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Selection of prey that are small and in poor body condition is a widespread phenomenon in terrestrial predator–prey systems and may benefit prey populations by removing substandard individuals. Similar selection is widely assumed to operate in aquatic systems. Indeed, size‐selective predation is a longstanding and central tenet of aquatic food web theory. However, it is not known if aquatic predators select prey based on their condition or state, compared to their size. Surprisingly, no comparable information is available for marine systems because it is exceedingly difficult to make direct observations in this realm. Thus the role of body condition in regulating susceptibility to predation remains a black box in the marine environment. Here we have exploited an ideal model system to evaluate selective predation on pelagic marine fish: comparing characteristics (fork length, mass corrected for fork length) of fresh, whole, intact juvenile Pacific salmon delivered by a seabird to its single nestling with salmon collected concurrently in coastal trawl surveys. Three species of juvenile salmon (Oncorhynchus spp.) are consumed by provisioning Rhinoceros Auklets (Cerorhinca monocerata); an abundant, colonial, pursuit‐diving seabird. Samples were collected from multiple colonies and fisheries surveys in coastal British Columbia in two years. As predicted, Auklets preyed on small individuals in poor condition and consistently selected them at levels higher than their relative availability. This is the first study to provide direct evidence for both size‐ and condition‐selective predation on marine fish in the wild. We anticipate that our results will be a starting point in evaluating how selective predation may structure or influence marine fish populations and bridges a fundamental incongruity between ecological theory and application; although “bigger is better” is considered a fundamental tenet of marine food webs, marine predators are often assumed to consume indiscriminately.

Infectious diseases are potential contributors to decline in Coho salmon (Oncorhynchus kisutch) populations. Although pathogens are theoretically considered to pose higher risk in high-density rearing environments like hatcheries, there is no direct evidence that hatchery-origin Coho salmon increase the transmission of infectious agents to sympatric wild populations. This study was undertaken to compare prevalence, burden, and diversity of infectious agents between hatchery-reared and wild juvenile Coho salmon in British Columbia (BC), Canada. In total, 2,655 juvenile Coho salmon were collected between 2008 and 2018 from four regions of freshwater and saltwater in BC. High-throughput microfluidics qPCR was employed for simultaneous detection of 36 infectious agents from mixed-tissue samples (gill, brain, heart, liver, and kidney). Thirty-one agents were detected at least once, including ten with prevalence >5%. Candidatus Brachiomonas cysticola, Paraneuclospora theridion, and Parvicapsula pseudobranchiocola were the most prevalent agents. Diversity and burden of infectious agents were substantially higher in marine environment than in freshwater. In Mainland BC, infectious burden and diversity were significantly lower in hatchery smolts than in wild counterparts, whereas in other regions, there were no significant differences. Observed differences in freshwater were predominantly driven by three parasites, Loma salmonae, Myxobolus arcticus, and Parvicapsula kabatai. In saltwater, there were no consistent differences in agent prevalence between hatchery and wild fish shared among the west and east coasts of Vancouver Island. Although some agents showed differential infectious patterns between regions, annual variations likely contributed to this signal. Our findings do not support the hypothesis that hatchery smolts carry higher burdens of infectious agents than conspecific wild fish, reducing the potential risk of transfer to wild smolts at this life stage. Moreover, we provide a baseline of infectious agents in juvenile Coho salmon that will be used in future research and modeling potential correlations between infectious profiles and marine survival.

Size-selective mortality owing to lack of energy reserves during the first marine winter has been suggested to be a result of juvenile salmon failing to reach a critical size or condition by the end of their first marine summer and not surviving the following winter due to this presumed energy deficit. This hypothesis implies strong size dependency of mortality, and is subject to empirical data support for acceptance. Scale circulus spacing has been interpreted as an index for body size, and we reviewed the effect of size-selective mortality with a knife-edge mortality function on descriptive statistics for a scale circulus spacing index (SCSI). In order to invoke size selection as an important driver of mortality during the first year of ocean rearing, it is necessary to demonstrate not only that size-selective mortality is directed towards the smaller members of the population, but that the selective nature of the mortality can account for a substantial portion of the observed mortality. If the assumption is made that a random sample of a single juvenile population has been obtained, then studies that employ a SCSI to infer size-selective mortality coupled with a critical size limit must demonstrate a shift toward larger values of the SCSI, but also a concomitant reduction in the variance and range of the SCSI and an increase in the skewness and kurtosis of the SCSI values. Through simulation we found that the percentage of adults that displayed a SCSI value greater than the maximum observed in the juvenile sample was highly dependent on the initial juvenile sample size and size-selective mortality rate. Geographical distributions of juvenile Pacific salmon can be stratified by size, with larger individuals migrating earlier from local ocean entry locations than smaller individuals, and thus differential timing migration of juveniles based upon body size prior to the collection of the marine juvenile sample may be a more plausible explanation of published trends in the SCSI, rather than invoking substantial size-selective mortality and a critical size limit.

Acoustic surveys are the standard approach for evaluating many fish stocks around the world. The analysis of such survey data requires the accurate echo-classification of target species. This classification is often challenging as many organisms exhibit overlapping characteristics in terms of shape, acoustic amplitude, and behavior. In this study, a random forest approach was used to distinguish juvenile Pacific salmon ( Oncorhynchus spp) from Pacific herring ( Clupea pallasii ) aggregations using the acoustic and morphological characteristics of their echo traces. The acoustic data was collected with an autonomous, multi-frequency echosounder deployed on the seafloor in the Discovery Islands, British Columbia from May to September 2015. The model was able to differentiate juvenile Pacific salmon from Pacific herring with a 98% accuracy. School depth and school mean volume backscattering strength were the most important predictors in determining the school classification. This study supports other publications suggesting that random forests represent a promising approach to acoustic target classification in fisheries science.

Determining how energy flows through ecosystems reveals underlying ecological patterns that drive processes such as growth and food web dynamics. Models that assess the transfer of energy from producers to consumers require information on the energy content or energy density (ED) of prey species. ED is most accurately measured through bomb calorimetry, but this method suffers from limitations of cost, time, and sample requirements that often make it unrealistic for many studies. Percent dry weight (DW) is typically used as a proxy for ED, but this measure includes an indigestible portion (e.g., bones, shell, salt) that can vary widely among organisms. Further, several distinct models exist for various taxonomic groups, yet none can accurately estimate invertebrate, vertebrate and plant ED with a single equation. Here, we present a novel method to estimate the ED of organisms using percent ash‐free dry weight (AFDW). Using data obtained from 11 studies diverse in geographic, temporal and taxonomic scope, AFDW, DW as well as percent protein and percent lipid were compared as predictors of ED. Linear models were produced on a logarithmic scale, including dummy variables for broad taxonomic groups. AFDW was the superior predictor of ED compared to DW, percent protein content and percent lipid content. Model selection revealed that using correction factors (dummy variables) for aquatic animals (AA) and terrestrial invertebrates (TI) produced the best‐supported model—log10(ED) = 1.07*log10(AFDW) − 0.80 (R2 = 0.978, p < .00001)—with an intercept adjustment of 0.09 and 0.04 for AA and TI, respectively. All models including AFDW as a predictor had high predictive power (R2 > 0.97), suggesting that AFDW can be used with high degrees of certainty to predict the ED of taxonomically diverse organisms. Our AFDW model will allow ED to be determined with minimal cost and time requirements and excludes ash‐weight from estimates of digestible mass. Its ease of use will allow for ED to be more readily and accurately determined for diverse taxa across different ecosystems. Determining how energy flows through ecosystems reveals underlying ecological patterns that drive processes such as growth and food web dynamics. Models that assess the transfer of energy from producers to consumers require information on the energy density (ED) of prey species, however, measuring this value carries limitations of cost, time, and sample requirements. Here, we present a novel method to accurately estimate the ED of invertebrates, vertebrates, and plants using a single equation, with minimal cost and time requirements using percent ash‐free dry weight.

Collecting environmental DNA (eDNA) as a nonlethal sampling approach has been valuable in detecting the presence/absence of many imperiled taxa; however, its application to indicate species abundance poses many challenges. A deeper understanding of eDNA dynamics in aquatic systems is required to better interpret the substantial variability often associated with eDNA samples. Our sampling design took advantage of natural variation in juvenile Atlantic salmon (Salmo salar) distribution and abundance along 9 km of a single river in the Province of New Brunswick (Canada), covering different spatial and temporal scales to address the unknown seasonal impacts of environmental variables on the quantitative relationship between eDNA concentration and species abundance. First, we asked whether accounting for environmental variables strengthened the relationship between eDNA and salmon abundance by sampling eDNA during their spring seaward migration. Second, we asked how environmental variables affected eDNA dynamics during the summer as the parr abundance remained relatively constant. Spring eDNA samples were collected over a 6‐week period (12 times) near a rotary screw trap that captured approximately 18.6% of migrating smolts, whereas summer sampling occurred (i) at three distinct salmon habitats (9 times) and (ii) along the full 9 km (3 times). We modeled eDNA concentration as a product of fish abundance and environmental variables, demonstrating that (1) with inclusion of abundance and environmental covariates, eDNA was highly correlated with spring smolt abundance and (2) the relationships among environmental covariates and eDNA were affected by seasonal variation with relatively constant parr abundance in summer. Our findings underscore that with appropriate study design that accounts for seasonal environmental variation and life history phenology, eDNA salmon population assessments may have the potential to evaluate abundance fluctuations in spring and summer. We collected water containing environmental DNA (eDNA) from juvenile Atlantic Salmon in a single river during life stages where abundance was fluctuating (smolt) and relatively constant (parr). While including environmental variables in statistical models clarified the relationship between eDNA and smolt abundance, eDNA concentration was affected by environmental variation within and across spring and summer seasons. Our findings demonstrate that eDNA salmon population assessments may have the potential to evaluate juvenile abundance fluctuations with appropriate study design that accounts for seasonal environmental variation and life history phenology.

Aquatic invasive species (AIS) are a leading cause of global loss of biodiversity. However, the relationships between AIS and vulnerable species (e.g. species at risk and endemic species) are not well‐documented and few studies have combined risk of AIS invasion with species distribution modelling of vulnerable species. An integrated management approach was developed and applied to assess the effects and risks of AIS on Atlantic salmon (Salmo salar) in Nova Scotia (NS), Canada. A semi‐quantitative risk assessment tool was used to evaluate the risk of introduction, establishment and ecological impact of eight AIS currently found across NS. A suitable habitat for Atlantic salmon was predicted using a random forest model and identified watersheds of high conservation value. A vector‐based screening‐level risk assessment was developed to determine the relative risk of potential vectors introducing AIS into each primary watershed in NS, alongside other anthropogenic pressures. Finally, a matrix was developed to provide recommendations to AIS managers based on species invasion stage and invasion risk score. Results from this study showed that ecosystem engineer species (e.g. crayfish and invasive plants) were more likely to affect invaded ecosystems, but were less widely reported in NS While invasive piscivores (e.g. chain pickerel [Esox niger], smallmouth bass [Micropterus dolomieu]) had less potential ecosystem impacts, they were more widely reported in the assessment area. Hitchhiking on watercraft and fishing gear were the riskiest vectors for continued spread of AIS in NS. The AIS Management Matrix supports recommendations of scenarios in which AIS could be eradicated or where response plans may be developed to control, contain and respond to new introductions. The Herring Cove Medway and the Salmon Mira were the top two watersheds recommended for Atlantic salmon conservation and AIS control or prevention based on habitat conservation value. Water temperature and physical changes to freshwater habitat (especially adjacent land use) were the model variables that were most important to predict Atlantic salmon habitat suitability. At a time of heightened global biodiversity loss, but limited dedicated conservation resources, the integrated management approach developed in this study can be applied to recommend geographically specific actions to managers for strategic vulnerable species conservation planning and AIS management. We adapted the species‐sites‐pathways concept to develop an integrated management approach to aquatic invasive species (AIS) and Atlantic salmon management in Nova Scotia, Canada. We adapted and created novel tools to determine (1) AIS impacts on Atlantic salmon and management action that could lessen their impacts, (2) sites of high conservation value for Atlantic salmon and (3) the risk of active vectors to spread AIS to these areas. We offer proactive, geographically specific solutions to improve both AIS and Atlantic salmon management and explore the possibility of using these tools and approach for setting other biodiversity and conversation priorities.

Oncorhynchus nerka occur both as anadromous sockeye salmon that spend most of their life in the ocean, and as non-anadromous kokanee salmon that remain in fresh water their entire lives. We assessed whether stable isotopes of sulfur (δ³⁴S) in otoliths could be used to distinguish sockeye salmon and kokanee ecotypes that are otherwise difficult to identify when they share a common freshwater rearing environment. We also investigated the chemical link between salmon and their diet by measuring δ³⁴S in various fish tissues (eggs, muscle, scales) and zooplankton. δ³⁴S (mean±SE) in sockeye salmon eggs (18.7 ± 0.4‰) and marine zooplankton (20.5 ± 0.1‰) were enriched by 10-14‰ compared with kokanee eggs and freshwater zooplankton. δ³⁴S in the otolith cores of sockeye salmon (19.2 ± 0.7‰) and kokanee salmon (5.3 ± 1.1‰) were similar to δ³⁴S in marine and freshwater zooplankton, respectively, indicating that the core is derived from maternal yolk tissue and reflects the maternal diet. δ³⁴S in the freshwater growth zone of otoliths did not differ significantly between sockeye (5.9 ± 1.1‰) and kokanee salmon (4.4 ± 1.2‰), and was similar to freshwater zooplankton. The mean difference between δ³⁴S in the otolith core and first year of growth was 13.3 ± 1.4‰ for sockeye and 0.65 ± 1.3‰ for kokanee salmon. A quadratic discriminant function developed from measurements of δ³⁴S in otoliths of known maternal origin provided perfect classification rates in cross-validation tests. Thus, sulfur isotope ratios in otoliths are effective in discriminating between anadromous and non-anadromous ecotypes of O. nerka.

Sympatric populations of dwarf lake whitefish (Coregonus clupeaformis) (DLW) and normal lake whitefish (NLW) commonly occur in north temperate and subarctic lakes. DLW have a much lower growth, mature earlier, and have a shorter life span than NLW. Furthermore, they are usually not found when cisco (Coregonus artedi) are present, possibly due to competitive exclusion. In this study, we compared the energy budget of DLW, NLW, and cisco using food consumption rates estimated with mass balance models of chemical tracers (i.e., mercury and radiocesium). These chemicals are globally distributed and can be readily detected in fish and their prey. Our analysis showed that the energy budget of DLW and cisco was similar. DLW and cisco consumed on average 40–50% more food than NLW. The conversion efficiency of DLW and cisco was two to three times lower than that of NLW. These results suggest that DLW and cisco allocated a larger fraction of their energy budget to metabolism than NLW. Our analysis also suggests that the earlier maturation and shorter life span of DLW and cisco may be due to their higher metabolic rates.

Record low returns of sockeye salmon Oncorhynchus nerka to the Fraser River in 2009 were followed by record high returns to the river in 2010, providing an unprecedented opportunity to examine links between oceanic factors and the survival of Pacific salmon stocks. The low returns in 2009 indicated poor early marine survival of juvenile sockeye salmon in 2007. The poor survival was likely due to low food levels arising from unfavorable wind and runoff conditions in the Strait of Georgia and the Queen Charlotte Sound-Hecate Strait region in the spring of 2007. Conversely, the high returns in 2010 were associated with a large smolt output from the Fraser River and good early marine survival in 2008. This enhanced survival was likely associated with adequate food levels arising from favorable oceanic conditions in the Strait of Georgia and the Queen Charlotte Sound-Hecate Strait region in the spring of 2008. We speculate that ocean factors during the subsequent marine years also affected brood year strength. Specifically, the back-to-back La Nina winters of 2007–2008 and 2008–2009 would have negatively influenced the survivability of the 2007 entry stocks, while the El Niño winter of 2009–2010 would have positively affected the survivability of the 2008 entry stocks. We conclude that poor early marine survival leads to low production. However, if large numbers of healthy fish survive the early marine entry, and if conditions during at least one of the two ocean winters in the Gulf of Alaska are favorable to stock survivability, then returns to the river can be high.