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At least 721 records · Page 40Linked to original sources

USGS2020

Increased prespawning mortality threatens an integrated natural- and hatchery-origin sockeye salmon population in the Lake Washington Basin

The life cycle of diadromous fishes such as salmonids involves natural mortality in a series of distinct life history stages, occurring sequentially in different habitats. Decades of research have emphasized mortality at the embryo, juvenile, and sub-adult stages but it is increasingly clear that some adults that survive and return to freshwater habitats die during the final homeward migration or after they reach the spawning grounds, prior to breeding. These are termed “en route” and “prespawning” mortality, respectively, and can threaten populations depleted by mortality at previous stages. In this study, we present evidence that the sockeye salmon, Oncorhynchus nerka, population that returns to the Lake Washington Basin, in Washington State, USA, is experiencing both forms of adult mortality. Counts of the salmon entering the basin on their return migration in June and July were compared to counts in the major spawning grounds in September through November for 1995–2018. The disparity has increased markedly in recent years. The counts on the spawning grounds have decreased as a proportion of the number entering the system with an average 49 % of sockeye unaccounted for, consistent with increased en route mortality. In addition, prespawning mortality rates have increased in salmon that reach the Cedar River, the main spawning tributary, both at a hatchery holding adult fish in 1995–2018, and in the naturally spawning populations when monitored in the last five years. Hatchery records indicated <10 % prespawning mortality for 1995–2010, increasing to an average 43 % for 2014 – 2018. Recent carcass surveys in the Cedar River documented that 33.6% (2014), 22.3% (2015), 30.3% (2016) and 50.0% (2018) of female sockeye died before completing spawning. These recent increases in prespawning mortality have been associated with warm water during entry to freshwater, but comparably warm water in past decades had no such effect. Steady warming of river temperatures around the median run completion date from < 8.0 °C to > 13.0 °C was correlated with increased prespawning mortality rates at the hatchery from 1995–2018. We conclude that warming conditions during migration and spawning, in concert with other factors such as infections with pathogens, are responsible for the increased prespawning mortality of adult sockeye salmon that are high enough to threaten the population’s viability.

Washington↗

USGS2016

Wildfire may increase habitat quality for spring Chinook salmon in the Wenatchee River subbasin, WA, USA

Pacific Northwest salmonids are adapted to natural disturbance regimes that create dynamic habitat patterns over space and through time. However, human land use, particularly long-term fire suppression, has altered the intensity and frequency of wildfire in forested upland and riparian areas. To examine the potential impacts of wildfire on aquatic systems, we developed stream-reach-scale models of freshwater habitat for three life stages (adult, egg/fry, and juvenile) of spring Chinook salmon ( Oncorhynchus tshawytscha ) in the Wenatchee River subbasin, Washington. We used variables representing pre- and post-fire habitat conditions and employed novel techniques to capture changes in in-stream fine sediment, wood, and water temperature. Watershed-scale comparisons of high-quality habitat for each life stage of spring Chinook salmon habitat suggested that there are smaller quantities of high-quality juvenile overwinter habitat as compared to habitat for other life stages. We found that wildfire has the potential to increase quality of adult and overwintering juvenile habitat through increased delivery of wood, while decreasing the quality of egg and fry habitat due to the introduction of fine sediments. Model results showed the largest effect of fire on habitat quality associated with the juvenile life stage, resulting in increases in high-quality habitat in all watersheds. Due to the limited availability of pre-fire high-quality juvenile habitat, and increased habitat quality for this life stage post-fire, occurrence of characteristic wildfires would likely create a positive effect on spring Chinook salmon habitat in the Wenatchee River subbasin. We also compared pre- and post-fire model results of freshwater habitat for each life stage, and for the geometric mean of habitat quality across all life stages, using current compared to the historic distribution of spring Chinook salmon. We found that spring Chinook salmon are currently distributed in stream channels in which in-stream habitat for most life stages has a consistently positive response to fire. This compares to the historic distribution of spring Chinook, in which in-stream habitat exhibited a variable response to fire, including decreases in habitat quality overall or for specific life stages. This suggests that as the distribution of spring Chinook has decreased, they now occupy those areas with the most positive potential response to fire. Our work shows the potentially positive link between wildfire and aquatic habitat that supports forest managers in setting broader goals for fire management, perhaps leading to less fire suppression in some situations.

Washington↗

USGS2004

Quantitative expression profiling of immune response genes in rainbow trout following infectious haematopoietic necrosis virus (IHNV) infection or DNA vaccination

Infectious haematopoietic necrosis virus (IHNV) is a well-studied virus of salmonid fishes. A highly efficacious DNA vaccine has been developed against this virus and studies have demonstrated that this vaccine induces both an early and transient non-specific anti-viral phase as well as long-term specific protection. The mechanisms of the early anti-viral phase are not known, but previous studies noted changes in Mx gene expression, suggesting a role for type I interferon. This study used quantitative real-time reverse transcriptase PCR methodology to compare expression changes over time of a number of cytokine or cytokine-related genes in the spleen of rainbow trout following injection with poly I:C, live IHNV, the IHNV DNA vaccine or a control plasmid encoding the non-antigenic luciferase gene. The target genes included Mx-1, viral haemorrhagic septicaemia virus induced gene 8 (Vig-8), TNF-α1, TNF-α2, IL-1β1, IL-8, TGF-β1 and Hsp70. Poly I:C stimulation induced several genes but the strongest and significant response was observed in the Mx-1 and Vig-8 genes. The live IHN virus induced a significant response in all genes examined except TGF-β1. The control plasmid construct and the IHNV DNA vaccine marginally induced a number of genes, but the main difference between these two groups was a statistically significant induction of the Mx-1 and Vig-8 genes by the IHNV vaccine only. The gene expression profiles elicited by the live virus and the IHNV DNA vaccine differed in a number of aspects but this study confirms the clear role for a type I interferon-like response in early anti-viral defence.

Fish & Shellfish Immunology↗

USGS2011

Specificity of DNA vaccines against the U and M genogroups of infectious hematopoietic necrosis virus (IHNV) in rainbow trout (Oncorhynchus mykiss)

Infectious hematopoietic necrosis virus (IHNV) is a fish rhabdovirus that causes significant mortality in salmonid species. In North America IHNV has three major genogroups designated U, M, and L. Host-specificity of the M and U genogroups of IHNV has been established both in the field and in experimental challenges, with M isolates being more prevalent and more virulent in rainbow trout (Oncorhynchus mykiss), and U isolates being more prevalent and highly virulent in sockeye salmon (Oncorhynchus nerka). In this study, efficacy of DNA vaccines containing either M (pM) or U (pU) virus glycoprotein genes was investigated during intra- and cross-genogroup challenges in rainbow trout. In virus challenges at 7 days post-vaccination (early antiviral response), both pM and pU were highly protective against either M or U IHNV. In challenges at 28 days post-vaccination (specific antiviral response), both pM and pU were protective against M IHNV but the homologous pM vaccine was significantly more protective than pU in one of two experiments. At this stage both pM and pU induced comparably high protection against U IHNV challenge. Correlates of protection were also investigated by assessing the expression of the interferon-stimulated gene Mx-1 and the production of neutralizing antibodies (NAbs) following pM or pU DNA vaccination. Mx-1 gene expression, measured at 4 and 7 days post-vaccination as an indicator of the host innate immune response, was found to be significantly higher after pM than pU vaccination in some cases. Neutralizing antibody was produced in response to the two vaccines, but antibody titers did not show consistent correlation with protection. The results show that the rainbow trout innate and adaptive immune responses have some ability to distinguish between the U and M genogroup IHNV, but overall the pM and pU vaccines were protective against both homologous and cross-genogroup challenges.

Fish and Shellfish Immunology↗

USGS2015

Large-scale dam removal on the Elwha River, Washington, USA: river channel and floodplain geomorphic change

A substantial increase in fluvial sediment supply relative to transport capacity causes complex, large-magnitude changes in river and floodplain morphology downstream. Although sedimentary and geomorphic responses to sediment pulses are a fundamental part of landscape evolution, few opportunities exist to quantify those processes over field scales. We investigated the downstream effects of sediment released during the largest dam removal in history, on the Elwha River, Washington, USA, by measuring changes in riverbed elevation and topography, bed sediment grain size, and channel planform as two dams were removed in stages over two years. As 10.5 million t (7.1 million m 3 ) of sediment was released from two former reservoirs, downstream dispersion of a sediment wave caused widespread bed aggradation of ~ 1 m (greater where pools filled), changed the river from pool–riffle to braided morphology, and decreased the slope of the lowermost river. The newly deposited sediment, which was finer than most of the pre-dam-removal bed, formed new bars (largely pebble, granule, and sand material), prompting aggradational channel avulsion that increased the channel braiding index by almost 50%. As a result of mainstem bed aggradation, floodplain channels received flow and accumulated new sediment even during low to moderate flow conditions. The river system showed a two- to tenfold greater geomorphic response to dam removal (in terms of bed elevation change magnitude) than it had to a 40-year flood event four years before dam removal. Two years after dam removal began, as the river had started to incise through deposits of the initial sediment wave, ~ 1.2 million t of new sediment (~ 10% of the amount released from the two reservoirs) was stored along 18 river km of the mainstem channel and 25 km of floodplain channels. The Elwha River thus was able to transport most of the released sediment to the river mouth. The geomorphic alterations and changing bed sediment grain size along the Elwha River have important ecological implications, affecting aquatic habitat structure, benthic fauna, salmonid fish spawning and rearing potential, and riparian vegetation. The response of the river to dam removal represents a unique opportunity to observe and quantify fundamental geomorphic processes associated with a massive sediment influx, and also provides important lessons for future river-restoration endeavors.

Washington↗

USGS2009

Predation by fallfish ( Semotilus corporalis ) on Pacific salmon eggs in the Salmon River, New York

Fallfish ( Semotilus corporalis ) are the largest native cyprinid in the northeastern United States and are the most abundant native species in the Salmon River, New York. The Salmon River is a high-quality spawning and nursery river for Pacific salmon ( Oncorhynchus spp.) migrating from Lake Ontario. Because of the large number of Pacific salmon spawning in the river in the fall extensive redd superimposition occurs resulting in salmonid eggs being available on the substrate. We examined the fall diet of 647 fallfish in 2007 and 2008 to determine the extent of predation on Pacific salmon eggs. The contribution of eggs in the diet significantly increased once fallfish attained a size of 100 mm total length. The largest size category of fallfish examined (≥150 mm) had the highest proportion (86.1%) of salmon eggs in their diet. The contribution of Zooplankton and chironomids in the diet of fallfish decreased with fish size. Except for the two largest groups of fallfish examined (i.e., 100–149 mm and ≥150 mm) diet overlap among size groups was low. The high contribution in the diet during the fall and high caloric value of Pacific salmon eggs could increase growth and survival of this species in the Salmon River.

New York↗

USGS2016

Effect of stocking sub-yearling Atlantic salmon on the habitat use of sub-yearling rainbow trout

Atlantic salmon (Salmo salar) restoration in the Lake Ontario watershed may depend on the species' ability to compete with naturalized non-native salmonids, including rainbow trout (Oncorhynchus mykiss) in Lake Ontario tributaries. This study examined interspecific habitat associations between sub-yearling Atlantic salmon and rainbow trout as well as the effect of salmon stocking on trout habitat in two streams in the Lake Ontario watershed. In sympatry, Atlantic salmon occupied significantly faster velocities and deeper areas than rainbow trout. However, when examining the habitat use of rainbow trout at all allopatric and sympatric sites in both streams, trout habitat use was more diverse at the sympatric sites with an orientation for increased cover and larger substrate. In Grout Brook, where available habitat remained constant, there was evidence suggesting that trout may have shifted to slower and shallower water in the presence of salmon. The ability of sub-yearling Atlantic salmon to affect a habitat shift in rainbow trout may be due to their larger body size and/or larger pectoral fin size. Future studies examining competitive interactions between these species during their first year of stream residence should consider the size advantage that earlier emerging Atlantic salmon will have over rainbow trout.

New York↗

USGS2016

Comparative diets of subyearling Atlantic salmon and subyearling coho salmon in Lake Ontario tributaries

Restoration of Atlantic salmon ( Salmo salar ) in Lake Ontario could potentially be negatively affected by the presence of non-native salmonids that are naturalized in the basin. Coho salmon ( Oncorhynchus kisutch ) have been spawning successfully in Lake Ontario tributaries for over 40 years and their juveniles will reside in streams with juvenile Atlantic salmon for one year. This study sought to examine interspecific diet associations between these species, and to compare diets to the composition of the benthos and drift in three Lake Ontario tributaries. Aquatic insects, mainly ephemeropterans and chironomids were the major prey consumed by subyearling Atlantic salmon whereas terrestrial invertebrates made up only 3.7% of the diet. Ephemeropterans and chironomids were the primary aquatic taxa consumed by subyearling coho salmon but, as a group, terrestrial invertebrates (41.8%) were the major prey. In sympatry, Atlantic salmon fed more actively from the benthos whereas the diet of coho salmon was more similar to the drift. The different feeding pattern of each species resulted in low interspecific diet similarity. There is likely little competition between these species for food in Lake Ontario tributaries as juveniles.

New York↗

USGS2022

Spatial and temporal variability in lake trout diets in Lake Ontario as revealed by stomach contents and stable isotopes

Lake trout ( Salvelinus namaycush ) are an ecologically and economically important piscivore with reported differences in diet and feeding behaviour throughout its range. Eleven stomach content and stable isotope-based metrics were used to describe diets of 349 lake trout between two years (2013 and 2018) and among geographic zones (west, central, east, Kingston basin) in Lake Ontario. Using individual (e.g., volumetric, %V) and aggregate (e.g., index of relative importance, %IRI) diet metrics, we found an overwhelming dominance of alewife ( Alosa pseudoharengus ) in lake trout diets among some zones in 2013 (%V = 23.3 – 92.7; %IRI = 12.2 – 99.5) and all zones in 2018 (%V = 83.9 – 96.7; %IRI = 96.5 – 100). Round goby ( Neogobius melanostomus ) and rainbow smelt ( Osmerus mordax ) were secondary lake trout prey items with relative diet percentages only marginally reflected by spatial and temporal variation in prey abundance (round goby: %V = 1.0 – 33.3, %IRI = 0.1 – 13.2; rainbow smelt: %V = 2.5 – 54.0, %IRI = 0.1 – 54.0). Carbon (δ 13 C) and nitrogen (δ 15 N) isotopic niche areas and orientations were similar across all year-zone combinations reinforcing temporal and spatial consistency in lake trout diet. The findings of this study advance the time series in describing Lake Ontario lake trout diets and can be used to complement stock assessments and management decisions associated with carrying capacity for the diverse salmonid community.

Lake Ontario↗

USGS2021

Response of fish assemblages to restoration of rapids habitat in a Great Lakes connecting channel

Rapids habitats are critical spawning and nursery grounds for multiple Laurentian Great Lakes fishes of ecological importance such as lake sturgeon, walleye, and salmonids. However, river modifications have destroyed important rapids habitat in connecting channels by modifying flow profiles and removing large quantities of cobble and gravel that are preferred spawning substrates of several fish species. The conversion of rapids habitat to slow moving waters has altered fish assemblages and decreased the spawning success of lithophilic species. The St. Marys River is a Great Lakes connecting channel in which the majority of rapids habitat has been lost. However, rapids habitat was restored at the Little Rapids in 2016 to recover important spawning habitat in this river. During the restoration, flow and substrate were recovered to rapids habitat. We sampled the fish community (pre- and post-restoration), focusing on age-0 fishes in order to characterize the response of the fish assemblage to the restoration, particularly for species of importance (e.g. lake whitefish, walleye, Atlantic salmon). Following restoration, we observed a 40% increase in age-0 fish catch per unit effort , increased presence of rare species, and a shift in assemblage structure of age-0 fishes (higher relative abundance of Salmonidae, Cottidae, and Gasterosteidae). We also observed a “transition” period in 2017, in which the assemblage was markedly different from the pre- and post-restoration assemblages and was dominated by Catostomidae. Responses from target species were mixed, with increased Atlantic salmon abundance, first documented presence of walleye and no presence of lake sturgeon or Coregoninae.

Michigan, Ontario↗

USGS2024

Predicting the response of fish populations to changes in river connectivity using individual-based models

Barrier removal restores physical stream processes and improves accessibility of critical habitats to migratory fishes. Although increasing connectivity benefits stream systems and migratory fishes, barrier removals may also lead to increased production of undesirable or invasive migratory species, as well as myriad other concerns (e.g., reduced recreational opportunities). Few studies have predicted how migratory fish populations will respond to enhanced fish passage, despite being a critical step in the decision-making process. We developed an individual-based model framework to forecast the response of migratory fishes to changes in connectivity and applied the framework to six species under multiple fish passage scenarios for the FishPass project on the Boardman River, MI, which outlets into Lake Michigan. Population response to barrier removal was species-specific and varied based on initial population size and distribution within the watershed, number of fish passed upstream, and species life history traits. Species restricted to below the barrier prior to removal benefitted most; non-native species were found to have greater production potential under full passage scenarios than native Great Lakes species. With increasing passage of non-native Pacific salmonids, steelhead Oncorhynchus mykiss surpassed brook trout Salvelinus fontinalis as the system’s dominant species. Our results will inform decision-makers on management alternatives for fish passage on the Boardman River and our model framework can be modified, updated, and applied to additional river systems as more barrier removal projects are conducted in the future.

Michigan↗

USGS2016

Simulating future water temperatures in the North Santiam River, Oregon

A previously calibrated two-dimensional hydrodynamic and water-quality model (CE-QUAL-W2) of Detroit Lake in western Oregon was used in conjunction with inflows derived from Precipitation-Runoff Modeling System (PRMS) hydrologic models to examine in-lake and downstream water temperature effects under future climate conditions. Current and hypothetical operations and structures at Detroit Dam were imposed on boundary conditions derived from downscaled General Circulation Models in base (1990–1999) and future (2059–2068) periods. Compared with the base period, future air temperatures were about 2 °C warmer year-round. Higher air temperature and lower precipitation under the future period resulted in a 23% reduction in mean annual PRMS-simulated discharge and a 1 °C increase in mean annual estimated stream temperatures flowing into the lake compared to the base period. Simulations incorporating current operational rules and minimum release rates at Detroit Dam to support downstream habitat, irrigation, and water supply during key times of year resulted in lower future lake levels. That scenario results in a lake level that is above the dam’s spillway crest only about half as many days in the future compared to historical frequencies. Managing temperature downstream of Detroit Dam depends on the ability to blend warmer water from the lake’s surface with cooler water from deep in the lake, and the spillway is an important release point near the lake’s surface. Annual average in-lake and release temperatures from Detroit Lake warmed 1.1 °C and 1.5 °C from base to future periods under present-day dam operational rules and fill schedules. Simulated dam operations such as beginning refill of the lake 30 days earlier or reducing minimum release rates (to keep more water in the lake to retain the use of the spillway) mitigated future warming to 0.4 and 0.9 °C below existing operational scenarios during the critical autumn spawning period for endangered salmonids. A hypothetical floating surface withdrawal at Detroit Dam improved temperature control in summer and autumn (0.6 °C warmer in summer, 0.6 °C cooler in autumn compared to existing structures) without altering release rates or lake level management rules.

Oregon↗

USGS2020

Projecting spatiotemporally explicit effects of climate change on stream temperature: A model comparison and implications for coldwater fishes

Conservation planners and resource managers seek information about how the availability and locations of cold-water habitats will change in the future and how these predictions vary among models. We used a physical process-based model to demonstrate the implications of climate change for streamflow and water temperature in two watersheds with distinctive flow regimes: the Snoqualmie watershed (WA) and Siletz watershed (OR), USA. Our model incorporated a downscaled ensemble of global climate model outputs and was calibrated with in situ and remotely sensed water temperatures. We compared predictions from our processed-based model to those from a publicly available and widely used statistical model. The process-based model projected greater changes in summer maximum water temperatures for the mixed-rain-snow Snoqualmie watershed than for the rain-dominated Siletz watershed as a result of the near-complete loss of winter snowpack and significant reduction in summer flow in the Snoqualmie watershed expected by the 2080s. Both models projected generally similar future spatial patterns of maximum water temperature in the two rivers, with cool reaches distributed farther upstream and fewer in number. However, the process-based model projected higher spatial heterogeneity in water temperature due to our spatially explicit simulation of streamflow and because we calibrated the model with spatially continuous remotely sensed water temperature data. We used stream temperature projections to assess the vulnerability of Pacific salmon and trout to changes in the spatial distribution of cold-water habitats during August by the 2080s. Results suggest that salmonids may have fewer summertime cold-water habitats in both watersheds. Projected stream warming may further limit particular species and life stages, especially in the Snoqualmie watershed. Our comparison of models highlights the importance of considering what might be gained by using a process-based model for evaluating and prioritizing management actions that mitigate climate impacts on cold-water habitats for stream fishes.

Oregon, Washington↗

USGS2025

How quickly do brook trout lose long-term thermal acclimation?

Abundances of coldwater adapted stream fish populations are declining largely due to anthropogenic influences, including increased temperature. To persist in streams with unsuitable thermal habitat, fish must move to coldwater patches, acclimate, or adapt to water temperatures above thermal optima. Brook trout, a coldwater adapted salmonid, has previously displayed physiological plasticity and the ability for reversible thermal acclimation when reared at higher temperatures. However, because stream temperatures are not static, it is important to explore the rate at which thermal acclimation occurs to evaluate whether prior thermal experience will influence future thermal performance. To determine the temporal scale in loss of thermal acclimation as water temperatures cool, we acclimated brook trout to three thermal regimes: +0 °C (ambient; mimicking the daily average water temperature of a nearby long-term study site), as well as +2 °C and +4 °C above ambient. After 2 years of being reared under those conditions, fish from the warmer treatments were moved to a common, colder temperature (ambient). We then used critical thermal maximum to measure the loss in acclimation response of fish from each treatment over time. We found that regardless of initial acclimation temperature, thermal tolerance of warm acclimated fish decreased rapidly for 1 week, then gradually decreased, and was completely lost within 42 days. This gradual loss of acclimation may be valuable to persistence in warmer streams and will be important to include in models of the impact climate change has on brook trout and other aquatic ectotherms with significant thermal plasticity.

Massachusetts↗

USGS2006

Strand-specific, real-time RT-PCR assays for quantification of genomic and positive-sense RNAs of the fish rhabdovirus, Infectious hematopoietic necrosis virus

The fish rhabdovirus, Infectious hematopoietic necrosis virus (IHNV), is an important pathogen of salmonids. Cell culture assays have traditionally been used to quantify levels of IHNV in samples; however, real-time or quantitative RT-PCR assays have been proposed as a rapid alternative. For viruses having a single-stranded, negative-sense RNA genome, standard qRT-PCR assays do not distinguish between the negative-sense genome and positive-sense RNA species including mRNA and anti-genome. Thus, these methods do not determine viral genome copy number. This study reports development of strand-specific, qRT-PCR assays that use tagged primers for enhancing strand specificity during cDNA synthesis and quantitative PCR. Protocols were developed for positive-strand specific (pss-qRT-PCR) and negative-strand specific (nss-qRT-PCR) assays for IHNV glycoprotein (G) gene sequences. Validation with synthetic RNA transcripts demonstrated the assays could discriminate the correct strand with greater than 1000-fold fidelity. The number of genome copies in livers of IHNV-infected fish determined by nss-qRT-PCR was, on average, 8000-fold greater than the number of infectious units as determined by plaque assay. We also compared the number of genome copies with the quantity of positive-sense RNA and determined that the ratio of positive-sense molecules to negative-sense genome copies was, on average, 2.7:1. Potential future applications of these IHNV strand-specific qRT-PCR assays are discussed.

Journal of Virological Methods↗

USGS2017

Analytical validation of a reverse transcriptase droplet digital PCR (RT-ddPCR) for quantitative detection of infectious hematopoietic necrosis virus

Infectious hematopoietic necrosis virus (IHNV) is an important pathogen of salmonid fishes. A validated universal reverse transcriptase quantitative PCR (RT-qPCR) assay that can quantify levels of IHNV in fish tissues has been previously reported. In the present study, we adapted the published set of IHNV primers and probe for use in a reverse-transcriptase droplet digital PCR (RT-ddPCR) assay for quantification of the virus in fish tissue samples. The RT-ddPCR and RT-qPCR assays detected 13 phylogenetically diverse IHNV strains, but neither assay produced detectable amplification when RNA from other fish viruses was used. The RT-ddPCR assay had a limit of detection (LOD) equating to 2.2 plaque forming units (PFU)/μl while the LOD for the RT-qPCR was 0.2 PFU/μl. Good agreement (69.4–100%) between assays was observed when used to detect IHNV RNA in cell culture supernatant and tissues from IHNV infected rainbow trout ( Oncorhynchus mykiss ) and arctic char ( Salvelinus alpinus ). Estimates of RNA copy number produced by the two assays were significantly correlated but the RT-qPCR consistently produced higher estimates than the RT-ddPCR. The analytical properties of the N gene RT-ddPCR test indicated that this method may be useful to assess IHNV RNA copy number for research and diagnostic purposes. Future work is needed to establish the within and between laboratory diagnostic performance of the RT-ddPCR assay.

Journal of Virological Methods↗

USGS2020

Cortisol regulates insulin-like growth-factor binding protein (igfbp) gene expression in Atlantic salmon parr

The growth hormone (Gh)/insulin-like growth-factor (Igf)/Igf binding protein (Igfbp) system regulates growth and osmoregulation in salmonid fishes, but how this system interacts with other endocrine systems is largely unknown. Given the well-documented consequences of mounting a glucocorticoid stress response on growth, we hypothesized that cortisol inhibits anabolic processes by modulating the expression of hepatic igfbp mRNAs. Atlantic salmon ( Salmo salar ) parr were implanted intraperitoneally with cortisol implants (0, 10, and 40 μg g −1 body weight) and sampled after 3 or 14 days. Cortisol elicited a dose-dependent reduction in specific growth rate (SGR) after 14 days. While plasma Gh and Igf1 levels were unchanged, hepatic igf1 mRNA was diminished and hepatic igfbp1b1 and -1b2 were stimulated by the high cortisol dose. Plasma Igf1 was positively correlated with SGR at 14 days. Hepatic gh receptor ( ghr ), igfbp1a , -2a , -2b1 , and -2b2 levels were not impacted by cortisol. Muscle igf2 , but not igf1 or ghr , levels were stimulated at 3 days by the high cortisol dose. As both cortisol and the Gh/Igf axis promote seawater (SW) tolerance, and particular igfbps respond to SW exposure, we also assessed whether cortisol coordinates the expression of branchial igfbps and genes associated with ion transport. Cortisol stimulated branchial igfbp5b2 levels in parallel with Na + /K + -ATPase (NKA) activity and nka-α1b , Na + /K + / 2Cl - -cotransporter 1 ( nkcc1 ), and cystic fibrosis transmembrane regulator 1 ( cftr1 ) mRNA levels. The collective results indicate that cortisol modulates the growth of juvenile salmon via the regulation of hepatic igfbp1s whereas no clear links between cortisol and branchial igfbps previously shown to be salinity-responsive could be established.

Molecular and Cellular Endocrinology↗

USGS2019

Evolutionary dynamics of Ceratonova species (Cnidaria: Myxozoa) reveal different host adaptation strategies

The myxozoan parasite Ceratonova shasta is an important pathogen that infects multiple species of Pacific salmonids. Ongoing genetic surveillance has revealed stable host-parasite relationships throughout the parasite's endemic range. We applied Bayesian phylogenetics to test specific hypotheses about the evolution of these host-parasite relationships within the well-studied Klamath River watershed in Oregon and California, USA. The results provide statistical support that different genotypes of C. shasta are distinct lineages of one species, which is related to two other Ceratonova species in the same ecosystems; Ceratonova X in speckled dace and C. gasterostea in threespine stickleback. Furthermore, we found strong support for the hypothesis that C. shasta type 0 in native steelhead trout and type I in Chinook salmon each evolved with a specialist host adaptation strategy, while C. shasta type II in coho salmon resulted from a generalist host adaptation strategy. Inferred date and host species of the most recent common ancestor of extant Klamath basin types indicate that it occurred between 14,000 and 21,000 years ago, and most likely infected a native steelhead or rainbow trout host.

California, Oregon↗