Genetic consequences of improved river connectivity in brown trout (Salmo trutta L.).

Fragmentation of watercourses poses a significant threat to biodiversity, particularly for migratory fish species. Mitigation measures such as fishways, have been increasingly implemented to restore river connectivity and support fish migration. The effects of such restoration efforts are typically tested using telemetry and fisheries methods, which do not fully capture the broader population movements that may have important consequences for population viability. We performed a before-and-after control-impact (BACI) study using genetic tools (SNPs) to investigate the effect of a newly implemented fishway, aiming to enhance upstream spawning migration of brown trout (Salmo trutta Linnaeus) in a reservoir with two headwater tributaries fragmented by man-made weirs. Another reservoir with two barrier-free tributaries was also analysed as a control. Our results showed that the isolated brown trout population was spawning in the reservoir before the installation of the fishway, and we found genetic structuring and differentiation between fragmented headwater tributaries before the fishway construction, but not in the control reservoir. Unexpectedly, after the fishway construction we observed signals consistent with increased genetic differentiation between populations of newly recruited juvenile fish in the reservoir tributary and fish in the reservoir. We propose this was caused by newly enabled philopatric behaviour of brown trout to their natal spawning tributary. In contrast, we did not find any genetic changes in the tributary without a fishway or in the barrier-free reservoir system. Given the scarcity of similar studies, we advocate for an increased use of genetic analyses in BACI studies to monitor and evaluate the effect of efforts to restore habitat connectivity and inform future management strategies.

Emigration of post-spawned twaite shad Alosa fallax, an anadromous and iteroparous fish, in a highly fragmented river.

Anthropogenic barriers are widely known to negatively impact the spawning migrations of anadromous fishes, by delaying or preventing passage upstream. Although the impacts of barriers on emigrating post-spawned adults are less well studied, they could potentially impact the fitness and subsequent return rates of iteroparous species. In this study, passive acoustic telemetry was used to track the emigrations of 53 twaite shad Alosa fallax in the River Severn basin in their first spawning migration a year after being tagged, giving insights into their emigration movements and the impacts of anthropogenic weirs on these movements. A. fallax began their emigrations after spending varying amounts of time and migrating various distances within the river, with late-emigrating individuals moving fastest and most directly. Emigrations became faster and more direct the further downstream individuals were from their furthest upstream extent. Downstream passage delays at weirs increased emigration times by a median of 61%, with environmental conditions (i.e., temperature, flow, and tidal influence on river level) having little influence on downstream passage at weirs with no modifications to facilitate fish passage. As weir-induced emigration delays are suggested to deplete energy reserves (when energy levels are already depleted post-spawning), limit spawning opportunities (by preventing access to downstream spawning habitat), and expose individuals to increased predation risk and suboptimal conditions (e.g., high temperatures), these delays can potentially diminish the benefits of iteroparity. The evidence presented here suggests that more consideration should be given to the potential impacts of anthropogenic barriers on the emigrations of iteroparous species when assessing river connectivity or undertaking barrier mitigation.

Can't pass or won't pass: the importance of motivation when quantifying improved connectivity for riverine brown trout Salmo trutta.

Reversing the negative impacts that anthropogenic habitat fragmentation has on animal movement is a key goal in the management of landscapes and conservation of species globally. Accurate assessment of measures to remediate habitat fragmentation, such as fish passage solutions in rivers, are imperative but are particularly challenging for territorial species, which are less likely to leave their existing home range, or populations composed of both migratory and resident individuals (i.e., partial migration). This investigation quantified the movements of translocated (captured upstream of the impediment and released downstream) and non-translocated (captured and released downstream of the impediment) riverine brown trout (Salmo trutta L.), a species known to perform a homing movement, through a fish pass using passive integrated transponder (PIT) telemetry. A significantly higher proportion of translocated fish approached, entered, and passed (on a wider range of flows) compared to non-translocated fish, consistent with the theory that motivation is a key driver in fish pass use. Translocated fish that entered the pass were significantly larger than those that approached but did not enter, presumably due to physiological capability. Translocated fish were a more reliable indicator of the fish passage solution effectiveness than non-translocated fish. Our findings hence imply that many fish passage solutions globally, and potentially measures to remediate habitat fragmentation for other taxa, may have been mistakenly assessed for unmotivated animals. Studying both non-translocated and translocated fish is recommended to provide more accurate and cost-effective fish passage solution assessments.

Seascape genomics reveals limited dispersal and suggests spatially varying selection among European populations of sea lamprey (Petromyzon marinus).

Sea lamprey Petromyzon marinus is an anadromous and semelparous fish without homing behaviors. Despite being a freshwater, free-living organism for a large part of their life cycle, its adulthood is spent as a parasite of marine vertebrates. In their native European range, while it is well-established that sea lampreys comprise a single nearly-panmictic population, few studies have further explored the evolutionary history of natural populations. Here, we performed the first genome-wide characterization of sea lamprey's genetic diversity in their European natural range. The objectives were to investigate the connectivity among river basins and explore evolutionary processes mediating dispersal during the marine phase, with the sequencing of 186 individuals from 8 locations spanning the North Eastern Atlantic coast and the North Sea with double-digest RAD-sequencing, obtaining a total of 30,910 bi-allelic SNPs. Population genetic analyses reinforced the existence of a single metapopulation encompassing freshwater spawning sites within the North Eastern Atlantic and the North Sea, though the prevalence of private alleles at northern latitudes suggested some limits to the species' dispersal. Seascape genomics suggested a scenario where oxygen concentration and river runoffs impose spatially varying selection across their distribution range. Exploring associations with the abundance of potential hosts further suggested that hake and cod could also impose selective pressures, although the nature of such putative biotic interactions was unresolved. Overall, the identification of adaptive seascapes in a panmictic anadromous species could contribute to conservation practices by providing information for restoration activities to mitigate local extinctions on freshwater sites.

Efficiency of a nature-like bypass channel for restoring longitudinal connectivity for a river-resident population of brown trout.

Man-made, physical barriers have disrupted longitudinal connectivity for migratory fish in many river systems throughout the world for centuries. These barriers are considered to be a key reason for the decline of many fish species in river systems. To date, most research to ease movement of anadromous salmonids past such barriers to help dwindling populations has focused on the use of technical fishways. More recently emphasis has been placed on nature-like fishways to enable a wider range of fish species to bypass these barriers, but few studies have examined their efficacy. In this study, Passive Integrated Transponder (PIT) telemetry was used to assess the upstream-directed movements of 111 river-resident brown trout (length, 151-510-mm) into and through a 150-m long, nature-like bypass on the River Aire, England. Attraction (51%), entrance (86%), passage (78%) and exit (97%) efficiencies were high, and trout of a wide range of sizes entered and exited (197-510 mm) the pass across a wide range of flows (entrance = 3.55-67.44 m3s-1 and exit = 3.89-35.5 m3s-1). There was evidence that two trout inhabited the pass during the day, entering at sunrise and exiting at sunset. This information is important to improve understanding of fish pass performance, thus informing future best practice guidance of fish passage designs.