The food web in the lower part of the Seine estuary: a synthesis of existing knowledge

The Seine estuary illustrates the alterations to estuaries due to human activities heavy releases of pollutants of various origins and significant morphological changes beginning in the middle of the 19th century. The intertidal mudflat surface has been seriously reduced (< 30km²) since the channels of the Seine River came under management. While the role of the Seine estuary in the dynamics of the eastern English Channel ecosystem is recognized as important, the biological characteristics of the estuary remained relatively unknown until the 1990s. Biological diversity was progressively impoverished from the polyhaline zone to the oligohaline zone. In spite of a heavily contaminated environment, the macrobenthic and planktonic fauna of the Seine estuary remains similar to those of other northeastern Atlantic estuaries. The fauna exhibit clear contrasts between areas with very high abundance and others with very low abundance. The pelagic fauna, especially the copepod Eurytemora affinisand the shrimp Palaemon longirostris, are more abundant in the Seine estuary than in other estuaries. Diversified and abundant, Abra alba-Pectinaria koreni and Macoma balthica benthic communities occur, respectively, in the outer and inner parts of the estuary. In subtidal flats, benthic fauna is especially poor in terms of specific richness, abundance and biomass. Paradoxically, considering the high abundance of prey, fish are particularly scarce. Two food webs have been identified. In the oligohaline zone, where turbidity is maximum, the food web is exclusively planktonic, due to dredging that prevented benthic fauna from settling. In the polyhaline zone, fish populations that feed particularly on benthic fauna benefit from low turbidity and high oxygen concentrations. So, in spite of heavy organic and metallic contamination and human activities, the Seine estuary remains a highly productive ecosystem, which provides a nursery for marine fish and feeding grounds for migratory birds. A global management plan appears to be necessary in order to guarantee that the Seine estuary continues to function as it currently does.     

Growth and condition of 0-group European flounder, Platichthys flesus as indicator of estuarine habitat quality

The purpose of this present study was to use the growth rates, RNA–DNA ratio and morphometric (Fulton’s K) condition indices measured on 0-group juveniles European flounder, as a means of comparing the quality of estuarine nursery habitats. The Seine estuary, heavily impacted by manmade modifications and one of the most contaminated in Europe, was compared to two smaller estuaries considered as clean (low domestic, agricultural and industrial effluents). Indicators of human disturbance (sediment chemical contaminants) as well as biotic data (macrobenthos abundances) were used to establish between-site differences in environmental quality. The abundance of macrobenthos (potential preys for juvenile) was high and not significantly different among the three estuaries confirming the important role played by estuaries as feeding grounds. Sediment metal concentrations (Cd, Cr, Cu, Pb, Zn) were significantly higher in the Seine than in the Canche and Authie estuaries. Otolith growth was closely related to somatic fish growth, and we used daily otolith increments from the previous 10 days before capture as an indicator of 0-group flounder recent growth (RG). RG did not vary significantly among flounders from the Canche and Authie estuaries and individuals from the Seine had slower RG. RNA–DNA ratio and K values were also significantly lower in individuals from the Seine compared to those of the Authie or the Canche. Pollution (e.g. metal contaminants) is the most likely cause of growth and condition differences among estuaries. The results of this study suggest that habitat-specific fish growth and condition are useful proxies for habitat quality since they integrate the effect of multiple environmental factors. Handling editor: P. Viaroli     

Filling of a wetland (Seine estuary,France): natural eutrophication or anthropogenic process? A sedimentological and geochemical study of wetland organic sediments

Hydrobiologia - For over a century the Seine estuary has been highly affected by human activities, resulting in a reduction of the surface of wetland habitat. Several ponds of the Vernier Marsh,...     

Connectivity between estuaries and marine environment: Integrating metrics to assess estuarine nursery function

Natural or anthropogenic induced variations in estuaries and the dynamics of marine fish populations potentially promote differences in connectivity between estuaries and marine areas, i.e. in their importance as nursery grounds. Within this context, an integrated assessment of the differential nursery function of the main estuaries along the Portuguese coast for commercial fish species common sole Solea solea, Senegalese sole Solea senegalensis, flounder Platichthys flesus and sea bass Dicentrarchus labrax was performed through several indicators based on available data. Contribution of individual estuaries to marine subpopulations was measured with potential metrics (juvenile density, habitat quantity, juvenile number and habitat quality within estuaries) and effective metrics (estuarine source of young adults in marine environment measured via otolith elemental fingerprints). The relationship between the two types of metrics was also assessed. Estuaries identified as important nursery and/or effective juvenile habitat (EJH) differed with species and no single estuary was best for all, highlighting species-specific regulation of nursery function. Multiple species assessment of nursery and EJH function differed among estuaries. Management and conservation of estuaries should focus on sites with higher contributions to adult subpopulations of multiple species. The importance of defining precise scientific and management objectives was emphasized by the different rankings of estuaries obtained with nursery or EJH criteria. Potential and effective contribution of estuaries were not significantly correlated, but in a quantitative analysis juvenile densities and number of juveniles seem related with effective contribution in some species. An agreement between potential and effective contributions of estuaries is concurrent with the acknowledged minor role of juvenile stage processes in regulation of recruitment to adult subpopulations.     

The role of connectivity and physicochemical conditions in effective habitat of two exploited penaeid species

The value of estuarine habitats is often measured by their contribution to the adult component of the population, but a broader suite of attributes can also contribute to nursery function. Identifying and quantifying these elements allows habitat repair to be effectively targeted toward improving ecosystem function for desirable species. We present a study that incorporates stable isotopes and quantitative sampling to investigate the relative importance of different estuarine areas for juveniles of exploited prawn species within the context of habitat rehabilitation, and the potential drivers of these relationships. Eastern King Prawn (Penaeus [Melicertus] plebejus) and School Prawn (Metapenaeus macleayi) were studied for two years in the lower Hunter River estuary, on the temperate east coast of Australia. The higher salinity areas near the lower end of the estuary were most important for Eastern King Prawn, and marsh systems in the lower estuary were only important for the species where there was good connectivity with oceanic water. Areas along the estuary were important for juvenile School Prawn, especially marsh habitats, and relative abundance tended to increase with increasing distance along the estuary. Designation of effective juvenile habitat for School Prawn may have been affected by high fishing mortality in fished areas, but this requires further investigation. Salinity, depth, turbidity and distance along the estuary were all important indicators of prawn distribution. The implications of these patterns for current and future habitat rehabilitation in temperate Australia are discussed.     

Comparison of growth and condition indices of juvenile flatfish in differentcoastal nursery grounds

Coastal and estuarine ecosystems in the eastern channel and southern bight of the North Sea provide nursery habitats for juvenile fishes. We examined the age 0-group juveniles of three flatfish speciesSolea solea, Limanda limanda and Pleuronectes platessa, collected in five nursery areas with different characteristics (three sites located near small estuaries and two affected by important inputs of industrial effluents), to evaluate habitat influence on their growth and condition. We measured a biochemical index (RNA:DNA ratio), a morphometric index (Fultons K condition index), plus a recent growth index (marginal otolith increment width) on each individual (about 3months old), collected during surveys in autumn 1999. The three indices displayed few significant differences among the five nursery sites and different patterns for each species. We suggest that the investigated nursery areas provide habitats of equivalent quality for the age 0-group juvenile flatfishes in spite of different anthropogenic disturbances. On the other hand, this study focuses on the importance of using different biological indicators to assess habitat quality and environmental stressors in coastal areas.     

Habitat specific growth rates and condition indices for the sympatric soles Solea solea (Linnaeus, 1758) and Solea senegalensis Kaup 1858, in the Tagus estuary, Portugal, based on otolith daily increments and RNA-DNA ratio

Habitat specific growth rates and condition indices were estimated for Solea solea and Solea senegalensis, in two nursery areas within the Tagus estuary, at the end of the estuarine colonization process, in 2005. While in the uppermost nursery area the two species of sole live in sympatry, in the lower nursery only S. senegalensis is present. Daily increments of left lapillar otoliths were used to estimate age (in days) and determine growth rates (mm per day). Condition indices were assessed through RNA‐DNA ratio in muscle samples. Growth rates were higher for S. senegalensis (0.970and 1.180 mm per day in nursery A and B, respectively) than for S. solea (0.767 mm per day in nursery A). Growth rates of S. senegalensis from the uppermost nursery area were lower when compared to those obtained for the other nursery. The RNA/DNA condition index followed the general trend given by the growth rate estimates, i.e. values were higher for S. senegalensis than for S. solea. However, no significant differences were detected in S. senegalensis from the two nurseries. Larger variations in salinity (10‰ amplitude in the uppermost nursery vs 0.2‰ in the lower nursery) and highest pollution loads may be important factors lowering the habitat quality of the uppermost nursery in comparison to the lower nursery. The use of growth rate estimates based on otolith readings and the RNA/DNA index as tools for habitat quality assessment was discussed.     

Typical features of particulate phosphorus in the Seine estuary (France)

During the 2001–2002 hydrological cycle, 8,000 tons P year⁻¹ (44% as particulate phosphorus) originating from the Seine basin entered the Seine estuary. P content in suspended sediments (SS) is 2.9 g P kg⁻¹ (80% as inorganic form) at Poses (the upstream limit of the Seine estuary). During the transfer from Poses to Caudebec (the limit of saline water intrusion), Particulate Inorganic Phosphorus (PIP) in SS decreases by 40% whereas Particulate Organic Phosphorus (POP) remains stable. This decrease is explained as the result of (i) a dilution by SS poorer in P, originating from storage zones (mudflats) within the estuary, and (ii) a loss of P by sedimentation, especially in the Rouen harbour where 15% to 20% of SS are yearly trapped and extracted. Downstream, in the turbidity maximum of the estuary, P content in SS is twice as low as at Poses (1.5 g P kg⁻¹, 70% as inorganic form). PIP content is fairly homogeneous both vertically and throughout an annual survey. On the other hand, POP varies by season. Higher POP content is observed during vernal period with phytoplankton accumulation. In a salinity gradient from 0 to 30 (PSS78), PIP content further decreases by 30%. POP does not vary much in this gradient, leading to the assumption that PIP is submitted to desorption in response to the dilution by marine waters (poor in orthophosphates). Using ³²P isotopic method, we establish a mathematical formulation of P exchangeable between the suspended solid and water phases of the Seine estuary. Particulate P in the turbidity maximum zone is shown to represent a possible source of dissolved P, available for algal growth in the Seine Bight. Instead of playing a role of nutrient retention, the turbidity maximum zone of the Seine estuary could favour coastal eutrophication.     

Evaluating ecosystem-level anthropogenic impacts in a stressed transitional environment: The case of the Seine estuary

During 2002–2005, a new container terminal in the commercial harbour of Le Havre, named “Port2000”, was built on the northern flank of the Seine estuary, northern France. This extension is already known to have modified the estuary current and sediment dynamics, as well as reducing biomass of the suprabenthos assemblage, for the whole downstream part of the system. However, studies on other biotic communities were largely inconclusive, and an ecosystem-wide analysis was still lacking. Here, we performed a before/after study of ecosystem dynamics of the different habitats of the Seine estuary, using a Linear Inverse Modelling technique (LIM-MCMC) to estimate all flows occurring in the food web. Ecological Network Analysis indices were calculated, summarising ecosystem functioning traits and giving indications about the habitat health status. Results showed that the southern flank (FS, Fosse Sud) exhibits all characteristics to be considered as the least stressed habitat of the estuary: system activity and functional specialisation of flows were stable between periods, ecosystem recycling processes and detrital dynamics were also stable; an increase in trophic specialisation (decrease in system omnivory) was the only change confirming a general ecological succession. The northern flank (FN, Fosse Nord), where the actual terminal was built, showed a food web with increased importance of lower trophic levels (increased detritivory and carbon recycling), increased stability and flow efficiency, but possibly regressed to a previous step in ecological succession. In the central navigation channel (CH), patterns of network indices were overall inconclusive and the general image is one of a constantly shifting food web, a condition possibly caused by the year-round dredging activities. The functioning of the Seine estuary – especially of FN and FS – seems to have been modified by the combination of harbour construction and the related mitigation measures. Network indices partially captured this combination of changes and, although not fully operational yet, they are promising tools to comply with the European Union mandate of defining ecosystem health status.     

Assessing nursery habitat quality for native smelts (Osmeridae) in the low-salinity zone of the San Francisco estuary

Habitat quality was assessed for two native osmerids, delta smelt Hypomesus transpacificus and longfin smelt Spirinchus thaleichthys , between two distinct nursery areas located in the low-salinity zone of the San Francisco estuary. The relationship between several variables was investigated including fish density, fish size, feeding success and the general condition of larvae as well as juveniles for both species. The nursery habitats that were evaluated included the North and South Channels of Suisun Bay. The results showed higher densities of zooplankton and decreased water velocities for the North Channel when compared to the South Channel. The dominant prey item was calanoid copepod Pseudodiaptomus forbesi for both species although longfin smelt residing in the North Channel also included another copepod in their diets, Acanthocyclops spp. In both locations, delta smelt fed predominantly during daytime flood tides, while longfin smelt feeding appeared to continue into the night hours. When both locations were compared, delta smelt in the North Channel exhibited higher densities, larger sizes, increased somatic condition and larvae <15 mm standard length demonstrated greater feeding success. Longfin smelt, exhibited similar densities, feeding success and size distributions between both channels, but generally showed poorer somatic condition for the South Channel, potentially due to energetic costs associated with documented vertical migration behaviour. Overall, the physical conditions of the North Channel provided superior habitat for both species, while the South Channel afforded only marginal habitat for longfin smelt and very poor habitat for delta smelt. Therefore, the North Channel of Suisun Bay acts as critical nursery habitat by providing better feeding and growing conditions leading to increased health and survival for both species.     

Spatial and temporal patterns in the contribution of fish from their nursery habitats

Because anthropogenic influences threaten the degradation of many ecosystems, determining where organisms live during early life-history stages and the extent to which different areas contribute individuals to adult populations is critical for the management and conservation of a species. Working in Puget Sound, Washington State in the United States, and using a common flatfish (English sole, Parophrys vetulus), we sought to establish (using otolith chemistry) which areas contribute age-0 fish to age-1 population(s), the extent to which this pattern was consistent between two years, and whether this spatial pattern of contribution coincides with surveys of age-0 fish and/or the available area of nearshore habitat. Our study indicated completely different spatial patterns of fish nursery use between the two years of sampling. We highlight that the contribution of individuals from nursery areas is not related to density of recently settled English sole or the available area of nearshore habitat (depth <10 m) in Puget Sound, nor can we draw conclusions based on environmental data (precipitation, water salinity, light transmission, pH, dissolved oxygen, and water temperature). The results of this study highlight (1) the need for assessing the temporal patterns of nursery habitat use, and (2) that, in order to conservatively manage a species and its population(s), it may be necessary to protect several areas that are used intermittently by that species.     

Assessing the quality of four inshore habitats used by post yolk‐sac Alosa sapidissima (Wilson 1811) in the Hudson River: a prelude to restoration

Habitat restoration within large rivers to enhance early life stages of fish is an emerging field. Prior to restoration, assessment of what constitutes “good” habitat is needed. We exemplify this with a study of larval Alosa sapidissima (American shad) in the Hudson River estuary in New York State, United States, which examines the quality of four main shallow water habitat types that have been reduced greatly by dredging activities. The larval stage has been identified as a sensitive period in need of mortality reduction. Habitats were examined as nursery habitat by comparing ambient conditions to known suitability indexes and by comparing relative abundance, loss rate, daily growth, and relative condition among habitats. Areas of lower velocity had greater abundances of shad ≤15.0 mm in length and shad growth was significantly higher. As shad became larger, those in areas of higher velocity had significantly higher relative condition, suggesting a shift in habitat use as larvae metamorphose into the juvenile stage. Contiguous backwater and secondary channel habitats had reduced loss rates during 2011 when there was high river discharge. No single habitat type examined in this study was found to be overall poor quality, and it is recommended that restoration sites be examined on an individual basis. More broadly, habitat diversity appears needed both for within‐year ontogeny as well as for longer‐term resiliency in the face of disturbance, such as storm‐driven high flows.     

Mutagenicity and genotoxicity of suspended particulate matter in the Seine river estuary

Highly mutagenic compounds such as some PAHs have been identified in surface waters and sediments of the Seine river estuary. Suspended particulate matter (SPM) represents a dynamic medium that may contribute to the exposure of aquatic organisms to toxic compounds in the water column of the estuary. In order to investigate major sources of mutagenic contaminants along the estuary, water samples were taken at 25 m downstream of the outlet of an industrial wastewater-treatment plant (WWTP). SPM samples were analyzed for their genotoxicity with two short-term tests, the Salmonella typhimurium mutagenicity assay (TA98+S9 mix) and the comet assay in the human HepG2 cell line. Sampling sites receiving effluents from a chemical dye industry and WWTP showed the highest mutagenic potencies, followed by petrochemical industries, petroleum refinery and pulp and paper mills. These data indicate that frame-shift mutagens are present in the Seine river estuary. Furthermore, the comet assay revealed the presence of compounds that were genotoxic for human hepatocytes (HepG2 cells). We also observed a high level of mutagenic potency in the sediment of the lower estuary (3 × 10? revertants/g). The source of mutagenic and genotoxic compounds seems to be associated with various types of effluents discharged in the Seine river estuary. Both test systems resulted in the same assessment of the genotoxicity of particulate matter, except for three of the 14 samples, underlying the complementarity of bioassays.     

Patterns in abundance and distribution of juvenile flounder, Platichthys flesus, in Minho estuary (NW Iberian Peninsula)

For 2 years, the flatfish community of Minho estuary (Northwest of Iberian Peninsula) was surveyed monthly with a beam trawl. Flounder, Platichthys flesus, was the most representative species contributing the most (74%) to the total flatfish abundance and was the only species occurring throughout the sampling period and along the entire salinity gradient. The majority of flounder sampled consisted of 0- and 1-year group individuals. In both years, a peak in abundance was recorded in late spring–summer months (from May to August) which coincided with seasonal settlement events. Higher densities of newly-settled flounder were obtained in the most upstream site, located in the tidal freshwater wetland, indicating that this area is an important nursery area. Of the environmental variables tested, temperature and salinity were the best predictors for 0-year group abundance explaining around 30% of the variability, whereas sediment was also important when considering all age groups together. This study supports the generally prevalent idea that estuaries act as nurseries for the early life stages of flounder, with particular relevance to the tidal freshwater estuarine wetlands.     

Juveniles of non-resident fish found in sheltered rocky subtidal areas

Juvenile fishes of 22 species collected on a rocky shore area at Arrábida (Portugal) fell into three groups: (i) incidentals (four species); (ii) those in transit to a nearby estuary (three species); and (iii) nursery residents (15 species). For groups ii and iii this habitat seems to play an important role in their early life stages.     

Changes in rocky reef fish assemblages throughout an estuary with a restricted inlet

Rocky reef habitat is common in many estuaries, yet its role as a habitat for fishes is poorly understood. There is also limited understanding of how access of coastal species into estuaries and habitat quality can affect the distribution of rocky reef fishes within estuaries. This study used baited remote underwater video stations to determine spatial patterns in fish assemblages associated with rocky reef habitat throughout a barrier estuary with a permanently open but restricted inlet. Estuarine rocky reefs provided habitat for a diverse assemblage of fishes, many of which were large juveniles and subadults. In the absence of a pronounced salinity or temperature gradient, a clear transition in fish assemblages occurred from coastal waters, through the inlet channel, to the central estuary, and into the inner estuary. The inlet channel, notably its narrowness and length, limits tidal input into this estuary, which acts as a significant impediment to the dispersal of many coastal fishes, and insufficient habitat excludes many coastal rocky reef species from the inner estuary. This study highlights the need to recognise estuarine rocky reefs as providing habitat for diverse fish assemblages and the role inlets play in restricting access of coastal species.     

Nitrification and nitrifying bacteria in the lower Seine River and estuary (France)

The Achères wastewater treatment plant, located just downstream of Paris, discharges its effluents into the lower Seine River. The effluents contain large numbers of heterotrophic bacteria, organic matter, and ammonium and are a source of nitrifying bacteria. As a result, degradation of organic matter by heterotrophic bacteria and subsequent oxygen depletion occur immediately downstream of the effluent outlet, whereas nitrifying bacteria apparently need to build up a significant biomass before ammonium oxidation significantly depletes the oxygen. We quantified the potential total nitrifying activity and the potential activities of the ammonia- and nitrite-oxidizing communities along the Seine River. In the summer, the maximum nitrifying activity occurs in the upper freshwater estuary, approximately 200 km downstream of Achères. The quantities of nitrifying bacteria, based on amoA gene copy numbers, and of Nitrobacter organisms, based on 16S rRNA gene copy numbers, were correlated with the potential nitrifying activities. The species composition of ammonia-oxidizing bacteria was investigated at two sites: the Triel station just downstream from Achères (km 84) and the Seine freshwater estuary at the Duclair station (km 278). By means of PCR primers targeting the amoA gene, a gene library was created. Phylogenetic analysis revealed that the majority of the analyzed clones at both sites were affiliated with the genus NITROSOMONAS: The Nitrosomonas oligotropha- and Nitrosomonas urea-related clones represented nearly 81% of the community of ammonia-oxidizing bacteria at Triel and 60% at Duclair. Two other ammonia-oxidizing clusters of the beta subclass of the Proteobacteria, i.e., Nitrosomonas europaea- and Nitrosospira-like bacteria, were found in smaller numbers. The major change in the ammonia-oxidizing community between the two stations along the Seine River-upper estuary continuum was the replacement of the N. oligotropha- and N. urea-related bacteria by the Nitrosospira-affiliated bacteria. Although the diversities of the ammonia oxidizers appear to be similar for the two sites, only half of the restriction patterns are common to both sites, which could be explained by the differences in ammonium concentrations, which are much lower in the upper estuary than in the river at the effluent outlet. These results imply a significant immigration and/or selection of the ammonia-oxidizing bacterial population along the continuum of the Seine River from Paris to the estuary.     

Assessing Nitrification and Denitrification in the Seine River and Estuary Using Chemical and Isotopic Techniques

Downstream from metropolitan Paris (France), a large amount of ammonium is discharged into the Seine River by the effluents of the wastewater treatment plant at Achères. To assess the extent of nitrification and denitrification in the water column, concentrations and isotopic compositions of ammonium (δ¹⁵N–NH₄⁺) and nitrate (δ¹⁵N–NO₃⁻, δ¹⁸O–NO₃⁻) were measured during summer low-flow conditions along the lower Seine and its estuary. The results indicated that most of the ammonium released from the wastewater treatment plant is nitrified in the lower Seine River and its upper estuary, but there was no evidence for water-column denitrification. In the lower part of the estuary, however, concentration and isotopic data for nitrate were not consistent with simple mixing between riverine and marine nitrate. A significant departure of the nitrate isotopic composition from what would be expected from simple mixing of freshwater and marine nitrates suggested coupled nitrification and denitrification in the water, in spite of the apparent conservative behavior of nitrate. Denitrification rates of approximately 0.02 mg N/L/h were estimated for this part of the estuary.     

Nitrogen biogeochemistry of water-agro-food systems: the example of the Seine land-to-sea continuum

As an illustration of the usefulness of the concept of water-agro-food systems, this paper describes the mechanisms behind the nitrogen cascade from agricultural soils to the coastal sea rivers through aquifers, riparian wetlands, rivers and streams and the estuary, for the case study of the Seine river watershed and its receiving coastal sea. It is stressed that the structure of the agro-food system, i.e. the way food production and trade, as well as consumption and waste management are organized, is the main determinant of the quality of ground- and surface water as well as of aquatic ecosystem functioning.

     

Temporal patterns in the intertidal faunal community at the mouth of a tropical estuary

The use of intertidal sandy beaches by fish and macrocrustaceans was studied at different temporal scales at the mouth of a tropical estuary. Samples were taken along the lunar and diel cycles in the late dry and rainy seasons. Fish assemblage (number of species, density and biomass), crustaceans and wrack biomass, showed significant interactions among all studied factors, and the combination of moon phase and diel cycle, resulting in different patterns of environmental variables (depth, water temperature and dissolved oxygen), affected habitat use by the different species. Variances in faunal community were detected between seasons, stimulated by salinity fluctuations from freshwater input during the rainy season. These differences suggest an important cycling of habitats and an increase in connectivity between adjacent habitats (estuary and coastal waters). Moreover, the results showed that this intertidal sandy beach also provides an alternative nursery and protected shallow‐water area for the initial development phase of many marine and estuarine species. In addition, this intertidal habitat plays an important role in the maintenance of the ecological functioning of the estuarine–coastal ecosystem continuum.