Find research datasets worth reusing
Search datasets from major research repositories and use ShareScore to quickly assess how well each record supports discovery, access, and reuse.
495
datasets available to search
ShareScore release 0.9.0
Dataset results
495 results for “Reef Fishes”
FIG. 3 in A New Non-Invasive Technique for Temporarily Tagging Coral Reef Fishes
FIG. 3. Comparison of attachment time (hr) of tags by fish (Fish Identity) ordered by fish size (total length in mm). Box plots show medians, 25th, and 75th percentiles. Black dots represent outliers; gray dots represent total length of fish.
Data from: Giant coral reef fishes display markedly different susceptibility to night spearfishing
The humphead wrasse (Cheilinus undulatus) and bumphead parrotfish (Bolbometopon muricatum) are two of the largest, most iconic fishes of Indo-Pacific coral reefs. Both species form prized components of subsistence and commercial fisheries and are vulnerable to overfishing. C. undulatus is listed as Endangered and B. muricatum as Vulnerable on the IUCN Red List of Threatened Species. We investigated how night spearfishing pressure and habitat associations affected both species in a relatively lightly exploited setting; the Kia fishing grounds, Isabel Province, Solomon Islands. We used fisheries-independent data from underwater visual census surveys and negative binomial models to estimate abundances of adult C. undulatus and B. muricatum as a function of spearfishing pressure and reef strata. Our results showed that, in Kia, night spearfishing pressure from free divers had no measurable effect on C. undulatus abundances, but abundances of B. muricatum were 3.6 times lower in areas of high spearfishing pressure, after accounting for natural variations due to habitat preferences. It is likely the species' different nocturnal aggregation behaviours, combined with the fishers' use of night spearfishing by spot-checking underpin these species' varying susceptibility. Our study highlights that B. muricatum is extremely susceptible to night spearfishing; however, we do not intend to draw conservation attention away from C. undulatus. Our data relate only to the Kia fishing grounds, where human population density is low, the spot-checking strategy is effective for reliably spearing large numbers of fish, particularly B. muricatum, and fisheries have only recently begun to be commercialised; such conditions are increasingly rare. Instead, we recommend that regional managers assess the state of their fisheries and the dynamics affecting the vulnerability of the fishes to fishing pressure based on local-scale, fisheries-independent data, where resources permit.
Data from: Alternative functional strategies and altered carbon pathways facilitate broad depth ranges in coral-obligate reef fishes
Spatial refuges in peripheral habitats will become increasingly important for species persistence as climate change and other disturbances progressively impact habitat quality and assemblage compositions. However, the capacity for persistence will be determined in part by species‐specific abilities to absorb costs related to altered or decreased quantities and quality of resources at range peripheries. We compared variations in dietary strategies and energy acquisition trade‐offs along depth gradients in two obligate corallivores that differ in level of diet specialization. We also assessed depth‐related changes in energy pathways and energy content of their mixotrophic prey. We found no changes in feeding effort or total resource availability (total coral cover) towards deep range margins, but availability of the preferred resource (Acropora coral) decreased. While both species selectively targeted Acropora, the more specialized species (Chaetodon baronessa) exhibited limited feeding plasticity along the depth gradient. The degree of selectivity towards the preferred coral increased rather than decreased with depth, being 40 times greater than expected, given availability, at their range periphery. In contrast, the generalist's diet (Chaetodon octofasciatus) varied greatly in response to changes in resource availability with depth. Unexpectedly, the energy content of Acropora did not decline with depth, likely due to increased coral heterotrophy in deeper water, indicated by shifts in their molecular isotope geochemistry. This shift was accompanied by a 20% increase in plankton‐sourced carbon in the muscle tissue of deep‐resident fish, despite no observations of direct feeding on plankton food sources. Our results indicate that deep ranges in coral‐obligate reef fishes are supported by multiple mechanisms of trophic versatility in both the fish and corals. This nutritional plasticity likely serves a compensatory role in the resilience and eventual adaptation of organisms at their range peripheries. For species vulnerable to increasing anthropogenic impacts at range cores, variable and multi‐trophic functional responses can act to buffer against costs and increase the refuge potential of range peripheries. Specialist consumers may also be supported indirectly at range margins via trophic plasticity within their preferred prey.
Data from: Population genomics of local adaptation versus speciation in coral reef fishes (Hypoplectrus spp, Serranidae)
Are the population genomic patterns underlying local adaptation and the early stages of speciation similar? Addressing this question requires a system in which i. local adaptation and the early stages of speciation can be clearly identified and distinguished, ii. the amount of genetic divergence driven by the two processes is similar, and iii. comparisons can be repeated both taxonomically (for local adaptation) and geographically (for speciation). Here, we report just such a situation in the hamlets (Hypoplectrus spp), brightly colored reef fishes from the wider Caribbean. Close to 100,000 SNPs genotyped in 126 individuals from three sympatric species sampled in three repeated populations provide genome-wide levels of divergence that are comparable among allopatric populations (Fst estimate = 0.0042) and sympatric species (Fst estimate = 0.0038). Population genetic, clustering and phylogenetic analyses reveal very similar patterns for local adaptation and speciation, with a large fraction of the genome undifferentiated (Fst estimate ≈ 0), a very small proportion of Fst outlier loci (0.05-0.07%), and remarkably few repeated outliers (1-3). Nevertheless, different loci appear to be involved in the two processes in Hypoplectrus, with only 7% of the most differentiated SNPs and outliers shared between populations and species comparisons. In particular, a tropomyosin (Tpm4) and a previously identified hox (HoxCa) locus emerge as candidate loci (repeated outliers) for local adaptation and speciation, respectively. We conclude that marine populations may be locally adapted notwithstanding shallow levels of genetic divergence, and that from a population genomic perspective this process does not appear to differ fundamentally from the early stages of speciation.
FIGURE 1 in Fishes (Elasmobranchii and Actinopterygii) of Picãozinho reef, Northeastern Brazil, with notes on their conservation status
FIGURE 1. Map of the studied site in the northeastern Brazilian coast, located between two estuaries. Detailed reef map showing areas exposed during low tides (<0.3 m) and very low tides (<0.0 m) are highlighted in black and grey, respectively.
Figure 2 in Octopus mimicking its follower reef fish
Figure 2. (A) When moving alone, the octopus Octopus insularis adopts the bicolour pattern (taken from a video frame) similar to that of Cephalopholis fulva (B).
Figure 1 in Octopus mimicking its follower reef fish
Figure 1. (A) Octopus insularis (centre) followed by 10 Cephalopholis fulva. (B) While moving backwards jet-propelled, the octopus (centre) matches the bicolour contrasting pattern of the accompanying C. fulva, becoming inconspicuous within the fish group (taken from a video frame). (C) Detail of another fish–octopus group, showing the octopus matching another colour pattern (uniform brown) of C. fulva.
Data from: Larval dispersal and fishing pressure influence recruitment in a coral reef fishery
<ol> <li><span>Understanding larval connectivity patterns in exploited fishes is a fundamental prerequisite for developing effective management strategies and assessing the vulnerability of a fishery to recruitment overfishing and localised extinction. To date however, researchers have not considered how regional variations in fishing pressure also influence recruitment. </span></li> <li><span>We used genetic parentage analyses and modelling to infer the dispersal patterns of bumphead parrotfish (<i>Bolbometopon muricatum</i>) larvae in the Kia fishing grounds, Isabel Province, Solomon Islands. We then extrapolated our Kia dispersal model to a regional scale by mapping the available nursery and adult habitat for <i>B. muricatum</i> in six regions in the western Solomon Islands, and estimated the relative abundance of adult <i>B. muricatum</i> populations in each of these regions based on available adult habitat and historical and current fishing pressure. </span></li> <li><span><span>Parentage analysis identified 67 juveniles that were the offspring of parents sampled in the Kia fishing grounds. A </span>fitted larval dispersal kernel<span> predicted that 50% of larvae settled within 30 km of their parents, and 95% settled within 85 km of their parents. After accounting for unsampled adults, our model predicted that 34% of recruitment to the Kia fishery was spawned locally. Extrapolating the spatial resolution of the model revealed that a high proportion of the larvae recruiting into the Kia fishing grounds came from nearby regions that had abundant adult populations. </span>Other islands in the archipelago provided few recruits to the Kia fishing grounds, reflecting the greater distances to these islands and lower adult abundances in some regions. </span></li> <li> <em>Synthesis and <a>applications</a></em><em>: </em>This study shows how recruitment into a commercial reef fishery is influenced by larval dispersal patterns and regional variations in historical fishing pressure. The scales of larval connectivity observed for <i>B. muricatum</i> indicate that recruitment overfishing is unlikely if there are lightly exploited reefs up to 85 km away from a heavily fished region, and that small marine protected areas (MPAs) are insufficient to protect this species. We recommend greater efforts to understand the interactions between larval dispersal and gradients of fishing pressure, as this will enable the development of tailored fisheries management <a>strategies.</a> </li> </ol>
Non-reef habitats in a tropical seascape affect density and biomass of fishes on coral reefs
<p class="CxSpFirst">Non-reef habitats such as mangroves, seagrass, and macroalgal beds are important for foraging, spawning, and as nursery habitat for some coral reef fishes. The spatial configuration of non-reef habitats adjacent to coral reefs can therefore have a substantial influence on the distribution and composition of reef fish. We investigate how different habitats in a tropical seascape in the Philippines influence the presence, density, and biomass of coral reef fishes to understand the relative importance of different habitats across various spatial scales. A detailed seascape map generated from satellite imagery was combined with field surveys of fish and benthic habitat on coral reefs. We then compared the relative importance of local reef (within coral reef) and adjacent habitat (habitats in the surrounding seascape) variables for coral reef fishes. Overall, adjacent habitat variables were as important as local reef variables in explaining reef fish density and biomass, despite being fewer in number in final models. For adult and juvenile wrasses (Labridae), and juveniles of some parrotfish taxa (<i>Chlorurus)</i>, adjacent habitat was more important in explaining fish density and biomass. Notably, wrasses were positively influenced by the amount of sand and macroalgae in the adjacent seascape. Adjacent habitat metrics with the highest relative importance were sand (positive), macroalgae (positive) and mangrove habitats (negative), and fish responses to these metrics were consistent across fish groups evaluated. The 500-m spatial scale was selected most often in models for seascape variables. Local coral reef variables with the greatest importance were percent cover of live coral (positive), sand (negative), and macroalgae (mixed). Incorporating spatial metrics that describe the surrounding seascape will capture more holistic patterns of fish-habitat relationships on reefs. This is important in regions where protection of reef fish habitat is an integral part of fisheries management but where protection of non-reef habitats is often overlooked.</p>
A community and functional comparison of coral and reef fish assemblages between four decades of coastal urbanisation and thermal stress.
<p>Urbanised coral reefs experience anthropogenic disturbances caused by coastal development, pollution and nutrient runoff, resulting in turbid, marginal conditions in which only certain species can persist. Mortality effects are exacerbated by increasingly regular thermal stress events, leading to shifts towards novel communities dominated by habitat generalists and species with low structural complexity.</p> <p>There is limited data on the turnover processes that occur due to this convergence of anthropogenic stressors, and how novel urban ecosystems are structured both at the community and functional level. As such, it is unclear how they will respond to future disturbance events.</p> <p>Here, we examine the patterns of coral reef community change, and determine whether ecosystem functions provided by specialist species are lost post-disturbance. We present a comparison of community and functional trait-based changes for scleractinian coral genera and reef fish species assemblages subject to coastal development, coastal modification, and mass bleaching between two time periods, 1975-6 and 2018, in Nakagusuku Bay, Okinawa, Japan.</p> <p>We observed an increase in fish habitat generalists, a dominance shift from branching to massive/ sub-massive corals and increasing site-based coral genera richness between years. Fish and coral communities significantly reassembled, but functional trait-based multivariate space remained constant, indicating a turnover of species with similar traits. A compression of coral habitat occurred, with shallow (<5m) and deep (>8m) coral genera shifting towards the mid-depths (5-8m).</p> <p>We show that although reef species assemblages altered post disturbance, new communities retained similar ecosystem functions. This result could be linked to the stressors experienced by urban reefs, which reflect those that will occur at an increasing frequency globally in the near future. Yet, even after shifts to disturbed communities, these fully functioning reef systems may maintain high conservation value.</p>
Tropicalization of temperate reef fish communities facilitated by urchin grazing and diversity of thermal affinities
<p><b>Aim: </b>Global declines in structurally complex habitats are reshaping both land and seascapes in directions that affect biological communities' responses to warming. Here, we test whether widespread loss of kelp habitats through sea urchin overgrazing systematically changes sensitivity of fish communities to warming.</p> <p><b>Location: </b>Global temperate latitudes</p> <p><b>Time period: </b>Modern</p> <p><b>Major taxa studied: </b>Fishes</p> <p><b>Methods: </b>Community thermal affinity shifts related to habitat were assessed by simulating and comparing fish communities from 2,271 surveys across 15 ecoregions.</p> <p><b>Results: </b>We find that fishes in kelp and urchin barrens differ in realized thermal affinities and range sizes, but only in regions where species pools have high variability in species' thermal affinities. Barrens on warm-temperate reefs host relatively more warm-affinity fish species than neighbouring kelp beds, highlighting acceleration of tropicalization processes facilitated by urchin herbivory. By contrast, proportionally more cool-affinity fishes colonize barrens at high temperate latitudes, contributing to community lags with ocean warming in these regions.</p> <p><b>Main conclusions: </b>Our findings implicate urchins as drivers of ecological change, in part by affecting biological resilience to warming.</p>
Global patterns and drivers of beta diversity facets of reef fish faunas
<p><strong>Aim</strong>: Exploring the relationships between the different facets of beta diversity and both past and current environmental conditions can unveil the processes that have shaped spatial patterns of biodiversity. In the marine realm, large-scale patterns and processes of beta diversity have been less investigated. Our study aimed to investigate the patterns and drivers of multiple facets of beta diversity and its components, contrasting pairs of reef fish assemblages among marine realms.</p> <p><strong>Location</strong>: Tropical reefs.</p> <p><strong>Taxon</strong>: Reef fishes.</p> <p><strong>Methods</strong>: Based on trait data and phylogenetic relationships for 5,182 tropical reef fish species, we calculated compositional differences between pairs of reef fish assemblages across the Atlantic, Tropical Eastern Pacific (TEP), and Indo-Pacific realms. We also applied a partitioning approach to distinguish between the turnover and nestedness components. We then evaluated the relative importance of several variables related to historical and contemporary environmental conditions in shaping spatial patterns of beta diversity using Constrained Analysis of Principal Coordinates (CAP) models.</p> <p><strong>Results</strong>: Both the turnover and nestedness components contributed to total phylogenetic and taxonomic beta diversity in the TEP and Indo-Pacific realms, while the turnover component was found to be more important in the Atlantic realm. In contrast, total trait beta diversity displayed very low values and was primarily explained by the nestedness component. Taxonomic and phylogenetic differences in the composition of tropical reef fish assemblages were influenced by both historical and contemporary factors or solely by historical variables.</p> <p><strong>Main conclusions</strong>: Our results suggest that past climate changes and historical contingency left an imprint in the present-day composition of tropical reef fish assemblages. The very low levels of trait beta diversity indicate that reef fish assemblages display similar trait composition even among geographically distant assemblages with contrasting evolutionary histories, which may result from environmental filtering or evolutionary convergence, or the combination of both processes.</p>
Supporting data for: Whole genome sequencing reveals fine-scale environment associated divergence near the range limits of a temperate reef fish
<p>Environmental variation is increasingly recognized as an important driver of diversity in marine species despite the lack of physical barriers to dispersal and the presence of pelagic stages in many taxa. A robust understanding of the genomic and ecological processes involved in structuring populations is lacking for most marine species, often hindering management and conservation action. Cunner (<em>Tautogolabrus adspersus</em>), is a temperate reef fish with both pelagic early life history stages and strong site-associated homing as adults; the species is also of interest for use as a cleaner fish in salmonid aquaculture in Atlantic Canada. We aimed to characterize genomic and geographic differentiation of cunner in the Northwest Atlantic. To achieve this, a chromosome-level genome assembly for cunner was produced and used to characterize spatial population structure throughout Atlantic Canada using whole genome resequencing. The genome assembly spanned 0.72 Gbp and 24 chromosomes; whole genome resequencing of 803 individuals from 20 locations from Newfoundland to New Jersey identified approximately 11 million genetic variants. Principal component analysis revealed four regional Atlantic Canadian groups. Pairwise F<sub>ST</sub> and selection scans revealed signals of differentiation and selection at discrete genomic regions, including adjacent peaks on chromosome 10 across multiple pairwise comparisons (<em>i.e.</em>, F<sub>ST</sub> 0.5–0.75). Redundancy analysis suggested association of environmental variables related to benthic temperature and oxygen range with genomic structure. Results suggest regional scale diversity in this temperate reef fish and can directly inform the collection and translocation of cunner for aquaculture applications and the conservation of wild populations throughout the Northwest Atlantic.</p>
The effectiveness of Marine Protected Areas on the spatiotemporal patterns of reef fish in the Southwest Atlantic
Open the record for dataset details and reuse information.
Data from: Larval traits carry over to affect post-settlement behaviour in a common coral reef fish
Open the record for dataset details and reuse information.
Non-reef habitats in a tropical seascape affect density and biomass of fishes on coral reefs
Open the record for dataset details and reuse information.
Data from: Assessing the utility of eDNA as a tool to survey reef-fish communities in the Red Sea
Open the record for dataset details and reuse information.
Data from: Reef fish hybridisation: lessons learnt from butterflyfishes (genus Chaetodon)
Open the record for dataset details and reuse information.
Data from: Global ecological success of Thalassoma fishes in extreme coral reef habitats
Open the record for dataset details and reuse information.
Data from: Direct and indirect effects of nursery habitats on coral-reef fish assemblages, grazing pressure, and benthic dynamics
Open the record for dataset details and reuse information.
ScienceDex guides
Understand access before you commit
These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.