This research was conducted between March 2016 and March 2017 as the first study on the water and mussel quality in the coastal area of Dubrovnik (Croatia). Bacteriological analyses were conducted simultaneously on wild mussels (Mytilus galloprovincialis) tissue and their ambient water. The total numbers of heterotrophic bacteria, total coliforms, faecal coliforms and faecal streptococci in the water were determined. Concentrations of Escherichia coli were measured in mussel. The investigated stations are located in coastal water, which is particularly influenced by climatic and anthropogenic factors interacting at the boundaries between the land and freshwater and seawater environments. Seasonal variables, such as rainfall and riverine network characteristics, determine the delivery of bacteria (including E.coli) to coastal water. Direct methods of assessing the density of heterotrophic bacteria at all sampling stations showed the characteristics of an oligotrophic area. The abundance of faecal coliform bacteria was in all cases higher within mussel tissue than in the surrounding water where levels were sometimes undetectable. Maximum E. coli concentrations in mussels and seawater were regularly recorded through the summer, with the exceptions of April 2016 and January 2017 at two stations following precipitation. Minimum faecal coliform concentrations were recorded in the winter.