Predicting fine-scale downstream migratory movement of Atlantic salmon smolt (Salmo salar) in front of a hydropower plant.

The Atlantic salmon (Salmo salar) is an iconic species of significant ecological and economic importance. Their downstream migration as smolts represents a critical life-history stage that exposes them to numerous challenges, including passage through hydropower plants. Understanding and predicting fine-scale movement patterns of smolts near hydropower plants is therefore essential for adaptive and effective management and conservation of this species.

Impact of increased fishing on long-term sequestration of carbon by cephalopods.

Fish and other metazoans play a major role in long-term sequestration of carbon in the oceans through the biological carbon pump. Recent studies estimate that fish can release about 1,200 to 1,500 million metric tons of carbon per year (MtC year) in the oceans through feces production, respiration, and deadfalls, with mesopelagic fish playing a major role. This carbon remains sequestered (stored) in the ocean for a period that largely depends on the depth at which it is released.

Comparative histopathology of livers from Baltic cod infected with the parasitic nematode Contracaecum osculatum.

Infection levels with the parasitic nematode Contracaecum osculatum in Eastern Baltic cod have increased in the last decades. Eastern Baltic cod is transport host for this parasite that has a high affinity for the liver of the fish. The liver is a highly vital organ and damage to the liver tissue can result in reduced functionality of the organ.

Bioenergetics modelling of growth processes in parasitized Eastern Baltic cod ( L.).

Changes in physiological processes can reveal how individuals respond to environmental stressors. It can be difficult to link physiological responses to changes in vital rates such as growth, reproduction and survival. Here, bioenergetics modelling can aid in understanding non-intuitive outcomes from stressor combinations.

Food web assessments in the Baltic Sea: Models bridging the gap between indicators and policy needs.

Ecosystem-based management requires understanding of food webs. Consequently, assessment of food web status is mandatory according to the European Union's Marine Strategy Framework Directive (MSFD) for EU Member States. However, how to best monitor and assess food webs in practise has proven a challenging question.

Contrasting structural complexity differentiate hunting strategy in an ambush apex predator.

Structural complexity is known to influence prey behaviour, mortality and population structure, but the effects on predators have received less attention. We tested whether contrasting structural complexity in two newly colonised lakes (low structural complexity lake-LSC; high structural complexity-HSC) was associated with contrasting behaviour in an aquatic apex predator, Northern pike (Esox lucius; hereafter pike) present in the lakes. Behaviour of pike was studied with whole-lake acoustic telemetry tracking, supplemented by stable isotope analysis of pike prey utilization and survey fishing data on the prey fish community.

Modifications of the nucleoprotein of viral haemorrhagic septicaemia virus showed gain of virulence in intraperitoneally infected rainbow trout.

Viral haemorrhagic septicaemia virus (VHSV) is the cause of an important listed disease in European rainbow trout (Oncorhynchus mykiss) aquaculture and can be present in a wide range of fish species, including marine fish, which can act as viral reservoir. Recent studies revealed putative genetic virulence markers of VHSV to rainbow trout highlighting the roles of the nucleoprotein, phosphoprotein and non-virion protein. Using reverse genetics, we produced recombinant viruses by introducing parts of or the entire nucleoprotein from a high-virulent isolate VHSV into a low-virulent backbone.

Technical challenges in the development of reverse genetics for a viral haemorrhagic septicaemia virus (VHSV) genotype Ib isolate: Alternative cell lines and general troubleshooting.

Several reverse genetics systems for viral haemorrhagic septicaemia virus (VHSV) have been developed over the last decade. These systems have been based on genotype Ia, IVa and IVb isolates and have used the fish cell line EPC, which is less susceptible to some VHSV isolates belonging to genotype I and genotypes II and III. While developing a reverse genetics system in our laboratories for VHSV genotype Ib, we realized that the isolate in interest (SE SVA 1033 9C) did not grow in EPC cells and it was necessary to adapt the reverse genetics protocols to the BF-2 fish cell line.

Physiological condition of Eastern Baltic cod, , infected with the parasitic nematode .

Establishing relationships between parasite infection and physiological condition of the host can be difficult and therefore are often neglected when describing factors causing population declines. Using the parasite-host system between the parasitic nematode and the Eastern Baltic cod , we here shed new light on how parasite load may relate to the physiological condition of a transport host. The Eastern Baltic cod is in distress, with declining nutritional conditions, disappearance of the larger fish, high natural mortality and no signs of recovery of the population.

Spatial synchrony in the response of a long range migratory species (Salmo salar) to climate change in the North Atlantic Ocean.

A major challenge in understanding the response of populations to climate change is to separate the effects of local drivers acting independently on specific populations, from the effects of global drivers that impact multiple populations simultaneously and thereby synchronize their dynamics. We investigated the environmental drivers and the demographic mechanisms of the widespread decline in marine survival rates of Atlantic salmon (Salmo salar) over the last four decades. We developed a hierarchical Bayesian life cycle model to quantify the spatial synchrony in the marine survival of 13 large groups of populations (called stock units, SU) from two continental stock groups (CSG) in North America (NA) and Southern Europe (SE) over the period 1971-2014.

Hypoxia but not shy-bold phenotype mediates thermal preferences in a threatened freshwater fish, Notropis percobromus.

For ectothermic animals, ambient temperature strongly influences developmental growth rate and individual fitness. While many ectotherms live in environments that are spatially hetero-thermal, the coupling between behavioural phenotypes (e.g.

Catastrophic dynamics limit Atlantic cod recovery.

Collapses and regime changes are pervasive in complex systems (such as marine ecosystems) governed by multiple stressors. The demise of Atlantic cod ( Gadus morhua) stocks constitutes a text book example of the consequences of overexploiting marine living resources, yet the drivers of these nearly synchronous collapses are still debated. Moreover, it is still unclear why rebuilding of collapsed fish stocks such as cod is often slow or absent.

Temperature-dependent adaptation allows fish to meet their food across their species' range.

In seasonal environments, timing is everything: Ecosystem dynamics are controlled by how well predators can match their prey in space and time. This match of predator and prey is thought to be particularly critical for the vulnerable larval life stages of many fish, where limited parental investment means that population survival can depend on how well larvae match the timing of their food. We develop and apply novel metrics of thermal time to estimate the timing of unobserved stages of fish larvae and their prey across the north Atlantic.

Testing spatial heterogeneity with stock assessment models.

This paper describes a methodology that combines meta-population theory and stock assessment models to gain insights about spatial heterogeneity of the meta-population in an operational time frame. The methodology was tested with stochastic simulations for different degrees of connectivity between sub-populations and applied to two case studies, North Sea cod (Gadus morua) and Northeast Atlantic sardine (Sardina pilchardus). Considering that the biological components of a population can be partitioned into discrete spatial units, we extended this idea into a property of additivity of sub-population abundances.

A MSFD complementary approach for the assessment of pressures, knowledge and data gaps in Southern European Seas: The PERSEUS experience.

PERSEUS project aims to identify the most relevant pressures exerted on the ecosystems of the Southern European Seas (SES), highlighting knowledge and data gaps that endanger the achievement of SES Good Environmental Status (GES) as mandated by the Marine Strategy Framework Directive (MSFD). A complementary approach has been adopted, by a meta-analysis of existing literature on pressure/impact/knowledge gaps summarized in tables related to the MSFD descriptors, discriminating open waters from coastal areas. A comparative assessment of the Initial Assessments (IAs) for five SES countries has been also independently performed.

Defining Mediterranean and Black Sea biogeochemical subprovinces and synthetic ocean indicators using mesoscale oceanographic features.

The Mediterranean and Black Seas are semi-enclosed basins characterized by high environmental variability and growing anthropogenic pressure. This has led to an increasing need for a bioregionalization of the oceanic environment at local and regional scales that can be used for managerial applications as a geographical reference. We aim to identify biogeochemical subprovinces within this domain, and develop synthetic indices of the key oceanographic dynamics of each subprovince to quantify baselines from which to assess variability and change.

Long-term retrospective analysis of mackerel spawning in the North Sea: a new time series and modeling approach to CPR data.

We present a unique view of mackerel (Scomber scombrus) in the North Sea based on a new time series of larvae caught by the Continuous Plankton Recorder (CPR) survey from 1948-2005, covering the period both before and after the collapse of the North Sea stock. Hydrographic backtrack modelling suggested that the effect of advection is very limited between spawning and larvae capture in the CPR survey. Using a statistical technique not previously applied to CPR data, we then generated a larval index that accounts for both catchability as well as spatial and temporal autocorrelation.

Fishery discards: factors affecting their variability within a demersal trawl fishery.

Discards represent one of the most important issues within current commercial fishing. It occurs for a range of reasons and is influenced by an even more complex array of factors. We address this issue by examining the data collected within the Danish discard observer program and describe the factors that influence discarding within the Danish Kattegat demersal fleet over the period 1997 to 2008.

Productivity responses of a widespread marine piscivore, Gadus morhua, to oceanic thermal extremes and trends.

Climate change will have major consequences for population dynamics and life histories of marine biota as it progresses in the twenty-first century. These impacts will differ in magnitude and direction for populations within individual marine species whose geographical ranges span large gradients in latitude and temperature. Here we use meta-analytical methods to investigate how recruitment (i.