Across rather than between river genetic structure in Atlantic salmon Salmo salar in north-east Scotland, UK: potential causes and management implications.

The aim of this study was to examine the genetic structuring, based on c. 4300 single nucleotide polymorphic markers, of juvenile Atlantic salmon Salmo salar sampled from 11 rivers in north-east Scotland, which form part of a radial drainage system. Within this area, sites in the upper mountainous and lower coastal sections of the different rivers were more closely related than sites from the upper and lower sections of the same river. Differentiation between fish from upper and lower sections was related to both distance from the sea and elevation, which were themselves correlated. The occurrence of such cross-river genetic grouping appears to be the result of both similar selective pressures resulting in homologous adaptive differences within each river and also recent common ancestry between rivers. Examination of historical tagging information showed high rates (27·4%) of between-river straying in this region that may help to maintain the across rather than between-river structure. The existence of cross-river groupings highlights the complex structuring of S. salar populations and may confound genetic identification of single-river stocks. Furthermore, the results presented show that cross-river structuring should also be an important consideration in managing S. salar stocks.

Temporal and spatial patterns of sea lice levels on sea trout in western Scotland in relation to fish farm production cycles.

The relationship between aquaculture and infestations of sea lice on wild sea trout (Salmo trutta) populations is controversial. Although some authors have concluded that there is a link between aquaculture and lice burdens on wild fish, others have questioned this interpretation. Lice levels have been shown to be generally higher on Atlantic salmon farms during the second years of two-year production cycles. Here we investigate whether this pattern relates to lice burdens on wild fish across broad temporal and spatial axes. Within Loch Shieldaig across five successive farm cycles from 2000 to 2009, the percentage of sea trout with lice, and those above a critical level, were significantly higher in the second year of a two-year production cycle. These patterns were mirrored in 2002-2003 across the Scottish west coast. The results suggest a link between Atlantic salmon farms and sea lice burdens on sea trout in the west of Scotland.

Habitat use and dispersal of post-smolt sea trout Salmo trutta in a Scottish sea loch system.

Post-smolt anadromous brown trout Salmo trutta, sea trout, from two Scottish west coast rivers, the Balgy and Shieldaig, flowing into adjacent sea lochs were tracked simultaneously using arrays of moored acoustic receivers to determine dispersal patterns and loss rates. Fish tended to stay close to their natal rivers for the first 14 day after entering the sea, during which time about half the fish were lost to the study. Although initially the overall pattern of dispersal was similar for individual fish from both rivers, towards the end of the study the groups had converged into one of the loch basins. There were also pronounced individual differences in habitat use with all those fish detected for >42 days exhibiting different patterns of habitat use. Loss rates were similar between the two rivers despite differences in the range of air-breathing predators to which the fish were initially exposed. These findings suggest that any management of predators or other mortality agents should be targeted towards mouths of rivers during and immediately following smolt emigration.

Over-summering behaviour of Atlantic salmon Salmo salar returning to rivers in the Cromarty Firth, north-east Scotland.

In 2005, a high percentage (50%) of Atlantic salmon Salmo salar fitted with acoustic transmitters, which entered rivers in the Cromarty Firth area of north-east Scotland, dropped back to the estuary and ascended adjacent rivers after 33-80 days of freshwater residence. Fish residing in non-natal rivers generate mixed stock fisheries, and movements of fish between rivers could increase the risk of disease transmission between catchments.