Functional diversity metrics detect spatio-temporal changes in the fish communities of a Caribbean marine protected area

Beyond taxonomy: A framework for biological trait analysis to assess the functional structure of benthic foraminiferal communities

Benthic foraminifera, as key components of marine and transitional ecosystems, provide a valuable opportunity to investigate the effects of environmental changes on marine biodiversity. While traditional taxonomic approaches have been instrumental in assessing benthic foraminifera assemblages, a trait-based approach offers a more holistic perspective on their ecological roles. This study introduces a framework for biological trait analysis (BTA) of benthic foraminifera, emphasizing the importance of morphological, physiological, and ecological traits. We examine the potential of morphogroup analysis as a precursor to BTA, acknowledging its limitations, and propose a list of functional traits relevant to benthic foraminifera. These include both response and effect traits, such as wall texture, test size, chamber arrangement, chamber disposition, pore density, pore size, life mode, feeding mode, bioturbation mode, respiration mode, association and indicative value. Additionally, we address the challenges and opportunities associated with quantifying and analyzing foraminiferal functional traits, and outline key statistical methods for exploring trait-environment relationships. By implementing BTA, we can evaluate the functional diversity and ecological roles of foraminiferal communities, identify the drivers of community structure, predict responses to environmental changes, and assess the impacts of anthropogenic disturbances on marine ecosystems.

Conservation benefits of a large marine protected area network that spans multiple ecosystems

Marine protected areas (MPAs) are widely implemented tools for long-term ocean conservation and resource management. Assessments of MPA performance have largely focused on specific ecosystems individually and have rarely evaluated performance across multiple ecosystems either in an individual MPA or across an MPA network. We evaluated the conservation performance of 59 MPAs in California's large MPA network, which encompasses 4 primary ecosystems (surf zone, kelp forest, shallow reef, deep reef) and 4 bioregions, and identified MPA attributes that best explain performance. Using a meta-analytic framework, we evaluated the ability of MPAs to conserve fish biomass, richness, and diversity. At the scale of the network and for 3 of 4 regions, the biomass of species targeted by fishing was positively associated with the level of regulatory protection and was greater inside no-take MPAs, whereas species not targeted by fishing had similar biomass in MPAs and areas open to fishing. In contrast, species richness and diversity were not as strongly enhanced by MPA protection. The key features of conservation effectiveness included MPA age, preimplementation fisheries pressure, and habitat diversity. Important drivers of MPA effectiveness for single MPAs were consistent across MPAs in the network, spanning regions and ecosystems. With international targets aimed at protecting 30% of the world's oceans by 2030, MPA design and assessment frameworks should consider conservation performance at multiple ecologically relevant scales, from individual MPAs to MPA networks.

From sight to sequence: Underwater visual census vs environmental DNA metabarcoding for the monitoring of taxonomic and functional fish diversity

Fish monitoring is essential for assessing the effects of natural and anthropic stressors on marine ecosystems. In this context, environmental DNA (eDNA) metabarcoding appears to be a promising tool, due to its efficiency in species detection. However, before this method can be fully implemented in monitoring programs, more studies are needed to evaluate its ability to assess the composition of fish assemblages compared with traditional survey methods that have been used for decades. Here, we used both eDNA metabarcoding and Underwater Visual Census (UVC) to assess the taxonomic and functional diversity (presence-absence data) of Mediterranean fish communities. We collected eDNA samples and performed UVC strip transects inside and outside four Marine Protected Areas in the Mediterranean Sea. Samples for eDNA analysis were collected by filtering seawater simultaneously at the surface and the bottom, and DNA was amplified using a combination of three sets of primers. We found that eDNA alone made an outstanding characterisation of fish composition with the detection of 95 % of the 60 taxa identified in this study, whereas UVC recovered only 58 % of them. Functional diversity was better evaluated with eDNA than with UVC, with the detection of a greater breadth of functional traits. eDNA was even better at characterising functional than taxonomic diversity, providing reliable information on ecosystem functioning with little sampling effort. Together these results suggest that eDNA metabarcoding offers great potential for surveying complex marine ecosystems. Combining eDNA metabarcoding and UVC in integrated monitoring programs would therefore improve monitoring strategies and enhance our understanding of fish communities, a key step promoting their conservation.

Marine protected areas are a useful tool to protect coral reef fishes but not representative to conserve their functional role

Anthropogenic actions have direct and indirect impacts on natural systems, leading to significant alterations in marine ecosystems worldwide. One of the most notable problems is species loss, as the disappearance of species from an area can compromise ecological functions. This is at the core of a severe biodiversity crisis. To address and reverse these processes, marine protected areas (MPAs) have been utilized as a crucial tool to mitigate species loss, increase biomass, and serve as a fisheries management tool. However, there is a lack of information assessing MPAs from the perspective of their contribution to maintaining ecological functions. In recent decades, functional diversity (FD) indices have been widely used to assess ecosystem functioning. In this paper, we conducted an assessment using a global database of reef fish abundance to analyze the effect of No-Take Zones (NTZ) on the FD and "true" diversity (TD) indices of tropical reef fish assemblages in seven tropical biogeographic regions. We found a significant protective effect for some indices, although these responses were dependent on the bioregion. At the bioregional level, NTZs included lower numbers of species and functional entities than open access areas. Consequently, the functional richness protected within these zones partially represented the functional diversity in each biogeographic province. However, smaller-scale functional diversity indices responded to NTZ protection depending on the bioregion. Therefore, these results reinforce that the assessed NTZs are responsive to the protection of functional diversity, although they are not sufficient for safeguarding ecosystem functions in tropical reefs. This highlights the importance of expanding the number of protection entities worldwide with management strategies focused on coral reef fish functionality, as well as effective local/regional assessments. Thus, a new paradigm is necessary in the planning and creation of MPAs to safeguard ecosystem functions, with a priority given to the protection of ecosystem functions and habitats.

Deciphering benthic ecosystem functioning and resilience in a major port and marine protected area via the multi-trait approach

The preservation of ecosystem functioning of coastal zones, in face of increasing environmental stressors and species extinctions, relies on the functional redundancy and inherent resilience of its inhabitants. To compare the benthic functioning and resilience of a disturbed area with a relatively less impacted area, a study was conducted in Mumbai Port and Malvan Marine Protected Area (MPA), which exhibited contrasting characteristics. The hypothesis posited that the anthropogenically influenced Mumbai port would exhibit lower functional parameters and resilience compared to Malvan. Overall, the MPA presented higher species richness and functional diversity with a greater presence of sensitive species, while Mumbai was dominated by the presence of opportunistic species, as anticipated. However, our findings demonstrated that despite varied trends in species diversity metrics, in both the coastal areas, the resemblance in benthic functioning was high due to similarity in dominant trait profiles. Surprisingly, Functional Richness was higher at Mumbai, while Functional Evenness, Divergence and Dispersion were comparable at both sites. The resilience, as quantified by Functional Redundancy, was also comparable at both areas attributable to the presence of clusters of species with similar traits and a low occurrence of rare traits. The combination of traits observed in both areas was influenced by the extant environmental conditions, as revealed by RLQ analyses. This study underscores the valuable insights provided by the application of Biological Trait Analysis (BTA) tool in deciphering the relationship between species diversity and ecosystem functioning, as well as the resilience capabilities of ecosystems subjected to varying levels of perturbation. Moreover, the incorporation of functional diversity indices yielded valuable inferences regarding ecosystems resilience, which can aid future ecosystem management strategies.

Fish functional diversity as an indicator of resilience to industrial fishing in Patagonia Argentina

The relationship between fish functional diversity and fishing levels at which its baselines shift is important to identify the consequences of fishing in ecosystem functioning. For the first time, the authors of this study implemented a trait-based approach in the Argentine Patagonian Sea to identify the vulnerability and spatiotemporal changes in functional diversity of fish assemblages incidentally captured by a trawling fleet targeting the Argentine red shrimp Pleoticus muelleri (Spence Bate, 1888) between 2003 and 2014. The authors coupled seven fish trophic traits to a reconstructed fish assemblage for the study area and by-catch and evaluated changes in fish species richness and four complementary functional diversity measures (functional richness, redundancy, dispersion and community trait values) along with fishing intensity, temporal use, latitudinal location and depth of fishing grounds, and vessel length. Resident fishes larger than 30 cm in length, with depressed and fusiform bodies, intermediate to high trophic levels, and feeding in benthic, demersal and midwater areas were vulnerable to by-catch. In addition, fish assemblages exhibited a low functional trait redundancy, likely related to species influxes in a biogeographic ecotone with tropicalisation signs. Significant increases in fish trait richness and dispersion poleward and deep suggested new functional roles in these grounds, matching trends in community body size, reproductive load, maximum depth and trophic level. Finally, a temporal increase in fish species and functional trait removal in fishing grounds led to trait homogenisation since 2003. The authors identified that tipping points in temperate fish functional trait diversity showed the importance of trait-based approaches within ecosystem-based fisheries management.

Exceptionally high but still growing predatory reef fish biomass after 23 years of protection in a Marine Protected Area

Marine Protected Areas (MPAs) help replenish fish assemblages, though different trophic levels may show diverse recovery patterns. Long-term protection is required to achieve total recovery but poaching events may prevent the achievement of full carrying capacity. Here, we have analysed the effect of long-term protection on the entire reef fish community and the different trophic levels in the Cabo de Palos-Islas Hormigas MPA (SE Spain; SW Mediterranean Sea) in order to assess their recovery patterns after 23 years of protection. We compared the values for carrying capacity obtained with the maximum values achieved at regional scale, and we assessed the effect of a reduction in the surveillance over a few years, during which poaching events increased, on the recovery patterns. We found that, overall, biomass of fishes increased with time while density diminished. In particular, piscivorous and macro-invertivore fish increased while the other trophic groups remained constant or declined, suggesting top-down processes. For the entire study period, those trophic groups were approaching carrying capacity; however, when accounting only for the period in which enforcement was high and constant, they grew exponentially, indicating that full carrying capacity may have not been achieved yet. When compared to other Mediterranean MPAs, the Cabo de Palos-Islas Hormigas MPA showed values for biomass that were disproportionately higher, suggesting that local factors, such as habitat structure and associated oceanographic processes, may be responsible for the dynamics found. Our results help to understand the potential trajectories of fish assemblages over a consolidated MPA and highlight empirically how the reduction of surveillance in a period may change the recovery patterns.

Functional diversity in the intertidal macrobenthic community at sewage-affected shores from Southwestern Atlantic

Sewage pollution effect in a coastal area of the Southwestern Atlantic was tested, through the use of analysis of biological traits (BTA) and functional indices. Changes in the macrobenthic functional structure between the sewage outfall site and remote sites were observed. At the site in the discharge point, functional features related to organic enrichment were observed, such as deposit feeders, burrow dwellers and inhabitants of tubes, with low relative mobility and opportunistic species of the first and the second order. The functional indexes (Evenness, Dispersion, and Functional Specialization) showed the highest values in the sites far from the discharge point. The AMBI was positively correlated with FRic and negatively with FEve and FSpe. The opposite occurred with the M-AMBI. BTA and functional indices showed the changes that occurred due to sewage impacts in the benthic assemblages on rocky coasts in SW Atlantic. Sewage pollution effect in a coastal area of the Southwestern Atlantic was tested, through the use of functional diversity metrics (analysis of biological traits and functional indices). Biological samples were taken during spring and autumn (2015-2016), in four sampling sites distributed at different distances from the sewage outfall. Changes in the macrobenthic functional structure between the sewage outfall site and remote sites were observed. The functional indexes (Evenness, Dispersion, and Functional Specialization) showed the highest values in the sites far from the discharge point. Correlations between functional and environmental quality indices (AMBI and M-AMBI) were significant. The AMBI was positively correlated with Functional Richness and negatively with Functional Evenness and Functional Specialization. The opposite occurred with the M-AMBI. The analysis of biological traits and functional diversity indices represent informative and useful tools to describe the different aspects of sewage impacts in the benthic assemblages on rocky coasts in SW Atlantic. At the site in the discharge point, functional features related to organic enrichment were observed, such as deposit feeders, burrow dwellers and inhabitants of tubes, with low relative mobility and opportunistic species of the first and the second order.

Functional stability despite anthropogenic influences on the ichthyofauna of a tropical bay

Classifying species into groups based on taxonomic relationship and functions are objective approaches to evaluate environmental and anthropogenic influences on coastal fishes. We evaluated temporal (1993-1995 and 2012-2015) changes in the taxonomic and functional indices in three zones of a tropical bay heavily impacted over the recent decades. We tested the hypothesis that both indices decrease over time as result of the environmental degradation. A decrease in the taxonomic richness and abundance was observed mainly of the inner zone. The functional structure remained relatively stable, but the functional originality decreased significantly between the two periods. This functional loss is of particular concern because the loss of species with unique treats may generate a series of ecosystem damage. This information tells us that the use of functional indices is essential to complement taxonomic assessments and to detect a more detailed understanding of the real dimension of biodiversity loss in impacted environments.