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Stable isotope analysis is increasingly used in ecological studies. Because lipid content influences δ13C, lipids should be removed from lipid-rich samples before δ13C analysis. To account for differences in δ13C arising from differences in lipid content, relationships between lipid content, C:N ratio and Δδ13C with lipid removal can be used to normalise lipid content to uniform levels. We investigate these relationships for salmonid muscle and evaluate the suitability of previously published normalisation equations for these fish. Salmonids with a wide range of condition (muscle lipid content = 3–35% of dry weight) were considered. There were no consistent relationships between lipid content or C:N ratio and Δδ15N. There were linear relationships between C:N ratio and lipid content (L = −16.53 + 6.27 × C:N); C:N ratio and Δδ13C (Δδ13C = −1.87 + 0.65 × C:N); and lipid content and Δδ13C (Δδ13C = 0.01 + 0.10 × L), which should be used on salmonid stable isotope studies.

δ13C was used to identify seasonal variations in the importance of autochthonous and allochthonous sources of productivity for fish communities in intermittently connected estuarine areas of Australia’s dry tropics. A total of 224 fish from 38 species were collected from six intermittently connected estuarine pools, three in central Queensland (two dominated by C3 forest and one by C4 pasture) and three in north Queensland (one dominated by C3 and two by C4 vegetation). Samples were collected before and after the wet season. Fish collected in the two forested areas in central Queensland had the lowest δ13C, suggesting a greater incorporation of C3 terrestrial material. A seasonal variation in δ13C was also detected for these areas, with mean δ13C varying from −20 to −23‰ from the pre- to the post-wet season, indicating a greater incorporation of terrestrial carbon after the wet season. Negative seasonal shifts in fish δ13C were also present at the pasture site, suggesting a greater dependence on carbon of riparian vegetation (C3 Juncus sp.) in the post-wet season. In north Queensland, terrestrial carbon seemed to be incorporated by fish in the two C4 areas, as δ13C of most species shifted towards slightly heavier values in the post-wet season. A two-source, one-isotope mixing model also indicated a greater incorporation of carbon of terrestrial origin in the post-wet season. However, no seasonal differences in δ13C were detected for fish from the forested area of north Queensland. Overall, hydrologic connectivity seemed to be a key factor in regulating the ultimate sources of carbon in these areas. It is therefore important to preserve the surrounding habitats and to maintain the hydrologic regimes as close to natural conditions as possible, for the conservation of the ecological functioning of these areas.