The Tree of Life eDNA metabarcoding reveals a similar taxonomic richness but dissimilar evolutionary lineages between seaports and marine reserves.

Coastal areas host a major part of marine biodiversity but are seriously threatened by ever-increasing human pressures. Transforming natural coastlines into urban seascapes through habitat artificialization may result in loss of biodiversity and key ecosystem functions. Yet, the extent to which seaports differ from nearby natural habitats and marine reserves across the whole Tree of Life is still unknown. This study aimed to assess the level of α and ß-diversity between seaports and reserves, and whether these biodiversity patterns are conserved across taxa and evolutionary lineages. For that, we used environmental DNA (eDNA) metabarcoding to survey six seaports on the French Mediterranean coast and four strictly no-take marine reserves nearby. By targeting four different groups-prokaryotes, eukaryotes, metazoans and fish-with appropriate markers, we provide a holistic view of biodiversity on contrasted habitats. In the absence of comprehensive reference databases, we used bioinformatic pipelines to gather similar sequences into molecular operational taxonomic units (MOTUs). In contrast to our expectations, we obtained no difference in MOTU richness (α-diversity) between habitats except for prokaryotes and threatened fishes with higher diversity in reserves than in seaports. However, we observed a marked dissimilarity (ß-diversity) between seaports and reserves for all taxa. Surprisingly, this biodiversity signature of seaports was preserved across the Tree of Life, up to the order. This result reveals that seaports and nearby marine reserves share few taxa and evolutionary lineages along urbanized coasts and suggests major differences in terms of ecosystem functioning between both habitats.

Ecological and human health risk assessment of potentially toxic element contamination in waters of a former asbestos mine (Canari, Mediterranean Sea): implications for management.

Between 1948 and 1965, the Canari asbestos mine (Corsica, France) discharged 11 million tonnes of serpentinite rubble into the sea. This study, therefore, aims to assess the environmental and health risks associated with contamination of potentially toxic elements using bioindicators (seagrass and fish) in the areas bordering the former mine within the perimeter of the Cap Corse and Agriate Marine Natural Park. The results and multivariate statistical analyses of the potentially toxic elements, made it possible to identify a concentration gradient, a model of bioaccumulation, and the occurrence of different groups, thus reflecting a spatial variation of the contamination. These results indicate that the former asbestos mine can still be considered, 55 years after its closure, as a major source of Co, Cr, and Ni for marine ecosystems and still influences the quality of the coastal area today. Our study, therefore, indicates that the two most polluted sites (Albo and Negru) are the closest stations to the south of the old Canary asbestos mine. According to the Trace Elements Pollution Index (TEPI) values, 6 species were classified as having a high contamination level: Scorpaena notata (1.37), Scorpaena porcus (1.36), Sepia officinalis (1.27), Diplodus vulgaris (1.02), Spicara maena (0.95), and Mullus surmuletus (0.94). Regarding the potentially toxic elements measured in the edible tissues of fish, the concentrations were all below the regulatory thresholds and did not reveal any potential risk to human health (Cd, Cu, Fe, Pb, Se, Sn, Zn). This work provides new and useful information to improve the monitoring of the environmental quality of a region characterized by previous mining activity and to assess the potential risk to human health due to the consumption of fish. Beyond the purely scientific aspects, these results could serve as decision support at the regional level for the definition of long-term public policies.

Environmental DNA metabarcoding reveals and unpacks a biodiversity conservation paradox in Mediterranean marine reserves.

Although we are currently experiencing worldwide biodiversity loss, local species richness does not always decline under anthropogenic pressure. This conservation paradox may also apply in protected areas but has not yet received conclusive evidence in marine ecosystems. Here, we survey fish assemblages in six Mediterranean no-take reserves and their adjacent fishing grounds using environmental DNA (eDNA) while controlling for environmental conditions. We detect less fish species in marine reserves than in nearby fished areas. The paradoxical gradient in species richness is accompanied by a marked change in fish species composition under different managements. This dissimilarity is mainly driven by species that are often overlooked by classical visual surveys but detected with eDNA: cryptobenthic, pelagic, and rare fishes. These results do not negate the importance of reserves in protecting biodiversity but shed new light on how under-represented species groups can positively react to fishing pressure and how conservation efforts can shape regional biodiversity patterns.

Perfluoroalkyl substances (PFAS) occurrence, concentrations and spatial distribution along the French Mediterranean coast and lagoons, based on active biomonitoring.

Tracking PFAS in ecosystems is challenging. In this context, monitoring programs are crucial to fill data gaps, especially in marine environments, which are the ultimate outlets for these forever chemicals. The 2021 chemical contamination monitoring campaign along the French Mediterranean coast established a baseline for PFAS concentrations in mussels, with 90 % of measurements below quantification limits. When detected, long-chain PFCA's were predominant. Spatial distribution patterns suggested continuous PFAS inputs and complex dynamics, shaped by the influence of large watersheds and rivers (Rhône, Aude, Huveaune). Lapeyrade shallow lagoon stood out as the most contaminated site. Similar PFAS profiles in connected sites implied shared sources but raised questions about accumulation processes in mussels. While certain sites had evident sources (e.g., military airbase for Palo lagoon), others remained uncertain (e.g., Toulon bay). Coastal stations (Banyuls, Cap Agde, Brégançon, Pampelonne) showed PFAS contamination without clear onshore sources, possibly due to insufficient transportation process understanding.

Early signals of Posidonia oceanica meadows recovery in a context of wastewater treatment improvements.

Natural ecological restoration is a cornerstone of modern conservation science and managers need more documented "success stories" to lead the way. In French mediterranean sea, we monitored Posidonia oceanica lower limit using acoustic telemetry and photogrammetry and investigated the descriptors driving its variations, at a national scale and over more than a decade. We showed significant effects of environmental descriptors (region, sea surface temperature and bottom temperature) but also of wastewater treatment plant (WWTP) effluents proxies (size of WWTP, time since conformity, and distance to the closest effluent) on the meadows lower limit progression. This work indicates a possible positive response of P. oceanica meadows to improvements in wastewater treatment and a negative effect of high temperatures. While more data is needed, the example of French wastewater policy should inspire stakeholders and coastal managers in their efforts to limit anthropogenic pressures on vulnerable ecosystems.

A Comparative Biomonitoring Study of Trace Metals and Organic Compounds Bioaccumulation in Marine Biofilms and Caged Mussels along the French Mediterranean Coast.

The bioaccumulation potential of contaminants in marine environments was investigated in biofilms and compared with caged mussels for a wide range of both organic and metallic contaminants across a large geographic area. Marine biofilms were sampled after three months of sub-surface immersion at 49 locations along the 1,800 km of the French Mediterranean coast. Ten chemical elements (i.e. As, Cd, Co, Cr, Cu, Hg, Mn, Ni, Pb, and Zn) and 57 organic compounds (i.e., 18 polycyclic aromatic hydrocarbons (PAHs), 8 dioxin-like and 6 non-dioxin-like polychlorinated biphenyls (PCBs) and 25 organochlorine pesticides (OCPs)) were quantified in triplicates, revealing different multi-contaminated profiles depending on sites. Most of contaminants exhibited higher concentrations in biofilms than in mussels. Moreover, a remarkable significant and positive correlation between the concentrations in both biological matrices was observed for PAHs and PCBs, and more contaminant-dependent for OCPs and metals. These results highlighted the potential of biofilms as relevant bioindicators of the marine chemical contamination.

The French Mussel Watch: More than two decades of chemical contamination survey in Mediterranean coastal waters.

Active biomonitoring of chemical contamination (e.g., Cd, Hg, Pb, DDT, PCB, PAH) in French Mediterranean coastal waters has been performed for more than two decades. This study aimed at presenting the current contamination in 2021 and the temporal evolution of concentrations from 2000. Based on a relative spatial comparison, low concentrations were measured in 2021 at most sites (>83 %). Also, several stations with moderate to high levels were highlighted in the vicinity of major urban industrial centers (e.g., Marseille, Toulon) and near river mouths (e.g., Rhône, Var). Over the last 20 years, no major trend was revealed, mostly, especially for the relative high-level sites. This likely constant contamination over time, plus slight increases of metallic elements at a few sites, still raise questions on the efforts that remain to be made. The decreasing trends of organic compounds, in particular PAH, provide evidence of the efficiency of some management actions.

Occurrence and distribution of PAHs in stranded dolphin tissues from the Northwestern Mediterranean.

There are few cetacean tissue-specific polycyclic aromatic hydrocarbon (PAH) concentration studies in the Mediterranean, despite this region is among the most subjected to chemical contamination. PAH analyses were conducted in different tissues of striped dolphins (Stenella coeruleoalba, N = 64) and bottlenose dolphins (Tursiops truncatus, N = 9) stranded along the French Mediterranean coastline from 2010 to 2016. Comparable levels were measured in S. coeruleoalba and T. trucantus (1020 and 981 ng g-1 lipid weight in blubber, 228 and 238 ng g-1 dry weight in muscle, respectively). The results suggested a slight effect of maternal transfer. The greatest levels were recorded by urban and industrial centers, and decreasing temporal trends were observed in males muscle and kidney, but not in other tissues. As a conclusion, the elevated levels measured could represent a serious threat to dolphins populations in this region, particularly by urban and industrial centers.

Anchoring pressure and the effectiveness of new management measures quantified using AIS data and a mobile application.

Large boats can have a major impact on sensitive marine habitats like seagrass meadows when anchoring. The anchoring preference of large boats and their impacts can be mapped using Automatic Identification System (AIS). We found a constant increase in the number of anchoring events with, until recently, a large part of them within the protected Posidonia oceanica seagrass meadows. French authorities adopted a new regulation in 2019 forbidding any anchoring within P. oceanica seagrass meadows for boats larger than 24 m. The number of large ships (>24 m) anchoring in P. oceanica meadows significantly decreased after the enforcement of the regulation. The surface of avoided impact thanks to the new regulation corresponds to 134 to 217 tons of carbon sequestered by the preserved meadow in 2022. This work illustrates that a strict regulation of anchoring, based on accurate habitat maps, is effective in protecting seagrass meadows.

Trends of banned pesticides and PCBs in different tissues of striped dolphins (Stenella coeruleoalba) stranded in the Northwestern Mediterranean reflect changing contamination patterns.

Although banned for years, organochlorine pesticides and PCBs continue to affect aquatic life, dolphins being particularly exposed. The concentrations of 31 PCB congeners, and 15 banned pesticides or metabolites were measured in 5 tissues of 68 striped dolphins stranded in the Northwestern Mediterranean coast in 2010-16. The results were compared to historical data (1988-2009) and, even though there is a slow decreasing trend, the levels in the 2010-2016 samples were still elevated based on common cetacean toxicological thresholds. A transition period in 2007-08, probably caused by a morbillivirus epizootic amplified the stranding, espacially of highly contaminated specimens. From 2010, higher proportions in parent compounds towards metabolites were observed yet again. These changing patterns were likely reflect the exposure of dolphins to the remobilization of pollutants from contaminated soils and sediments, with a prominent role of rivers. This should lead to an even slower decline of these contaminants that could last for decades, requiring new efforts to reduce their dispersal to aquatic ecosystems.

Biogeography of acoustic biodiversity of NW Mediterranean coralligenous reefs.

Monitoring the biodiversity of key habitats and understanding the drivers across spatial scales is essential for preserving ecosystem functions and associated services. Coralligenous reefs are threatened marine biodiversity hotspots that are challenging to monitor. As fish sounds reflect biodiversity in other habitats, we unveiled the biogeography of coralligenous reef sounds across the north-western Mediterranean using data from 27 sites covering 2000 km and 3 regions over a 3-year period. We assessed how acoustic biodiversity is related to habitat parameters and environmental status. We identified 28 putative fish sound types, which is up to four times as many as recorded in other Mediterranean habitats. 40% of these sounds are not found in other coastal habitats, thus strongly related to coralligenous reefs. Acoustic diversity differed between geographical regions. Ubiquitous sound types were identified, including sounds from top-predator species and others that were more specifically related to the presence of ecosystem engineers (red coral, gorgonians), which are key players in maintaining habitat function. The main determinants of acoustic community composition were depth and percentage coverage of coralligenous outcrops, suggesting that fish-related acoustic communities exhibit bathymetric stratification and are related to benthic reef assemblages. Multivariate analysis also revealed that acoustic communities can reflect different environmental states. This study presents the first large-scale map of acoustic fish biodiversity providing insights into the ichthyofauna that is otherwise difficult to assess because of reduced diving times. It also highlights the potential of passive acoustics in providing new aspects of the correlates of biogeographical patterns of this emblematic habitat relevant for monitoring and conservation.

Pharmaceuticals in the marine environment: What are the present challenges in their monitoring?

During the last years, there has been a growing interest in the research focused on the pharmaceutical residues in the environment. Those compounds have been recognized as a possible threat to aquatic ecosystems, due to their inherent biological activity and their "pseudo-persistence". Their presence has been relatively few investigated in the marine environment, though it is the last receiver of the continental contamination. Thus, pharmaceuticals monitoring data in marine waters are necessary to assess water quality and to allow enhancing future regulations and management decisions. A review of the current practices and challenges in monitoring strategies of pharmaceuticals in marine matrices (water, sediment and biota) is provided through the analysis of the available recent scientific literature. Key points are highlighted for the different steps of marine waters monitoring as features to consider for the targeted substance selection, the choice of the marine site configuration and sampling strategies to determine spatio-temporal trends of the contamination. Some marine environment specific features, such as the strong dilution occurring, the complex hydrodynamic and local logistical constraints are making this monitoring a very difficult and demanding task. Thus key knowledge gap priorities for future research are identified and discussed. Suitable passive samplers to monitor pharmaceutical seawater levels need further development and harmonization. Non-target analysis approaches would be promising to understand the fate of the targeted molecules and to enhance the list of substances to analyze. The implementation of integrated monitoring through long-term ecotoxicological tests on sensitive marine species at environmental levels would permit to better assess the ecological risk of these compounds for the marine ecosystems.

Zooplankton dynamics in a changing environment: A 13-year survey in the northwestern Mediterranean Sea.

Dynamics of the subsurface (2-3 m) mesozooplankton (i.e., > 200 µm) in the Bay of Calvi (Corsica, France) were explored, combining time series (2004-2016) of 14 zooplankton groups, wind gusts, water temperature, nitrate and chlorophyll-a. Zooplankton data was obtained through image analysis. While contrasted group-specific seasonal patterns were observed, the most productive zooplankton annual event occurred in April (spring peak), concentrating on average 25% of the total annual abundance. A "typical" year was defined based on the annual succession of different community states, highlighting particular years (2007, 2015 and 2012) mainly characterized by weak spring peak. Environmental influences on the interannual variability of zooplankton were explored and while relationship between chlorophyll-a and zooplankton abundance was unclear, the availability of nutrients (December-March), potentially mediated via the wind regime (October-January) seemed to be essential to the occurrence of the spring peak. Additionally, we observed an influence of temperature, with winter thermal thresholds (between 12.1 °C and 13.4 °C) conditioning the spring peak. Also, the occurrence of lower annual abundances after 2010 was synchronous with the sharp increase of seawater warming trend, especially regarding winter temperature (0.30 °C.year-1). Finally, winter North Atlantic Oscillation (NAO) was found to be correlated to both winter water temperature and spring peak abundance, which suggests large-scale processes to impact regional zooplankton community.

Boat anchoring pressure on coastal seabed: Quantification and bias estimation using AIS data.

Global shipping is economically important, but has many adverse environmental effects. Anchoring contributes greatly to this adverse impact, as it is responsible for mechanical disturbance of highly sensitive marine habitats. Recovery of these ecosystems is limited by slow regrowth. Anchoring pressure on coastal seabed habitats was estimated using AIS (Automatic Identification System) data along 1800km of Mediterranean coastline between 2010 and 2015. A comparison with field observations showed that these results were most consistent for large boats (>50m). An analysis of AIS data coupled with a seabed map showed that around 30% of the habitats between 0 and -80m exhibited anchoring pressure. Posidonia oceanica seagrass beds were the most impacted habitat in terms of duration. This methodology efficiently estimates spatial and temporal anchoring pressure principally due to large boats and should interest managers of marine protected areas as much as coastline managers.

Taxonomic and functional diversity increase the aesthetic value of coralligenous reefs.

The aesthetic value of landscapes contributes to human well-being. However, studies which have investigated the link between biodiversity and ecosystem services have not taken aesthetic value into account. In this study we evaluated how the aesthetics of coralligenous reefs, a key marine ecosystem in the Mediterranean, is perceived by the general public and how aesthetic preferences are related to biodiversity facets (taxonomic, phylogenetic and functional diversities). We performed both biodiversity measures and online-surveys of aesthetic perception on photographic quadrats sampled along the French Mediterranean coast. Our results show that species richness and functional richness have a significant positive effect on aesthetic value. Most of the ecological literature, exploring the relationship between biodiversity and ecosystem functioning and service has focused so far on 'economical' aspects of biodiversity (provision or regulation). Our results illustrate that cultural facets, such as 'beauty', should also be central in our motivations to preserve ecological diversity.

A chronicle of the changes undergone by a maritime territory, the Bay of Toulon (Var Coast, France), and their consequences on PCB contamination.

This study evaluated the distribution of polychlorinated biphenyls (PCBs) in 39 surface sediment samples and four cores collected in Toulon Bay, a semiclosed area submitted to various anthropogenic inputs. The concentration of PCBs in the superficial sediment samples ranged from 1.7 to 2530 ng g(-1) dry weight. The spatial distribution of these compounds suggested that the high concentrations of these contaminants are located in the small bay and are related to human activities. In the larger bay, the concentrations were in the same order of magnitude than those reported in others locations around the world. Comparison of the levels with target values from the French legislation shows that, except for four polluted sites with critical values (N2: values ≥1 mg kg(-1) dry weight) in the smaller bay, PCBs levels throughout the larger and the smaller bay are lower than the accepted values (N1: values <0.5 mg kg(-1) dry weight). The PCBs in the sediment cores ranged from 0.8 to 739 ng g(-1) dry weight dependent core. Vertical profiles indicated earlier usage of PCBs which coincided with the history of the Toulon Bay. In this study, using alkane, we could follow the PCBs pollution history over about 80 years and estimate a sedimentation rate of about 0.32 cm year in the small Bay of Toulon.

The seagrass Posidonia oceanica: Ecosystem services identification and economic evaluation of goods and benefits.

Posidonia oceanica is a marine angiosperm endemic from the Mediterranean. Despite their protection, its meadows are regressing. The economic valuation of ecosystem services (ES) assesses the contribution of ecosystems to human well-being and may provide local policy makers help in territorial development. To estimate the economic value of P. oceanica seagrass and the meadows that it forms to better account its presence in coastal development, identification and assessment of ES provided are first performed. Then goods and benefits (GB) and their economical values are estimated. In total, 25ES are identified and 7GB are economically evaluated. The economic value of GB provided by P. oceanica ranges between 25.3 million and 45.9 million€/year which means 283-513€/ha/year. Because of the lack of existing available data, only 7GB linked to 11/25ES have been estimated. Despite this overall undervaluation, this study offers a value for coastal development policies to take into account.

Fine-Scale Cartography of Human Impacts along French Mediterranean Coasts: A Relevant Map for the Management of Marine Ecosystems.

Ecosystem services provided by oceans and seas support most human needs but are threatened by human activities. Despite existing maps illustrating human impacts on marine ecosystems, information remains either large-scale but rough and insufficient for stakeholders (1 km² grid, lack of data along the coast) or fine-scale but fragmentary and heterogeneous in methodology. The objectives of this study are to map and quantify the main pressures exerted on near-coast marine ecosystems, at a large spatial scale though in fine and relevant resolution for managers (one pixel = 20 x 20 m). It focuses on the French Mediterranean coast (1,700 km of coastline including Corsica) at a depth of 0 to 80 m. After completing and homogenizing data presently available under GIS on the bathymetry and anthropogenic pressures but also on the seabed nature and ecosystem vulnerability, we provide a fine modeling of the extent and impacts of 10 anthropogenic pressures on marine habitats. The considered pressures are man-made coastline, boat anchoring, aquaculture, urban effluents, industrial effluents, urbanization, agriculture, coastline erosion, coastal population and fishing. A 1:10 000 continuous habitat map is provided considering 11 habitat classes. The marine bottom is mostly covered by three habitats: infralittoral soft bottom, Posidonia oceanica meadows and circalittoral soft bottom. Around two thirds of the bottoms are found within medium and medium high cumulative impact categories. Seagrass meadows are the most impacted habitats. The most important pressures (in area and intensity) are urbanization, coastal population, coastal erosion and man-made coastline. We also identified areas in need of a special management interest. This work should contribute to prioritize environmental needs, as well as enhance the development of indicators for the assessment of the ecological status of coastal systems. It could also help better apply and coordinate management measures at a relevant scale for biodiversity conservation.

Monitoring chemical contamination levels in the Mediterranean based on the use of mussel caging.

Within the framework of the biointegrator network (RINBIO), 92 man-made cages containing mussels (Mytilus galloprovincialis), distributed over 1800 km of the French Mediterranean coast, made it possible to assess chemical contamination by heavy metals (Cd, Hg, Zn, Pb, Cu, Ni, Cr, As) and organic compounds (DDT, PCBs, HAP). The caging technique was adopted to compensate for the scarcity of natural shellfish stocks in the Mediterranean and to enable comparison of the sites regardless of their physicochemical and trophic characteristics. Models linking a biometric parameter (the condition index) to pollutant levels make it possible to adjust raw data on contamination for a reference individual, by making a clear distinction between physiological factors (growth) and environmental ones. The results demonstrate significant levels of pollutants in sites heretofore unsampled; the pollution occurs at limited areas, and the sources have been identified. Moreover, average contamination levels are comparable to those measured in wild species and in other areas. Overall, the research demonstrates the reliability of this methodological approach for monitoring marine pollution, especially in the Mediterranean.

Fast and easy method for seagrass monitoring: application of acoustic telemetry to precision mapping of Posidonia oceanica beds.

Posidonia oceanica is an endemic seagrass from the Mediterranean Sea. It is an indicator of water quality and of the ecological state of coastal ecosystems. The aim of this paper is to test acoustic telemetry for monitoring the position of P. oceanica meadow limits with varied types. After evaluating the accuracy of the system, we present results from a spatiotemporal survey of P. oceanica meadows on nine sites located on the French coast. The method has been demonstrated to be highly efficient for high precision underwater mapping regardless of meadow type, with 1 cm accuracy for a distance of 40 m between the base and the pointer. A temporal survey led at Cerbere-Banyuls shows a weak global progression of 4 m² (progression of 26 m² - regression of 22 m²) between 2006 and 2010. Finally, we discuss the cost and efficiency of this method, and wether it should be generalized for further studies.