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Aquaculture is one of the fastest-growing food sectors, producing almost 50% of fish for human consumption worldwide. However, relying on fish meal and oil for aquaculture diets is not sustainable economically or environmentally. Aquaculture feeds also contain terrestrial plant ingredients with indigestible forms of phosphorus (P), of which 70%–80% can be released into aquatic environments. This P influx contributes to eutrophication of freshwater ecosystems that can lead to anoxic conditions. This study explores a more sustainable diet for salmonids, an important and valuable seafood. Our aim was to test ingredients with highly digestible forms of P in nutritionally balanced portions to support fish growth and reduce P loading. We determined the digestibility of three feeds containing raw, extruded, and enzymatically processed microalgal co-product of Nannochloropsis oculata compared to a conventional diet. We also quantified how much P was retained and excreted. We detected highest growth in trout fed enzymatically processed co-product feed, though it was not statistically different (p = 0.846) from growth of fish fed the reference or other co-product diets. The enzyme-treated, microalgal co-product ingredient and diet had comparable values for P digestibility and solid P excretion to the reference diet, but the lowest average solid P excretion of all test diets. Trout fed the enzyme-treated diet had the highest P retention, while the reference diet had the lowest (p = 0.0429). Trout fed the enzyme-treated diet had the lowest (p = 0.0174) and negative dissolved P excretion, while those fed the reference diet had the highest. Results showed that enzyme-treated N. oculata co-product maintains digestibility, increases P retention, and reduces dissolved P excretion compared to the reference diet in rainbow trout. These findings encourage follow-up research to design and test growth performance of diets containing enzyme-treated microalgal co-product as sustainable trout aquafeed.

ABSTRACT Counting departing smolts and returning adults in index rivers is essential to estimate marine survival and track population trends of Atlantic salmon (Salmo salar). However, mortalities between counting facilities and a river mouth can skew survival estimates. We used acoustic and radio telemetry to investigate survival, mortality sources and behaviour of wild salmon smolts in the River Erriff, Ireland's index river, and Killary Fjord. Smolts were tagged with acoustic tags in 2017 (n = 40) and 2018 (n = 35) and radio tags in 2018 (n = 30). Survival was low for acoustic‐tagged smolts in 2017 (26%) and 2018 (47%), mainly due to riverine mortality. Terrestrial or avian predators consumed 65% of acoustic‐tagged smolts in 2017 and 67% of radio‐tagged smolts in 2018. Nocturnal migration and ebb tide transportation likely contributed to high estuary survival. High predation on smolts emphasised the importance of assessing freshwater mortality for effective salmon management. [ABSTRACT FROM AUTHOR]

Fish stocking has been utilized for over a century to offset extirpations or declines in abundance of many native species. These historical declines and hatchery contributions have led to uncertainty surrounding whether many contemporary populations are native, introgressed with hatchery sources, or entirely of hatchery origin. Such uncertainty is problematic for the conservation of native biodiversity as it hampers management agencies' ability to prioritize the conservation of indigenous locally adapted populations. Fortunately, genetic and genomic tools have allowed researchers to investigate these questions, often through the use of clustering or assignment approaches that are predicated on identifiable and consistent divergence between native populations and hatchery sources. Here, we apply these methods to restriction‐site associated DNA (RAD) data from 643 brook trout (Salvelinus fontinalis) originating from 13 wild populations and an exogenous hatchery strain to investigate the extent of historical extirpations, hatchery contributions, and processes affecting population structure in a small area of the previously unglaciated Driftless Area of Wisconsin, USA. The results from these analyses suggest that wild populations in this region are genetically distinct even at small spatial scales, lack strong hydrologically associated population structure, rarely exchange gene flow, and have small effective population sizes. Furthermore, wild populations are substantially diverged from known hatchery strains and show minimal evidence of introgression in clustering analyses. However, we demonstrate through empirically informed simulations that distinct wild populations may potentially be hatchery‐founded and have since diverged through rapid genetic drift. Collectively, the apparent lack of hydrological population structure and potential for rapid drift in the Driftless Area suggest that many native populations may have been historically extirpated and refounded by stocking events. If this is the case, then commonly used genomic clustering methods and their associated model selection criteria may result in underestimation of hatchery introgression in the face of rapid drift. [ABSTRACT FROM AUTHOR]

Most major rivers in Europe have been dammed for hydropower or other purposes. Such river alterations have decimated natural reproduction of many migratory fish species, including that of the anadromous European whitefish, Coregonus lavaretus, which is now maintained by extensive stocking programmes. In addition to stocking, limited natural reproduction may occur downstream of dams, where peak flow bouts from the dams threaten to flush the eggs into unsuitable habitats. Here, we assessed the effects of water flow velocity and substrate coarseness on downstream drift of whitefish eggs under laboratory conditions. The experiment's two different gravel substrates retained eggs better than cobble or sand substrates; the water velocity needed for notable egg drift was higher for the gravel substrates. The results indicate that egg drift is one of the factors that should be considered when evaluating the effects of hydropower plant operations. Moreover, measures mitigating the effects of the artificial flow regimes should incorporate the type and coarseness of the riverbed's substrate. [ABSTRACT FROM AUTHOR]

Electronic tags are often used to track the freshwater‐marine migrations of smolts, where smolts are captured for tagging pre‐migration (e.g., via electrofishing) or during‐migration (e.g., via traps). Pre‐migration capture allows smolts to initiate and complete their downstream migration unhindered, but risks smolt loss before the migration commences. The contrary is the case for during‐migration trap‐caught smolts, but trapping smolts temporarily halts their seaward journey which may negatively impact their progress. This study investigated the effect of trapping on the behaviour and survival of migrating Atlantic salmon (Salmo Salar) smolts using acoustic telemetry. We compared the movements and survival of smolts tagged before the smolt run captured by electrofishing ("comparator") with smolts trapped and tagged during the smolt run ("trapped"). A total of 478 smolts were tagged and released in River Skjern (2020 and 2022), Denmark, and 82 smolts in River Ballycastle (2022), Northern Ireland, and their seaward movements were monitored using acoustic receivers deployed in the river, fjord, and coastal area. In River Skjern in 2022, comparator smolts migrated earlier than trapped smolts, likely because these constituted more of the larger‐sized, earlier migrating individuals. We found no differences in descent trajectories, diel patterns, progression rates, or survival between trapped smolts and comparator smolts in any of the rivers or study years. Thus, our results support the use of during‐migration trapping as a low‐impact method to capture smolts for telemetry studies, with trapped samples (if held <24 h) yielding comparable results in terms of behaviour and survival with non‐delayed pre‐migration tagged fish. [ABSTRACT FROM AUTHOR]

ABSTRACT Rainbow trout have been translocated from North America worldwide for more than 150 years, but have not reproduced in the wild in Europe in the last 100 years. In recent decades, several examples of successful reproduction have become public. This study reports scientific evidence of natural reproduction of North American rainbow trout (Oncorhynchus mykiss) in three alpine rivers in Bavaria, Germany. Eggs collected from spawning redds were determined to be rainbow trout in all study rivers. In the river Leitzach, where spawning was exclusively observed in spring, electrofishing revealed a balanced length‐frequency distribution with a high abundance of rainbow trout and a high proportion of individuals < 10 cm. In the rivers Isar and Traun, spawning was observed in winter and supposedly also in spring, according to local reports. Rainbow trout < 10 cm were also observed in these two rivers during electrofishing surveys but were less abundant than in the river Leitzach. Genetic factors and river‐specific environmental and climatic conditions may have contributed to the success or failure of rainbow trout reproduction. Effects of rainbow trout on native fish vary widely, from severe negative impacts to minimal niche overlap, so further studies of genetic and environmental factors that determine rainbow trout naturalisation are needed to better inform fisheries management. [ABSTRACT FROM AUTHOR]

Anadromous migration of salmonid fish has been extensively studied, primarily focusing on the dichotomous framework of anadromy and residency. However, there remains a limited understanding of intermediate migratory behaviors within the anadromous framework. Our study aimed to classify the lifetime migration patterns of the anadromous white-spotted charr Salvelinus leucomaenis within and among populations using otolith annuli and Sr:Ca ratios. Initially, the migratory histories of anadromous charr were divided into two stages: "virgin sea-run stage" and "veteran sea-run stage". The former was further categorized into three types: ocean entry at age ≥1+ years old, early descending, and brackish use. The latter was grouped into four types: annual migrants, frequent migrants, retired migrants, and ocean residents. We found that the proportion of migration patterns varied among rivers, with multiple patterns coexisting within the same river. Migration patterns typically involving 1–5 years spent in freshwater rivers followed by annual oceanic migrations were the most abundant, although diverse patterns were also observed. In the virgin sea-run stage, some individuals experienced the ocean at age 0+ years or brackish environments before their first sea entry. In the veteran sea-run stage, we found individuals who had resided in either the ocean or rivers for over a year. Retired migrants, characterized by stopping oceanic migration at a certain age and subsequently spending time in rivers, were exclusive to southern rivers. Conversely, ocean residents who spend one or more years in the ocean were more frequent in northern regions. Consequently, the lifetime migration patterns of anadromous white-spotted charr may exhibit stronger ocean dependency at higher latitudes. The implications of this study highlight the complexity and flexibility of migratory behaviors within and among white-spotted charr populations. [ABSTRACT FROM AUTHOR]

ABSTRACT Flavobacterium psychrophilum, the causative agent of bacterial cold water disease (BCWD), is one of the leading pathogens in rainbow trout (Oncorhynchus mykiss) aquaculture. To date, there is little knowledge of the transmission kinetics of F. psychrophilum over the course of infection. In particular, how transmission is affected by host genotype and pathogen exposure dosage are not well studied. In order to fill in these knowledge gaps, we exposed two divergently selected lines of rainbow trout (ARS‐Fp‐R and ARS‐Fp‐S) to a range of dosages of F. psychrophilum (strain CSF117‐10). We then measured mortality and bacterial shedding to estimate transmission risk at multiple time points since initial infection. As dosage increased, the number of fish shedding and the amount of bacteria shed increased ranging from 0% to 100% and 103 to 108 cells fish−1 h−1, respectively. In addition, we found that disease resistance (survival) was not correlated with transmission risk blocking, in that 67% of fish which shed bacteria experienced no clinical disease. In general, fish mortality began on Day 3, peaked between Days 5–7 and was higher in the ARS‐Fp‐R line. Results from this study could be used to develop epidemiological models and improve disease management, particularly in the context of aquaculture and selective breeding. [ABSTRACT FROM AUTHOR]

Tracking of animal migrations using telemetry technologies needs to take into consideration the burden that the tag exerts on the animal. Here, we examined the potential impacts of acoustic tags of two sizes (nominally a 'V6' [smaller] and 'V7' [larger]) on the downstream riverine migration success and behaviour of wild Atlantic salmon (Salmo salar L.) smolts. One hundred fish were tagged with either a V6 or V7 tag. Tag burden (tag: fish weight) ranged from 1.88% to 7.39% and differed significantly between fish tagged with the V6 (mean [SD] = 3.63% [0.51%]) and the V7 tags (mean [SD] = 5.84% [0.95%]). There was no significant difference in the in‐river migration failure between the two groups when tested with a time‐to‐event analysis. There were also no differences in other elements of the migratory behaviour (rate of movement, time of detection and residency time) between the two tagging groups. These data support the use of acoustic tracking for monitoring smolt migration and highlight that tagging of smaller smolts at up to 7.39% tag burden to gain a more representative understanding of migration success and behaviours across a smolt population. [ABSTRACT FROM AUTHOR]

Atlantic salmon (Salmo salar), brown trout (Salmo trutta), and steelhead trout (Oncorhynchus mykiss) kelts have important conservation value for population resilience. Nonetheless, relative to other salmonid life-stages, knowledge on their behavior and survival is poor. This is especially true for kelt downstream migration in rivers fragmented by hydropower plants (HPP), even though the physiological and survival consequences are severe when functional connectivity is not provided. Here, the existing information about kelt downstream migration past HPP was summarized, beginning with an overview of iteroparous salmonid lifecycles. Then, the importance of kelts for conservation and the threats they encounter while migrating was discussed. Finally, the current corpus of peer-reviewed literature and reports focused on kelt migration in these systems was presented. Kelt studies have focused on five main themes: (1) postspawning survival, (2) migration delays before dam passage, (3) passage selection and guidance efficiency, (4) passage mortality, and (5) the swimming behaviors of kelts during migration. Overall, there was a paucity of information about kelts and several information gaps and needs for future research. This work should inform scientists and river managers on the conservation of salmonids in regulated rivers, including the development of passage solutions for safe downstream migration. [ABSTRACT FROM AUTHOR]

Simple Summary: Aquaculture is presented as a viable solution to overfishing and the growing demand for marine products. This study investigates the rearing of rainbow trout (Oncorhynchus mykiss) in a recirculating system at 3000 m above sea level, in Copaquilla, northern Chile. A total of 5000 juvenile trout were transported from the Rio Blanco fish farm over 2100 km. For 20 months, growth parameters were evaluated, including specific growth rate, weight gain, feed conversion, survival, and Fulton's condition factor. The results indicated normal growth and good quality, confirming the feasibility of trout aquaculture at a high altitude. This suggests new opportunities for aquaculture in the Andean region of northern Chile. Given the overexploitation of fisheries and the growing consumption of sea products, aquaculture is emerging as an alternative to meet the demand for protein at regional, national, and global levels. In northern Chile, the foothills of the Andes offer an opportunity for sustainable economic diversification. In this study, results of a rainbow trout (Oncorhynchus mykiss) culture in a recirculation system are presented, analyzing its growth and performance under altitude conditions. The research was carried out in Copaquilla, a small area in the foothills of northern Chile, 3000 m above sea level. Five thousand 15 g juvenile trout were acquired and transported by land from the Rio Blanco fish farm, successfully traveling more than 2100 km. During the 20-month-long culture, several growth parameters were evaluated, including specific growth rate, percentage of weight growth, feed conversion factor, survival, and Fulton's condition factor. All these parameters were within the normal growth range for trout, evidencing good-quality growth of the organisms. The results offer evidence that rainbow trout farming at 3000 m above sea level is viable and presents a viable performance, opening new opportunities for aquaculture in northern Chile. [ABSTRACT FROM AUTHOR]

When, where, and what predators prey upon salmon is fundamental to understanding their mortality in a given region. We reviewed the available information about predators of three Japanese Pacific salmon species throughout their life history: chum salmon Oncorhynchus keta, pink salmon O. gorbuscha, and masu salmon O. masou. Thirteen fish species, including seven salmonid species, and three avian species, such as great cormorant Phalacrocorax carbo, have been described as predators of fry/juvenile salmon in rivers. Predators of fry/juveniles in estuarine–coastal areas have been relatively well investigated and include 15 fish species, including young masu salmon, and five avian species, such as rhinoceros auklet Cerorhinca monocerata. Four large fish species, such as salmon shark Lamna ditropis, one baleen whale species, and pinnipeds are reported predators of subadults in the open sea. In the sea around Japan, including the Pacific, the Sea of Okhotsk, and the Japan Sea, we found evidence of predation on subadults, adults, unknown life-stage salmon by four pinniped species and three species of baleen and toothed whales. Adults returning to rivers were preyed upon by two mammal species including brown bear Ursus arctos and two raptor species. We also identified information gaps for specific predators by region and life stage. Collaborating with non-researchers to obtain observation records of predation on salmon is one method that could efficiently expand our knowledge of local predators. We further suggest using the information from our review to incorporate predation effects as well as environmental factors in models examining salmon stock fluctuation mechanisms. [ABSTRACT FROM AUTHOR]

Salmonids, specifically Atlantic salmon (Salmo salar) and rainbow trout (Oncorhynchus mykiss), are commonly farmed and their gut microbiota plays important roles for optimal growth, health, and physiology. However, differences in experimental design, technical factors and bioinformatics make it challenging to compare the results from different studies and draw general conclusions about their influence on the fish gut microbiota. For a more comprehensive understanding of the gut microbiota, we collected all the publicly accessible 16S rRNA gene sequencing data with clearly stated sample metadata from freshwater Atlantic salmon and rainbow trout intestinal contents and mucosa sequenced on the Illumina MiSeq platform. A total of 783 samples from 19 published studies were included in this meta‐analysis to test the impact of the technical, environmental, and host‐accociated factors. This meta‐analysis revealed that all the tested factors significantly influenced the alpha and beta diversities of the gut microbiota of salmon and trout. Technical factors, especially target region and DNA extraction kit, affected the beta diversity to a larger extent, while host‐associated and environmental factors, especially diet and initial fish weight, had a higher impact on the alpha diversity. Salmon had a higher alpha diversity and higher abundance of Enterococcus and Staphylococcus than trout, which had higher abundance of Weissella and Mycoplasma. The results of this meta‐analysis fill in a critical knowledge gap that demonstrate technical methodologies must be standardized and factors associated with host and environment need to be accounted for in the future design of salmonid gut microbiota experiments. [ABSTRACT FROM AUTHOR]

Human‐mediated species introductions are contributing to the biotic homogenization of global flora and fauna. Despite extensive research, we lack simple methods of predicting how and where an introduced species will spread and establish, particularly in species with complex life histories in aquatic ecosystems. We predict that spread can be modeled simply using the characteristics of the invading population, specifically species growth rate and dispersal capacity. In addition, we predict that the establishment of introduced species should be explained by the characteristics of the receiving ecosystem. Using the brown trout (Salmo trutta) invasion on the Island of Newfoundland as a case study, we fit and test a reaction–diffusion model with brown trout population data collected from the literature. Next, we use statistical models to assess the influence of a suite of abiotic (conductivity, pH, turbidity, calcium), biotic (Atlantic salmon occurrence), and landscape (watershed relief, watershed area, distance to original introduction) variables on brown trout establishment (i.e., presence–absence) patterns. We find that observed coastal spread in Newfoundland is slow (~4.4 km/year), and that it lies on the lower end of the range of predictions made by the reaction–diffusion model parameterized based on the estimates of growth rate and movement from the literature (predicted spread range 1.4 to 92 km/year). Also, we did not find evidence for a relationship between abiotic or biotic variables and brown trout establishment. However, we did observe that landscape variables of the distance to trout introduction point and estuary area may explain establishment patterns along the south coast of Newfoundland. Our results suggest the importance of using population‐specific parameterization and the need to integrate regional landscape factors that are generally applicable across biological invasions (e.g., distance to introduction), and those that are more specific to the ecology of the invader (e.g., estuary area). Our study contextualizes the mechanisms that contribute to a slow invasion by an aquatic species with a complex life history and reveals that future studies need to integrate a variety of methods to elucidate the processes governing invasions. [ABSTRACT FROM AUTHOR]

As a predatory fish that migrates between freshwater and marine environments, the sea trout (Salmo trutta) is important in linking these systems. This study investigated movement patterns of sea trout in a coastal fjord at the Swedish Skagerrak region from August 2018 to January 2019, using acoustic telemetry, while assessing these against environmental variables across different spatial and temporal scales. Six acoustic receivers were deployed in the fjord and a river, which flows into the upper reaches of the fjord, with the aim of detecting 20 sea trout that had been tagged with acoustic transmitters. Sea surface temperature and winds (east–west) affected movement patterns of the sea trout the most, while changes in atmospheric pressure were also important, but to a lesser extent. Sea surface temperature and atmospheric pressure both had a positive relationship with the number of detections, whereas stronger winds from the east (i.e. from land) resulted in more detections than stronger winds from the west (i.e. from the ocean). In addition, interesting diel (day–night) movement patterns were observed for some fish. A significant positive correlation was also discovered between the weight of the fish and the number of detections. This study offers insight in movements of sea trout that use coastal habitats and how environmental conditions can affect movement patterns in a fjord system. To further our understanding of sea trout movement patterns and connectivity, tracking from river, through fjord, out to sea and at a longer time scale with more variation in fish size would be valuable to understand more about the complex movement dynamics of this important species. [ABSTRACT FROM AUTHOR]

Simple Summary: Otoliths, which are calcium carbonate structures found in the inner ears of fish, can be used to describe the use of freshwater and saltwater habitats during the lifespan of fish. This is performed by looking at the ratio of strontium to calcium along the radius of an otolith, where a high ratio indicates the use of saltwater and a low ratio indicates the use of freshwater. We studied brown trout (Salmo trutta L.) from the Swedish River Emån. We found that most brown trout, as expected, spent the first 1–2 years of their lives in freshwater before migrating to the Baltic Sea. We also found that 13% spent considerably less than one year in the river, which was not expected based on classical life history patterns for brown trout. In addition, we found that brown trout, which ranged from 3 to 6 years of age, returned to freshwater 2.3 times, and the amount of time spent in freshwater after hatching was negatively related to the number of visits to freshwater. Previous studies have explained that precocial migration occurs when there is a risk of drought. This explanation cannot apply to the permanently flowing River Emån. By analyzing otolith microchemistry, we examined the use of freshwater and marine environments by brown trout Salmo trutta L. that spawn in the Swedish River Emån and migrate to the Baltic Sea. We estimated the time juveniles spent in freshwater and the number of times the fish returned to freshwater, presumably to spawn. Twenty-six percent of the fish migrated to sea by 1 year of age. However, 13% spent less than one year in the river. Most brown trout (48%) migrated to the sea between 1 and 2 years of age. On average, brown trout, which averaged 4.4 years in age (range 3–6 years), returned to freshwater 2.3 times, and there was an inverse relationship between time spent in freshwater after hatching and the number of visits to freshwater. Our results do not support the classical life history pattern, where brown trout spend one or more years in freshwater before migrating to the sea. Here, we found evidence that part of the population leaves freshwater during their first year. While the cause for precocial migration in the River Emån is not known, our results from this permanently flowing river do not support the idea proposed for other Baltic Sea populations, where the risk of drought has been suggested to be the cause. [ABSTRACT FROM AUTHOR]

Introgression of non‐native conspecifics changes the genetic composition of wild populations, potentially leading to loss of local adaptations and fitness declines. However, long‐term data from wild populations are still relatively few. Here, we studied the effects of introgression in a Danish brown trout (Salmo trutta, L.) population, subjected to intensive stocking with domesticated hatchery fish of non‐native origin. We used wild‐caught genetically wild and admixed trout as well as fish from the partly domesticated hatchery strain used for stocking the river up until ~15 years prior to this study, to produce 22 families varying in hatchery/wild admixture. Following a replicated common‐garden experiment conducted in fish tanks from first feeding through 23 weeks at 7, 12, and 16°C, we observed a significant positive relationship between family admixture and fish size upon termination, an effect observed through all levels of admixture. Furthermore, the admixture effect was most distinct at the higher rearing temperatures. Although the hatchery strain used for stocking had been in culture for ~7 generations, it had not been deliberately selected for increased growth. These data thus demonstrate: (i) that growth had increased in the hatchery strain even in the absence of deliberate directional selection for this trait, (ii) that the increasing effect of admixture by temperature could represent inadvertent selection for performance in the hatchery strain at higher temperatures, and most significantly, (iii) that despite undergoing up to five generations of natural selection in the admixed wild population, the genetically increased growth potential was still detectable and thus persistent. Our findings suggest that altered growth patterns and potentially their cascading effects are of importance to the severity of hatchery/wild introgression, especially under changing‐climate scenarios and are of general significance to conservation practitioners seeking to evaluate long‐term effects of intra‐specific hybridization including under recovery. [ABSTRACT FROM AUTHOR]

The relationships between body size and density of salmonids in natural streams have been well studied, and density‐dependent growth (somatic growth) is interpreted as the principal mechanism responsible for the relationship. Moreover, the body size–density relationship is known to vary over ontogeny. However, the relationship has been studied mostly by experimental procedures (e.g. stocking fish into streams), and knowledge about the relationship in natural populations (e.g. no human‐induced input of fish) is still inadequate. In this study, we compared the relationships between body size and density of young‐of‐the‐year (YOY) masu salmon, Oncorhynchus masou, between different ontogenetic stages, that is, fry (spring) and juveniles (autumn). We used the monitoring data of YOY body sizes and densities across three study sites collected from Horokashubuto stream in Hokkaido, northern Japan, from 2014 to 2022. In the juvenile stage, YOY body size correlated negatively with increasing density. This pattern is typical of the density dependence of salmonid growth demonstrated in many previous studies. In the fry stage, however, YOY body size correlated positively with increasing density. This study suggested that the patterns of density dependence vary as functions of the ontogenetic stages of salmonids. [ABSTRACT FROM AUTHOR]

Habitat fragmentation may cut off anadromous salmonids from parts of their potential native habitat and separate previously connected populations. Understanding the consequences of this is vital for fish management and prioritization of restoration activities. Here, we show that there is a significant difference in the body morphology, physiological stress response, and aspects contributing to aerobic capacity between juvenile anadromous brown trout, Salmo trutta, collected at a downstream site and an upstream site, separated by 2 km and several challenging stream sections, in a small unfragmented stream system in western Sweden. Following a standardized stress test, there were significant differences between fish from the upstream and downstream sites (plasma cortisol concentration, plasma osmolality, hematocrit, hemoglobin concentration, and mean corpuscular hemoglobin concentration). Plasma glucose concentration did not significantly differ between fish from the two sites. Fish from the upstream site had larger spleen mass, although there was no evidence of differences in ventricle mass or proportion of compact ventricular myocardium. These physiological differences indicate local variation in stress response and highlight the importance of considering local trait variation in river management. If a section of the river becomes fragmented or degraded, and there are differences in the juveniles in different parts of the river, the consequence for the population might be larger than the proportional loss of habitat. [ABSTRACT FROM AUTHOR]

Recovery of many seal populations has intensified seal‐fishery conflicts. Acoustic deterrent devices (ADDs), designed to deter seals while minimising collateral harm, provide a potential solution. We investigated feasibility of ADDs to protect a European whitefish (Coregonus lavaretus) fishery in the River Iijoki, Finland, which enters the Baltic Sea. A sound barrier produced by a line of ADDs across the river efficiently prevented grey (Halichoerus grypus) and ringed (Pusa hispida) seals from passing the barrier line, thereby increasing catches, decreasing damage to fishing gear and catch and resulting in fewer seal sightings in the area safeguarded by ADDs. Hence, blocking access of seals to a river or its section by ADDs during a critical fishing period is a promising method for reducing seal‐induced catch losses. However, long‐term assessments of impacts of ADDs are still needed to verify the overall effectiveness. [ABSTRACT FROM AUTHOR]

In the context of warming freshwater habitats, protection of Atlantic salmon populations requires an understanding of the effects of temperature on somatic growth during the juvenile life stage. However, quantifying the effect of temperature on growth is challenging given differences among methodologies, metrics of growth, and their underlying assumptions. Using short term studies (2000–2002) in two Canadian populations of wild Atlantic salmon (Margaree and Miramichi rivers), we investigate whether different hierarchical modeling approaches influence the derivation of temperature-growth relationships, by contrasting seasonal growth trajectories (von Bertalanffy; VBGF) to size-at-age data models built with instantaneous growth rates. Size-at-age data analysed seasonally with the VBGF framework failed to detect an effect of temperature, whereas instantaneous growth rates from the same dataset were strongly related to temperature metrics. However, instantaneous growth rates cannot be used to extrapolate predictions into meaningful metrics for fisheries management (e.g., size at the end of the growing season). Nevertheless, we show that size at the end of the growing season can be predicted with VBGF models accounting for site-level variation, which in turn are related to temperature metrics, as observed for instantaneous growth rates. Taken together, these results show that combining these two approaches (size-at-age, growth rates) can circumvent their intrinsic drawbacks and reveal essential ecological patterns that may otherwise remain undetected. In cases where instantaneous growth rates are not available, relating predicted size-at-age from hierarchical VBGF to temperature provides an interesting alternative for detecting subtle environmental effects, even if the VBGF parameters or its residuals are unrelated to temperature metrics. [ABSTRACT FROM AUTHOR]

The genomes of plant and animal species are influenced by ancestral whole-genome duplication (WGD) events, which have profound impacts on the regulation and function of gene networks. To gain insight into the consequences of WGD events, we characterized the sequence conservation and expression patterns of ohnologs in the highly duplicated activin receptor signaling pathway in rainbow trout (RBT). The RBT activin receptor signaling pathway is defined by tissue-specific expression of inhibitors and ligands and broad expression of receptors and Co-Smad signaling molecules. Signaling pathway ligands exhibited shared expression, while inhibitors and Smad signaling molecules primarily express a single dominant ohnolog. Our findings suggest that gene function influences ohnolog evolution following duplication of the activin signaling pathway in RBT. [ABSTRACT FROM AUTHOR]

Animal dispersal is often phenotype‐dependent and can exert evolutionary pressures on populations in which it occurs. The evolutionary pressure arising from phenotype‐dependent dispersal is called spatial sorting. We examined the evolutionary pressure arising from spatial sorting (sorting pressure) caused by downstream dispersal in juvenile white‐spotted char Salvelinus leucomaenis under ordinary flow conditions. We conducted outdoor experiments using an artificial channel with 10 steps to investigate the relationship between phenotypic characteristics and the occurrence or distance of downstream dispersal during five daytime hours. Six experiments were conducted using young‐of‐the‐year juveniles collected early in the morning of each experimental day. We focused on two phenotypes, fork length (body size) and station‐holding (SH) behavior, where juveniles remain sedentary on the substrate. Juveniles were assigned to the "SH group" if they exhibited SH behavior for more than 10 s during a 540‐s observation period, and to the "swimming group" if they exhibited SH behavior for less than 10 s. Juveniles in the swimming group had a higher occurrence of downstream dispersal than in the SH group. In addition, large juveniles in the SH group and small juveniles in the swimming group tended to show long dispersal distances. These results suggest an effective sorting pressure against juveniles with active swimming behavior. This sorting pressure may accumulate in isolated char populations located above a tall migration barrier and contribute to the creation and maintenance of the reported interpopulation variation in SH behavior. [ABSTRACT FROM AUTHOR]

The impact of low flows on riverine ecology in Sweden is not fully understood. Recent summer droughts, along with their regionally projected increase, together demonstrate the need for a more solid foundation guiding ecologically responsible planning. Impact assessments can be made via indicator species sensitive to low flow, if their response to the flow conditions can be clearly understood, using for example historical data on species abundance and flow. In Swedish rivers, there are extensive electrofishing data with a special focus on salmonids, predominantly brown trout Salmo trutta, which are previously reported to be sensitive to low flow. There are also available national data on river flows, largely based on simulations. We processed and used these data sets, along with information on additional environmental factors. We tested if sites had less than their median trout abundance during the year of the minimum winter or summer low-flow. Adverse impacts of low flow could be shown only for young-of-the-year trout. The impact was small with at most 57 % of remaining sites having lower than median trout abundance (compared to 44 % overall) during the year of the lowest winter flow. The insubstantial effect means that using trout as a low-flow indicator species in Sweden cannot be supported by the currently available data. We believe the main causes of the small effects are limitations in the time resolution of trout data and spatial resolution of the flow data, followed by the ability of trout to escape low flows by seeking deeper habitats.

Abstract As a predatory fish that migrates between freshwater and marine environments, the sea trout (Salmo trutta) is important in linking these systems. This study investigated movement patterns of sea trout in a coastal fjord at the Swedish Skagerrak region from August 2018 to January 2019, using acoustic telemetry, while assessing these against environmental variables across different spatial and temporal scales. Six acoustic receivers were deployed in the fjord and a river, which flows into the upper reaches of the fjord, with the aim of detecting 20 sea trout that had been tagged with acoustic transmitters. Sea surface temperature and winds (east–west) affected movement patterns of the sea trout the most, while changes in atmospheric pressure were also important, but to a lesser extent. Sea surface temperature and atmospheric pressure both had a positive relationship with the number of detections, whereas stronger winds from the east (i.e. from land) resulted in more detections than stronger winds from the west (i.e. from the ocean). In addition, interesting diel (day–night) movement patterns were observed for some fish. A significant positive correlation was also discovered between the weight of the fish and the number of detections. This study offers insight in movements of sea trout that use coastal habitats and how environmental conditions can affect movement patterns in a fjord system. To further our understanding of sea trout movement patterns and connectivity, tracking from river, through fjord, out to sea and at a longer time scale with more variation in fish size would be valuable to understand more about the complex movement dynamics of this important species.

Abstract Human‐mediated species introductions are contributing to the biotic homogenization of global flora and fauna. Despite extensive research, we lack simple methods of predicting how and where an introduced species will spread and establish, particularly in species with complex life histories in aquatic ecosystems. We predict that spread can be modeled simply using the characteristics of the invading population, specifically species growth rate and dispersal capacity. In addition, we predict that the establishment of introduced species should be explained by the characteristics of the receiving ecosystem. Using the brown trout (Salmo trutta) invasion on the Island of Newfoundland as a case study, we fit and test a reaction–diffusion model with brown trout population data collected from the literature. Next, we use statistical models to assess the influence of a suite of abiotic (conductivity, pH, turbidity, calcium), biotic (Atlantic salmon occurrence), and landscape (watershed relief, watershed area, distance to original introduction) variables on brown trout establishment (i.e., presence–absence) patterns. We find that observed coastal spread in Newfoundland is slow (~4.4 km/year), and that it lies on the lower end of the range of predictions made by the reaction–diffusion model parameterized based on the estimates of growth rate and movement from the literature (predicted spread range 1.4 to 92 km/year). Also, we did not find evidence for a relationship between abiotic or biotic variables and brown trout establishment. However, we did observe that landscape variables of the distance to trout introduction point and estuary area may explain establishment patterns along the south coast of Newfoundland. Our results suggest the importance of using population‐specific parameterization and the need to integrate regional landscape factors that are generally applicable across biological invasions (e.g., distance to introduction), and those that are more specific to the ecology of the invader (e.g., estuary area). Our study contextualizes the mechanisms that contribute to a slow invasion by an aquatic species with a complex life history and reveals that future studies need to integrate a variety of methods to elucidate the processes governing invasions.

The current extinction crisis requires effective assessment and monitoring tools. Genetic approaches are appealing given the relative ease of field sampling required to estimate genetic diversity characteristics assumed related to population size, evolutionary potential, and extinction risk, and to evaluate hybridization with non-native species simultaneously. However, linkages between population genetic metrics of diversity from survey-style field collections and demographic estimates of population size and extinction risk are still in need of empirical examples, especially for remotely distributed species of conservation concern where the approach might be most beneficial. We capitalized on an exceptional opportunity to evaluate congruence between genetic diversity metrics and demographic-based estimates of abundance and extinction risk from a comprehensive Multiple Population Viability Analysis (MPVA) in a threatened fish, the Lahontan cutthroat trout (LCT). We sequenced non-native trout reference samples and recently collected and archived tissue samples of most remaining populations of LCT (N = 60) and estimated common genetic assessment metrics, predicting minimal hybridization with non-native trout, low diversity, and declining diversity over time. We further hypothesized genetic metrics would correlate positively with MPVA-estimated abundance and negatively with extinction probability. We uncovered several instances of hybridization that pointed to immediate management needs. After removing hybridized individuals, cautious interpretation of low effective population sizes (2-63) suggested reduced evolutionary potential for many LCT populations. Other genetic metrics did not decline over time nor correlate with MPVA-based estimates of harmonic mean abundance or 30-year extinction probability. Our results demonstrate benefits of genetic monitoring for efficiently detecting hybridization and, though genetic results were disconnected from demographic assessment of conservation status, they suggest reduced evolutionary potential and likely a higher conservation risk than currently recognized for this threatened fish. We emphasize that genetic information provides essential complementary insight, in addition to demographic information, for evaluating species status.

Due to the detection frequencies and measured concentrations in surface water, the type I pyrethroid insecticide, bifenthrin, has been of particular concern within the Sacramento-San Joaquin Delta in California. Concentrations have been detected above levels previously reported to impair neuroendocrine function and induce neurotoxicity to several species of salmonids. Metabolomic and transcriptomic studies indicated impairment of cellular signaling within the brain of exposed animals and potential alteration of lipid metabolism. To better understand the potential impacts of bifenthrin on brain lipids, juvenile rainbow trout (Oncorhynchus mykiss) were exposed to mean bifenthrin concentrations of 28 or 48 ng/L for 14 days, and non-targeted lipidomic profiling in the brain was conducted. Brain tissue sections were also assessed for histopathological insult following bifenthrin treatment. Bifenthrin-exposed trout had a concentration-dependent decrease in the relative abundance of triglycerides (TGs) with levels of phosphatidylcholines (PCs) and phosphatidylethanolamines (PEs) significantly altered following 48 ng/L bifenthrin exposure. An increased incidence of histopathological lesions, such as focal hemorrhages and congestion of blood vessels, was noted in the brains of bifenthrin-treated animals, suggesting an association between altered lipid metabolism and neuronal cell structure and integrity.

Many organisms rely on migrations between habitats to maximize lifetime fitness, but these migrations can be risky due to a suite of factors. In anadromous salmonids, the smolt migration from fresh water to sea is a critical life stage, during which smolts can experience high mortality from multiple sources. This study investigated the migratory behavior and survival of Atlantic salmon (Salmo salar) and anadromous brown trout (Salmo trutta) smolts during their seaward migration using acoustic telemetry between March and May 2021. Due to the extinction of wild salmon in the River Gudenaa after the construction of the Tange hydropower plant, this study used hatchery‐reared salmon originating from a nearby Danish river. A total of 75 hatchery‐reared salmon smolts, 75 hatchery‐reared trout smolts, and 75 wild trout smolts were tagged with acoustic transmitters and released into River Gudenaa, Denmark. The downstream movements of tagged fish were monitored using acoustic receivers deployed in the river and fjord. Hatchery‐reared trout initiated migration first, followed by hatchery‐reared salmon, with wild trout being the last to migrate. There was no difference in riverine progression rates among the three smolt groups, but noticeable differences emerged once in the fjord: trout (wild and hatchery) slowed down, whereas hatchery‐reared salmon maintained their speed. Riverine migration was predominantly nocturnal for all smolts; however, daytime migration increased at the fjord arrays. Day‐of‐year significantly influenced diurnal patterns in the river and fjord, where daytime migration increased later in the year. Hatchery‐reared salmon and wild trout had reasonably good overall survival from river to sea entry (≥66%), whereas hatchery‐reared trout had poor survival (c.26%). The fjord was the major bottleneck for survival of hatchery‐reared trout. We found no strong evidence for differences in progression rate or diurnal patterns between wild and hatchery‐reared trout to explain the lower survival. This study demonstrates that salmon and trout differ in their life‐history strategy already in the post‐smolt phase, and that stocking is a sub‐optimal strategy to aid wild populations. [ABSTRACT FROM AUTHOR]

Nematodes that parasitize salmonids are found in both seawater and freshwater. Unlike seawater species such as those in family Anisakidae, freshwater species have not been well studied. In particular, the influences of these nematodes on the body condition of salmonids remain unclear. We studied the effects of Salmonema cf. ephemeridarum on the body condition of masu salmon Oncorhynchus masou. We found a positive relationship between the number of parasites and fish fork length. In contrast, we found a negative relationship between the body condition (condition factor) of fish and the number of parasites. These results suggest that nematode infection could affect host energy reserves for future growth. [ABSTRACT FROM AUTHOR]

Bioenergetics models produce quantitative flow‐ecology relationships that summarize changes in habitat and food resources from altered flows. We used a drift‐foraging bioenergetics model to quantify the net rate of energetic intake (NREI) for trout above and below a water diversion. NREI is reduced by >95% below the water diversion in July–September, when up to 98% of unimpaired flows are diverted. We then used a risk‐based approach to estimate the maximum diversion rate, expressed as a percentage of unimpaired flow, that would produce NREI values that are not significantly lower than values under unimpaired flows throughout a 62‐year period. NREI decreased with increased precent‐of‐flow diversion rates in low‐flow months (July–September). Diversion rates of 16% in July and 9% in August and September would maintain NREI within the range of unimpaired flow conditions. In higher flow months, May–June, increasing diversions brought estimated instream flows closer to the peak NREI flow, leading to the assessment that increased diversions would increase NREI. Bioenergetic models can be used to develop protective flow rates at times of the year when fish growth and production would be high under unimpaired flows, which often coincides with when water is diverted. Our study is the first to develop protective percent‐of‐flow diversion rates for holistic flow management using a quantitative process‐based and fish‐centric ecological metric. [ABSTRACT FROM AUTHOR]

Genetic diversity is fundamental to the adaptive potential and survival of species. Although its importance has long been recognized in science, it has a history of neglect within policy, until now. The new Global Biodiversity Framework recently adopted by the Convention on Biological Diversity, states that genetic diversity must be maintained at levels assuring adaptive potential of populations, and includes metrics for systematic monitoring of genetic diversity in so called indicators. Similarly, indicators for genetic diversity are being developed at national levels. Here, we apply new indicators for Swedish national use to one of the northernmost salmonid fishes, the Arctic charr (Salvelinus alpinus). We sequence whole genomes to monitor genetic diversity over four decades in three landlocked populations inhabiting protected alpine lakes in central Sweden. We find levels of genetic diversity, inbreeding and load to differ among lakes but remain stable over time. Effective population sizes are generally small (< 500), suggesting a limited ability to maintain adaptive variability if genetic exchange with nearby populations became eliminated. We identify genomic regions potentially shaped by selection; SNPs exhibiting population divergence exceeding expectations under drift and a putative selective sweep acting within one lake to which the competitive brown trout (Salmo trutta) was introduced during the sampling period. Identified genes appear involved in immunity and salinity tolerance. Present results suggest that genetically vulnerable populations of Arctic charr have maintained neutral and putatively adaptive genetic diversity despite small effective sizes, attesting the importance of continued protection and assurance of gene flow among populations. [ABSTRACT FROM AUTHOR]

Research‐based knowledge is essential for effective conservation and restoration of threatened aquatic species and habitats. Here, our aim was to gather this knowledge on the lake‐dwelling grayling (Thymallus thymallus), typically a riverine fish. Such atypical populations are particularly vulnerable to anthropogenic impacts, including fishing pressure, climate change, eutrophication and waterway construction, some of which affect especially the early life stages. However, there is little information available to guide management and conservation of grayling in lakes. Accordingly, we assessed characteristics of the nursery areas in the threatened grayling population of Lake Puruvesi (eastern Finland). In particular, we used beach seines in two consecutive years to sample lakeshore sites (including islands) that were a priori presumed suitable for grayling. We assessed the occurrence of grayling fry (larvae and post‐larvae <40 mm in length) regarding depth, year, the site's exposure (fetch), bottom shear stress, substrate coarseness and shoreline's north–south orientation. Overall, we found grayling fry in low numbers at every fourth site, with the sites' exposure and dominant substrate coarseness being most relevant variables. In particular, more exposed sites (i.e. with higher fetch values) and fine‐grained substrates dominated by sand or gravel had more grayling fry. Average depth, bottom shear stress or shoreline orientation along the north–south axis did not have a significant effect. Together, the results suggest that the most important nursery areas for lake‐dwelling grayling are lakeshore zones that are barren and exposed. Hence, the sites share characteristics with those used for reproduction by the more common riverine grayling. We hope that these findings will facilitate lake‐dwelling grayling's management and conservation efforts. [ABSTRACT FROM AUTHOR]

Determining how environmental conditions contribute to divergence among populations and drive speciation is fundamental to resolving mechanisms and understanding outcomes in evolutionary biology. Postglacial freshwater fish species in the Northern Hemisphere are ideal biological systems to explore the effects of environment on diversification in morphology, ecology, and genetics (ecomorph divergences) within lakes. To date, various environmental factors have been implicated in the presence of multiple ecomorphs within particular lakes or regions. However, concerted evidence for generalizable patterns in environmental variables associated with speciation across geographical regions and across species and genera has been lacking. Here, we aimed to identify key biotic and abiotic factors associated with ecological divergence of postglacial freshwater fish species into multiple sympatric ecomorphs, focusing on species in the well‐studied, widespread, and co‐distributed genera Gasterosteus, Salvelinus, and Coregonus (stickleback, charr, and whitefish, respectively). We found that the presence of multiple sympatric ecomorphs tended to be associated with increasing lake surface area, maximum depth, and nutrient availability. In addition, predation, competition, and prey availability were suggested to play a role in divergence into multiple ecomorphs, but the effects of biotic factors require further study. Although we identified several environmental factors correlated with the presence of multiple ecomorphs, there were substantial data gaps across species and regions. An improved understanding of these systems may provide insight into both generalizable environmental factors involved in speciation in other systems, and potential ecological and evolutionary responses of species complexes when these variables are altered by environmental change. [ABSTRACT FROM AUTHOR]

Variation in thermal conditions during embryogenesis can have far‐reaching impact throughout ontogeny and may give rise to behavioural variation. Many animals, such as salmonids, exhibit behavioural trade‐offs related to foraging and predator avoidance. How embryonic temperature affects these behaviours has remained unexplored. Not only abiotic conditions during embryogenesis but also biotic factors such as predator conditioning may affect fish behaviour, especially anti‐predator responses. We examined how elevated temperatures and predator odours throughout embryogenesis affect the behaviour of 28–37 mm young‐of‐the‐year brown trout (Salmo trutta) in encounters with predators, namely Atlantic salmon (Salmo salar; 20 cm) and burbot (Lota lota; 40 cm). Juvenile brown trout were more active and aggressive if they were incubated in warmer water as eggs than if they were incubated in colder water, and trout remained inactive longer when encountering predators if they were cold incubated. Brown trout were less active and aggressive when an Atlantic salmon was present than when a burbot or no predator was present. Behavioural responses did not differ between trout that had been subjected to water with versus without predator odours during embryogenesis, possibly because brown trout were not subjected to conspecific alarm cues during egg incubation. This study shows that thermal conditions during embryogenesis can influence fish behaviour early in life and thus contribute to behavioural variation, with potential effects on life history. Considering the rapid warming of northern regions, elevated embryonic temperatures may contribute substantially to variation in salmonid behaviour in the near future. [ABSTRACT FROM AUTHOR]

Predicting the persistence of species under climate change is an increasingly important objective in ecological research and management. However, biotic and abiotic heterogeneity can drive asynchrony in population responses at small spatial scales, complicating species-level assessments. For widely distributed species consisting of many fragmented populations, such as brook trout (Salvelinus fontinalis), understanding the drivers of asynchrony in population dynamics can improve the predictions of range-wide climate impacts. We analyzed the demographic time series from mark-recapture surveys of 11 natural brook trout populations in eastern Canada over 13 years to examine the extent, drivers, and consequences of fine-scale population variation. The focal populations were genetically differentiated, occupied a small area (~25 km2) with few human impacts, and experienced similar climate conditions. Recruitment was highly asynchronous, weakly related to climate variables and showed population-specific relationships with other demographic processes, generating diverse population dynamics. In contrast, individual growth was mostly synchronized among populations and driven by a shared positive relationship with stream temperature. Outputs from population-specific models were unrelated to four of the five hypothesized drivers (recruitment, growth, reproductive success, phylogenetic distance), but variation in groundwater inputs strongly influenced stream temperature regimes and stock-recruitment relationships. Finally, population asynchrony generated a portfolio effect that stabilized regional species abundance. Our results demonstrated that population demographics and habitat diversity at microgeographic scales can play a significant role in moderating species responses to climate change. Moreover, we suggest that the absence of human activities within study streams preserved natural habitat variation and contributed to asynchrony in brook trout abundance, while the small study area eased monitoring and increased the likelihood of detecting asynchrony. Therefore, anthropogenic habitat degradation, landscape context, and spatial scale must be considered when developing management strategies to monitor and maintain populations that are diverse, stable, and resilient to climate change. [ABSTRACT FROM AUTHOR]

With rising environmental temperatures causing concern for the status of freshwater fishes, captive breeding programs may become increasingly important for conservation efforts as well as to support fisheries. Although captive broodstocks provide reliable gamete sources for production stocking, prolonged generations under hatchery conditions can result in changes to fishes as they acclimate to captive settings (domestication) — for example, reduced plasticity due to homogenous captive environments. We assessed the effects of rearing temperature and number of generations spent in captivity on the survival and quality (indicated by lack of malformations) of long-term (F>25) and newly captive (F1) strains of Ontario hatchery brook trout (Salvelinus fontinalis) with shared genetic history. Elevated temperatures decreased likelihood of survival between the pre-exogenous feed and emergent fry stages and had a greater impact on fry quality (rate of malformations) on F1 fish compared with F>25 fish, suggesting no reduction in plasticity due to prolonged captivity. However, overall survival between F1 and F>25 fish was not different. The combined effects of elevated rearing temperatures and number of hatchery generations suggest that (selection) changes due to captivity can occur rapidly even under benign conditions and that additive stressor effects of captivity and temperature have the potential to impact newly established strains. [ABSTRACT FROM AUTHOR]

Metabolic rates, including standard (SMR) and maximum (MMR) metabolic rate have often been linked with life-history strategies. Variation in context- and tissue-level metabolism underlying SMR and MMR may thus provide a physiological basis for life-history variation. This raises a hypothesis that tissue-specific metabolism covaries with whole-animal metabolic rates and is genetically linked to life history. In Atlantic salmon (Salmo salar), variation in two loci, vgll3 and six6, affects life history via age-at-maturity as well as MMR. Here, using individuals with known SMR and MMR with different vgll3 and six6 genotype combinations, we measured proxies of mitochondrial density and anaerobic metabolism, i.e. maximal activities of the mitochondrial citrate synthase (CS) and lactate dehydrogenase (LDH) enzymes, in four tissues (heart, intestine, liver, white muscle) across low- and high-food regimes. We found enzymatic activities were related to metabolic rates, mainly SMR, in the intestine and heart. Individual loci were not associated with the enzymatic activities, but we found epistatic effects and genotype-by-environment interactions in CS activity in the heart and epistasis in LDH activity in the intestine. These effects suggest that mitochondrial density and anaerobic capacity in the heart and intestine may partly mediate variation in metabolic rates and life history via age-at-maturity. This article is part of the theme issue 'The evolutionary significance of variation in metabolic rates'. [ABSTRACT FROM AUTHOR]

In situ evaluations of the metabolic rates (i.e., respiration and excretion) of salmonid eggs are mostly indirect, focusing on the sampling of hyporheic water from wild or artificial nests. Comparatively, experimental studies carried out under controlled, laboratory conditions are less abundant due to methodological difficulties. This study presents a novel experimental setup aimed to address this issue and enable the measurement of oxygen and dissolved inorganic nitrogen fluxes in simulated rainbow trout (O. mykiss) egg pockets. The experimental setup consists of reconstructed egg pockets in cylindrical cores under flow-through conditions. Live and dead eyed-stage eggs were incubated in a natural, sterilised gravel substrate. Hyporheic water circulation was ensured using peristaltic pumps, with the possibility to collect and analyse inflowing and outflowing water for chemical analyses. Microcosm incubations, with closed respirometry of eggs in water alone, were also carried out in order to infer the importance of microbial respiration in the simulated egg pockets. The results show an increasing trend in oxygen demand, due to the development of biofilm in the reconstructed egg pockets and increased egg respiration rates. Moreover, egg pockets showed positive ammonium net fluxes connected with the advancing developmental egg stage, while nitrate removal peaked during the last phase of the experiment, mainly due to the formation of oxic-hypoxic interfaces, leading to couple nitrification–denitrification processes. The suggested approach enables to test a number of in situ situations, including the effects of extreme hydrological conditions, sediment clogging and sudden changes in water chemistry or temperature on the survival and metabolic performances of nests, at different egg development stages. [ABSTRACT FROM AUTHOR]

Simple Summary: Aquaculture produces fish that are then marketed to the population, but the type of production used today generates stress in fish. Constant stress, which occurs through the hormone cortisol, negatively affects the seawater adaptation of juvenile fish, which is detrimental to the aquaculture process. For many years, it was thought that only cortisol influenced physiological responses in fish. However, in recent years, the cortisol intermediary 11-deoxycorticosterone (DOC) has been considered a complementary stress-related hormone in fish. Given the above, this work aims to unravel whether DOC is involved in the regulation of early physiological and transcriptional responses in fish gills. To ascertain this, juvenile rainbow trout were injected with DOC and/or pharmacological inhibitors of corticosteroid receptors. Then, the physiological parameters and RNA sequencing of the gills were analyzed. The experiment concluded that DOC is important during stress and that it is vital for the balance between minerals and water in fish. The results of this work will help us understand the other effects of DOC in fish, as well as help improve the monitoring of animal welfare in the aquaculture industry through the incorporation of novel and potential stress molecular biomarkers. In aquaculture, stress can negatively affect fish growth. For years, the cortisol hormone has been thought to play both glucocorticoid and mineralocorticoid functions. Nevertheless, recent research has suggested that 11-deoxycorticosterone (DOC) released during stress could contribute to cortisol actions, though this process is still misunderstood. Here, we evaluated the DOC effects on physiological and early transcriptional responses by RNA-seq. Juvenile rainbow trout were treated with DOC and/or glucocorticoids (mifepristone) or mineralocorticoid (eplerenone) receptor antagonists. Subsequently, plasma was collected, and cDNA libraries were generated from the gills of vehicle (control), DOC, mifepristone, mifepristone with DOC, eplerenone, and eplerenone with DOC groups. Calcium and phosphate levels in plasma were changed. Results revealed 914 differentially expressed transcripts (DETs) induced by DOC compared with control, mainly associated with sodium ion transmembrane transport, gluconeogenesis, negative regulation of transmembrane transport, and activation of innate immune response. DOC versus eplerenone with DOC comparison displayed 444 DETs related to cell-cell junction organization, canonical glycolysis, positive regulation of immune response, and potassium ion transport. Conversely, no DETs were detected in DOC versus mifepristone with DOC comparison. These data suggest that DOC has a relevant role in gill stress response and ion transport, which is differentially regulated by mineralocorticoid receptors. [ABSTRACT FROM AUTHOR]

Sensitive screening of eukaryotic communities in aquaculture for research and management is limited by the availability of technologies that can detect invading pathogens in an unbiased manner. Amplicon sequencing of 18S ribosomal DNA (rDNA) provides a potential pan-diagnostic test to overcome these biases; however, this technique is limited by a swamping effect of host DNA on low abundance parasite DNA. In this study, we have adapted a host 18S rDNA blocking assay to amplify eukaryotic DNA from salmonid tissue for amplicon sequencing. We demonstrate that effective salmonid 18S rDNA blocking enables sensitive detection of parasite genera in salmonid gill swabs. Furthermore, 18S rDNA amplicon sequencing with host blocking identified enriched pathogen communities in gill swabs from Atlantic salmon suffering from severe clinical gill infections compared to those exhibiting no clinical signs of gill infection. Application of host 18S rDNA blocking in salmonid samples led to improved detection of the amoebic parasite Neoparamoeba perurans, a parasite of significant threat to the Atlantic salmon aquaculture industry. These results reveal host 18S rDNA blocking as an effective strategy to improve the profiling and detection of parasitic communities in aquaculture species. This assay can be readily adapted to any animal species for improved eukaryotic profiling across agricultural and veterinary industries. [ABSTRACT FROM AUTHOR]

An understanding of egg densities and juvenile production is critical in salmonid egg stocking projects, but the question is not deeply studied. Given that managers rely on the number of young of the year (YOY) fish to evaluate stocking success, this knowledge gap poses a major challenge. We studied effects of two stocking levels on YOY brown trout at different downstream distances (0–600 m) from the stocking point. Density increased significantly with increasing distance from the stocking point when 60,000 eggs were stocked but not when 30,000 eggs were stocked. Body length was not related to distance from the stocking point and only moderately negatively related to density. We conclude that the results of egg stocking can be difficult to interpret because site‐specific density may vary with distance from the stocking point and the number of eggs stocked. [ABSTRACT FROM AUTHOR]

The vulnerability of fish populations to climate change is driven primarily by impacts on their most vulnerable life stages. The earliest life stages may, in many cases, be more thermally sensitive than juvenile and adult fish, as developing embryos cannot behaviourally thermoregulate. We quantified the survivorship of brook trout (Salvelinus fontinalis) embryos under a range of winter thermal regimes. In the laboratory, embryos from four populations with varying amounts of native or hatchery-introgressed ancestry were reared under four simulated winter thermal regimes relevant to the central portion of the species' range: ambient stream temperatures, ambient + 2 °C, ambient with a simulated winter snowmelt event, and ambient followed by an early rise to spring temperatures. Embryo survival (hatching success) differed significantly among populations across all thermal regimes, with the pure native population having the lowest survival. No consistent differences in survivorship across thermal regimes were detected, although native populations exhibited more among-family variability in response to thermal stress. Our study does not align closely with others that found reduced embryo survival under thermal stress, but concurs with observations of substantial intraspecific variation in thermal performance in coldwater fishes. Our results suggest that brook trout embryos may be somewhat resilient in the face of warmer and more variable incubation conditions, but it is likely that their resiliency varies among populations. Future experiments that include more extreme and variable conditions to clarify environmental limits of early life stages of brook trout would be useful for conservation planning. [ABSTRACT FROM AUTHOR]

To combat climate change, societal pressure to develop fossil-free hydroelectricity is growing. There is a great need, however, for environmental assessment tools that can predict the effects of streamflow regulation on biodiversity in hydropower-regulated rivers. Ecological modelling lets practitioners: 1) set broad bounds on population-level responses of key species and 2) identify knowledge gaps and prioritize research needs. Individual-based models (IBMs) are powerful tools for assessing relative benefits of alternative management actions, and therefore help to develop more sustainable hydropower solutions. We applied the inSALMO 7.3-SD IBM for populations of brown trout (Salmo trutta) and Atlantic salmon (S. salar) in the lower Gullspång River, Sweden. We simulated the effects of various minimum hydropeaking flow releases (from 9 to 21 m3/s) on outmigration production. We found that the number of age-1 outmigrants of both species decreased with increasing minimum flow release of the hydropeaking scenarios. The number of age-2 trout outmigrants did not change considerably with increasing the minimum release, but decreased sharply at the highest flow. The most age-2 salmon outmigrants were produced by flow scenarios with minimum releases of 15 and 18 m3/s. The model predicts, therefore, varying species- and life stage-specific effects of flow regulation. Moreover, increased flow caused juveniles to stay in the river longer and outmigrate at larger size, which exposes them to simulated predation longer but could increase post-outmigration survival. By providing insights into mechanisms driving population dynamics, IBMs can help promote the sustainability of high-conservation-value fish species.

ABSTRACTAnimals and their associated microbiota share long evolutionary histories. However, it is not always clear how host genotype and microbiota interact to affect phenotype. We applied a hologenomic approach to explore how host–microbiota interactions shape lifetime growth and parasite infection in farmed Atlantic salmon (Salmo salar). Multi-omics data sets were generated from the guts of 460 salmon, 82% of which were naturally infected with an intestinal cestode. A single Mycoplasma bacterial strain, MAG01, dominated the gut metagenome of large, non-parasitized fish, consistent with previous studies showing high levels of Mycoplasma in the gut microbiota of healthy salmon. While small and/or parasitized salmon also had high abundance of MAG01, we observed increased alpha diversity in these individuals, driven by increased frequency of low-abundance Vibrionaceae and other Mycoplasma species that carried known virulence genes. Colonization by one of these cestode-associated Mycoplasma strains was associated with host individual genomic variation in long non-coding RNAs. Integrating the multi-omic data sets revealed coordinated changes in the salmon gut mRNA transcriptome and metabolome that correlated with shifts in the microbiota of smaller, parasitized fish. Our results suggest that the gut microbiota of small and/or parasitized fish is in a state of dysbiosis that partly depends on the host genotype, highlighting the value of using a hologenomic approach to incorporate the microbiota into the study of host–parasite dynamics.IMPORTANCEStudying host–microbiota interactions through the perspective of the hologenome is gaining interest across all life sciences. Intestinal parasite infections are a huge burden on human and animal health; however, there are few studies investigating the role of the hologenome during parasite infections. We address this gap in the largest multi-omics fish microbiota study to date using natural cestode infection of farmed Atlantic salmon. We find a clear association between cestode infection, salmon lifetime growth, and perturbation of the salmon gut microbiota. Furthermore, we provide the first evidence that the genetic background of the host may partly determine how the gut microbiota changes during parasite-associated dysbiosis. Our study therefore highlights the value of a hologenomic approach for gaining a more in-depth understanding of parasitism.

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Copyright of Ege Journal of Fisheries & Aquatic Sciences (EgeJFAS) / Su Ürünleri Dergisi is the property of Ege Journal of Fisheries & Aquatic Sciences (EgeJFAS) / Su Urunleri Dergisi and its content may not be copied or emailed to multiple sites or posted to a listserv without the copyright holder's express written permission. However, users may print, download, or email articles for individual use. This abstract may be abridged. No warranty is given about the accuracy of the copy. Users should refer to the original published version of the material for the full abstract. (Copyright applies to all Abstracts.)