Flavobacterium psychrophilum is the agent of Bacterial Cold Water Disease and Rainbow Trout Fry Syndrome, two diseases leading to high mortality. Pathogen detection is mainly carried out using cultures and more rapid and sensitive methods are needed.

Aeromonas salmonicida subsp. salmonicida, the etiologic agent of furunculosis, is a major pathogen in aquaculture. Together with other pathogens, it is characterized by the presence of a type 3 secretion system (T3SS). The T3SS is the main virulence mechanism of A. salmonicida. It is used by the bacterium to secrete and translocate several toxins and effector proteins into the host cell. Some of these factors have a detrimental impact on the integrity of the cell cytoskeleton, likely contributing to impair phagocytosis. Furthermore, it has been suggested that effectors of the T3SS are able to modulate the host's immune response. Here we present the first partial characterization of the immune response in rainbow trout (Oncorhynchus mykiss) infected with distinct strains of A. salmonicida either carrying (i) a fully functional T3SS or (ii) a functionally impaired T3SS or (iii) devoid of T3SS ("cured" strain). Infection with an A. salmonicida strain either carrying a fully functional or a secretion-impaired T3SS was associated with a strong and persistent immune suppression. However, the infection appeared to be fatal only in the presence of a fully functional T3SS. In contrast, the absence of T3SS was neither associated with immune suppression nor fish death. These findings suggest that the T3SS and T3SS-delivered effector molecules and toxins of A. salmonicida do not only impair the host cells' cytoskeleton thus damaging cell physiology and phagocytosis, but also heavily affect the transcription of critical immune mediators including the shut-down of important warning signals to recognize infection and induce immune defense.

Welfare in animal husbandry includes considerations of biology, ethics, ecology, law and economics. These diverse aspects must be translated into common quantifiable parameters and applicable methods to objectively assess welfare in animals. To assist this process in the field of aquaculture, where such methods are largely missing, we developed a model to assess fish welfare. A network of information was created to link needs, i.e., fundamental requirements for welfare, with parameters, i.e., quantifiable aspects of welfare. From this ontology, 80 parameters that are relevant for welfare, have practicable assessment methods and deliver reliable results were selected and incorporated into a model. The model, named MyFishCheck, allows the evaluation of welfare in five distinct modules: farm management, water quality, fish group behaviour, fish external and fish internal appearance, thereby yielding five individual grades categorising welfare ranging from critical, to poor, to acceptable, and good. To facilitate the use of the model, a software application was written. With its adaptability to different fish species, farming systems, regulations and purposes as well as its user-friendly digital version, MyFishCheck is a next step towards improved fish welfare assessment and provides a basis for ongoing positive developments for the industry, the farmers and the fish.