The land-to-ocean flux of organic carbon is increasing in glacierized regions in response to increasing temperatures in the Arctic (Hood et al., 2015). In order to understand the response in ecosystem metabolism to the organic carbon input it is essential to determine the bioavailability of the different carbon sources in the system. We quantified the bacterial turnover of organic carbon in a high Arctic fjord system (Young Sound, NE Greenland) during the ice-free period (July-October 2014) and assessed the quality and quantity of the 3 major organic carbon sources; 1) local phytoplankton production 2) runoff from land-terminating glaciers and a lowland river and 3) inflow from the ocean shelf. We found that despite relatively low concentrations of DOC in the rivers, the bioavailability of the river–DOC was significantly higher than in the fjord, and characterized by high cell-specific bacterial production and low C:N ratios. In contrast, the allochthonous DOC source entering via inflow of coastal shelf waters had elevated DOC concentrations with low bioavailability, high C:N and low specific bacterial production. The phytoplankton production in the fjord could not sustain the bacterial carbon demand, but was still the major source of organic carbon for bacterial growth. We assessed the bacterial community composition and found that communities were specific for the different water types i.e. the bacterial community of the coastal coastal inflow water could be traced mainly in the subsurface water, while the glacial river community strongly dominated the surface water in the fjord.