Linking fisheries to land use: How anthropogenic inputs from the watershed shape fish habitat quality.

Aquatic ecosystems are increasingly threatened by anthropogenic stressors, both at local and larger scales. For instance, runoff from intensively cultivated areas leads to higher nutrient and sediment concentrations deteriorating water quality, which potentially trigger trophic state changes. Unfortunately, we have a poor understanding of the complex relationships linking water quality degradation and different ecosystem components. Here we analyze the long-term cascading effects of several anthropogenic stressors on both submerged aquatic vegetation (SAV) and the key traits of an exploited yellow perch (Perca flavescens, YP) population from the watershed of Lake Saint-Pierre - the largest fluvial lake of the St. Lawrence River (Québec, Canada). Lake Saint-Pierre drains one of the most impacted watersheds in Eastern Canada and had sustained a YP fishery (worth up to 10 M$ CAN/year) until the population collapsed in the mid-1990s. SAV abundance has declined since the 1980s, partially overlapping with the YP collapse. Within a structural equation modeling framework, we tested the links between changes in both SAV abundance and the YP fishery with abiotic stressors acting at both local and larger scales. Our results show that both SAV and YP declines are causally associated with anthropogenic nutrient and sediment loadings from the watershed. The decline of YP landings is also explained by a reduction in SAV abundance and YP juvenile growth, mainly caused by a sharp decrease in water transparency over the last decades. These results suggest a causal association between environmental degradation due to nutrients and sediments and different components of the trophic aquatic network. Such an integrative approach is crucial for the development of management strategies that consider cultivated lands and aquatic systems as a continuum rather than separate compartments. SAV restoration is thus a critical feature contributing to water depuration and promoting the recovery of fish populations threatened by habitat degradation.

Mercury and selenium distribution in key tissues and early life stages of Yellow Perch (Perca flavescens).

Whereas early life stages are usually considered as particularly sensitive to both organic and inorganic contaminants, field studies assessing contaminant bioaccumulation in these stages are scarce. Selenium (Se) is thought to counteract Hg toxic effects when it is found at Se:Hg molar ratios above 1. However, the variation of this ratio in key fish tissues of different early life stages is mostly unknown. The present study therefore aimed to assess Hg and Se content in gravid female tissues (gonads, muscle, liver, gut, and brain) and different life stages (egg masses, newly hatched larvae (NHL), larvae and juvenile) of Yellow Perch (YP) in a large fluvial lake (Lake Saint-Pierre, Québec, Canada). Se:Hg molar ratios were measured for each compartment in order to fill associated knowledge gaps. Total Hg (THg) and methylmercury (MeHg) concentration varied between tissue according to the following trend: Muscle > Liver > Gut > Brain > Gonads. During YP early life stages, MeHg values increased according to an ontogenetic pattern (mg/kg dw) (mean ±â€¯SEM): Egg masses (0.01 ±â€¯0.002) < NHL (0.015 ±â€¯0.001) < Larvae (0.14 ±â€¯0.01) < Juveniles (0.18 ±â€¯0.01). Se concentrations in different YP tissues showed the following trend (mg/kg dw) (mean ±â€¯SEM): Gut (3.6 ±â€¯0.1) > Liver (2.5 ±â€¯0.1) > Gonads (1.92 ±â€¯0.06) > Brain (1.26 ±â€¯0.03) > Muscle (1.23 ±â€¯0.06). In YP early life stages, Se concentrations were highest in NHL (3.0 ±â€¯0.2), and then decreased as follows: Egg masses (2.8 ±â€¯0.1) > Larvae (1.37 ±â€¯0.04) > Juveniles (0.93 ±â€¯0.05). Se:Hg molar ratios varied considerably and were systematically above 1. This is the first study to simultaneously report Hg and Se bioaccumulation through fish life cycle.

Combining population genomics and forward simulations to investigate stocking impacts: A case study of Muskellunge (Esox masquinongy) from the St. Lawrence River basin.

Understanding the genetic and evolutionary impacts of stocking on wild fish populations has long been of interest as negative consequences such as reduced fitness and loss of genetic diversity are commonly reported outcomes. In an attempt to sustain a fishery, managers implemented nearly five decades of extensive stocking of over a million Muskellunge (Esox masquinongy), a native species in the Lower St. Lawrence River (Québec, Canada). We investigated the effect of this stocking on population genetic structure and allelic diversity in the St. Lawrence River in addition to tributaries and several stocked inland lakes. Using genotype by sequencing, we genotyped 643 individuals representing 22 locations and combined this information with forward simulations to investigate the genetic consequences of long-term stocking. Individuals native to the St. Lawrence watershed were genetically differentiated from stocking sources and tributaries, and inland lakes were naturally differentiated from the main river. Empirical data and simulations within the St. Lawrence River revealed weak stocking effects on admixture patterns. Our data suggest that the genetic structure associated with stocked fish was diluted into its relatively large effective population size. This interpretation is also consistent with a hypothesis that selection against introgression was in operation and relatively efficient within the large St. Lawrence River system. In contrast, smaller populations from adjacent tributaries and lakes displayed greater stocking-related admixture that resulted in comparatively higher heterozygosity than the St. Lawrence. Finally, individuals from inland lakes that were established by stocking maintained a close affinity with their source populations. This study illustrated a benefit of combining extensive genomic data with forward simulations for improved inference regarding population-level genetic effects of long-term stocking, and its relevance for fishery management decision making.

RNA-sequencing to assess the health of wild yellow perch (Perca flavescens) populations from the St. Lawrence River, Canada.

This study aimed to better understand in situ cumulative effects of anthropogenic stressors on the health of St. Lawrence River (QC, Canada) yellow perch populations using high-throughput transcriptomics and a multi-biological level approach. Fish were collected in the upstream fluvial Lake Saint-François (LSF) with low degree of environmental perturbations; Lake Saint-Louis (LSL) considered having a moderate degree of anthropogenic stressors, and Lake Saint-Pierre (LSP) a sector where the perch population has been severely declining. Morphometric results indicated that fish from the downstream LSP showed lower body condition compared to LSF and LSL. Liver transcriptomic responses were assessed by RNA-sequencing. Two hundred and eighty genes were over-transcribed in LSP perch while 200 genes were under-transcribed compared to LSF and LSL. In LSP fish, genes transcripts related to reproduction, retinol, iron, thyroid hormones, oxidative stress, lipid metabolism and immune functions were among the most abundant suggesting that multiple metabolic and physiological pathways were impacted by environmental stressors at this site. Inhibition of liver superoxide dismutase, catalase and glutathione S-transferase activities were also observed at the cellular level. Overall, identified impacted biological pathways in perch from LSP may help understand the precarious state of this population and identify the factors inhibiting its recovery.

Lipophilic antioxidants and lipid peroxidation in yellow perch subjected to various anthropogenic influences along the St. Lawrence River (QC, Canada).

In Lake Saint-Pierre (LSP), the last great widening of the St. Lawrence River (province of Québec, Canada), the yellow perch has been experiencing a significant decline since the mid-1990s. The combined effect of several stressors (deterioration of habitats appropriate for reproduction and growth, invasive species and poor water quality) seems to exert considerable influence on the yellow perch population in LSP, characterized by low recruitment. To better understand possible stressor effects at the biochemical level, LSP yellow perch were compared with other sites along a gradient of increasing human influences from upstream to downstream along the St. Lawrence River. Morphometry (size, weight, circumference and Fulton's condition factor) and biomarkers associated to the peroxidation of lipids, lipophilic antioxidants (α-tocopherol and carotenoids), along with retinoids (vitamins A1and A2) and proteins were compared between sites at the larval, juvenile and adult stages. Fulton's condition factor was similar between sites for juveniles but was significantly lower in LSP adults, suggesting a weakened physiological condition. In most contaminated sites as LSP, lipid peroxidation tended to be higher in juveniles and adults whereas the lipophilic antioxidant lycopene and proteins content were lower. Retinyl esters were significantly lower for LSP fish compared to other sites, not only in larvae but also in the livers of juveniles and adults. These results are consistent with possible altered metabolism in the retinoid system of LSP yellow perch. The overall results reflect the "pressure" gradient tested, where the yellow perch from the most affected sites located downstream had impaired physiological and biochemical conditions compared to the upstream sectors.

Integrated spatial health assessment of yellow perch (Perca flavescens) populations from the St. Lawrence River (QC, Canada), part B: cellular and transcriptomic effects.

Multi-biological level assessments have become great tools to evaluate the health of aquatic ecosystems. Using this approach, a complementary study was designed to evaluate the health of yellow perch (Perca flavescens) populations in the St. Lawrence River (Quebec, Canada). In the present study, stress responses were compared at the transcriptomic, cellular, and tissue levels in yellow perch collected at six sites along the river: Lake St. François, Lake St. Louis (north and south), Beauregard Island and Lake St. Pierre (north and south). These results complement the physiological and chemical parameters as well as pathogen infection investigated in a companion paper published in the present issue. Thiobarbituric acid reactive substance (TBARS) analyses indicated the presence of oxidative stress in fish collected in the southern part of Lake St. Louis and at the downstream sites of Lake St. Pierre. High lipid peroxidation levels were found in the muscle of yellow perch caught at Beauregard Island, located downstream of the Montreal's wastewater treatment plant, suggesting an impact of the municipal effluent on redox homeostasis. Transcriptomic results indicated the down-regulation of genes related to lipid, glucose, and retinoid in southern Lake St. Pierre as well as a decrease in retinoid storage. Overall, biochemical and molecular markers indicated that the health status of yellow perch followed a decreasing gradient from upstream to downstream of the St. Lawrence River. This gradient is representative of the cumulative negative impacts of human activities on water and habitat quality along the river.

Integrated spatial health assessment of yellow perch (Perca flavescens) populations from the St. Lawrence River, Quebec, Canada) part A: physiological parameters and pathogen assessment.

A multi-disciplinary approach was used to evaluate the health of yellow perch (Perca flavescens) in the St. Lawrence River (Quebec, Canada), which is experiencing a severe population decline in the downstream portion of the river. Physiological parameters, liver alterations, trace metal concentrations, parasite prevalence and abundance, stable isotope composition, and the presence/absence of the viral hemorragic septicemia virus (VHSV) were evaluated in perch collected at six sites along the river: Lake St. François, Lake St. Louis (north and south), Beauregard Island, and Lake St. Pierre (north and south). Trace metal concentrations in surface water were higher in Lake St. Louis and downstream of a major urban wastewater treatment plant discharge, indicating that this effluent was a significant source of Cu, As, Ag, Zn, and Cd. Levels of Pb in surface water exceeded thresholds for the protection of aquatic life in Lake St. Louis and were negatively correlated with body condition index in this lake. In Lake St. Pierre, Cu, Ag, and Cd bioaccumulated significantly in perch liver and lower body condition index and greater liver damage were observed compared to upstream sites. Parasite analyses indicated a higher abundance of metacercariae of the trematodes Apophallus brevis and Diplostomum spp. in Lake St. Louis, and VHSV was not detected in the liver of yellow perch for all studied sites. Overall, results suggested that the global health of yellow perch from Lake St. Pierre is lower compared to upstream studied sites, which could contribute to the documented population collapse at this site.

Inferring processes from spatial patterns: the role of directional and non-directional forces in shaping fish larvae distribution in a freshwater lake system.

Larval dispersal is a crucial factor for fish recruitment. For fishes with relatively small-bodied larvae, drift has the potential to play a more important role than active habitat selection in determining larval dispersal; therefore, we expect small-bodied fish larvae to be poorly associated with habitat characteristics. To test this hypothesis, we used as model yellow perch (Perca flavescens), whose larvae are among the smallest among freshwater temperate fishes. Thus, we analysed the habitat association of yellow perch larvae at multiple spatial scales in a large shallow fluvial lake by explicitly modelling directional (e.g. due to water currents) and non-directional (e.g. due to aggregation) spatial patterns. This allowed us to indirectly assess the relative roles of drift (directional process) and potential habitat choice on larval dispersal. Our results give weak support to the drift hypothesis, whereas yellow perch show a strong habitat association at unexpectedly small sizes, when compared to other systems. We found consistent non-directional patterns in larvae distributions at both broad and medium spatial scales but only few significant directional components. The environmental variables alone (e.g. vegetation) generally explained a significant and biologically relevant fraction of the variation in fish larvae distribution data. These results suggest that (i) drift plays a minor role in this shallow system, (ii) larvae display spatial patterns that only partially covary with environmental variables, and (iii) larvae are associated to specific habitats. By suggesting that habitat association potentially includes an active choice component for yellow perch larvae, our results shed new light on the ecology of freshwater fish larvae and should help in building more realistic recruitment models.