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Summary: The composite film with collagen as the main component has been widely used due to its characteristics of non‐toxicity, environmental protection and health. Fish skin, a by‐product of fish, is an excellent source of collagen. Thus, collagen was extracted from an under‐utilised species, Atlantic cod (Gadus morhua) skin, and the composite film of fish skin collagen–chitosan–cinnamon essential oil was prepared by casting. The effects of the ratio of collagen to chitosan (2:8, 4:6, 5:5, 6:4, 8:2) and the concentration of essential oil (0%, 0.1%, 0.2%, 0.3%, and 0.4% (v/v)) on the composite film were studied. The structures of the composite films were analysed using scanning electron microscopy (SEM), Fourier transforms infrared spectroscopy (FTIR), and X‐ray diffractometry (XRD). The collagen content of Atlantic cod skin is approximately 50.12%, which is significantly higher than that found in basa fish and Nile tilapia (P < 0.05). The content of hydroxyproline was 4.51%. Analyses of tensile strength, elongation at break, water vapor permeability, and water solubility showed Co4Ch6 (Co:Ch = 4:6) had the optimal comprehensive performance, and Co4Ch6–0.2 (Co4Ch6 with 0.2% CEO) had high water resistance in the high‐humidity environment. As the CEO concentration rose, the composite films' infrared absorption bands were enhanced in amplitude, and the XRD peaks were gradually intensified, indicating the internal crystallinity and, thereby, the opacity of the composite films were improved. The bacteriostasis zones Co4Ch6–0.4 against Escherichia coli and Staphylococcus aureus were 2.02 cm and 1.73 cm, respectively. The DPPH radical scavenging rate of Co4Ch6 rose with the increase in CEO concentration, and the DPPH radical scavenging rate of C04Ch6–0.4 was up to 48.56%. Thus, the composite films prepared from fish skin collagen, chitosan, and cinnamon essential oils have outstanding mechanical properties, barrier ability, and antimicrobial activity and are promising for application in food packaging and storage. In addition, the composite films showed a potential antioxidation ability, which might be used as green bioactive films to preserve nutraceutical products. [ABSTRACT FROM AUTHOR]

Vertical egg distributions are needed knowledge for understanding exposure to physical forcing, predation pressure, and modelling initial transport from the spawning areas. Egg density and size are the biotic factors determining vertical distributions while the ambient salinity and turbulent mixing are the physical factors contributing to their vertical distributions. Egg buoyancies and densities of Atlantic cod (Gadus morhua) have been extensively studied, while limited information on haddock (Melanogrammus aeglefinus) egg density is available. This is the first comprehensive study on haddock egg densities in Norwegian waters. Eggs were collected from pairs of spawning fish caught at the coast of western Norway and inserted into a density gradient column where density was measured. The haddock eggs were neutrally buoyant at salinities ranging from 28.5 to 31. The density changed during egg development, and the results from the measurements were used to model the vertical distribution of the eggs. The simulations showed that the changes in buoyancy substantially affected vertical distributions. A comparison to previously published data on cod eggs showed that haddock eggs are considerably more buoyant than the cod eggs and are—particularly during calm wind conditions—confined to the surface layer to a larger extent than the cod eggs. The more buoyant attribute of the haddock eggs, together with the lipophilic surface of the egg membrane, is suggested to make haddock eggs more vulnerable to buoyant pollutants, like hydrocarbons. [ABSTRACT FROM AUTHOR]

Toxicology studies in early fish life stages serve an important function in measuring the impact of potentially harmful substances, such as crude oil, on marine life. Morphometric analysis of larvae can reveal the effects of such substances in retarding growth and development. These studies are labor intensive and time consuming, typically resulting in only a small number of samples being considered. An automated system for imaging and measurement of experimental animals, using flow-through imaging and an artificial neural network to allow faster sampling of more individuals, has been described previously and used in toxicity experiments. This study compares the performance of the automated imaging and analysis system with traditional microscopy techniques in measuring biologically relevant endpoints using two oil treatments as positive controls. We demonstrate that while the automated system typically underestimates morphometric measurements relative to analysis of manual microscopy images, it shows similar statistical results to the manual method when comparing treatments across most endpoints. It allows for many more individual specimens to be sampled in a shorter time period, reducing labor requirements and improving statistical power in such studies, and is noninvasive allowing for repeated sampling of the same population. [ABSTRACT FROM AUTHOR]

Despite decades of active fisheries management, many stocks of Atlantic cod in its southern range are in a depleted state and mortality estimates remain high. Recovery of these stocks, as defined by management areas, could be confounded by cod distributions shifting outside of these areas. Here, we assess data from internationally coordinated trawl surveys to investigate the distribution of three cod stocks in the Celtic Seas ecoregion, Irish Sea, Celtic Sea, and West of Scotland, from 1985 to 2021. We mapped cod densities, analyzed trends in mean weighted depth and bottom temperature, and calculated the center of gravity and equivalent area of the stocks. The distribution of the West of Scotland stock shifted north and east, spilling into the North Sea, while the Irish Sea and Celtic Sea stocks shifted west. Each stock showed decreasing trends in equivalent area, but there were no clear trends in the average depth occupied by the fish. There was no apparent relationship between temperature and the distribution of cod, as bottom temperature varied little from 1993 to 2021. Although Irish Sea cod showed a shift into warmer water, this was due to changes in survey distribution. The shift in distribution of the West of Scotland cod stock towards the North Sea whilst impairing local recovery provides further justification for the recent definition of its incorporation into a larger stock unit that includes the northwest of the North Sea. The Irish Sea and Celtic Sea cod stocks are neither shifting northwards, nor into deeper waters, but remained within current boundaries. This suggests that recent temperature conditions did not affect their distribution, but this may change as temperatures increase towards the limit for reproduction. [ABSTRACT FROM AUTHOR]

Globally, aging offshore oil and gas (O&G) platforms face resource depletion, and regulations often demand platform removal through decommissioning. In the North Sea, >€90 billion will be needed for decommissioning by 2060. However, the influence of O&G platforms on fish communities is poorly understood. This challenges predictions of possible fisheries scenarios associated with different decommissioning options. Here, we examined the role that North Sea platforms played on fish communities. We explored patterns of fish abundance and body size variation along transects from O&G platforms comparing catch per unit effort data. Fish abundance was positively associated with O&G platforms. Atlantic cod, plaice, saithe, and mackerel were most abundant near platforms. Similarly, larger Atlantic cod were near the O&G platforms. Our study provided information for decision‐making regarding platform decommissioning scenarios by evidencing O&G platform habitat provisioning for various commercial fish species. [ABSTRACT FROM AUTHOR]

During recent years, there has been a renewed interest in establishing farming of Atlantic cod (Gadus morhua) in Norway. However, a fatal abdominal disorder compromises animal welfare and causes economic losses. A similar problem was present during a previous attempt to establish Atlantic cod farming more than a decade ago. In this paper, we provide the first in‐depth description of this intestinal disorder, which is correctly denoted 'strangulating obstruction'. In affected fish, part of the intestine is permanently entrapped (incarcerated) under fibrous strands in the mesentery. The entrapment interferes with blood flow and physically blocks the intestine, causing a strangulating obstruction with severe venous congestion and ischemia of the intestinal wall. Furthermore, comparison of macroscopical and histological anatomy of farmed and wild Atlantic cod is presented and risk factors associated with the anatomical differences are discussed. [ABSTRACT FROM AUTHOR]

Hydrogels have the ability to retain large amounts of water within their three-dimensional polymer matrices. These attractive materials are used in medicine and the food industry; they can serve as the basis for structured food products, additives, and various ingredients. Gelatin is one of widely used biopolymers to create hydrogels that exhibit biocompatibility and tunable rheological properties. In this study, we offer a comparative analysis of rheological properties of gelatin-based hydrogels (C = 6.67%), including mammalian gelatins from bovine and porcine skins and fish gelatins from commercial samples and samples extracted from Atlantic cod skin. Mammalian gelatins provide high strength and elasticity to hydrogels. Their melting point lies in the range from 22 to 34 °C. Fish gelatin from cod skin also provides a high strength to hydrogels. Commercial fish gelatin forms weak gels exhibiting low viscoelastic properties and strength, as well as low thermal stability with a melting point of 7 °C. Gelatins were characterized basing on the analysis of amino acid composition, molecular weight distribution, and biopolymer secondary structure in gels. Our research provides a unique rheological comparison of mammalian and fish gelatin hydrogels as a tool for the re-evaluation of fish skin gelatin produced through circular processes. [ABSTRACT FROM AUTHOR]

Many coastal ecosystems are impacted by human pressures. Rocky reefs are structurally complex habitats that often support elevated fish abundance and marine biodiversity. In the Baltic Sea, rocky reefs have suffered from extraction for decades, leading to a decrease in hard substrata and complex habitat availability.This study is the first to restore cobble reefs and examine the biological effects.Baited and unbaited underwater video systems (BRUVS and UBRUVS, respectively) were employed across five years to monitor fish communities before reef deployment in 2017 and after reef deployment in 2018 and 2021.Using a before–after control‐impact (BACI) study design with replicates, relative abundances of Atlantic cod (Gadus morhua), herring (Clupeidae sp.), goldsinny wrasse (Ctenolabrus rupestris), two‐spotted goby (Pomatoschistus flavescens), shore crab (Carcinus maenas), and flatfish (Pleuronectiformes spp.) were compared across time and test sites. Comparisons were conducted across 1) restored cobble reefs, 2) natural cobble reefs, and 3) sand‐bottom test sites.This study found positive reef restoration effects revealed consistently by BRUVS and UBRUVS in three species: Atlantic cod, goldsinny wrasse and two‐spotted goby. These findings indicate that A) it is possible to restore cobble reefs and the associated mobile fauna, but also that B) continued marine extraction of cobble degrades complex habitats to the detriment of various marine species.To preserve Atlantic cod, and other sensitive species, we emphasize ecosystem restoration and warn against marine cobble reef extraction in vulnerable areas. Restoration of marine habitats may contribute to achieving the UN sustainable development goal covering life below water. [ABSTRACT FROM AUTHOR]

Nitrogen isotope analyses of amino acids (δ15N‐AA) are being increasingly used to decipher trophic dynamics. Interpretation of δ15N‐AA in consumers relies on the assumption that consumer physiological status and nutritional status of prey have negligible influences on the trophic discrimination factor (TDF), hence a constant TDF value is used in trophic position (TP) equations. Recent experiments have shown that this is not always the case and there is also a need to validate derived TP estimates in the field. We take advantage of the uniquely long time series of environmental monitoring data and archived (frozen) samples from the species‐poor Baltic Sea. We analyzed δ15N‐AA in similar sized individuals of cod and in its prey herring from four decades, 1980–2018; including time periods where dramatic reduction in condition status of cod has occurred. We expected that TDF in trophic AAs would increase during periods of poor cod condition, resulting in inflated TP estimates. We found that calculated TP and empirical estimates of TDF (difference in δ15N in trophic AAs between cod and herring) for cod increased in recent decades and that this was linked to condition status, herring (prey) lipid content and the hypoxic state of the ecosystem. Statistically adjusting TP for condition and prey lipid content as well as environmental stress (hypoxia) resulted in lower cod TP which better resembled the observed decrease in herring TP in recent decades. TP calculated from stomach analysis data in cod individuals over the same period showed no trend over time and confirmed that adjusted TP estimates mirror the real dietary TP better than unadjusted. By simultaneously measuring condition/nutritional status in both predator and prey it is possible to adjust for them as confounding variables and decipher actual consumer TP, partly overcoming the issues of unknown and variable TDF‐values. Our study also highlights the importance of including environmental stressors (here hypoxia) when interpreting TP and reconstructing food webs. [ABSTRACT FROM AUTHOR]

In the marine environment, fish parasites are present in most seafood species. The most common are nematodes of the genus Anisakis, which can parasitize human tissues, causing anisakiasis and allergies—in some cases with a strong reaction, such as anaphylactic shock. This happens when people ingest live or dead larvae present in the muscles or viscera of a wide range of fish and cephalopods. Consumer education has been positioned as one of the most effective alternatives for its prevention. This study, carried out in Asturias (northwest Spain), sought to identify the seafood products that present the greatest risk of anisakiasis for consumers, taking into account their consumption, the prevalence of Anisakis, and consumer knowledge about this parasitosis. In the results, hake (Merluccius merluccius) and cod (Gadus morhua), frequently consumed in the region and with high parasite prevalence, do not pose a great risk because they are consumed when well cooked. Instead, sardine (Sardina pilchardus), highly consumed and less parasitized, and anchovy (Engraulis encrasicolus), highly parasitized and less consumed, would exhibit a medium risk. Young participants know more about the risks of anisakiasis from raw seafood. The gaps detected in the knowledge about the ability of temperature treatments to eliminate parasites, especially in allergic people, must be addressed for better prevention. We suggest campaigns adapted to the population sectors. [ABSTRACT FROM AUTHOR]

Rationale Methods Results Conclusion Increasing demand for fish and seafood means that the traceability of marine products is becoming ever more important for consumers, producers and regulators. Highly complex and globalised supply networks create challenges for verifying a stated catch region. Atlantic cod is one of the most commercially important species in the northeast Atlantic. Several regional fisheries supply cod into the trade network, of which some are at greater risk of overexploitation than others. Tools allowing retrospective testing of spatial origin would significantly assist sustainable harvesting of fish, reducing incentives for illegal fishing and fraud.Here, we investigate whether stable isotope ratios of carbon, nitrogen and sulphur can be used to retrospectively identify the catch region of Atlantic cod (Gadus morhua). We measured the isotopic composition of muscle tissue from 377 cod from 10 catch regions across the northeast Atlantic and then applied three different assignment methods to classify cod by region of most likely origin. The assignment method developed was subsequently tested using independently sourced, known‐origin samples.Individual cod could be traced back to their true origin with an average assignment accuracy of 70–79% and over 90% accuracy for certain regions. Assignment success rates comparable to those using genetic techniques were achieved when assigning among restricted and pre‐selected regions. However, assignment accuracy to the fishery region estimated from independent samples across the whole geographic range of cod averaged ~25% overall, highlighting the need for careful application of isotope‐based approaches.Stable isotope techniques can provide effective tools to test for origin in Atlantic cod, but not all catch regions are isotopically distinct. Stable isotopes could be combined with genetic techniques to result in higher assignment accuracy than could be achieved using either method independently. Assignment potential can be estimated from reference datasets, but estimates of realistic assignment accuracy require independently collected data. [ABSTRACT FROM AUTHOR]

The Northeast Arctic stock of haddock (Melanogrammus aeglefinus) is the most northerly stock of the species. It is one of the largest haddock stocks but not the most studied. Similar to the more extensively studied sympatric cod (Gadus morhua) and herring (Clupea harengus) stocks, it relies on Atlantic currents for egg and larvae transportation from spawning grounds to nursery areas in the Barents Sea. The exact locations of the spawning grounds have not been known and the maps that have been published differ substantially. Here, we present results from the first survey dedicated to exploring the spawning habitat of Northeast Arctic (NEA) haddock, and a particle drift and larvae growth model with physical forcing from a high‐resolution ocean model. Gadoid eggs, later identified as haddock by DNA analyses, as well as spawning individuals were sampled at the survey. Spawning haddock was found in Atlantic water in temperatures 3.6–6.2°C and depths of 240–560 m. Sampled eggs were mostly in early development stages, suggesting that they were largely spawned in the surveyed area. Using the drift model, we found that most of the modelled particles released as eggs at our surveyed area ended up in the nursery area in the Barents Sea. A crude estimate of the spawning stock biomass based on the survey suggests that the most updated spawning ground map of NEA haddock might be too restricted in its extent. Particle drift and growth with physical forcing for the years 2012–2022 indicated small interannual variation in aberrant drift, and that growth driven by ambient temperature could be important in explaining interannual variation in haddock recruitment. [ABSTRACT FROM AUTHOR]

This study aimed to assess the effect of novel thermal glycation, utilizing microwave processing (100−150 °C) combined with sugars (glucose and lactose), on the in vitro protein digestibility, peptides, secondary structures, microstructures, and allergenic properties of Atlantic cod. The research demonstrated that microwave heating at 150 °C with glucose significantly reduced cod allergenicity by up to 16.16%, while also enhancing in vitro protein digestibility to 69.05%. Glucose was found to be more effective than lactose in conjunction with microwave heating in reducing the allergenicity of Atlantic cod. Moreover, treatments conducted at 150 °C were more effective in increasing in vitro protein digestibility and peptide content compared to those at 100 °C. This study revealed that the novel processing technique of thermal glycation effectively reduced the allergenicity of Atlantic cod. It also offered fresh insights into the potential benefits of combining microwave heating with sugars. [ABSTRACT FROM AUTHOR]

The recovery of many groundfish stocks in the Northwest Atlantic has been impeded by elevated mortality among older/larger individuals. The sources of groundfish mortality are generally uncertain, though predation by growing grey seal herds and unreported fishing are thought to be drivers of mortality for Atlantic cod (Gadus morhua) on the Western Scotian Shelf and Bay of Fundy (4X5Y), as well as in nearby ecosystems. We developed a statistical catch-at-age model for 4X5Y cod that accounted for grey seal predation and bycatch/discards and tested the model across a broad range of consumption and discard scenarios. We found that most cod mortality was unexplained by seal predation and fishing when cod comprised a small to moderate portion of the grey seal diet. Predation and fishing accounted for slightly more than half of recent cod mortality when cod was highly prevalent in the seal diet (45% by weight) but explained little historical mortality. Bycatch was a minor source of mortality prior to 2019 and accounted for 0.%1–8.1% of recent mortality. Increased sampling of seal diets and monitoring of emerging seal colonies is necessary for reducing uncertainties around seal predation effects in the Northwest Atlantic. [ABSTRACT FROM AUTHOR]

With a biomass of ∼4 million tonnes, and annual catches of 900 000 tonnes, the northeast Atlantic (NEA) cod stock in the Barents Sea is the world's largest. Scientists have been trying to explain the variability in recruitment of this stock for over 100 years, in particular connecting it to spawning stock biomass and environmental factors such as temperature. It has been suggested that the combination of ocean acidification and global warming will lead to a significant decrease in the spawning stock biomass and an eventual (end of this century) collapse of the NEA cod stock in the Barents Sea. We show that a temperature- and OA-driven decline in recruits will likely lead to a smaller cod stock, but not to a collapse. Instead, the level of fishing pressure and, not least, the choice of the recruitment function applied in simulations and how it relates to temperature, is extremely important when making such forecasts. Applying a non-linear relationship between temperature and spawning stock biomass—as has been done in studies that predict a collapse of the NEA cod stock—does not improve accuracy and, in addition, adds a large decrease in number of recruits that is not biologically supported. [ABSTRACT FROM AUTHOR]

The International Union for Conservation of Nature (IUCN) Red List identifies threatened and endangered species and is a key instrument in global biodiversity conservation efforts. Our understanding of the structure and value of genetic biodiversity below the species level is rapidly increasing. Nonetheless, the IUCN assessment criteria overlook genetic variation within species. Here, we address this blind spot and discuss the principles of species conservation status classification relative to intraspecific biodiversity. We focus on coastal species, which thrive in heterogeneous environments known to drive genetic differentiation. The focal example species, Atlantic cod and sugar kelp, have contrasting life histories, are ecologically and economically important constituents of the coastal ecosystem, and are currently not classified as threatened in Norway and Canada. We expose important variation in population structure, the presence of ecotypes and genetic-environment covariation, as well as loss of ecotypes that threatens the conservation of these species. Because the genetic makeup of species directly influences their resilience, omitting this information from conservation status assessments can result in loss of adaptive capacity to future stressors, such as climate change. Consequently, recognizing and preserving intraspecific variation emerges as vital for species' abilities to adapt to and survive in future ocean conditions. [ABSTRACT FROM AUTHOR]

Oil production in the Arctic shelf and its shipping via the Northern Sea Route increase risks of pollution of Arctic ecosystems with oil and its products. Polyaromatic hydrocarbons are known to be the most toxic oil components, with phenanthrene being the most abundant among them and causing the most robust effects. Phenanthrene is known for its high toxicity for developing fish hearts, with its cardiotoxic effects being species-specific. Meanwhile, the effects of phenanthrene on cardiac function in Arctic fish, including commercially important fish species, are still poorly understood. Here, we studied the effects of phenanthrene on electrical activity and ionic currents in isolated ventricular cardiomyocytes of the Atlantic cod (Gadus morhua) using the patch clamp technique. The major ionic currents in cod myocardium were IKr, IK1, INa and ICa. Phenanthrene at a concentration of 1 µM (1) had no effect on the duration of action potentials (APs), (2) suppressed rapid delayed rectifier K+ current IKr by 61.33 ± 3.94%, thus decreasing the repolarization reserve in cardiomyocytes, (3) had no effect on either the resting potential level or background inward rectifier K+ current (IK1), (4) decreased AP upstroke velocity due to suppression of fast Na+ current (INa), (5) insignificantly reduced the amplitude of Ca2+ current (ICa) and accelerated its inactivation, which overall led to a decrease in ICa total cumulative charge transfer. Thus, the effects of phenanthrene on cod myocardium at a cellular level can be characterized as potentially proarrhythmic, which makes cod populations in the Arctic seas vulnerable to pollution of the aquatic environment with toxic oil components during oil spills in the event of man-made disasters. [ABSTRACT FROM AUTHOR]

Background: The Atlantic cod is a prolific species in the Atlantic, despite its inconsistent specific antibody response. It presents a peculiar case within vertebrate immunology due to its distinct immune system, characterized by the absence of MHCII antigen presentation pathway, required for T cell-dependent antibody responses. Thorough characterisation of immunoglobulin loci and analysis of the antibody repertoire is necessary to further our understanding of the Atlantic cod's immune response on a molecular level. Results: A comprehensive search of the cod genome (gadmor3.0) identified the complete set of IgH genes organized into three sequential translocons on chromosome 2, while IgL genes were located on chromosomes 2 and 5. The Atlantic cod displayed a moderate germline V gene diversity, comprising four V gene families for both IgH and IgL, each with distinct chromosomal locations and organizational structures. 5'RACE sequencing revealed a diverse range of heavy chain CDR3 sequences and relatively limited CDR3 diversity in light chains. The analysis highlighted a differential impact of V-gene germline CDR3 length on receptor CDR3 length between heavy and light chains, underlining different recombination processes. Conclusions: This study reveals that the Atlantic cod, despite its inconsistent antibody response, maintains a level of immunoglobulin diversity comparable to other fish species. The findings suggest that the extensive recent duplications of kappa light chain genes do not result in increased repertoire diversity. This research provides a comprehensive view of the Atlantic cod's immunoglobulin gene organization and repertoire, necessary for future studies of antibody responses at the molecular level. [ABSTRACT FROM AUTHOR]

Many management and conservation contexts can benefit from understanding relationships between species abundances, which can be used to improve predictions of species occurrence and abundance.We present conditional prediction as a tool to capture information about species abundances via residual covariance between species. From a fitted joint species distribution model, this framework produces a species coefficient matrix that contains relationships between species abundances. The species coefficients allow co‐observed species to be treated as a second set of predictors supplementing covariates in the model to improve prediction. We use simulations to demonstrate the potential benefits and limitations of conditional prediction across data types and species covariance before applying conditional prediction to two management contexts with real data.Simulations demonstrate that conditional prediction provides the largest benefits to continuous data and when there is residual covariance between many species.In our first application, we show that conditioning on other species improves in‐sample and out‐of‐sample predictions of fish and invertebrate species, including Atlantic cod. In our second application, we show that the species coefficient matrix can be used to identify bird species at risk of nest parasitism by Brown‐headed Cowbirds.Synthesis and applications. We present guidelines for using conditional prediction, which can help understand relationships between species abundances, improve predictions and inform conservation in a variety of contexts. [ABSTRACT FROM AUTHOR]

Egg quality in fishes is commonly determined by fertilisation success and cleavage patterns as a phenotypic outcome of underlying regulatory mechanisms. Although these phenotypic estimators of egg quality are useful in farming conditions, these "good quality" egg batches do not always translate to good larval growth and survival. The identification of genes involved in embryonic development may help find links between genetic factors of maternal origin and egg quality. Herein, the relative expression of seven stage-specific developmental genes of Atlantic cod was analysed using quantitative PCR to understand the function during embryogenesis and its relationship with egg quality. Genes ccnb2 and pvalb1 showed significant differential expression between developmental stages and significant upregulation from blastula and somite stages, respectively. The comparison of spawning batches showed that the relative gene expression of genes ccnb2, acta, tnnt3 and pvalb1 was significantly higher from the middle of the spawning season where phenotypic quality estimators establish the best egg quality. Moreover, a positive significant correlation was observed between quality estimators based on egg morphology and the genetic expression of genes acta and acta1 during somitogenesis. This study suggests that the combination of quality estimators, genetics and batch timing could help optimise reproductive protocols for commercial stocks of Atlantic cod. [ABSTRACT FROM AUTHOR]

Seagrass meadows provide an important nursery and feeding habitat for fish, globally. However, limited data exist on how these vegetated coastal ecosystems affect local fish stocks over longer time periods. By means of beach seine hauling with a bio‐monitoring seine net, we collected fish data in Kronborg Bay (Denmark) over 4 years. The bay contains both vegetated and bare sediment areas in close proximity to Kronborg Castle in Elsinore and is part of the Øresund strait; a dynamic marine environment linking the Baltic Sea with the inner Danish waters (Kattegat). We investigated the biodiversity and fish abundance in a healthy seagrass meadow and compared it with a bare adjacent sediment area. We show that seagrass is important for fish species like the Atlantic cod, the two‐spotted goby, and the broadnosed pipefish. The seagrass meadow harboured more fish species and higher biodiversity, while the number of individuals was higher in the adjacent bare sediment area as a result of high abundances of lesser sand eel. Pilou's evenness and the Shannon‐Wiener index showed 2–4‐fold higher biodiversity in the seagrass meadow. The seagrass meadow harboured about 35% more fish species than the bare adjacent sediment. The Atlantic cod was almost entirely found in the seagrass meadow, while lesser sand eel that showed an overall increase in abundance in both habitats, represented the largest proportion of the total number of fish individuals (up to about 60%) and was mostly found on the bare adjacent sediment. Species abundance was analysed for changes over time, where, for example the European plaice showed an increase in abundance over the 4‐year period of investigation. Seagrass meadows can thus be very important for the Atlantic cod population in the Øresund strait and generally for local fish productivity, abundance and diversity. [ABSTRACT FROM AUTHOR]

Abstract Background The Atlantic cod is a prolific species in the Atlantic, despite its inconsistent specific antibody response. It presents a peculiar case within vertebrate immunology due to its distinct immune system, characterized by the absence of MHCII antigen presentation pathway, required for T cell-dependent antibody responses. Thorough characterisation of immunoglobulin loci and analysis of the antibody repertoire is necessary to further our understanding of the Atlantic cod’s immune response on a molecular level. Results A comprehensive search of the cod genome (gadmor3.0) identified the complete set of IgH genes organized into three sequential translocons on chromosome 2, while IgL genes were located on chromosomes 2 and 5. The Atlantic cod displayed a moderate germline V gene diversity, comprising four V gene families for both IgH and IgL, each with distinct chromosomal locations and organizational structures. 5’RACE sequencing revealed a diverse range of heavy chain CDR3 sequences and relatively limited CDR3 diversity in light chains. The analysis highlighted a differential impact of V-gene germline CDR3 length on receptor CDR3 length between heavy and light chains, underlining different recombination processes. Conclusions This study reveals that the Atlantic cod, despite its inconsistent antibody response, maintains a level of immunoglobulin diversity comparable to other fish species. The findings suggest that the extensive recent duplications of kappa light chain genes do not result in increased repertoire diversity. This research provides a comprehensive view of the Atlantic cod's immunoglobulin gene organization and repertoire, necessary for future studies of antibody responses at the molecular level.

Seasonal migrations of marine fish between shallow summer feeding habitats and deep overwintering grounds are driven by fluctuations in the biotic and abiotic environment as well as by changes in the internal state. Ontogenetic shifts in physiology and metabolism affect the response to environmental drivers and may lead to changes in migration timing and propensity. In this study, we investigated the effect of temperature and body size on migration timing and depth distribution in acoustically tagged Atlantic cod, Gadus morhua, and saithe, Pollachius virens, during the period of seasonal migration from shallow summer habitats. The results from our study revealed a wide range of horizontal and vertical distribution of age 1 and 2 G. morhua within the fjord. Larger G. morhua inhabited deeper, cooler waters than smaller juveniles, likely reflecting size‐dependent thermal preferences and predation pressure. Conversely, juvenile P. virens occupied primarily shallow waters close to land. The variation in depth distribution of G. morhua was mainly explained by body size and not, against our predictions, by water temperature. Conversely, the dispersal from the in‐fjord habitats occurred when water temperatures were high, suggesting that seasonal temperature fluctuations can trigger the migration timing of P. virens and larger G. morhua from summer habitats. Partial migration of small juvenile G. morhua from in‐fjord foraging grounds, likely influenced by individual body condition, suggested seasonal migration as a flexible strategy that individuals may use to reduce predation and energetic expenditure. Predation mortality rates of tagged juveniles were higher than previously suggested and are the first robust predation mortality rates for juvenile G. morhua and P. virens estimated based on acoustic transmitters with acidity sensors. The results have relevance for climate‐informed marine spatial planning as under the scenario of increasing ocean temperatures, increasing summer temperatures may reduce the juveniles' resource utilization in the shallow summer nurseries, resulting in lower growth rates, increased predation pressure, and lower chances of juvenile winter survival. [ABSTRACT FROM AUTHOR]

Benchtop diffusion nuclear magnetic resonance (NMR) spectroscopy was used to perform quantitative monitoring of enzymatic hydrolysis. The study aimed to test the feasibility of the technology to characterize enzymatic hydrolysis processes in real time. Diffusion ordered spectroscopy (DOSY) was used to measure the signal intensity and apparent self‐diffusion constant of solubilized protein in hydrolysate. The NMR technique was tested on an enzymatic hydrolysis reaction of red cod, a lean white fish, by the endopeptidase alcalase at 50°C. Hydrolysate samples were manually transferred from the reaction vessel to the NMR equipment. Measurement time was approximately 3 min per time point. The signal intensity from the DOSY experiment was used to measure protein concentration and the apparent self‐diffusion constant was converted into an average molecular weight and an estimated degree of hydrolysis. These values were plotted as a function of time and both the rate of solubilization and the rate of protein breakdown could be calculated. In addition to being rapid and noninvasive, DOSY using benchtop NMR spectroscopy has an advantage compared with other enzymatic hydrolysis characterization methods as it gives a direct measure of average protein size; many functional properties of proteins are strongly influenced by protein size. Therefore, a method to give protein concentration and average size in real time will allow operators to more tightly control production from enzymatic hydrolysis. Although only one type of material was tested, it is anticipated that the method should be applicable to a broad variety of enzymatic hydrolysis feedstocks. [ABSTRACT FROM AUTHOR]

Lumpfish (Cyclopterus lumpus) mortalities have been reported during the summer at some North Atlantic salmon cage‐sites where they serve as "cleaner fish." To better understand this species' physiology and whether limitations in their metabolic capacity and thermal tolerance can explain this phenomenon, we compared the aerobic scope (AS) of 6°C‐acclimated lumpfish (~50 g and 8.8 cm in length at the beginning of experiments) when all individuals (N = 12) were given a chase to exhaustion, a critical swim speed (Ucrit) test, and a critical thermal maximum (CTMax) test (rate of warming 2°C h−1). The Ucrit and CTMax of the lumpfish were 2.36 ± 0.08 body lengths per second and 20.6 ± 0.3°C. The AS of lumpfish was higher during the Ucrit test (206.4 ± 8.5 mg O2 kg−1 h−1) versus that measured in either the CTMax test or after the chase to exhaustion (141.0 ± 15.0 and 124.7 ± 15.5 mg O2 kg−1 h−1, respectively). Maximum metabolic rate (MMR), AS, and "realistic" AS (ASR) measured using the three different protocols were not significantly correlated, indicating that measurements of metabolic capacity using one of these methods cannot be used to estimate values that would be obtained using another method. Additional findings include that (1) the lumpfish's metabolic capacity is comparable to that of Atlantic cod, suggesting that they are not as "sluggish" as previously suggested in the literature, and (2) their CTMax (20.6°C when acclimated to 6°C), in combination with their recently determined ITMax (20.6°C when acclimated to 10°C), indicates that high sea‐cage temperatures are unlikely to be the primary cause of lumpfish mortalities at salmon sea‐cages during the summer. [ABSTRACT FROM AUTHOR]

Otoliths of the fish's inner ear serve as a natural chronological recorder because of their continuous formation marked by daily, monthly, and annual increments. Despite their importance, the comprehensive protein content of otoliths remains not fully identified. Using the label-free shotgun proteomics method with one-dimensional liquid chromatography coupled to electrospray ionization-orbitrap tandem mass spectrometry, we quantified a broad range of proteins, with individual otoliths containing between 1341 and 1839 proteins. The identified proteins could potentially serve as a blueprint for fish growth from embryo to adult. We quantified eleven heat-shock proteins (HSPs) in both sexes and several proteins impacted by endocrine disruptors, indicating the otolith's capacity to reflect environmental stress, potentially linked to climate change effects and altering of hormonal and neuroendocrine functions. Our bioinformatic ontology analysis confirmed the presence of proteins critical for various biological processes, including structural and enzymatic proteins. Protein–protein interaction (PPI) mapping also identified key interactions between the identified proteins. These findings significantly advance our understanding of otolith proteomics, offering a solid foundation for future work. Most of the identified proteins deposited daily and influenced by the environment were not implicated in the biomineralization of otolith, raising the potential for the otolith proteome to recreate details of fish life history at previously unrealized levels. [ABSTRACT FROM AUTHOR]

Increasing ocean temperature will speed up physiological rates of ectotherms. In fish, this is suggested to cause earlier spawning due to faster oocyte growth rates. Over time, this could cause spawning time to become decoupled from the timing of offspring food resources, a phenomenon referred to as trophic asynchrony. We used biological data, including body length, age, and gonad developmental stages collected from >125,000 individual Northeast Arctic cod (Gadus morhua) sampled between 59 and 73° N in 1980–2019. Combined with experimental data on oocyte growth rates, our analyses show that cod spawned progressively earlier by about a week per decade, partly due to ocean warming. It also appears that spawning time varied by more than 40 days, depending on year and spawning location. The significant plasticity in spawning time seems to be fine‐tuned to the local phytoplankton spring bloom phenology. This ability to partly overcome thermal drivers and thus modulate spawning time could allow individuals to maximize fitness by closely tracking local environmental conditions important for offspring survival. Our finding highlights a new dimension for trophic match–mismatch and should be an important consideration in models used to predict phenology dynamics in a warmer climate. [ABSTRACT FROM AUTHOR]

In May 2012–2015, 90 large (85–117 cm) Northern cod (Gadus morhua) with pop-up satellite archival tags (PSATs) set to release 1 year later were released from offshore spawning aggregations on the northeast Newfoundland shelf. Forty-nine (54%) transmitted or were recovered; 82% migrated inshore and 15% remained offshore (balance predated). Geo-locations were based on release, capture, and surfacing positions, and at tag-recorded depths <50 m, on Kalman-predicted light-based longitudes matched with coastal bathymetry. Migrating fish moved southwestward on average 5° longitude (350 km) and 2° latitude (222 km) to the northeast coast of Newfoundland, southern Labrador, and northern Grand Bank, as historically from similar release points. Migration onset through the Labrador Current (<0 °C) and arrival inshore were correlated with capelin (Mallotus villosus) peak spawning, inshore duration with capelin, and cod biomass. Both species were delayed a month from historical norms. The probability of a cod remaining inshore after 1 December was 50%, which could impact time-dependent surveys. Fishing exploitation was 6% and predation 5%. Northern cod have re-established historical spatial migration patterns, with capelin a key influence on timing and duration inshore. [ABSTRACT FROM AUTHOR]

Aquaculture provides an important and expanding source of protein rich and healthy food to the world. However, to minimize environmental harm from aquaculture, interactions with wild fish communities need to be thoroughly assessed. Here, we characterize the existing knowledge pertaining to such interactions, exemplified with Atlantic salmon (Salmo salar) farming in open net pens along the Norwegian coast and potential consequences for wild Atlantic cod (Gadus morhua) populations. Importantly, the wild cod fishery also provides a protein rich, high quality food source with high economic value. We identify seven risk sources that may affect behaviour, physiology, and survival in wild cod. Of particular importance is the large amount of waste feed that causes wild fish to aggregate around farms, thereby altering a multitude of ecological interactions including predation and disease transmission. Moreover, altered food quality in pellets may alter physiological processes and cause mortality to vulnerable life‐stages in wild cod. More research is needed on mechanisms and thresholds for harm. As the most important cod fisheries are found in northern Norway, where climate change also is rapid, we expect stronger and potentially more harmful interactions between fish farming and wild cod fisheries as aquaculture continues to expand. We hope that our analysis will inspire further research, on farmed salmon and wild cod interactions, but also on aquaculture and wild fish interactions in general. Such research is fundamental for the development of management systems that can reduce the impact of aquaculture on fisheries and the environment. [ABSTRACT FROM AUTHOR]

Ecological resilience is the capability of an ecosystem to maintain the same structure and function and avoid crossing catastrophic tipping points (i.e. undergoing irreversible regime shifts). While fundamental for management, concrete ways to estimate and interpret resilience in real ecosystems are still lacking. Here, we develop an empirical approach to estimate resilience based on the stochastic cusp model derived from catastrophe theory. The cusp model models tipping points derived from a cusp bifurcation. We extend cusp in order to identify the presence of stable and unstable states in complex natural systems. Our Cusp Resilience Assessment (CUSPRA) has three characteristics: (i) it provides estimates on how likely a system is to cross a tipping point (in the form of a cusp bifurcation) characterized by hysteresis, (ii) it assesses resilience in relation to multiple external drivers and (iii) it produces straightforward results for ecosystem-based management. We validate our approach using simulated data and demonstrate its application using empirical time series of an Atlantic cod population and marine ecosystems in the North Sea and the Mediterranean Sea. We show that Cusp Resilience Assessment is a powerful method to empirically estimate resilience in support of a sustainable management of our constantly adapting ecosystems under global climate change. [ABSTRACT FROM AUTHOR]

Adaptation enables natural populations to survive in a changing environment. Understanding the mechanics of adaptation is therefore crucial for learning about the evolution and ecology of natural populations. We focus on the impact of random sweepstakes on selection in highly fecund haploid and diploid populations partitioned into two genetic types, with one type conferring selective advantage. For the diploid populations, we incorporate various dominance mechanisms. We assume that the populations may experience recurrent bottlenecks. In random sweepstakes, the distribution of individual recruitment success is highly skewed, resulting in a huge variance in the number of offspring contributed by the individuals present in any given generation. Using computer simulations, we investigate the joint effects of random sweepstakes, recurrent bottlenecks and dominance mechanisms on selection. In our framework, bottlenecks allow random sweepstakes to have an effect on the time to fixation, and in diploid populations, the effect of random sweepstakes depends on the dominance mechanism. We describe selective sweepstakes that are approximated by recurrent sweeps of strongly beneficial allelic types arising by mutation. We demonstrate that both types of sweepstakes reproduction may facilitate rapid adaptation (as defined based on the average time to fixation of a type conferring selective advantage conditioned on fixation of the type). However, whether random sweepstakes cause rapid adaptation depends also on their interactions with bottlenecks and dominance mechanisms. Finally, we review a case study in which a model of recurrent sweeps is shown to essentially explain population genomic data from Atlantic cod. [ABSTRACT FROM AUTHOR]

Northwest Atlantic harbor (Phoca vitulina vitulina) and gray (Halichoerus grypus atlantica) seal populations are recovering from early to mid-20th century exploitation, increasing their biological interactions and bycatch in Northeastern US commercial fisheries. We evaluated the seals' diet composition and compared their prey to commercial catches to assess trophic overlap and potential competition with commercial fisherman target catches. We obtained 148 harbor and 178 gray seal stomach samples from bycatch events that occurred between 2004 and 2018. We learned from the hard part remains that the majority of seals bycaught are young-of-the-year (≤12 months old) that consume a wide breadth of prey across three trophic groups. There was a general dichotomy in extrinsic factors associated with seal diet in which 45% trophic niche separation was explained by non-overlapping harbor and gray seal phenology and pup haul-out locations that are adjacent to active fishing areas. Prey size estimated from fish otoliths and squid beaks recovered from stomach contents showed that gray seals consumed larger prey than harbor seals and prey sizes from both seals showed limited overlap with prey sizes caught by commercial gillnet fishermen. The most important prey to both seals included large (>20 cm) and small (≤20 cm) silver hake (Merluccius bilinearis), (≤40 cm) red hake (Urophycis chuss), gulf stream flounder (Citharichthys arctifrons), medium (21-40 cm) white hake (Urophycis tenuis), and (<50 cm) Atlantic cod (Gadus morhua). Important prey to harbor seals that did not overlap with gray seals were Acadian redfish (Sebastes fasciatus), Atlantic herring (Clupea harengus), longfin (Doryteuthis pealeii), and shortfin squid (Illex illecebrosus). They contrasted with prey important to gray seals that did not overlap with harbor seals: yellowtail flounder (Limanda ferruginea), sand lance (Ammodytes spp.), Urophycis spp., and fourspot flounder (Hippoglossina oblonga). Despite the potential bias associated with opportunistic bycatch sampling, this study demonstrates the importance and value of utilizing carcasses retained from bycatch events, is complimentary to newer methodologies (i.e., DNA meta-barcoding), and fills data gaps in our understanding of the role recovering harbor and gray seal populations have on Northeastern US regional food webs. [ABSTRACT FROM AUTHOR]

Although early embryonic protein production relies exclusively on maternal molecules such as messenger RNAs (mRNAs) incorporated into ovarian follicles, knowledge about any thermally induced, intergenerational effects is scarce in ectotherms. Here, we investigated how elevated temperatures (9°–12°C vs. 6°C) during oogenesis influenced the next generation by targeting maternal mRNAs in Atlantic cod (Gadus morhua) embryos, in view of up- and down-regulated genes in ovarian follicles of pre-spawning adults. Overall, the spawning female liver showed significantly higher levels of free amino acids and N-metabolites at 9°C than at 6°C. Higher-than-optimal temperatures induced adjustments in embryo transcriptome proportional to the temperature increase relative to the control group. The adjustments included alterations in maternal-effect genes, which are developmentally conserved among vertebrates. The transcriptomic differences for a selection of genes in embryos were reflected in ovarian follicles (containing multiple cell types) several months ahead of the spawning season, implying that environmental conditions of the adults are key for adjusting the genetic instructions for offspring development. This programming of fundamental traits from mother to offspring appears part of a sophisticated process to adapt the offspring to a changing ocean, though within life stage-specific, physiological thermal tolerance windows. [ABSTRACT FROM AUTHOR]

Habitat models often rely on data with incomplete or patchy survey coverage, making it necessary to project observed habitat relationships into unsampled areas. Model transferability is often assumed, rarely tested, and may result in uninformed management recommendations if not validated. In the eastern Gulf of Maine, data from the federal trawl survey has historically been used to identify suitable habitat for juvenile Atlantic cod (Gadus morhua), despite mainly sampling in offshore waters. This study evaluated the spatial transferability of a habitat suitability index model by projecting offshore habitat relationships inshore and comparing them to models built using two inshore surveys. Due to rare warm-water exposure in offshore waters, the federal survey model was unable to identify suitable habitat in the warmer, shallower areas that the inshore surveys identified, suggesting that offshore models are not transferable inshore for juvenile cod in the eastern Gulf of Maine. The results of this study have implications for fisheries worldwide and suggest that incorrectly assuming model transferability could pose a significant hurdle for effective conservation and management. [ABSTRACT FROM AUTHOR]

Widespread persistent contaminants are a global environmental problem. In the Baltic Sea, wildlife contamination was first noticed in the 1960s, prompting the Swedish Environmental Protection Agency to establish a comprehensive Swedish National Monitoring Programme for Contaminants in Marine Biota (MCoM) in 1978 run by the Swedish Museum of Natural History. Eight species have been analysed, four fish species (Atlantic herring, Atlantic cod, European perch, viviparous eelpout), one bivalve species (blue mussel), and egg from three bird species (common guillemot, common tern, Eurasian oystercatcher). Here, we present a dataset containing MCoM data from its start until 2021. It includes 36 sets of time-series, each analysed for more than 100 contaminants. The longest time-series is for common guillemot and starts in 1968. We describe the structure of MCoM including historic changes to the number of stations, sample treatment, analytical methods, instruments, and laboratories. The MCoM data is available at the Bolin Centre repository and on GitHub through our R package mcomDb. The latter will be updated yearly with new MCoM records. [ABSTRACT FROM AUTHOR]

Climate change and harvesting result in temporal and spatial changes and variability in spawning, and thus in offspring ambient drift conditions. As a result, variable survival of offspring and thereby in recruitment are expected. This is especially true for species with long reproduction migration as is the case for some Atlantic cod stocks. We utilize biophysical model simulations to analyze survival from spawning until age 1 resulting from different scenarios of spatial and temporal changes in spawning. We find that survival is 1.5–2 times higher when spawning is shifted southwards as compared to northerly shifts. In general, survival is more sensitive to shifts in spawning location than in spawning time. Early spawning is only favourable if spawning is concurrently shifted farther north. A future spawning scenario with a northward shift in spawning grounds beyond what has been observed historically suggests reduced offspring survival and increased sensitivity to the timing of spawning. [ABSTRACT FROM AUTHOR]

Canadian fisheries management has embraced the precautionary approach and the incorporation of ecosystem information into decision-making processes. Accurate estimation of fish stock biomass is crucial for ensuring sustainable exploitation of marine resources. Spatio-temporal models can provide improved indices of biomass as they capture spatial and temporal correlations in data and can account for environmental factors influencing biomass distributions. In this study, we developed a spatio-temporal generalized additive model (st-GAM) to investigate the relationships between bottom temperature, depth, and the biomass of three key fished species on The Grand Banks: snow crab (Chionoecetes opilio), yellowtail flounder (Limanda ferruginea), and Atlantic cod (Gadus morhua). Our findings revealed changes in the centre of gravity of Atlantic cod that could be related to a northern shift of the species within the Grand Banks or to a faster recovery of the 2J3KL stock. Atlantic cod also displayed hyperaggregation behaviour with the species showing a continuous distribution over the Grand Banks when biomass is high. These findings suggest a joint stock assessment between the 2J3KL and 3NO stocks would be advisable. However, barriers may need to be addressed to achieve collaboration between the two distinct regulatory bodies (i.e., DFO and NAFO) in charge of managing the stocks. Snow crab and yellowtail flounder centres of gravity have remained relatively constant over time. We also estimated novel indices of biomass, informed by environmental factors. Our study represents a step towards ecosystem-based fisheries management for the highly dynamic Grand Banks. [ABSTRACT FROM AUTHOR]

Elucidating the effects of domesticated organisms escaping into the natural environment represents a topic of importance in both evolutionary and conservation biology. However, when excluding the abundant data on salmonids, there is a lack of knowledge on this topic for marine fish aquaculture, which continues to expand globally. In order to bridge this empirical gap, we investigated a suspected escape of sexually mature domesticated Atlantic cod from a commercial marine fish farm in northern Norway. This involved genotyping samples of fish from cages on the farm, putatively identified escapees and wild cod captured in the region and samples of recently spawned eggs collected in the sea. Genetic analyses confirmed a farmed ancestry of the suspected escapees, and significantly, 27% of the sampled cod eggs. Furthermore, statistical analyses revealed a strong reduction in genetic variation in all samples of the farmed cod, including low effective population size and high degree of siblingship. These results thus document the escape of sexually mature adult cod and the release of fertilized domesticated cod eggs into the natural environment. Although it is possible that some of the mature escapees spawned post‐escape, the fact that only a single egg of potential hybrid farmed × wild origin was identified, together with the high number of mature cod in the farm, points to within cage spawning as the primary source of these eggs. This suggestion is supported by oceanic particle‐drift modelling, verifying that transport of eggs between the farm and the egg sampling locations was plausible. This study represents a rare documentation of interaction between domesticated and wild populations for a marine fish, pointing towards potential impacts on the local wild population. [ABSTRACT FROM AUTHOR]

Predator–prey interactions in time and space determine stock productivity, making them an important consideration when managing marine resources, rebuilding stocks or considering reopening a fishery.We analysed fine‐scale diet data from surveys conducted in 2009–2010 and 2018–2019 in three fjords in northern Norway with geostatistical models investigating how predation varied in space, time and between predator species. Our focus prey species was northern shrimp (Pandalus borealis), valuable both as a commercial resource and a major food source for other important species like Atlantic cod (Gadus morhua).Diet composition of fish predators differed clearly between fjords. While predator species and size were good predictors of shrimp predation, the relationships with bathymetry, prey density and geospatial variables were complex.Our study indicates that predation of forage species, such as shrimp, varies spatially in heterogenous fjord ecosystems. Shrimp consumption was not highest in the fjord with highest predator density, indicating a higher dependency of cod on shrimp in specific areas.Realized predation is a complex combination of predator and prey densities and predator ecology that differed in each of the three fjords.Synthesis and applications. Ignoring spatial variations in predator–prey interactions may lead to an inaccurate perception of stock productivity, suboptimal management and possibly unsustainable management targets. We recommend spatially explicit assessment and management for fish stocks where predator–prey interactions vary substantially in space, such as fjords and reefs. [ABSTRACT FROM AUTHOR]

Although the trans-Atlantic cod trade linked North American and European socioeconomic spheres, few studies analyze both regions concurrently to understand the impact and extent of cod trade at a wider scale. We summarize new results of zooarchaeological analysis from Louisbourg, Nova Scotia, Canada, a major North American cod-trading port, and consider its role in the wider trans-Atlantic trade network by conducting a meta-analysis of the archaeological record of cod trade during the fifteenth to nineteenth centuries. We show that though cod remains are abundant in assemblages from the Northeast and Atlantic Canada where they were caught and processed, they are relatively rare in other North American assemblages, including Caribbean plantations where cod was imported in large quantities to support slave laborers. Furthermore, though North Atlantic cod have been identified isotopically in European assemblages, they are found primarily within the known habitat range of Atlantic cod at this time. Finally, by comparing European and North American datasets we demonstrate that length is unlikely to be reliable as a means of sourcing cod. This examination contributes to our understanding of cod's important economic role in the development of trans-Atlantic connections between North American and European trading ports. [ABSTRACT FROM AUTHOR]

In this study, we investigate whether replacing conventional seabed-contacting otter boards with semi-pelagic self-adjusting otter (SAO) boards, which have the ability to maintain a given height above the seabed, affects the catch efficiency of a demersal fish trawl. Experimental fishing trials, using the alternate haul method, were conducted in the Kattegat and Skagerrak with three otter board configurations using conventional seabed-contacting otter boards; the SAO set to maintain a target height over the seabed of 1 m; and the SAO set to maintain a target height of 5 m. Replacing conventional otter boards with SAO resulted in a loss of catch efficiency for haddock (Melanogrammus aeglefinus), whiting (Merlangius merlangus), and plaice (Hippoglossoides platessoides), while no significant difference was found for cod (Gadus morhua), common dab (Limanda limanda), and lemon sole (Microstomus kitt). When comparing the SAO-1 m and SAO-5 m, it was observed that SAO-5 m resulted in a loss of catch efficiency for haddock and plaice, a minimal reduction for cod, and no significant difference for whiting, common dab, and lemon sole. [ABSTRACT FROM AUTHOR]

Chronological records of elemental concentrations in fish otoliths are a widely used tool to infer the environmental conditions experienced by individual fish. To interpret elemental signals within the otolith, it is important to understand how both external and internal factors impact ion uptake, transport and incorporation. In this study, we have combined chronological records from otoliths and archival data storage tags to quantify the influence of internal (sex, size, age, growth) and external (temperature, depth, salinity) conditions on otolith elemental chemistry of cod (Gadus morhua) in natural settings of the Baltic Sea. This study focused on elements primarily under physiological control: Phosphorus (P), magnesium (Mg) and zinc (Zn); and elements under environmental control: Strontium (Sr), barium (Ba) and manganese (Mn). Based on known spatial and temporal patterns in environmental conditions and fish size, growth, and maturity, we posed a series of hypotheses of expected otolith element patterns. Partial effects of internal and external drivers on element concentration were analyzed using a Linear Mixed Model approach with random variables (fish and year). Predicted effects of otolith concentrations of all elements under physiological control (P, Mg, Zn) showed similar trends, with distinct seasonal patterns (lowest concentration in late spring, highest concentrations in winter), and a positive correlation with water temperature, in addition to higher Zn and lower P in spawning individuals. Predicted effects of otolith concentrations of elements expected to be predominantly under environmental control showed the predicted geographic and depth-related trends based on ambient salinity (Ba) and coastal hypoxia (Mn). However, contrary to expectation, Sr was unrelated to salinity. Predicted otolith Ba, Sr and Mn concentrations also exhibited pronounced seasonal patterns that were out of phase with each other but appeared to be partly explained by spawning/feeding migrations. While performing laboratory validation studies for adult fish is typically not possible, these results highlight the importance of assessing local water chemistry and freshwater endmembers in one's study system before otolith elemental chemistry can be reliably used to reconstruct fish habitat use and environmental histories. [ABSTRACT FROM AUTHOR]

Abstract Establishing microbiome signatures is now recognized as a critical step toward identifying genetic and environmental factors shaping animal-associated microbiomes and informing the health status of a given host. In the present work, we prospectively collected 63 blood samples of the Atlantic cod population of the Southern Gulf of Saint Lawrence (GSL) and characterized their 16S rRNA circulating microbiome signature. Our results revealed that the blood microbiome signature was dominated at the phylum level by Proteobacteria, Bacteroidetes, Acidobacteria and Actinobacteria, a typical signature for fish populations inhabiting the GSL and other marine ecosystems. At the genus level, however, we identified two distinct cod groups. While the microbiome signature of the first group was dominated by Pseudoalteromonas, a genus we previously found in the microbiome signature of Greenland and Atlantic halibut populations of the GSL, the second group had a microbiome signature dominated by Nitrobacter and Sediminibacterium (approximately 75% of the circulating microbiome). Cods harboring a Nitrobacter/Sediminibacterium-rich microbiome signature were localized in the most southern part of the GSL, just along the northern coast of Cape Breton Island. Atlantic cod microbiome signatures did not correlate with the weight, length, relative condition, depth, temperature, sex, and salinity, as previously observed in the halibut populations. Our study provides, for the first time, a unique snapshot of the circulating microbiome signature of Atlantic cod populations and the potential existence of dysbiotic signatures associated with the geographical distribution of the population, probably linked with the presence of nitrite in the environment.

Climate change presents challenges for marine area-based conservation measures through altered habitat and associated species range shifts. We conducted statistical downscaling for the eastern Canadian coastal domain over a range of global climate models, focusing on habitat suitability for Atlantic cod (Gadus morhua), a numerically depressed, but ecologically, economically, and culturally important species in this region. We examined cod egg survival, juvenile growth, and spawning habitat suitability, combining these into one habitat index to compare within-closure habitat suitability for multiple life stages through time. Areas of high cod egg habitat suitability are projected to shift northward and increase across all area closures studied, while optimum juvenile habitat shifts north and eastward, increasing in almost all closures except the south. Spawning habitat as a function of temperature and oxygen will likely decrease through time across the entire region, but less in northern locations. Overall cod habitat is forecasted to decline in the south of the region while increasing at central and northern latitudes, highlighting the importance of existing and developing northern shelf area closures. While warming will bring temperatures closer to optimum levels for cod in this cold-water system, oxygen limitation will become more prevalent in the south of the region and should be monitored as an important ocean health indicator.

Atlantic cod (Gadus morhua Linnaeus, 1758) can experience mortality at sub-zero (<0 °C) temperatures in ice-infested waters, and many populations migrate to deeper and warmer areas during winter. An exception is the resident population in Gilbert Bay, Labrador, which annually experiences 6 months of sub-zero temperatures. We used the VEMCO Positioning System to estimate fish locations to determine depth utilization and seasonal movements of tagged Gilbert Bay cod ranging in size from 43 to 75 cm. This is the first study to directly monitor the movements of adult Atlantic cod for extended periods (months) in sub-zero temperatures. Gilbert Bay cod remained active under an ice-covered surface during the 6 months of sub-zero temperatures. During both warm (>0 °C) and cold (≤0 °C) periods, fish spent similar amounts of time not moving, moving slowly, and moving at medium and fast rates. They tended to utilize shallow depths, <10 m, beneath surface ice during winter, while utilizing deeper depths as well during other times of the year. Surprisingly, fish that resided within our tracking array year-round had greater cumulative swimming distances during sub-zero periods compared to warmer periods. No tracked fish died during winter, further highlighting the cold adaptiveness of this population and its importance to biodiversity conservation. [ABSTRACT FROM AUTHOR]

Ample evidence has indicated shifts in distribution of fish populations in response to environmental stress. However, most studies focused at the whole population scale. This neglects the spatial dynamics between groups of different body size (body size groups), that fundamentally shapes the spatial structure of a population. Here, we explored the mechanisms that modulate spatial dynamics of body size groups, and applied our analyses to three North Sea fish populations which experienced severe declines in biomass from 1977 to 2019: Atlantic cod Gadus morhua, haddock Melanogrammus aeglefinus and whiting Merlangius merlangius. All three populations exhibited strong declines in the overlapped area between body size groups in winter over 43 years, yet their mechanisms differed. These declines were either due to 1) different magnitudes of contraction of the distribution area of body size groups; and/or 2) different speeds and directions of spatial shift among various body size groups, both increasing spatial segregation within populations. These patterns were either associated with ocean warming, and/or declining population biomass, and such associations often varied according to distinct body size groups. Increasing spatial segregation between size groups of a population likely hampers life‐cycle connectivity and stability to local perturbations. Our analytical approach provides a powerful tool for identifying vulnerable populations under environmental stress and can be generalized to study a variety of size/age structured populations at various ecosystem types. [ABSTRACT FROM AUTHOR]

Since the middle of the 1980s, severe skin disorders have been observed in Baltic cod (Gadus morhua) each year. Available data on the spectrum of bacteria isolated from the clinical cases being limited, and evaluation of the microbial background of fish skin lesions being useful, a bacteriological examination has been undertaken. A total of 1,381 cod were caught during two voyages of the Baltica research vessel in the Polish exclusive economic zone of the southern Baltic Sea. After an examination which found lesions in 164 of the fish, a microbiological analysis was performed to isolate bacteria from them. The collected strains were phenotyped and genotyped, and their antimicrobial resistance was analysed by minimum inhibitory concentration (MIC) techniques. Bacteriological examinations provided 850 isolates. The dominant microorganisms were mesophilic Aeromonas spp., Pseudomonas spp. and Shewanella baltica. Opportunistic bacteria potentially hazardous to human health were also isolated, e.g. Alcaligenes faecalis, Staphylococcus epidermidis, Stenotrophomonas maltophilia and Vibrio sp. The MIC analysis determined the highest number of bacteria to resist sulphamethoxazole and amoxicillin and clavulanic acid. Most of the collected bacteria were opportunistic pathogens for fish, widespread in the aquatic environment, and potentially threatening to humans. [ABSTRACT FROM AUTHOR]

Early life stages of fish are widely used for regulatory toxicity testing, and marine fish display high sensitivity to pollutant exposure. Exposure to pollutants during embryogenesis causes acute effects on embryonic development and survival, but also sub‐lethal impacts manifested as maldeveloped larvae. Acquiring time‐ and exposure‐dependent responses to pollutant exposure and other stressors in small organisms is labor intensive and often subjective. This leads to studies obtaining small sample sizes, with measurements often made infrequently during development. Automated monitoring methods can maintain consistency between measurements and allow many more measurements to be made, improving the quantity and quality of such data. We exposed Atlantic cod embryos to 3,4‐dichloroaniline, a reference chemical widely used as a positive control agent in regulatory fish embryo toxicity testing. We monitored their growth through daily imaging with an automated flow‐through imaging system. Biologically relevant sublethal endpoints were estimated from these images with a neural network and traditional machine vision methods. We demonstrate the automated capture and analysis of tens of thousands of images, producing detailed morphometric data from hundreds of fish over a 10‐d study period, and assess the effectiveness of the automated system. The automated method presented allows measurements to be made frequently without sacrificing the sampled organisms, making detailed time series of development obtainable. We show dose‐dependent effects of the toxicant on development and capture nonlinear responses that would not be attainable under a conventional manual sampling regime. [ABSTRACT FROM AUTHOR]

Quantifying trophic relationships within and between species in terms of trophic position, ontogeny and trophic diversity provides information on community-level structure and function. Little attention has been focused on examining the trophic structure and temporal changes of communities in freshwater-marine coupled systems in the subarctic and associated impacts of anthropogenic activity on trophic interactions. Therefore, the objective of this study was to quantify the trophic position of mobile consumers (15 species in total) within the lower Churchill River area (Churchill, Manitoba, Canada), examine trophic position variation in relation to ontogeny, and measure the trophic diversity of a fish assemblage before (1993–1995) and after (2019–2020) the installation of the Churchill River weir in the late 1990s. We used stable isotopes (δ13C and δ15N) to quantify individual and group-level variation in trophic position of thirteen fish species and two seal species and also assessed six community-level metrics of a three fish species assemblage between time periods. Overall, species that mainly foraged on freshwater resources occupied lower trophic positions than species that mainly consumed marine resources. Trophic position increased with fish age only in cisco, fourhorn sculpin, Greenland cod and northern pike. A temporal shift from a trophically diverse to a more trophically redundant fish assemblage occurred between 1993–1995 and 2019–2020. As a result, these predator species now play similar trophic roles. Information on the long-term change in trophic structure of this sub-Arctic estuarine system may help with understanding how anthropogenic activity and climate change have influenced the trophic diversity of a fish assemblage inhabiting this system. [ABSTRACT FROM AUTHOR]

Liver condition is hypothesized to be a better condition index for juvenile cod than other somatic condition indices, since cod store most of their excess energy in their liver. It is suggested that population changes in liver condition can be used as a proxy for overwinter mortality. Here, we have collected 0- and 1-group cod from the same cohort in the Barents Sea before and at the end of the winter season. We have taken measurements for somatic- and liver-based condition indices, as well as enumerating nematode endoparasites found in each individual cod. The average wet weight of sampled cod increased by 85% (approx. 0.4% day−1) from 6.0 to 10.1 g from September to February, while the average liver wet weight decreased by 15%. The relative water content of the liver also increased significantly over the winter, resulting in a 42% reduction in average dry liver weight from 0.116 to 0.067 g over the 4–5-month period between samplings. About 30% of the 1-group cod surviving the winter had less than 20% of the liver energy content of same-sized 0-group cod. The liver condition was also 5–10% lower in cod with high nematode endoparasite load than the cod without nematode endoparasites. The significance of the loss of liver energy content is discussed in relation to the marked seasonality combined with climate change and the challenges this imposes on the survival of 0-group cod in high-latitude environments during their first winter. [ABSTRACT FROM AUTHOR]