Diversity of movements by individual anadromous coastal cutthroat trout Oncorhynchus clarkii clarkii

Estimating the genetic diversity of Pacific salmon and trout using multigene eDNA metabarcoding

Genetic diversity underpins species conservation and management goals, and ultimately determines a species' ability to adapt. Using freshwater environmental DNA (eDNA) samples, we examined mitochondrial genetic diversity using multigene metabarcode sequence data from four Oncorhynchus species across 16 sites in Oregon and northern California. Our multigene metabarcode panel included targets commonly used in population genetic NADH dehydrogenase 2 (ND2), phylogenetic cytochrome c oxidase subunit 1 (COI) and eDNA (12S ribosomal DNA) screening. The ND2 locus showed the greatest within-species haplotype diversity for all species, followed by COI and then 12S rDNA for all species except Oncorhynchus kisutch. Sequences recovered for O. clarkii clarkii were either identical to, or one mutation different from, previously characterized haplotypes (95.3% and 4.5% of reads, respectively). The greatest diversity in O. c. clarkii was among coastal watersheds, and subsets of this diversity were shared with fish in inland watersheds. However, coastal streams and the Umpqua River watershed appear to harbour unique haplotypes. Sequences from O. mykiss revealed a disjunction between the Willamette watershed and southern watersheds suggesting divergent histories. We also identified similarities between populations in the northern Deschutes and southern Klamath watersheds, consistent with previously hypothesized connections between the two via inland basins. Oncorhynchus kisutch was only identified in coastal streams and the Klamath River watershed, with most diversity concentrated in the coastal Coquille watershed. Oncorhynchus tshawytscha was only observed at one site, but contained multiple haplotypes at each locus. The characterization of genetic diversity at multiple loci expands the knowledge gained from eDNA sampling and provides crucial information for conservation actions and genetic management.

Differential migration in Pacific salmon and trout: Patterns and hypotheses

Migrations affect the population dynamics, life history, evolution, and connections of animals to natural ecosystems and humans. Many species and populations display partial migration (some individuals migrate and some do not), and differential migration (migration distance varies). Partial migration is widely distributed in fishes but the term differential migration is much less commonly applied, despite the occurrence of this phenomenon. This paper briefly reviews the extent of differential migration in Pacific salmon and trout (genus Oncorhynchus), a very extensively studied group. Three hypotheses are presented to explain the patterns among species: 1) phylogenetic relationships, 2) the prevalence of partial migration (i.e., variation in anadromy), and 3) life history patterns (iteroparous or semelparous, and duration spent feeding at sea prior to maturation). Each hypothesis has some support but none is consistent with all patterns. The prevalence of differential migration, ranging from essentially non-existent to common within a species, reflects phylogeny and life history, interacting with the geographic features of the region where juvenile salmon enter the ocean. Notwithstanding the uncertain evolution of this behavior, it has very clear implications for salmon conservation, as it strongly affects exposure to predators, patterns of fishery exploitation and also uptake of toxic contaminants.

Potential of a no-take marine reserve to protect home ranges of anadromous brown trout (Salmo trutta)

The extent to which no-take marine reserves can benefit anadromous species requires examination. Here, we used acoustic telemetry to investigate the spatial behavior of anadromous brown trout (sea trout, Salmo trutta) in relation to a small marine reserve (~1.5 km2) located inside a fjord on the Norwegian Skagerrak coast. On average, sea trout spent 42.3 % (±5.0% SE) of their time in the fjord within the reserve, a proportion similar to the area of the reserve relative to that of the fjord. On average, sea trout tagged inside the reserve received the most protection, although the level of protection decreased marginally with increasing home range size. Furthermore, individuals tagged outside the reserve received more protection with increasing home range size, potentially opposing selection toward smaller home range sizes inflicted on fish residing within reserves, or through selective fishing methods like angling. Monthly sea trout home ranges in the marine environment were on average smaller than the reserve, with a mean of 0.430 (±0.0265 SE) km2. Hence, the reserve is large enough to protect the full home range of some individuals residing in the reserve. Synthesis and applications: In general, the reserve protects sea trout to a varying degree depending on their individual behavior. These findings highlight evolutionary implications of spatial protection and can guide managers in the design of marine reserves and networks that preserve variation in target species' home range size and movement behavior.

Size, age, growth and site fidelity of anadromous cutthroat trout Oncorhynchus clarkii clarkii in the Salish Sea

Pacific salmon Oncorhynchus spp. have been the focus of scientific research for over a century, but anadromous trout in this genus, in particular anadromous coastal cutthroat trout Oncorhynchus clarkii clarkii, have been neglected. Oncorhynchus clarkii clarkii occupy a diverse range of habitats including fresh water, brackish estuaries and marine water, but have a relatively small home range making them ideal for studies of behaviour and movements during ocean residency. In 2015, we sampled O. c. clarkii monthly along a small stretch of beach (47.08° N, 122.98° W) in Eld Inlet, south Puget Sound, Washington using a beach seine. We collected tissue for genetic tagging and stock identification and scales for aging from 427 O. c. clarkii, ranging in size from 118 to 478 mm fork length. Additionally, we enumerated redds in natal streams of those fish tagged to describe inter-habitat movement patterns and investigate site fidelity of juvenile and adult O. c. clarkii in the marine environment. Consistent with other anadromous salmonids, O. c. clarkii captured at our study beach exhibited rapid growth rates, particularly in spring following dispersal into the marine environment (mean ± SD = 0.61 ± 0.29 mm^-d ). Genetic tag data revealed that while O. c. clarkii undergo inter-estuarine migrations, O. c. clarkii of all life stages exhibited site fidelity in the marine environment. Twenty-one percent (64/305) of sampled O. c. clarkii were recaptured at least once during the course of the study while multiple fish (n = 3) were recaptured up to five times. These results suggest that O. c. clarkii occupying south Puget Sound reside in or regularly return to a small geographic area in the nearshore environment for much of their life and therefore may be particularly vulnerable to anthropogenic disturbance (development, angling, etc.).

Smolting in coastal cutthroat trout Onchorhynchus clarkii clarkii

Gill Na(+) , K(+) -ATPase activity, condition factor and seawater (SW) challenges were used to assess the development of smolt characteristics in a cohort of hatchery coastal cutthroat trout Oncorhynchus clarkii clarkii from the Cowlitz River in Washington State, U.S.A. Gill Na(+) , K(+) -ATPase activity increased slightly in the spring, coinciding with an increase in hypo-osmoregulatory ability. These changes were of lesser magnitude than are observed in other salmonine species. Even at the peak of tolerance, these fish exhibited notable osmotic perturbations in full strength SW. Condition factor in these hatchery fish declined steadily through the spring. Wild captured migrants from four tributaries of the Columbia River had moderately elevated gill Na(+) , K(+) -ATPase activity, consistent with smolt development and with greater enzyme activity than autumn captured juveniles from one of the tributaries, Abernathy Creek. Migrant fish also had reduced condition factor. General linear models of 7 years of data from Abernathy Creek suggest that yearly variation, advancing photoperiod (as ordinal date) and fish size (fork length) were significant factors for predicting gill Na(+) , K(+) -ATPase activity in these wild fish. Both yearly variation and temperature were significant factors for predicting condition factor. These results suggest that coastal O. c. clarkii exhibit weakly developed characteristics of smolting. These changes are influenced by environmental conditions with great individual variation. The data suggest great physiological plasticity consistent with the variable life-history tactics observed in this species.