It is difficult to address all of the direct environmental impacts of fisheries using conventional methods of Life Cycle Assessment (LCA). A methodological framework was developed that calculates regionalised characterisation factors for biomass uptake by fishing activities to assess impacts of biotic-resource depletion at both species and ecosystem levels. These two levels were studied to include effects of catch on the collapse of a particular stock of a given species and on total biomass availability in oceans. Characterisation factors were calculated for 127 fish species and 88 marine provinces. The compatibility of this method with other frameworks is discussed, as well as the methodological limitations. The method was applied to two contrasting examples from fisheries (Northern Atlantic albacore tuna and Northern Argentine anchovy). The impacts of one tonne of tuna on biotic natural resources were 4 and 14 times as high as those of anchovy at the ecosystem and species levels, respectively. The application demonstrates that the method is relevant, as it addresses a topic of global interest and fills a gap in LCA impact assessment to contrast impacts of removals of different fish species in terms of biotic natural resource depletion.