectrum, and note that extreme size classes in survey data deviate from linear expectations. In this study, we fit size spectra to field data from 45 rocky and coral reef sites along a 28° latitudinal gradient, comprising individuals from 0.125 mm to 2 m in body size. We found that 96% of the variation in abundance along this 'extended' size gradient was described by a single linear function across all sites. However, consistent 'wobbles' were also observed, with subtle peaks and troughs in abundance along the spectrum, which varied with sea temperature, as predicted by theory relating to trophic cascades.

Fishing and habitat condition differentially affect size spectra slopes of coral reef fishes

Marine food webs are structured through a combination of top-down and bottom-up processes. In coral reef ecosystems, fish size is related to life-history characteristics and size-based indicators can represent the distribution and flow of energy through the food web. Thus, size spectra can be a useful tool for investigating the impacts of both fishing and habitat condition on the health and productivity of coral reef fisheries. In addition, coral reef fisheries are often data-limited and size spectra analysis can be a relatively cost-effective and simple method for assessing fish populations. Abundance size spectra are widely used and quantify the relationship between organism size and relative abundance. Previous studies that have investigated the impacts of fishing and habitat condition together on the size distribution of coral reef fishes, however, have aggregated all fishes regardless of taxonomic identity. This leads to a poor understanding of how fishes with different feeding strategies, body size-abundance relationships, or catchability might be influenced by top-down and bottom-up drivers. To address this gap, we quantified size spectra slopes of carnivorous and herbivorous coral reef fishes across three regions of Indonesia representing a gradient in fishing pressure and habitat conditions. We show that fishing pressure was the dominant driver of size spectra slopes such that they became steeper as fishing pressure increased, which was due to the removal of large-bodied fishes. When considering fish functional groups separately, however, carnivore size spectra slopes were more heavily impacted by fishing than herbivores. Also, structural complexity, which can mediate predator-prey interactions and provisioning of resources, was a relatively important driver of herbivore size spectra slopes such that slopes were shallower in more complex habitats. Our results show that size spectra slopes can be used as indicators of fishing pressure on coral reef fishes, but aggregating fish regardless of trophic identity or functional role overlooks differential impacts of fishing pressure and habitat condition on carnivore and herbivore size distributions.

Assessing the Drivers behind the Structure and Diversity of Fish Assemblages Associated with Rocky Shores in the Galapagos Archipelago

Oceanic islands harbor unique yet fragile marine ecosystems that require evidence-based environmental management. Among these islands, the Galapagos archipelago is well known for its fish diversity, but the factors that structure communities within and between its islands remain poorly understood. In this study, water quality, physical habitats and geographical distance were assessed as potential predictors for the diversity and structure of fish assemblages. Differences in the structure of fish assemblages of the two studied islands (Santa Cruz and Floreana) were most likely driven by temperature and nutrient concentrations. In the relatively highly populated island Santa Cruz, the structure of fish assemblages was more affected by water conditions than physical habitats while the contrary was true for the more pristine area of Floreana. A wide variety of species with different geographical origins were distributed over the different islands, which indicates that most fish species are able to reach the islands of the archipelago. However, temperature gradients and elevated nutrient levels cause large differences in the structure of local fish assemblages. In addition, in Santa Cruz nutrient concentrations were negatively correlated with α diversity. Since pollution is a clear pressure on the fish assemblages of oceanic islands, environmental management of the coastal areas is of paramount importance.

Spatial and temporal differences in Acropora cervicornis colony size and health

Little to no recovery in Acropora cervicornis populations has been documented since the 1970s and 1980s widespread disease events, and disease and predation appear to remain significant drivers of mortality. However, to date, demographic studies of A. cervicornis lack data temporally or spatially sufficient to quantify factors limiting recovery. Acropora cervicornis populations in three regions [Broward County (BWD), Middle Keys (MDK), and Dry Tortugas (DRTO)] of the Florida Reef Tract were surveyed up to three times per year from 2011 to 2015. Temporal and spatial differences were evaluated for colony size, live tissue volume, and prevalence and impact of disease and predation. Significantly larger colonies were reported in BWD, and at relatively deeper or more sheltered sites. At least 43% of colonies in each region were of reproductively capable size. Mean relative change in colony size between surveys (3-5 months) ranged from -20% to 19%. Disease and predation were consistently present in all regions, but levels varied significantly across space and time. Disease prevalence was the most variable condition (ranging from 0% to 28% per survey), increasing after periods of elevated temperatures and environmental disturbances, and caused significantly more partial mortality than fireworm (Hermodice carunculata) or snail (Coralliophila spp.) predation. Recovery potential and long-term persistence of this species may be limited due to the persistent presence of disease and predation, and reproductive limitations. However, there is still potential at sites of greater depth and/or more protection hosted larger and healthier colonies creating potential refugia for this species.

Zone specific trends in coral cover, genera and growth-forms in the World-Heritage listed Ningaloo Reef

On coral reefs, changes in the cover and relative abundance of hard coral taxa often follow disturbance. Although the ecological responses of common coral taxa have been well documented, little is known about the ecological responses of uncommon coral taxa or of coral morphological groups across multiple adjacent reef zones. We used Multivariate Auto-Regressive State-Space modelling to assess the rate and direction of change of hard coral cover across a variety of coral genera, growth forms, and susceptibility to bleaching and physical damage covering multiple reef zones at northern Ningaloo Reef in Western Australia. Trends were assessed between 2007 and 2016, during which multiple episodic disturbances occurred including cyclones and a heatwave. We provide evidence of zone specific trends, not only in total hard coral cover, but also in taxonomic and morphological groups of corals at Ningaloo Reef. Declines in total coral cover on the reef flat corresponded with declines in fast growing corals, particularly Acropora. In contrast, total coral cover on the reef slope and inshore (lagoon) did not undergo significant change, despite divergent trajectories of individual genera. Importantly, we also show that changes in the composition of coral assemblages can be detected using a morphological based approach when changes are not evident using a taxonomic approach. Therefore, we recommend that future assessments of coral reef trends incorporate not just standard metrics such as total coral cover, but also metrics that provide for detailed descriptions of trends in common and uncommon taxa and morphological groups across multiple reef zones.

Investigating the efficacy of a proposed marine protected area for the Endangered humphead wrasse Cheilinus undulatus at a remote island group in Seychelles

The humphead wrasse Cheilinus undulatus is an iconic, ecologically important and Endangered fish species associated with coral reefs in the Indo-Pacific region. Due to its large size and complex life history characteristics, it is vulnerable to overfishing and has undergone substantial population declines in parts of its range. Knowledge of the species’ movement ecology is currently limited to only 2 previous studies, and very little is known about populations in the western Indian Ocean. The present study aimed to use passive acoustic telemetry to investigate the importance of a remote coral reef to a population of humphead wrasse in the Republic of Seychelles, and subsequently assess the efficacy of a proposed marine protected area at this location for protection of the species. Tagged fish (n = 20) exhibited persistent (>500 d) site fidelity, with low dispersal distances (mean ± SD: 6.44 ± 4.0 km) and restricted core activity spaces (50% Brownian bridge kernel utilization density: 0.91 ± 0.61 km2). Additionally, the study site was home to a group of large (total length 97.9 ± 20.6 cm) and currently unexploited humphead wrasse that showed long-term predictable site fidelity and thus could be vulnerable to over-exploitation. The establishment of a proposed no-take marine protected area at the study site would encompass the core home range area of all tagged humphead wrasse and could effectively conserve this stronghold of Endangered fish to ensure the persistence of the species in Seychelles waters.

Human exploitation shapes productivity-biomass relationships on coral reefs

Coral reef fisheries support the livelihoods of millions of people in tropical countries, despite large-scale depletion of fish biomass. While human adaptability can help to explain the resistance of fisheries to biomass depletion, compensatory ecological mechanisms may also be involved. If this is the case, high productivity should coexist with low biomass under relatively high exploitation. Here we integrate large spatial scale empirical data analysis and a theory-driven modelling approach to unveil the effects of human exploitation on reef fish productivity-biomass relationships. We show that differences in how productivity and biomass respond to overexploitation can decouple their relationship. As size-selective exploitation depletes fish biomass, it triggers increased production per unit biomass, averting immediate productivity collapse in both the modelling and the empirical systems. This 'buffering productivity' exposes the danger of assuming resource production-biomass equivalence, but may help to explain why some biomass-depleted fish assemblages still provide ecosystem goods under continued global fishing exploitation.

The Sensitivity of Multi-spectral Satellite Sensors to Benthic Habitat Change

Coral reef ecosystems are under stress due to human-driven climate change and coastal activities. Satellite-based monitoring approaches offer an alternative to traditional field sampling measurements for detecting coral reef composition changes, especially given the advantages in their broad spatial coverage and high temporal frequency. However, the effect of benthic composition changes on water-leaving reflectance remains underexplored. In this study, we examined benthic change detection abilities of four representative satellite sensors: Landsat-8, Sentinel-2, Planet Dove and SkySat. We measured the bottom reflectance of different benthic compositions (live coral, bleached coral, dead coral with algal cover, and sand) in the field and developed an analytical bottom-up radiative transfer model to simulate remote sensing reflectance at the water surface for different compositions at a variety of depths and in varying water clarity conditions. We found that green spectral wavelengths are best for monitoring benthic changes such as coral bleaching. Moreover, we quantified the advantages of high spatial resolution imaging for benthic change detection. Together, our results provide guidance as to the potential use of the latest generation of multi-spectral satellites for monitoring coral reef and other submerged coastal ecosystems.

Fluctuations in coral reef fish densities after environmental disturbances on the northern Great Barrier Reef

Global warming is predicted to increase the frequency and or severity of many disturbances including cyclones, storms, and prolonged heatwaves. The coral reef at Lizard Island, part of the Great Barrier Reef, has been recently exposed to a sequence of severe tropical cyclones (i.e., Ita in 2014 and Nathan in 2015) and a coral bleaching in the year 2016. Reef fishes are an essential part of the coral reef ecosystem, and their abundance is thus a good marker to estimate the magnitude of such disturbances. Here, we examined whether the recent disturbances at Lizard Island had an impact on the coral reef fish communities. To do this, we examined fish survey data collected before and after the disturbances for potential changes in total fish density post-disturbance. Also, by sorting fish species into 11 functional groups based on their trophic level (i.e., diet), we further explored the density changes within each functional group. Our findings showed an overall decline of 68% in fish density post-disturbance, with a significant density decrease in nine of 11 trophic groups. These nine groups were: browsers, corallivores, detritivores, excavator/scrapers, grazers, macro-invertivores, pisci-invertivores, planktivores, and spongivores. The piscivores, on the other hand, were the only "winners," wherein their density showed an increase post-disturbance. These changes within functional groups might have a further impact on the trophodynamics of the food web. In summary, our findings provide evidence that the fish assemblage on the reefs around Lizard Island was considerably affected by extreme weather events, leading to changes in the functional composition of the reef fish assemblage.

Biogeography of functional trait diversity in the Taiwanese reef fish fauna

The richness of Taiwanese reef fish species is inversely correlated to latitude as a direct consequence of the abiotic environment and its effects on benthic habitats. However, to date, no studies have investigated the variations in the diversity of traits (FD) linked with the role of these fishes in the ecosystem. FD is usually considered more sensitive than species richness in detecting early changes in response to disturbances, and therefore could serve as an indicator of ecological resilience to environmental changes. Here, we aim to characterize FD in the Taiwanese reef fish fauna and to document its regional variations. Six traits were used to categorize the 1,484 reef fish species occurring in four environmentally contrasted regions around Taiwan. The number of unique trait combinations (FEs), their richness (FRic), their redundancy (FR), their over-redundancy (FOR), and their vulnerability (FV) were compared among these regions. Overall, 416 FEs were identified. Their number decreased from south to north in step with regional species richness but FRic remained similar among regions. FR and FOR were higher to the south. At the local scale, variations in FEs and FRic are in concordance with the worldwide pattern of FD. High-latitude, impoverished fish assemblages, offer a range of trait combinations similar to diversified tropical assemblages. Increasing diversity in the latter mainly contributes to raising FR and supports already over-redundant entities. High vulnerability makes many combinations highly sensitive to species loss, and was higher at intermediate latitudes when using a fine resolution in trait categories. It suggests that the loss of FEs may first be characterized by an increase in their vulnerability, a pattern that could have been overlooked in previous global scale analyses. Overall, this study provides new insights into reef fish trait biogeography with potential ramifications for ecosystem functioning.

Decadal-scale response of detritivorous surgeonfishes (family Acanthuridae) to no-take marine reserve protection and changes in benthic habitat

No-take marine reserves (NTMR) are increasingly being implemented to mitigate the effects of fishing on coral reefs, yet determining the efficacy of NTMRs depends largely on partitioning the effects of fishing from the effect of benthic habitat. Species of coral-reef fishes typically decline in density when subjected to fishing or benthic disturbances, but this is not always the case. This study documents the long-term (8-31 years) response of six species of detritivorous surgeonfishes (family Acanthuridae) to NTMR protection and benthic habitat change at four islands (Apo, Sumilon, Mantigue, Selinog) in the central Philippines, each island with a NTMR and a monitored fished site. Despite being subject to moderate fishing pressure, these species did not increase in density with NTMR protection. However, density of these surgeonfishes had a strong negative relationship with cover of live hard coral and a strong positive relationship with cover of dead substratum (sand, rubble, hard dead substratum). These surgeonfishes typically feed over dead substrata and thus probably increase in density following large environmental disturbances that substantially reduce live hard coral cover. Here, we describe effects of environmental disturbance events (e.g., use of explosives, typhoons) that reduced live hard-coral cover and subsequent large increases (up to 25 fold) in surgeonfish densities, which then slowly (over 5-15 years) decreased in density as live hard coral recovered. Density of these functionally important surgeonfish species was influenced more by changes to benthic cover than by NTMR protection. Thus, we highlight the greater importance of bottom-up controls (i.e., benthic changes to food availability) than top-down control (i.e., fishing) on a functionally important group of coral-reef fishes.

Scenario planning with linked land-sea models inform where forest conservation actions will promote coral reef resilience

We developed a linked land-sea modeling framework based on remote sensing and empirical data, which couples sediment export and coral reef models at fine spatial resolution. This spatially-explicit (60 × 60 m) framework simultaneously tracks changes in multiple benthic and fish indicators as a function of land-use and climate change scenarios. We applied this framework in Kubulau District, Fiji, to investigate the effects of logging, agriculture expansion, and restoration on coral reef resilience. Under the deforestation scenario, models projected a 4.5-fold sediment increase (>7,000 t. yr-1) coupled with a significant decrease in benthic habitat quality across 1,940 ha and a reef fish biomass loss of 60.6 t. Under the restoration scenario, models projected a small (<30 t. yr-1) decrease in exported sediments, resulting in a significant increase in benthic habitat quality across 577 ha and a fish biomass gain of 5.7 t. The decrease in benthic habitat quality and loss of fish biomass were greater when combining climate change and deforestation scenarios. We evaluated where land-use change and bleaching scenarios would impact sediment runoff and downstream coral reefs to identify priority areas on land, where conservation or restoration could promote coral reef resilience in the face of climate change.

The importance of sponges and mangroves in supporting fish communities on degraded coral reefs in Caribbean Panama

Fish communities associated with coral reefs worldwide are threatened by habitat degradation and overexploitation. We assessed coral reefs, mangrove fringes, and seagrass meadows on the Caribbean coast of Panama to explore the influences of their proximity to one another, habitat cover, and environmental characteristics in sustaining biomass, species richness and trophic structure of fish communities in a degraded tropical ecosystem. We found 94% of all fish across all habitat types were of small body size (≤10 cm), with communities dominated by fishes that usually live in habitats of low complexity, such as Pomacentridae (damselfishes) and Gobiidae (gobies). Total fish biomass was very low, with the trend of small fishes from low trophic levels over-represented, and top predators under-represented, relative to coral reefs elsewhere in the Caribbean. For example, herbivorous fishes comprised 27% of total fish biomass in Panama relative to 10% in the wider Caribbean, and the small parrotfish Scarus iseri comprised 72% of the parrotfish biomass. We found evidence that non-coral biogenic habitats support reef-associated fish communities. In particular, the abundance of sponges on a given reef and proximity of mangroves were found to be important positive correlates of reef fish species richness, biomass, abundance and trophic structure. Our study indicates that a diverse fish community can persist on degraded coral reefs, and that the availability and arrangement within the seascape of other habitat-forming organisms, including sponges and mangroves, is critical to the maintenance of functional processes in such ecosystems.

Hydroacoustics as a tool to examine the effects of Marine Protected Areas and habitat type on marine fish communities

Hydroacoustic technologies are widely used in fisheries research but few studies have used them to examine the effects of Marine Protected Areas (MPAs). We evaluate the efficacy of hydroacoustics to examine the effects of closure to fishing and habitat type on fish populations in the Cabo Pulmo National Park (CPNP), Mexico, and compare these methods to Underwater Visual Censuses (UVC). Fish density, biomass and size were all significantly higher inside the CPNP (299%, 144% and 52% respectively) than outside in non-MPA control areas. These values were much higher when only accounting for the reefs within the CPNP (4715%, 6970% and 97% respectively) highlighting the importance of both habitat complexity and protection from fishing for fish populations. Acoustic estimates of fish biomass over reef-specific sites did not differ significantly from those estimated using UVC data, although acoustic densities were less due to higher numbers of small fish recorded by UVC. There is thus considerable merit in nesting UVC surveys, also providing species information, within hydroacoustic surveys. This study is a valuable starting point in demonstrating the utility of hydroacoustics to assess the effects of coastal MPAs on fish populations, something that has been underutilised in MPA design, formation and management.

Cross-scale habitat structure driven by coral species composition on tropical reefs

The availability of habitat structure across spatial scales can determine ecological organization and resilience. However, anthropogenic disturbances are altering the abundance and composition of habitat-forming organisms. How such shifts in the composition of these organisms alter the physical structure of habitats across ecologically important scales remains unclear. At a time of unprecedented coral loss and homogenization of coral assemblages globally, we investigate the inherent structural complexity of taxonomically distinct reefs, across five ecologically relevant scales of measurement (4–64 cm). We show that structural complexity was influenced by coral species composition, and was not a simple function of coral cover on the studied reefs. However, inter-habitat variation in structural complexity changed with scale. Importantly, the scales at which habitat structure was available also varied among habitats. Complexity at the smallest, most vulnerable scale (4 cm) varied the most among habitats, which could have inferences for as much as half of all reef fishes which are small-bodied and refuge dependent for much of their lives. As disturbances continue and species shifts persist, the future of these ecosystems may rely on a greater concern for the composition of habitat-building species and prioritization of particular configurations for protection of maximal cross-scale habitat structural complexity.

Coral reef mesopredators switch prey, shortening food chains, in response to habitat degradation

Diet specificity is likely to be the key predictor of a predator's vulnerability to changing habitat and prey conditions. Understanding the degree to which predatory coral reef fishes adjust or maintain prey choice, in response to declines in coral cover and changes in prey availability, is critical for predicting how they may respond to reef habitat degradation. Here, we use stable isotope analyses to characterize the trophic structure of predator-prey interactions on coral reefs of the Keppel Island Group on the southern Great Barrier Reef, Australia. These reefs, previously typified by exceptionally high coral cover, have recently lost much of their coral cover due to coral bleaching and frequent inundation by sediment-laden, freshwater flood plumes associated with increased rainfall patterns. Long-term monitoring of these reefs demonstrates that, as coral cover declined, there has been a decrease in prey biomass, and a shift in dominant prey species from pelagic plankton-feeding damselfishes to territorial benthic algal-feeding damselfishes, resulting in differences in the principal carbon pathways in the food web. Using isotopes, we tested whether this changing prey availability could be detected in the diet of a mesopredator (coral grouper, Plectropomus maculatus). The δ¹³C signature in grouper tissue in the Keppel Islands shifted from a more pelagic to a more benthic signal, demonstrating a change in carbon sources aligning with the change in prey availability due to habitat degradation. Grouper with a more benthic carbon signature were also feeding at a lower trophic level, indicating a shortening in food chains. Further, we found a decline in the coral grouper population accompanying a decrease in total available prey biomass. Thus, while the ability to adapt diets could ameliorate the short-term impacts of habitat degradation on mesopredators, long-term effects may negatively impact mesopredator populations and alter the trophic structure of coral reef food webs.

Coral reef grazer-benthos dynamics complicated by invasive algae in a small marine reserve

Blooms of alien invasive marine algae have become common, greatly altering the health and stability of nearshore marine ecosystems. Concurrently, herbivorous fishes have been severely overfished in many locations worldwide, contributing to increases in macroalgal cover. We used a multi-pronged, interdisciplinary approach to test if higher biomass of herbivorous fishes inside a no-take marine reserve makes this area more resistant to invasive algal overgrowth. Over a two year time period, we (1) compared fish biomass and algal cover between two fished and one unfished patch reef in Hawai'i, (2) used acoustic telemetry to determine fidelity of herbivorous fishes to the unfished reef, and (3) used metabarcoding and next-generation sequencing to determine diet composition of herbivorous fishes. Herbivore fish biomass was significantly higher in the marine reserve compared to adjacent fished reefs, whereas invasive algal cover differed by species. Herbivorous fish movements were largely confined to the unfished patch reef where they were captured. Diet analysis indicated that the consumption of invasive algae varied among fish species, with a high prevalence of comparatively rare native algal species. Together these findings demonstrate that the contribution of herbivores to coral reef resilience, via resistance to invasive algae invasion, is complex and species-specific.

Fishing degrades size structure of coral reef fish communities

Fishing pressure on coral reef ecosystems has been frequently linked to reductions of large fishes and reef fish biomass. Associated impacts on overall community structure are, however, less clear. In size-structured aquatic ecosystems, fishing impacts are commonly quantified using size spectra, which describe the distribution of individual body sizes within a community. We examined the size spectra and biomass of coral reef fish communities at 38 US-affiliated Pacific islands that ranged in human presence from near pristine to human population centers. Size spectra 'steepened' steadily with increasing human population and proximity to market due to a reduction in the relative biomass of large fishes and an increase in the dominance of small fishes. Reef fish biomass was substantially lower on inhabited islands than uninhabited ones, even at inhabited islands with the lowest levels of human presence. We found that on populated islands size spectra exponents decreased (analogous to size spectra steepening) linearly with declining biomass, whereas on uninhabited islands there was no relationship. Size spectra were steeper in regions of low sea surface temperature but were insensitive to variation in other environmental and geomorphic covariates. In contrast, reef fish biomass was highly sensitive to oceanographic conditions, being influenced by both oceanic productivity and sea surface temperature. Our results suggest that community size structure may be a more robust indicator than fish biomass to increasing human presence and that size spectra are reliable indicators of exploitation impacts across regions of different fish community compositions, environmental drivers, and fisheries types. Size-based approaches that link directly to functional properties of fish communities, and are relatively insensitive to abiotic variation across biogeographic regions, offer great potential for developing our understanding of fishing impacts in coral reef ecosystems.

Physiology can contribute to better understanding, management, and conservation of coral reef fishes

Coral reef fishes, like many other marine organisms, are affected by anthropogenic stressors such as fishing and pollution and, owing to climate change, are experiencing increasing water temperatures and ocean acidification. Against the backdrop of these various stressors, a mechanistic understanding of processes governing individual organismal performance is the first step for identifying drivers of coral reef fish population dynamics. In fact, physiological measurements can help to reveal potential cause-and-effect relationships and enable physiologists to advise conservation management by upscaling results from cellular and individual organismal levels to population levels. Here, we highlight studies that include physiological measurements of coral reef fishes and those that give advice for their conservation. A literature search using combined physiological, conservation and coral reef fish key words resulted in ~1900 studies, of which only 99 matched predefined requirements. We observed that, over the last 20 years, the combination of physiological and conservation aspects in studies on coral reef fishes has received increased attention. Most of the selected studies made their physiological observations at the whole organism level and used their findings to give conservation advice on population dynamics, habitat use or the potential effects of climate change. The precision of the recommendations differed greatly and, not surprisingly, was least concrete when studies examined the effects of projected climate change scenarios. Although more and more physiological studies on coral reef fishes include conservation aspects, there is still a lack of concrete advice for conservation managers, with only very few published examples of physiological findings leading to improved management practices. We conclude with a call to action to foster better knowledge exchange between natural scientists and conservation managers to translate physiological findings more effectively in order to obtain evidence-based and adaptive management strategies for the conservation of coral reef fishes.

Historical ecology and the conservation of large, hermaphroditic fishes in Pacific Coast kelp forest ecosystems

The intensive commercial exploitation of California sheephead (Semicossyphus pulcher) has become a complex, multimillion-dollar industry. The fishery is of concern because of high harvest levels and potential indirect impacts of sheephead removals on the structure and function of kelp forest ecosystems. California sheephead are protogynous hermaphrodites that, as predators of sea urchins and other invertebrates, are critical components of kelp forest ecosystems in the northeast Pacific. Overfishing can trigger trophic cascades and widespread ecological dysfunction when other urchin predators are also lost from the system. Little is known about the ecology and abundance of sheephead before commercial exploitation. Lack of a historical perspective creates a gap for evaluating fisheries management measures and marine reserves that seek to rebuild sheephead populations to historical baseline conditions. We use population abundance and size structure data from the zooarchaeological record, in concert with isotopic data, to evaluate the long-term health and viability of sheephead fisheries in southern California. Our results indicate that the importance of sheephead to the diet of native Chumash people varied spatially across the Channel Islands, reflecting modern biogeographic patterns. Comparing ancient (~10,000 calibrated years before the present to 1825 CE) and modern samples, we observed variability and significant declines in the relative abundance of sheephead, reductions in size frequency distributions, and shifts in the dietary niche between ancient and modern collections. These results highlight how size-selective fishing can alter the ecological role of key predators and how zooarchaeological data can inform fisheries management by establishing historical baselines that aid future conservation.

A Global Analysis of the Relationship between Farmed Seaweed Production and Herbivorous Fish Catch

Globally, farmed seaweed production is expanding rapidly in shallow marine habitats. While seaweed farming provides vital income to millions of artisanal farmers, it can negatively impact shallow coral reef and seagrass habitats. However, seaweed farming may also potentially provide food subsidies for herbivorous reef fish such as the Siganidae, a valuable target family, resulting in increased catch. Comparisons of reef fish landings across the central Philippines revealed that the catch of siganids was positively correlated to farmed seaweed production whilst negatively correlated to total reef fish catch over the same period of time. We tested the generality of this pattern by analysing seaweed production, siganid catch, and reef fish catch for six major seaweed-producing countries in the tropics. We hypothesized that increased seaweed production would correspond with increased catch of siganids but not other reef fish species. Analysis of the global data showed a positive correlation between farmed seaweeds and siganids in Southeast Asia (Indonesia, Malaysia, and the Philippines) but not Africa (Tanzania and Zanzibar), or the Western Pacific (Fiji). In Southeast Asia, siganid catch increased disproportionately faster with seaweed production than did reef fish catch. Low continuity, sporadic production and smaller volumes of seaweed farming may explain the differences.

Humans and seasonal climate variability threaten large-bodied coral reef fish with small ranges

Coral reefs are among the most species-rich and threatened ecosystems on Earth, yet the extent to which human stressors determine species occurrences, compared with biogeography or environmental conditions, remains largely unknown. With ever-increasing human-mediated disturbances on these ecosystems, an important question is not only how many species can inhabit local communities, but also which biological traits determine species that can persist (or not) above particular disturbance thresholds. Here we show that human pressure and seasonal climate variability are disproportionately and negatively associated with the occurrence of large-bodied and geographically small-ranging fishes within local coral reef communities. These species are 67% less likely to occur where human impact and temperature seasonality exceed critical thresholds, such as in the marine biodiversity hotspot: the Coral Triangle. Our results identify the most sensitive species and critical thresholds of human and climatic stressors, providing opportunity for targeted conservation intervention to prevent local extinctions.

Knowing which species traits may confer resilience to human-mediated stressors will help predict future impacts on biodiversity. Here, Mellin et al. show that large bodied fish with small geographic ranges are disproportionately affected by the negative impacts of human disturbance and climate variability.