The application of alizarin dye for the marking of fish is a widely adopted practice in post-stocking monitoring programmes. Nevertheless, concerns regarding the welfare implications of alizarin staining persist. The present study conclusively demonstrated that ARS dye exerts instantaneous and protracted deleterious effects on the physiological parameters (gill ventilation frequency, homeostasis in the gut microbiota, total number of erythrocytes and leukocytes) and body fitness (total length, weight and Fulton’s condition factor) of S. trutta fry. The validity of the dye-marked fish stocking effectiveness studies is called into question by these findings.

The decline of salmonid stocks in the Baltic Sea region is a matter of serious concern, prompting many countries to implement widespread stocking of artificially reared individuals to restore or enhance populations. While such interventions are intended to be beneficial, their efficacy remains a subject of ongoing debate. Artificially reared fish often face challenges in adapting to natural environments and may struggle to compete with wild counterparts, potentially leading to reduced growth rates and diminished overall fitness. This study evaluated the growth and physiological condition of naturally hatched versus artificially reared Salmo trutta juveniles during their first two years of life, prior to smoltification and seaward migration. The results demonstrated that stocked juveniles exhibited significantly slower growth, a higher incidence of fin damage, and a greater abundance of cultivable gut bacteria compared to wild individuals. Conversely, no significant differences were observed in blood parameters. Such growth retardation suggests potential difficulties in adaptation and recruitment. Consequently, while the release of artificially reared S. trutta fry facilitates the restoration of extinct populations, its capacity to enhance existing stocks within Baltic Sea riverine ecosystems may be limited.