Accumulation curves of environmental DNA sequences predict coastal fish diversity in the coral triangle.
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ABSTRACT:
SUBMITTER: Juhel JB
PROVIDER: S-EPMC7423466 | biostudies-literature |
REPOSITORIES: biostudies-literature
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Project description:Global marine biodiversity peaks within the Coral Triangle, and understanding how such high diversity is maintained is a central question in marine ecology. We investigated broad-scale patterns in the diversity of clownfishes and their host sea anemones by conducting 981 belt-transects at 20 locations throughout the Indo-Pacific. Of the 1508 clownfishes encountered, 377 fish occurred in interspecific cohabiting groups and cohabitation was almost entirely restricted to the Coral Triangle. Neither the diversity nor density of host anemone or clownfish species alone influenced rates of interspecific cohabitation. Rather cohabitation occurred in areas where the number of clownfish species exceeds the number of host anemone species. In the Coral Triangle, cohabiting individuals were observed to finely partition their host anemone, with the subordinate species inhabiting the periphery. Furthermore, aggression did not increase in interspecific cohabiting groups, instead dominant species were accepting of subordinate species. Various combinations of clownfish species were observed cohabiting (independent of body size, phylogenetic relatedness, evolutionary age, dentition, level of specialization) in a range of anemone species, thereby ensuring that each clownfish species had dominant reproductive individuals in some cohabiting groups. Clownfishes are obligate commensals, thus cohabitation is an important process in maintaining biodiversity in high diversity systems because it supports the persistence of many species when host availability is limiting. Cohabitation is a likely explanation for high species richness in other obligate commensals within the Coral Triangle, and highlights the importance of protecting these habitats in order to conserve unique marine biodiversity.
| S-EPMC4822472 | biostudies-literature
Project description:Transcriptional profiling of gene responses in liver in the coral reef fish Pomacentrus moluccensis in response to different types of environmental stress: cold, heat, hypoxic and hyposmotic shock. Goal was to determine the common effects of different types of environmental stress on gene expression as well as responses unique to different stressors. Abstract from Kassahn et al. BMC Genomics (2007) 8:358 Background While our understanding of the importance of transcriptional regulation for biological function is continuously growing, we still know comparatively little about how environmentally-induced stress affects gene expression in vertebrates and how consistent transcriptional stress responses are across different types of environmental stress. Results In this study, we looked for a genetic measure of environmental stress and used a multi-stressor approach to identify components of a common stress response as well as components unique to different types of environmental stress. We exposed individuals of the coral reef fish Pomacentrus moluccensis to hypoxic, hyposmotic, cold and heat shock and measured the responses of approximately 16,000 genes in liver. We also compared winter and summer responses to heat shock to examine the capacity for such responses to vary with acclimation to different ambient temperatures. We identified a series of gene functions that were consistently involved in all stress responses examined here, suggesting common effects of stress on biological function. These common responses were achieved by the regulation of largely independent sets of genes and the responses of individual genes varied greatly across different stress types. However, we were able to identify groups of co-regulated genes, the genes within which shared similar functions. Given current estimates of climatic change, we were particularly interested in the response to prolonged heat exposure. In total, 324 gene loci were differentially expressed following exposure to heat over five days. The functions of these heat-responsive genes suggest that prolonged heat stress leads to oxidative stress and protein damage, challenge of the immune system, and a re-allocation of energy sources. Conclusion This is the first environmental genomic study to measure gene regulation in response to different environmental stressors in a natural population of a warm-adapted ectothermic vertebrate. This study offers insight into the effects of environmental stress on biological function and sheds light on the expected sensitivity of coral reef fishes to elevated temperatures in the future. Keywords: Stress response
2007-10-15 | GSE7499 | GEO
Project description:There is now a general consensus that biodiversity positively affects ecosystem functioning. This consensus, however, stems largely from small-scale experiments, raising the question of whether diversity effects operate at multiple spatial scales and flow on to affect ecosystem structure in nature. Here, we quantified rates of fish herbivory on algal turf communities across multiple coral reefs spanning >1000 km of coastline in the Dominican Republic. We show that mass-standardized herbivory rates are best predicted by herbivore biomass and herbivore species richness both within (α-diversity) and across sites in the region (β-diversity). Using species-diversity models, we demonstrate that many common grazer species are necessary to maximize the process of herbivory. Last, we link higher herbivory rates to reduced algal turf height and enhanced juvenile coral recruitment throughout the ecosystem. Our results suggest that, in addition to high herbivore biomass, conserving biodiversity at multiple scales is important for sustaining coral reef function.
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Project description:Coastal habitats are essential for ecological processes and provide important ecosystem services. The Galapagos archipelago has a wide diversity of ichthyofauna which preservation guarantees the functioning of the marine ecosystem. In this study, we used ecological and taxonomic indices as well as multivariate analysis to identify spatiotemporal changes in fish community structure in coastal habitats of San Cristóbal Island in the southeastern Galapagos archipelago. We analyzed how the patterns of variability were related to the abiotic conditions (substrate, sea temperature and depth) of each habitat. Nine sites affected by anthropogenic influence (fishing and tourism) representing different habitats/substrates were sampled. Underwater surveys were conducted during the warm and cold seasons in 2010 and 2011 at transects that varied in depth according to site. Artificial habitat, followed by coral and rocky habitats, had the highest diversity, evenness, and taxonomic distinctness, while mangrove habitats had the lowest values. This was related to the habitat complexity and possible anthropogenic influences. While the diversity patterns were more strongly related to the type of substrate, followed by the combination of substrate and depth, and the sea temperature had less influence. These findings were related to the ecological traits of the fish communities and their mobility between habitats. Temporal changes in fish community diversity and composition were not detected at all sites, suggesting that these species have high fidelity to their habitats and a high environmental tolerance that allows them to persist in their habitats despite strong changes in sea temperature on the Galapagos archipelago.
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Project description:The Mn2+ concentrations in the sagittae otoliths of 12 fish families (and 19 species) that co-occur in a coastal area of southeastern Brazil (~21°S) were quantified using electron paramagnetic resonance (EPR). Inferences were made about the relationship between fish habitat and trace element incorporation. Inferences were made on the relationship between trace element concentration and otolith shape. The differences in Mn2+ concentrations among the species suggest that habitat (and feeding habits) might drive the incorporation of this trace element into fish otoliths, with higher values in bottom-associated fish species than in surface-associated species. In surface-associated fish species, the correlation between trace element concentrations and otolith shape was stronger than in bottom-associated species. Thus, while the Mn bioavailability in a fish's habitat, especially from feeding resources, is a local driving influence of trace element incorporation in sagittae otoliths, species-specific requirements also have an influence. Quantitative EPR is a non-destructive technique that is very useful when the available samples cannot be damaged, like with otolith collections.
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Project description:Coral-associated microorganisms are thought to play a fundamental role in the health and ecology of corals, but understanding of specific coral-microbial interactions are lacking. In order to create a framework to examine coral-microbial specificity, we integrated and phylogenetically compared 21,100 SSU rRNA gene Sanger-produced sequences from bacteria and archaea associated with corals from previous studies, and accompanying host, location and publication metadata, to produce the Coral Microbiome Database. From this database, we identified 39 described and candidate phyla of Bacteria and two Archaea phyla associated with corals, demonstrating that corals are one of the most phylogenetically diverse animal microbiomes. Secondly, this new phylogenetic resource shows that certain microorganisms are indeed specific to corals, including evolutionary distinct hosts. Specifically, we identified 2-37 putative monophyletic, coral-specific sequence clusters within bacterial genera associated with the greatest number of coral species (Vibrio, Endozoicomonas and Ruegeria) as well as functionally relevant microbial taxa ("Candidatus Amoebophilus", "Candidatus Nitrosopumilus" and under recognized cyanobacteria). This phylogenetic resource provides a framework for more targeted studies of corals and their specific microbial associates, which is timely given the escalated need to understand the role of the coral microbiome and its adaptability to changing ocean and reef conditions.
| S-EPMC7379671 | biostudies-literature
Project description:One of the most prominent features of life on Earth is the uneven number of species across large spatial scales. Despite being inherently linked to energetic constraints, these gradients in species richness distribution have rarely been examined from a trophic perspective. Here we dissect the global diversity of over 3,600 coral reef fishes to reveal patterns across major trophic groups. By analyzing multiple nested spatial scales, we show that planktivores contribute disproportionally to the formation of the Indo-Australian Archipelago (IAA) marine biodiversity hotspot. Besides being "hotter" at the hotspot, planktivorous fishes display the steepest decline in species numbers with distance from the IAA when compared to other trophic groups. Surprisingly, we did not detect differences in diversification, transition, and dispersal rates in extant species phylogenies that would explain this remarkable gradient in planktivorous fish richness. Thus, we identify two potential complementary drivers for this pattern. First, exceptional levels of partitioning among planktivorous coral reef fishes were driven by temporally stable oceanographic conditions and abundant planktonic resources in the IAA. Second, extinctions of planktivores outside the IAA have been particularly pronounced during Quaternary climate fluctuations. Overall, our results highlight trophic ecology as an important component of global species richness gradients.
| S-EPMC7936278 | biostudies-literature
Project description:Environmental DNA (eDNA) metabarcoding has emerged as a potentially powerful tool to assess aquatic community structures. However, the method has hitherto lacked field tests that evaluate its effectiveness and practical properties as a biodiversity monitoring tool. Here, we evaluated the ability of eDNA metabarcoding to reveal fish community structures in species-rich coastal waters. High-performance fish-universal primers and systematic spatial water sampling at 47 stations covering ~11 km2 revealed the fish community structure at a species resolution. The eDNA metabarcoding based on a 6-h collection of water samples detected 128 fish species, of which 62.5% (40 species) were also observed by underwater visual censuses conducted over a 14-year period. This method also detected other local fishes (≥23 species) that were not observed by the visual censuses. These eDNA metabarcoding features will enhance marine ecosystem-related research, and the method will potentially become a standard tool for surveying fish communities.
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Project description:Ecosystem restoration aims to restore biodiversity and valuable functions that have been degraded or lost. The Coral Triangle is a hotspot for marine biodiversity held in its coral reefs, seagrass meadows, and mangrove forests, all of which are in global decline. These coastal ecosystems support valuable fisheries and endangered species, protect shorelines, and are significant carbon stores, functions that have been degraded by coastal development, destructive fishing practices, and climate change. Ecosystem restoration is required to mitigate these damages and losses, but its practice is in its infancy in the region. Here we demonstrate that species diversity can set the trajectory of restoration. In a seagrass restoration experiment in the heart of the Coral Triangle (Sulawesi, Indonesia), plant survival and coverage increased with the number of species transplanted. Our results highlight the positive role biodiversity can play in ecosystem restoration and call for revision of the common restoration practice of establishing a single target species, particularly in regions having high biodiversity. Coastal ecosystems affect human well-being in many important ways, and restoration will become ever more important as conservation efforts cannot keep up with their loss.
| S-EPMC5692552 | biostudies-literature
Project description:In this paper we describe the construction of an online GIS database system, hosted by WorldFish, which stores bio-physical, ecological and socio-economic data for the 'Coral Triangle Area' in South-east Asia and the Pacific. The database has been built in partnership with all six (Timor-Leste, Malaysia, Indonesia, The Philippines, Solomon Islands and Papua New Guinea) of the Coral Triangle countries, and represents a valuable source of information for natural resource managers at the regional scale. Its utility is demonstrated using biophysical data, data summarising marine habitats, and data describing the extent of marine protected areas in the region.
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