Search Results (272)

Understanding the biodiversity of aquatic communities and the underlying mechanisms that shape biodiversity patterns and community dynamics is crucial for the effective conservation and management of freshwater ecosystems. However, traditional survey methods often fail to comprehensively capture species diversity, particularly for low-abundance taxa. Moreover, studies integrating both metazoan and fish communities at fine spatial scales remain limited. To address these gaps, we employed a multi-marker eDNA metabarcoding approach, targeting both the 12S and 18S rRNA gene regions, to comprehensively investigate the composition of metazoan and fish communities in the Yujiang River. A total of 12 metazoan orders were detected, encompassing 15 families, 21 genera, and 19 species. For the fish community, 32 species were identified, belonging to 25 genera, 10 families, and 7 orders. Among these, Adula falcatoides and Coptodon zillii were identified as the most prevalent and abundant metazoan and fish species, respectively. Notably, the most prevalent fish species, C. zillii and Oreochromis niloticus, are both recognized as invasive species. The Bray–Curtis distance of metazoa (average: 0.464) was significantly lower than that of fish communities (average: 0.797), suggesting higher community heterogeneity among fish assemblages. Beta-diversity decomposition indicated that variations in the metazoan and fish communities were predominantly driven by species replacement (turnover) (65.4% and 70.9% for metazoa and fish, respectively) rather than nestedness. Mantel tests further revealed that species turnover in metazoan communities was most strongly influenced by water temperature, while fish community turnover was primarily affected by water transparency, likely reflecting the physiological sensitivity of metazoans to thermal gradients and the dependence of fish on visual cues for foraging and habitat selection. In addition, a co-occurrence network of metazoan and fish species was constructed, highlighting potential predator-prey interactions between native species and Corbicula fluminea, which emerged as a potential keystone species. Overall, this study demonstrates the utility of multi-marker eDNA metabarcoding in characterizing aquatic community structures and provides new insights into the spatial dynamics and species interactions within river ecosystems. Full article

Understanding how fish communities respond to long-term environmental changes in regulated floodplain ecosystems is essential for managing biodiversity amid increasing anthropogenic and climatic pressures. This study evaluates the spatiotemporal dynamics of functional diversity in juvenile fish assemblages within the Dnipro-Orilskiy Nature Reserve (Ukraine) from 1997 to 2015. By employing a combination of extensive ichthyological field surveys and satellite-derived environmental indices (including NDVI, chlorophyll-a, turbidity, and spectral proxies for algal blooms), we assessed the impacts of eutrophication, hydrological alterations, and climate warming on functional structure. Our results reveal three key responses in fish functional diversity: (1) a decline in functional specialization and imbalance, indicating the loss of unique ecological roles and increased redundancy; (2) a rise in functional divergence, reflecting a shift toward species with outlying trait combinations; and (3) a complex pattern in functional richness, with trends varying by site and trait structure. These shifts are linked to increasing eutrophication and warming, particularly in floodplain areas. Remote sensing effectively captured spatial variation in eutrophication-related water quality and proved to be a powerful tool for linking environmental change to fish community dynamics, not least in inaccessible areas. Full article

The Xingyi Fauna yields abundant and well-articulated skeletons of Ladinian (Middle Triassic, ab. 240 Ma) marine reptiles, associated with fishes, conodonts, crinoids, ammonoids, bivalves, arthropods, and other fossils including nannofossils and coprolites. It represents a new marine ecosystem fully developed after the end-Permian Mass Extinction, and characterized by the appearance of a diversity of large marine reptiles with large ichthyosaurs as the apex predators. Twenty marine reptile and 17 fish species have been reported. The sequence of the Xingyi Fauna records the transition from a marine ecosystem dominated by air-breathing tetrapods extending across the shallow platform to the deep ocean, as indicated by large marine reptiles with a capability for long-distance cruising into the outer sea. The faunal composition of the Lower Assemblage of the Xingyi Fauna, dominated by small- to medium-sized pachypleurosaurids and nothosaurids, is similar to that of the older Anisian Panxian Fauna and the western Tethyan Monte San Giorgio Fauna, but the faunal composition of the Upper Assemblage, with large ichthyopterygians, pistosauroid sauropterygians, and flying fishes, is similar to that of the younger Carnian Guanling Biota as well as the Raibl and Polzberg Faunas in the Alps and California. Therefore, the Xingyi Fauna can be considered a hub of paleobiogeological exchange connecting the western Tethys and the eastern Pathalassa. Full article

Coral restoration is essential for recovering depleted populations and reef ecological functions. However, its effect on enhancing fish assemblages remains understudied. This study investigated the integration of 3D-printed and natural Staghorn coral (Acropora cervicornis) out-planting to assess their role in enhancing benthic spatial complexity and attracting fish communities. Conducted between 2021 and 2023 at Culebra Island, Puerto Rico, we employed a before-after-control-impact (BACI) design to test four treatments: natural A. cervicornis, 3D-printed corals, mixed stands of 3D-printed and natural corals, and non-restored controls. Fish assemblages were monitored through stationary counts. Results showed that integrating 3D-printed and natural corals enhanced fish assemblages and their ecological functions. Significant temporal changes in fish community structure and biodiversity metrics were observed, influenced by treatment and location. Herbivore abundance and biomass increased over time, especially in live coral and 3D-printed plots. Reefs with higher rugosity exhibited greater Scarid abundance and biomass post-restoration. Piscivore abundance also rose significantly over time, notably at Tampico site. Fishery-targeted species density and biomass increased, particularly in areas with live and 3D-printed coral out-plants. Fish assemblages became more complex and diverse post-restoration, especially at Tampico, which supported greater habitat complexity. Before restoration, fish assemblages showed a disturbed status, with biomass k-dominance curves above abundance curves. Post-out-planting, this trend reversed. Control sites showed no significant changes. The study demonstrates that restoring fast-growing branching corals, alongside 3D-printed structures, leads to rapid increases in abundance and biomass of key fishery species, suggesting its potential role promoting faster ecosystem recovery and enhanced coral demographic performance. Full article

The Andean river basins of central–southern Chile face multiple anthropogenic disturbances, including water extraction, hydropower, mining, and industrial discharges, which affect their ability to adapt to new disturbances. Disturbance intensity forms a gradient from high (Maipo, Rapel, Biobío, Maule) through medium (Mataquito, Itata) to low (Imperial, Toltén). This study evaluated resilience in these eight river basins based on fish assemblages, using taxonomic and functional trait indices within the framework of the three Rs of resilience: resources, recruitment, and refugia. Taxonomic indices captured changes in species richness, abundance, diversity, evenness, and beta diversity, while functional traits reflected the fish species characteristics promoting resilience. Statistical tests revealed significant differences in resilience indices among basins. Recruitment was the most impacted resilience mechanism, with beta diversity revealing effects from river fragmentation in the Maipo, Rapel, and Biobío basins. The resources mechanism was also affected, primarily by land-use changes and water pollution, leading to low species richness in the Maipo, Rapel, Mataquito, and Maule river basins. Interestingly, basins with medium disturbance levels showed high resilience, indicating adaptive responses to moderate impacts. This study emphasizes the importance of multiple indicators to assess ecosystem resilience and calls for integrated strategies to address the complex challenges impacting freshwater biodiversity. Full article

Deep-sea trawling in the Mediterranean Sea, while economically significant, has profound ecological implications due to high discard rates and the practice’s impact on deep-sea biodiversity. This study examines the composition of discards and bycatch in Antalya Bay, a key deep-sea fishing area in the Eastern Mediterranean, during a commercial fishing season, focusing on seasonal and depth-related variations. Data were collected from deep-sea bottom trawl operations conducted between September 2016 and April 2017, analyzing species diversity and catch composition in terms of discarded and bycatch species. The results revealed an average discard rate of 70.7% of the total catch, with significant seasonal fluctuations. In total, 75 species were identified, comprising 48 Osteichthyes, 11 Elasmobranchii, 10 Crustacea, 4 Mollusca, 1 Brachiopoda, and 1 Echinodermata. Discarded species primarily consisted of juveniles of commercially valuable species (Merluccius merluccius and Lepidorhombus whiffiagonis), endangered elasmobranchs, and non-target benthic invertebrates. Depth-stratified analysis indicated that higher discard ratios and greater biodiversity loss occur at depths between 200 and 700 m, where slow-growing species and vulnerable deep-sea assemblages dominate. CPUE estimates for target, bycatch, and discarded species were calculated as 72.26, 145.12, and 385.52 kg/h, and CPUA values were calculated as 0.79, 1.59, and 2.92, respectively. These findings underscore the disproportionate impact of bottom trawling on deep-sea ecosystems and highlight the need for sustainable fisheries management strategies. Full article

Global coral reef ecosystems face various levels of disturbance pressure. Understanding the depth-structured variation in coral reef fish communities can help us to better grasp and predict the adaptive changes of the ecosystem under different stressors. This study applied eDNA metabarcoding technology to analyze the spatial distribution of the coral reef fish at various depths (0 m, 5 m, 10 m, 15 m, 20 m, 30 m, 40 m, 50 m, and 60 m) within the Xisha Islands of China. The results indicated that the eDNA technology detected a total of 213 amplicon sequence variants (ASVs), including 33 species that were not identified using traditional methods. Herbivorous fish generally dominated in relative abundance across different depths. Moreover, the similarity among depth groups was largely absent, and significant differences existed in fish assemblages across depth gradients, consistent with the unique depth preferences of fish microhabitats. Importantly, our findings revealed distinct depth-structured variation among different functional groups of coral reef fish. Large carnivorous fish initially increased and then decreased along the depth gradient from 0 to 60 m, with a turning point around 20 m, while large herbivorous fish displayed the opposite trend. Small carnivorous and small herbivorous fish consistently declined along the same depth gradient. Additionally, the Margalef index (D) and Function richness (FRic) both displayed a consistent downward trend with increasing depth, while the Shannon–Wiener index (H′), Pielou index (J′), Quadratic entropy (RaoQ), Functional dispersion (FDis), and Functional evenness (FEve) initially increased and then decreased, peaking around 20 m. This study revealed that eDNA metabarcoding is an effective tool for evaluating coral reef fish biodiversity, community composition, and spatial distribution. It enhances our understanding of distribution dynamics and offers valuable insights for coral reef conservation and restoration efforts. Full article

The tilapia (Oreochromis) aquaculture industry in Malaysia has expanded rapidly to meet the increasing demand for animal protein. However, this growth is challenged by microbial infections, particularly those caused by the emerging pathogen Aeromonas dhakensis. This study aimed to investigate the microbial community composition across four distinct tilapia farming systems and assess associated water physicochemical parameters, with a focus on detecting the presence of A. dhakensis and elucidating its environmental associations. Water physicochemical parameters were measured to evaluate environmental conditions, microbial communities were characterized through 16S rDNA metabarcoding, and A. dhakensis was detected using both microbiological and molecular approaches. Principal component analysis (PCA) and canonical correspondence analysis (CCA) were employed to explore the influence of environmental variables and microbial community dynamics on pathogen occurrence. Our results indicated that floating cages exhibited higher levels of temperature, ammonium, and fecal coliform, while cement tanks showed signs of nutrient accumulation. PCA revealed that both systems were associated with degraded water quality. A total of 45 A. dhakensis strains with distinct fingerprints were isolated. The 16S metabarcoding revealed Proteobacteria, Actinobacteria, and Planctomycetota as the dominant phyla. Alpha diversity did not differ significantly among pond systems, while beta diversity revealed variations in microbial assemblages across aquaculture systems. CCA identified dissolved oxygen, temperature, macronutrients (phosphate, ammonium, nitrate, and nitrite), and turbidity as significant environmental drivers shaping the microbial community structure across the pond systems. In conclusion, this study highlights the importance of environmental factors, particularly dissolved oxygen, temperature, and nutrient levels, in shaping microbial community composition and potentially influencing the presence of pathogenic bacteria such as A. dhakensis. These findings underscore the need for improved environmental management in tilapia aquaculture to mitigate disease risks and support fish health. Full article

Epipelagic fish communities dominate fish assemblages and are an important part of marine ecosystems due to their high abundance, vertical migration behavior, and global distribution. Purse seine fisheries are key components of marine fisheries in the tropical Western and Central Pacific Ocean (WCPO), primarily targeting skipjack tuna (Katsuwonus pelamis, SKJ), yellowfin tuna (Thunnus albacares, YFT), and bigeye tuna (Thunnus obesus, BET). In this study, WCPO purse seine fishery data from 2014 to 2022, combined with environmental factor data, were used, and Mantel tests and correlation analysis were employed to analyze the diversity, fish coexistence mechanisms, and environmental responses of catch communities under the following two different fishing strategies: free–swimming schools (FSCs) and drifting fish aggregating devices (DFADs). Mantel tests indicated that nitrate (NO_3⁻), the Oceanic Niño Index (ONI), and pH significantly impact the diversity of the FSCs community, whereas NO_3⁻ significantly affects the diversity of the DFADs community. Based on the correlation analysis results, in the FSCs community, yellowfin tuna was positively correlated with bigeye tuna, and yellowfin tuna was negatively correlated with skipjack tuna and black marlin (Istiompax indica, BLM). In the DFADs community, yellowfin tuna was only positively correlated with skipjack tuna and bigeye tuna. In addition, species with high correlations were also positively correlated. The results of this study provide a theoretical basis for the biodiversity conservation of catch communities under two different purse seine fishing strategies in the WCPO. Full article

In the late Cenozoic, the south-west of Eastern Europe was a region affected by extensive hydrological transformations that resulted in the retreat of the Eastern Paratethys and the emergence and further evolution of freshwater communities. In recent decades, a relatively rich fossil actinopterygian fauna has been described from this area. The present study was based on previous systematic studies and aimed to assess and trace the temporal dynamics of the diversity of fish assemblages that existed in the area from the Late Miocene until the end of the Pleistocene. Species diversity, taxonomic diversity, taxonomic complexity, and functional diversity were analysed. It was found that the diversity of the fish assemblages notably decreased during the Late Miocene, when representatives of the families Clariidae, Moronidae, Sciaenidae, and Gobiidae disappeared, and remained relatively low during the Pliocene. During the Pleistocene, however, functional diversity gradually increased, despite fluctuating species and taxonomic diversity and taxonomic richness and complexity, which suggests an increasing stability of the coenotic structure within the fish communities. The revealed temporal trends reflect the impact of the palaeoenvironmental and palaeoecological processes that characterised the region during the late Cenozoic, particularly orogenic and climatic changes, and the evolution of a typical limnophilous, lacustrine-riverine fish fauna. Full article

Otoliths are common in the fossil record and can provide important insight into the evolution and spatial and stratigraphic distribution of fishes, but have remained understudied in many areas of the world. Here, we describe the first marine otolith assemblage from East Africa. The material is from Tanzania Drilling Project cores of late Eocene to early Oligocene age, spanning the Eocene-Oligocene transition (EOT). The assemblage consists of 10 identifiable species of which 5 are new, and 4 remain in open nomenclature. The new species are as follows: Protanago africanus, Bregmaceros tanzaniensis, Ortugobius pandeanus, “Serranus” plasmaticus, and Acanthocepola signanoae. The association of shallow and deep-water taxa along with the dominance of the family Cepolidae, which has not been observed in either the extant or fossil record, makes the faunal composition unusual. However, when taxon occurrences are correlated with stable isotope records from the same cores and compared with previous studies, it is clear the otoliths reflect the sea-level fall known to occur during the EOT, with deeper dwelling taxa in the late Eocene and taxa preferring shallower, which are more shelf-like environments in the early Oligocene. Full article

This study investigated the fish species composition and environment of the Emur River, a tributary of the Upper Heilongjiang (Amur) River system, which is a typical extreme-cold region of China. From 2022 to 2024, 28 native species (27 species of fish and 1 species of lamprey), including 4 endangered species, were monitored from 14 sampling sites. When grouped according to the main stream vs. tributaries and summer vs. autumn, we found significant differences (p < 0.05) in the composition of the fish communities. In autumn, the main stream fish assemblage was dominated by common species that prefer a slow current, including Phoxinus phoxinus (33.7%), Lota lota (25.2%), and Phoxinus lagowskii (19.8%). The tributary fish assemblage was primarily composed of typical coldwater fish species, such as L. lota (48.9%), Cottus poecilopus (20.2%), and Thymallus grubii (18.1%). However, in summer, there was no significant difference between the main course and tributaries. Canonical correspondence analysis showed environmental factors, including water temperature, elevation, and dissolved oxygen, to have significant impacts on the fish distribution to an extent that varied with species. This study may contribute to the management of coldwater fish diversity in mountain rivers and the protection of aquatic species habitats in regions of extreme cold. Full article

Beta diversity is an important way to analyze community assembly mechanisms in different habitats or along environmental gradients. However, research on marine fish assemblages around islands has lagged, especially for functional beta diversity. In this study, we evaluated taxonomic and functional beta diversity change of island fish assemblages along the coast in two seasons and revealed its relationship with environmental factors and geographical distance. Taxonomic and functional beta diversity were both dominated by turnover (over 80% and 60%), while the contribution of nestedness on functional beta diversity was significantly increased. Environmental factors such as temperature and dissolved oxygen were important drivers of beta diversity rather than geographical distance. Fish assemblages around islands that are far away from mainlands or affected greatly by anthropogenic activities usually have higher beta diversity. These results indicated that environmental filtration is the primary factor driving the mechanism of fish community assembly. Our study revealed the importance of the integrated application of two facets of biodiversity to investigate beta diversity. The findings can provide theoretical support for the protection of marine fish and the planning of marine protected areas in the future. Full article

eDNA appears well positioned to play a significant role in the future of biomonitoring, and the need to assess the efficacy of eDNA-based surveys in a variety of habitats is increasing. We conducted an eDNA metabarcoding-based survey of fish communities in the Great Smoky Mountains National Park (GSMNP), located in eastern Tennessee and western North Carolina. The GSMNP, widely recognized as a biodiversity hotspot, encompasses 211,419 hectares of the Southern Appalachian Mountains with elevations up to 2205 meters and is home to approximately 73 species of fish, including 12 families and three species classified as endangered or threatened. We collected 50 water samples in first to sixth order streams at elevations of 336 to 1462 meters, including all major watersheds found in the park. eDNA was amplified utilizing two primer sets which each target differing regions of the 12S mitochondrial gene and generate amplicons of varying size (97 and 225 bp, respectively), and sequencing was conducted to an expected read depth of 400,000 reads per sample per marker. We detected a total of 40 fish species; of these, 36 were detected with the primer set which produces a 97 bp amplicon, and 12 of these 36 were detected only by this primer set. Species assemblages varied between stream orders, and species richness decreased with increasing elevation and increased with increasing stream order. Significant correlations were observed between biomass data from electrofishing monitoring (1984–2023) and eDNA metabarcoding read counts in five of seven species examined, including all salmonids. eDNA metabarcoding was demonstrated to be effective in assessing fish communities in high-elevation lotic systems in the Southern Appalachians, and our results suggest that primers targeting shorter amplicons may exhibit greater efficacy in these ecosystems. Full article

Ocean warming poses significant threats to coastal ecosystems. This study investigates the impact of thermal effluents from power plants, as proxies for climate-driven temperatures increase, on Posidonia oceanica meadows and associated fish communities. Using a gradient-based approach, we analyzed environmental variables, seagrass indicators, fish assemblages, and functional group (FG) dynamics across a thermal gradient extending from the effluent outfall itself. Results indicate that temperature is the dominant factor influencing P. oceanica, with reduced leaf length, shoot density, and rhizome weight characterizing samples closest to the effluent. Despite compensatory mechanisms, the overall photosynthetic biomass and resilience declined under thermal stress. Fish assemblages exhibited reduced species richness and biodiversity close to the thermal effluent, with opportunistic and thermophilic species dominating. An FG analysis revealed disrupted seasonal patterns, shifts in trophic dynamics, and functional compensation among species, highlighting potential ecological imbalances. Notably, transient predators thrived near the effluent, while more sedentary and temperate species were displaced. These findings underscore the cascading effects of rising temperatures on coastal habitats such as P. oceanica meadows and their associated communities, emphasizing the urgency for conservation measures. By identifying critical thresholds and adaptive responses, this study contributes valuable insights into the consequences of localized impacts of thermal stress on coastal biodiversity and ecosystem services. Full article