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At least 1,225 records · Page 68Linked to original sources

USGS2020

Hydrogeomorphological controls on reach‐scale distributions of cichlid nest sites in a small neotropical river

The Cichlidae are among the most diversified families of fish in the Neotropics and represent an important component of aquatic biodiversity. Understanding cichlid nest‐site selection is important for assemblages facing uncertain futures due to species invasions and environmental change. This information could be used to predict how inter‐ and intraspecific competition for reproductive space may affect populations with changing community dynamics or to identify areas as targets for conservation. We investigated which hydrogeomorphological factors correlated to preferred nest sites of four native cichlid species in the Bladen River, Belize. We recorded the locations of nest sites and collected habitat data through the study reach, including flow velocity, depth, sediment type, fish cover type richness and distance to the bank. Nest locations and physical habitat data were used to construct spatially explicit habitat models using boosted regression trees (BRTs). The models provided statistically significant evidence that physical habitat variables influence the distribution of the nest sites. We found that all species except Archocentrus spilurus were associated with substrate, specifically sand. Thorichthys meeki was also associated with lower water velocities, whereas Cichlasoma salvini was influenced by all five variables. Vieja maculicauda and Archocentrus spilurus were both influenced by flow velocity, distance to bank and depth, although A. spilurus preferred deeper, slightly faster locations about the same distance to the bank. This study suggests that the spatial distribution of nest sites within this cichlid community is significantly different than random and is at least partially governed by physical controls.

Monkey River Basin↗

USGS2004

Landsat TM inventory and assessment of waterbird habitat in the southern altiplano of South America

The diverse set of wetlands in southern altiplano of South America supports a number of endemic and migratory waterbirds. These species include endangered endemic flamingos and shorebirds that nest in North America and winter in the altiplano . This research developed maps from nine Landsat Thematic Mapper (TM) images (254,300 km 2 ) to provide an inventory of aquatic waterbird habitats. Image processing software was used to produce a map with a classification of wetlands according to the habitat requirements of different types of waterbirds. A hierarchical procedure was used to, first, isolate the bodies of water within the TM image; second, execute an unsupervised classification on the subsetted image to produce 300 signatures of cover types, which were further subdivided as necessary. Third, each of the classifications was examined in the light of field data and personal experience for relevance to the determination of the various habitat types. Finally, the signatures were applied to the entire image and other adjacent images to yield a map depicting the location of the various waterbird habitats in the southern altiplano . The data sets referenced with a global positioning system receiver were used to test the classification system. Multivariate analysis of the bird communities censused at each lake by individual habitats indicated a salinity gradient, and then the depth of the water separated the birds. Multivariate analysis of the chemical and physical data from the lakes showed that the variation in lakes were significantly associated with difference in depth, transparency, latitude, elevation, and pH. The presence of gravel bottoms was also one of the qualities distinguishing a group of lakes. This information will be directly useful to the Flamingo Census Project and serve as an element for risk assessment for future development.

Wetlands Ecology and Management↗

USGS2003

Composition, complexity, and tree mortality in riparian forests in the central Western Cascades of Oregon

Riparian forests contribute to the diversity and function of both terrestrial and aquatic ecosystems. To assess some of these contributions, we compared tree composition, stand complexity, and temporal patterns of tree mortality on permanent plots in seven mature and old-growth stands representing upland forests and forests along low- and mid-order streams in the Western Cascade Range of Oregon. We also assessed recruitment of large wood into stream channels due to tree mortality, both by direct measurement and by estimation from tree mortality and location data. Stands differed in composition due to both stream order and successional stage. Stands on mid-order streams had high abundance of hardwood trees and/or Thuja plicata . Stand complexity (variability in tree diameters, tree life-form diversity, and tree species diversity), was high in stands on mid-order streams and in the upland, old-growth stand. Tree mortality was exceptionally high in six of the seven stands in 1996, the year in which the largest flood during the study occurred. However, only in the one stand on an unconstrained reach of a mid-order stream was mortality primarily due to flooding. Estimated recruitment of wood was much higher from the stand on the unconstrained reach than from the other stands on mid-order streams, suggesting that unconstrained reaches may be important for efforts to maintain or restore large wood in streams.

Oregon↗

USGS2020

The elephant in the lab (and field): Contamination in aquatic environmental DNA studies

The rapid evolution of environmental (e)DNA methods has resulted in knowledge gaps in smaller, yet critical details like proper use of negative controls to detect contamination. Detecting contamination is vital for confident use of eDNA results in decision-making. We conducted two literature reviews to summarize (a) the types of quality assurance measures taken to detect contamination of eDNA samples from aquatic environments, (b) the occurrence, frequency and attribution (i.e., putative sources) of unexpected amplification in these quality assurance samples, and (c) how results were interpreted when contamination occurred. In the first literature review, we reviewed 156 papers and found that 91% of targeted and 73% of metabarcoding eDNA studies reported inclusion of negative controls within their workflows. However, a large percentage of targeted (49%) and metabarcoding (80%) studies only reported negative controls for laboratory procedures, so results were potentially blind to field contamination. Many of the 156 studies did not provide critical methodological information and amplification results of negative controls. In our second literature review, we reviewed 695 papers and found that 30 targeted and 32 metabarcoding eDNA studies reported amplification of negative controls. This amplification occurred at similar proportions for field and lab workflow steps in targeted and metabarcoding studies. These studies most frequently used amplified negative controls to delimit a detection threshold above which is considered significant or provided rationale for why the unexpected amplifications did not affect results. In summary, we found that there has been minimal convergence over time on negative control implementation, methods, and interpretation, which suggests that increased rigor in these smaller, yet critical details remains an outstanding need. We conclude our review by highlighting several studies that have developed especially effective quality assurance, control and mitigation methods.

Frontiers in Ecology and Evolution↗

USGS2025

Rice cultivation supports growth and survival of a threatened semi-aquatic reptile

Integration of agroecosystems and other working landscapes with protected lands and waters is critical to the conservation of Earth's biodiversity. Rice agroecosystems support many species by providing aquatic habitat where natural wetlands have been altered or drained. In regions with long dry seasons, rice fields and associated irrigation canals provide essential habitat for wetland-dependent species. We quantified the spatial scale and magnitude of the effect of rice growing on the growth and survival of the giant gartersnake ( Thamnophis gigas ), a threatened species that persists primarily in areas of rice agriculture in the Central Valley of California, USA. We used structural causal models to identify drought condition as a key confounder to adjust for when estimating the total effect of rice growing on demographic rates. We analyzed capture-mark-recapture data from 19 populations of giant gartersnakes with an integrated growth–survival model and used distance-weighted covariates to account for the decline in influence of rice with increasing distance from our study sites. We found strong support for a positive effect of rice grown within 1.9 km of a canal on giant gartersnake growth. There was also support for a positive effect of rice on giant gartersnake survival, although the spatial scale extended out to 5 km or more. Our results demonstrate how active rice growing benefits giant gartersnakes inhabiting irrigation canals and demonstrate an approach for studying landscape effects on wildlife in agroecosystems.

California↗

USGS2011

A riverscape perspective of Pacific salmonids and aquatic habitats prior to large-scale dam removal in the Elwha River, Washington, USA

Dam removal has been increasingly proposed as a river restoration technique. In 2011, two large hydroelectric dams will be removed from Washington State’s Elwha River. Ten anadromous fish populations are expected to recolonise historical habitats after dam removal. A key to understanding watershed recolonisation is the collection of spatially continuous information on fish and aquatic habitats. A riverscape approach with an emphasis on biological data has rarely been applied in mid-sized, wilderness rivers, particularly in consecutive years prior to dam removal. Concurrent snorkel and habitat surveys were conducted from the headwaters to the mouth (rkm 65–0) of the Elwha River in 2007 and 2008. This riverscape approach characterised the spatial extent, assemblage structure and patterns of relative density of Pacific salmonids. The presence of dams influenced the longitudinal patterns of fish assemblages, and species richness was the highest downstream of the dams, where anadromous salmonids still have access. The percent composition of salmonids was similar in both years for rainbow trout, Oncorhynchus mykiss (Walbaum), coastal cutthroat trout, Oncorhynchus clarkii clarkii (Richardson) (89%; 88%), Chinook salmon, Oncorhynchus tshawytscha (Walbaum) (8%; 9%), and bull trout, Salvelinus confluentus (Suckley) (3% in both years). Spatial patterns of abundance for rainbow and cutthroat trout ( r = 0.76) and bull trout ( r = 0.70) were also consistent between years. Multivariate and univariate methods detected differences in habitat structure along the river profile caused by natural and anthropogenic factors. The riverscape view highlighted species-specific biological hotspots and revealed that 60–69% of federally threatened bull trout occurred near or below the dams. Spatially continuous surveys will be vital in evaluating the effectiveness of upcoming dam removal projects at restoring anadromous salmonids.

Washington↗

USGS2017

Loss of dendritic connectivity in southern California's urban riverscape facilitates decline of an endemic freshwater fish

Life history adaptations and spatial configuration of metapopulation networks allow certain species to persist in extreme fluctuating environments, yet long-term stability within these systems relies on the maintenance of linkage habitat. Degradation of such linkages in urban riverscapes can disrupt this dynamic in aquatic species, leading to increased extinction debt in local populations experiencing environment-related demographic flux. We used microsatellites and mtDNA to examine the effects of collapsed network structure in the endemic Santa Ana sucker Catostomus santaanae of southern California, a threatened species affected by natural flood-drought cycles, ‘boom-and-bust’ demography, hybridization, and presumed artificial transplantation. Our results show a predominance of drift-mediated processes in shaping population structure, and that reverse mechanisms for counterbalancing the genetic effects of these phenomena have dissipated with the collapse of dendritic connectivity. We use approximate Bayesian models to support two cases of artificial transplantation, and provide evidence that one of the invaded systems better represents the historic processes that maintained genetic variation within watersheds than any remaining drainages where C. santaanae is considered native. We further show that a stable dry gap in the northern range is preventing genetic dilution of pure C. santaanae persisting upstream of a hybrid assemblage involving a non-native sucker, and that local accumulation of genetic variation in the same drainage is influenced by position within the network. This work has important implications for declining species that have historically relied on dendritic metapopulation networks to maintain source-sink dynamics in phasic environments, but no longer possess this capacity in urban-converted landscapes.

California↗

USGS2011

Growth characteristics and otolith analysis on age-0 American shad

Otolith microstructure analysis provides useful information on the growth history of fish (Campana and Jones 1992, Bang and Gronkjaer 2005). Microstructure analysis can be used to construct the size-at-age growth trajectory of fish, determine daily growth rates, and estimate hatch date and other ecologically important life history events (Campana and Jones 1992, Tonkin et al. 2008). This kind of information can be incorporated into bioenergetics modeling, providing necessary data for estimating prey consumption, and guiding the development of empirically-based modeling scenarios for hypothesis testing. For example, age-0 American shad co-occur with emigrating juvenile fall Chinook salmon originating from Hanford Reach and the Snake River in the lower Columbia River reservoirs during the summer and early fall. The diet of age-0 American shad appears to overlap with that of juvenile fall Chinook salmon (Chapter 1, this reoprt), but juvenile fall Chinook salmon are also known to feed on age-0 American shad in the reservoirs (USGS unpublished data). Abundant, energy-dense age-0 American shad may provide juvenile fall Chinook salmon opportunities for rapid growth during the time period when large number of age-0 American shad are available. Otolith analysis of hatch dates and the growth curve of age-0 American shad could be used to identify when eggs, larvae, and juveniles of specific size classes are temporally available as food for fall Chinook salmon in the lower Columbia River reservoirs. This kind of temporally and spatially explicit life history information is important to include in bioenergetics modeling scenarios. Quantitive estimates of prey consumption could be used with spatially-explicit estimates of prey abundance to construct a quantitative assessment of the age-0 American shad impact on a reservoir food web. Analysis of the age-0 American shad growth trajectory or individual growth records may show evidence of differential growth rates over time that may be linked to environmental conditions such as water temperature (Leach and Houde 1999, Meekan et al. 2003), size-selective mortality (Folkvord et al. 1997), developmental changes in metabolic rate (Bang and Gronkjaer 2005, Bochdanksy et al. 2005), feeding ability (Schmitt and Holbrook 1984, Luecke 1986, Johnson and Dropkin 1995, Johnson and Dropkin 1996), and intra- and inter-specific competition (Crecco and Savoy 1987, Marchand and Boisclair 1998, Gadomski and Wagner 2009). For example, environmental conditions associated with John Day reservoir may eliminate or reduce the availability of many aquatic and terrestrial insect prey types (Rondorf et al. 1990). Many juvenile fishes, including age-0 American shad and juvenile fall Chinook salmon may be foraging on limited insect prey in John Day Reservoir (Gadomski and Wagner 2009). Because larger insect prey has higher energy densities than most zooplankton prey, and insect availability may be limited in John Day reservoir, the growth of American shad may be constrained once fish grow to a size where they could exploit larger, more energy-dense insect prey (Mayer and Wahl 1997). Similarly, as age-0 American shad grow, they are able to forage on larger zooplankton with higher energy densities than smaller individuals of the same species, or other smaller-bodied zooplankton species (Schael et al. 1991, Mayer and Wahl 1997). Intra- and inter-specific demand for larger-bodied and higher energy zooplankton prey may reduce the availability of these prey items (Tabor et al. 1996). Constrained growth increments on the otolith microstructure of juvenile American shad or other planktivorous fish could help identify important interactions between fishes that may be linked to the year class strength of age-0 American shad and prey partitioning in John Day reservoir. The objective of this study was to determine time of hatch and size-at-age of age-0 American shad in lower Columbia River reservoirs for use with the American shad and fall Chinook salmon bioenergetic models. Size-at-age data on age-0 American shad can be used to generate quantitative estimates of prey consumption with the American shad bioenergetics model. Otolith microstructure analysis was used to provide reference points on the temporal availability of early life stages and sizes of American shad in the reservoir (Limburg 1996a,b, Limburg et al. 1999). Additional analyses on the age-0 American shad growth trajectory in John Day reservoir may reveal differential growth patterns during the early life history of these fish that are linked to developmental differences between individual fish, transient environmental conditions, or food web constraints (Limburg 1996a).

Idaho, Montana, Oregon, Washington, Wyoming↗

USGS2025

Optimizing control of a freshwater invader in time and space

The global spread of invasive species in aquatic ecosystems has prompted population control efforts to mitigate negative impacts on native species and ecosystem functions. Removal programs that optimally allocate removal effort across space and time offer promise for improving invader suppression or eradication, especially given the limited resources available to these programs. However, science-based guidance to inform such programs remains limited. This study leverages two intensive fish removal programs for nonnative green sunfish (Lepomis cyanellus) in intermittent streams of the Bill Williams River basin in Arizona, USA, to explore alternative management strategies involving variable allocation of removal effort in time and space and compare static versus dynamic decision rules. We used Bayesian hierarchical modeling to estimate demographic parameters using existing removal data, with evidence that both removal programs led to at least a 0.39 probability of eradication. Simulated alternative management strategies revealed that population suppression, but not eradication, could be achieved with reduced effort, and that dynamic management practices that respond to species abundance in real time can improve the efficiency of removal efforts. High removal frequency and program duration, including continued monitoring after zero fish were captured, contributed to successful population control. With management efforts struggling to keep pace with the rising spread and impacts of invasive species, this research demonstrates the utility of quantitative removal models to help improve invasive removal programs and robustly evaluate the success of population suppression and eradication.

Arizona↗

USGS2006

Trophic transfer of trace metals from the polychaete worm Nereis diversicolor to the polychaete N. virens and the decapod crustacean Palaemonetes varians

Diet is an important exposure route for the uptake of trace metals by aquatic invertebrates, with trace metal trophic transfer depending on 2 stages - assimilation and subsequent accumulation by the predator. This study investigated the trophic transfer of trace metals from the sediment-dwelling polychaete worm Nereis diversicolor from metal-rich estuarine sediments in southwestern UK to 2 predators - another polychaete N. virens (Cu, Zn, Pb, Cd, Fe) and the decapod crustacean Palaemonetes varians (Cu, Zn, Pb, Cd, Fe, Ag, As, Mn). N. virens showed net accumulation of Cu, Zn, Pb and Cd from the prey; accumulation increased with increasing prey concentration, but a coefficient of trophic transfer decreased with increasing prey concentration, probably because a higher proportion of accumulated metal in the prey is bound in less trophically available (insoluble) detoxified forms. The trace metal accumulation patterns of P. varians apparently restricted significant net accumulation of metals from the diet of N. diversicolor to just Cd. There was significant mortality of the decapods fed on the diets of metal-rich worms. Metal-rich invertebrates that have accumulated metals from the rich historical store in the sediments of particular SW England estuaries can potentially pass these metals along food chains, with accumulation and total food chain transfer depending on the metal assimilation efficiencies and accumulation patterns of the animal at each trophic level. This trophic transfer may be significant enough to have ecotoxicological effects. ?? Inter-Research 2006.

Marine Ecology Progress Series↗

USGS2013

Introduced northern pike predation on salmonids in southcentral Alaska

Northern pike ( Esox lucius ) are opportunistic predators that can switch to alternative prey species after preferred prey have declined. This trophic adaptability allows invasive pike to have negative effects on aquatic food webs. In Southcentral Alaska, invasive pike are a substantial concern because they have spread to important spawning and rearing habitat for salmonids and are hypothesised to be responsible for recent salmonid declines. We described the relative importance of salmonids and other prey species to pike diets in the Deshka River and Alexander Creek in Southcentral Alaska. Salmonids were once abundant in both rivers, but they are now rare in Alexander Creek. In the Deshka River, we found that juvenile Chinook salmon ( Oncorhynchus tshawytscha ) and coho salmon ( O. kisutch ) dominated pike diets and that small pike consumed more of these salmonids than large pike. In Alexander Creek, pike diets reflected the distribution of spawning salmonids, which decrease with distance upstream. Although salmonids dominated pike diets in the lowest reach of the stream, Arctic lamprey ( Lampetra camtschatica ) and slimy sculpin ( Cottus cognatus ) dominated pike diets in the middle and upper reaches. In both rivers, pike density did not influence diet and pike consumed smaller prey items than predicted by their gape-width. Our data suggest that (1) juvenile salmonids are a dominant prey item for pike, (2) small pike are the primary consumers of juvenile salmonids and (3) pike consume other native fish species when juvenile salmonids are less abundant. Implications of this trophic adaptability are that invasive pike can continue to increase while driving multiple species to low abundance.

Alaska↗

USGS2023

2023 Coastal master plan: ICM-wetlands – Submerged aquatic vegetation (SAV) updates

Submerged aquatic vegetation (SAV) provides critical structural habitat for valuable nekton and wildlife species across coastal ecosystems and can buffer the negative effects of land loss. Landscape change and restoration efforts across coastal Louisiana can impact the occurrence, coverage, and species assemblages of SAV, and changes to these foundational species can have cascading impacts across food webs. To support the 2023 Coastal Master Plan efforts, a unique SAV model was developed to assess coverage and occurrence of SAV across aquatic waterbodies in response to environmental variables evaluated. This effort created a spatial model describing the probability of presence of SAV across the study area in response to changing conditions over the modeled time period. To develop the initial coverage data layer, we used remotely sensed Normalized Difference Vegetation Index (NDVI) and modified Normalized Difference Water Index (mNDWI) data from 2015-2018 to identify areas containing variable vegetation and water spectral reflectance. Key environmental variables evaluated included total suspended sediments (TSS), salinity, and physical exposure. Seasonal estimates for TSS and salinity were used, as research indicates that seasonal environmental variability is a significant driver for SAV establishment. Seasonal salinity was derived from Coast-wide Reference Monitoring Station (CRMS) data, and seasonal TSS was estimated from hyperspectral imagery. Estimates of physical exposure have previously been provided by calculating fetch (the distance across water over which waves can propagate), but this proved to be too computationally intensive to be feasible, and we found distance to land to be a reasonable proxy for exposure. To represent geographic conditions and historical factors influences on SAV establishment and occurrence (e.g., variables too numerous and complex to model) we developed a basin variable that served as a proxy for complex historical, or prior, conditions, determined by the forested, fresh, intermediate, brackish, or saline (FFIBS) score. The final model included spring TSS, spring salinity, distance to land, and the basin prior. The model performed well for the area evaluated, correctly classifying SAV (as present or absent) 89% of the time (Kappa = 580). SAV probability of presence responded as expected to change in these environmental variables, with likelihood of occurrence decreasing in response to increasing spring TSS, spring salinity, and distance to land. However, the model was more accurate at predicting absence (true negative = 0.940) than predicting presence (true positive = 0.626), suggesting that the scale of the model may limit the ability to predict presence. Moreover, the simplicity of the model limited the accuracy in highly dynamic environments, for example near the outflow of diversions or areas of significant changes in salinity or TSS. Through incorporating underwater communities like SAV, this master plan provides a holistic view of coastal change and restoration. To create healthy ecological structure and function in wetland habitats, the submergent communities must be considered alongside the emergent habitats. As the benefits of SAV are increasingly recognized, both here in Louisiana and beyond, SAV restoration and the use of SAV communities in assessing and improving ecological condition are becoming more common.

Louisiana↗

USGS2025

Estimating indicators of cyanobacterial harmful algal blooms in New York State

Cyanobacteria harmful algal blooms (cyanoHABs) are a global concern for aquatic ecosystem and human health. Limited funding for monitoring programs and inconsistent determination of cyanoHAB occurrence present challenges for identifying commonly effective variables for characterizing cyanoHABs and the development of generalized models. We compiled a combination of water quality measurements, lake morphology, climatology, remote sensing data, and observations of cyanoHAB occurrence across New York State and used this dataset to develop two sets of predictive models. The first model predicted chlorophyll a , a common indicator of algal biomass, and assessed the importance of variables for modeled predictions. The most important variables were then used in a second set of models to classify cyanoHAB occurrence. The irradiance attenuation coefficient ( K d ), which was estimated from Secchi depth measurements, and total phosphorus were the two most important variables for predicting chlorophyll a . The second model examined several variables for their ability to classify cyanoHAB occurrence. Predicted cyanoHAB occurrence based on thresholds of chlorophyll a , K d , or total nitrogen all had moderate agreement and were able to correctly classify approximately 70% of observed cyanoHABs. Our analysis indicated that multiple data types were important for predicting chlorophyll a statewide and that simple widely available water quality parameters could classify cyanoHABs occurrence with reasonable accuracy. Identifying variables that can be monitored with increased frequency and decreased latency to detect cyanoHAB occurrence will better inform water managers and provide valuable additional data for further refining predictive models of the likelihood of cyanoHABs occurrence.

New York↗

USGS2020

High parasite diversity in the amphipod Gammarus lacustris in a subarctic lake

Amphipods are often key species in aquatic food webs due to their functional roles in the ecosystem and as intermediate hosts for trophically transmitted parasites. Amphipods can also host many parasite species, yet few studies address the entire parasite community of a gammarid population, precluding a more dynamic understanding of the food web. We set out to identify and quantify the parasite community of Gammarus lacustris to understand the contributions of the amphipod and its parasites to the Takvatn food web. We identified seven parasite taxa: a direct life cycle gregarine, Rotundula sp., and larval stages of two digenean trematode genera, two cestodes, one nematode, and one acanthocephalan. The larval parasites use either birds or fishes as final hosts. Bird parasites predominated, with trematode Plagiorchis sp. having the highest prevalence (69%) and mean abundance (2.7). Fish parasites were also common, including trematodes Crepidostomum spp., nematode Cystidicola farionis , and cestode Cyathocephalus truncatus (prevalences 13, 6, and 3%, respectively). Five parasites depend entirely on G. lacustris to complete their life cycle. At least 11.4% of the overall parasite diversity in the lake was dependent on G. lacustris , and 16% of the helminth diversity required or used the amphipod in their life cycles. These dependencies reveal that in addition to being a key prey item in subarctic lakes, G. lacustris is also an important host for maintaining parasite diversity in such ecosystems.

Takvatn↗

USGS1989

Logging in western Oregon: responses of headwater habitats and stream amphibians

We compared occurrence and abundance of four species of aquatic amphibians in 23 streams flowing through uncut forests to 20 streams flowing through forests logged between 14 and 40 years prior to the study. Species richness was highest in streams in uncut forests. Eleven streams in uncut forests contained all four species, and only two of these streams had fewer than three species present. Eleven streams in logged stands had one or no species present, and only one contained all four species. Density and biomass of all four species were significantly greater (2–7 X) in streams in uncut forests. Physical comparisons between types of streams were similar, except that streams in logged stands had generally smaller substrata, resulting from increased sedimentation. Densities of Pacific giant salamanders ( Dicamptodon ensatus ) and Olympic salamanders ( Rhyacotriton olymoicus ) were positively correlated with stream gradient in logged stands, but not in uncut forests, suggesting that the disruptive effects of increased sedimentation are greatest in low-gradient streams. Tailed frogs ( Ascaphus truei ) and Dunn's salamanders ( Plethodon dunni ) occurred more often in streams in logged stands when uncut timber was present upstream, but neither density nor biomass of any species were related to either presence of uncut timber upstream or years since logging. Logging upstream from uncut forests also had no effect on the presence, density or biomass of any species. Tailed frogs and Olympic salamanders may be extirpated from headwaters traversing clearcuts; these streams should be afforded some protection in plans for managed forests.

Oregon↗

USGS2020

Diet and bathymetric distribution of juvenile Lake Trout Salvelinus namaycush in Lake Huron

Rehabilitation efforts for Lake Trout Salvelinus namaycush in Lake Huron have resulted in increased capture of young wild Lake Trout in annual bottom trawl surveys conducted by the U.S. Geological Survey. To better understand the ecology of juvenile (<400mm) Lake Trout, we summarized the spatial distribution of their capture in bottom trawls at six ports in Lake Huron during October/November 20082017 and analyzed diets of wild (n = 306 of 337 total) and hatchery-origin (n = 18 of 30 total) fish captured. Lake Trout ranged in size from 27 to 399mm, representing at least three age-classes, and 92% were wild origin. Most wild juvenile Lake Trout (83%) were captured at 4664 m depths at the two northernmost ports, typically below the thermocline. Mysis diluviana was the most prevalent prey type, found in 75% of wild fish with non-empty stomachs, followed by two non-native species: Spiny Water Flea Bythotrephes longimanus (31%) and Round Goby Neogobius melanostomus (12%). Small Lake Trout (<185mm) consumed invertebrates but transitioned to mostly fish-based diets by >185mm (age 2). The variety of taxa consumed by young Lake Trout increased with length. Further declines in Mysis populations due to increased predation pressure after the loss of Diporeia from the system may hinder the recovery of wild Lake Trout, and although they have been able to utilize invasive species as prey, impacts to Lake Trout growth remain unknown. Additional research on the habitat use and diets of wild juvenile Lake Trout may provide insight into the reasons behind the recent successful natural reproduction and recruitment of Lake Trout in Lake Huron.

Lake Huron↗

USGS2015

Proposed best modeling practices for assessing the effects of ecosystem restoration on fish

Large-scale aquatic ecosystem restoration is increasing and is often controversial because of the economic costs involved, with the focus of the controversies gravitating to the modeling of fish responses. We present a scheme for best practices in selecting, implementing, interpreting, and reporting of fish modeling designed to assess the effects of restoration actions on fish populations and aquatic food webs. Previous best practice schemes that tended to be more general are summarized, and they form the foundation for our scheme that is specifically tailored for fish and restoration. We then present a 31-step scheme, with supporting text and narrative for each step, which goes from understanding how the results will be used through post-auditing to ensure the approach is used effectively in subsequent applications. We also describe 13 concepts that need to be considered in parallel to these best practice steps. Examples of these concepts include: life cycles and strategies; variability and uncertainty; nonequilibrium theory; biological, temporal, and spatial scaling; explicit versus implicit representation of processes; and model validation. These concepts are often not considered or not explicitly stated and casual treatment of them leads to mis-communication and mis-understandings, which in turn, often underlie the resulting controversies. We illustrate a subset of these steps, and their associated concepts, using the three case studies of Glen Canyon Dam on the Colorado River, the wetlands of coastal Louisiana, and the Everglades. Use of our proposed scheme will require investment of additional time and effort (and dollars) to be done effectively. We argue that such an investment is well worth it and will more than pay back in the long run in effective and efficient restoration actions and likely avoided controversies and legal proceedings.

Ecological Modelling↗

USGS2013

Ammocoetes of Pacific lamprey are not susceptible to common fish rhabdoviruses of the U.S. Pacific Northwest

Pacific Lampreys Entosphenus tridentatus have experienced severe population declines in recent years and efforts to develop captive rearing programs are under consideration. However, there is limited knowledge of their life history, ecology, and potential to harbor or transmit pathogens that may cause infectious disease. As a measure of the possible risks associated with introducing wild lampreys into existing fish culture facilities, larval lampreys (ammocoetes) were tested for susceptibility to infection and mortality caused by experimental exposures to the fish rhabdovirus pathogens: infectious hematopoietic necrosis virus (IHNV) and viral haemorrhagic septicaemia virus (VHSV). Two IHNV isolates, representing the U and M genogroups, and one VHSV isolate from the IVa genotype were each delivered to groups of ammocoetes by immersion at moderate and high viral doses, and by intraperitoneal injection. Ammocoetes were then held in triplicate tanks with no substrate or sediment. During 41 d of observation postchallenge there was low or no mortality in all groups, and no virus was detected in the small number of fish that died. Ammocoetes sampled for incidence of infection at 6 and 12 d after immersion challenges also had no detectable virus, and no virus was detected in surviving fish from any group. A small number of ammocoetes sampled 6 d after the injection challenge had detectable virus, but at levels below the original quantity of virus injected. Overall there was no evidence of infection, replication, or persistence of any of the viruses in any of the treatment groups. Our results suggest that Pacific Lampreys are highly unlikely to serve as hosts that maintain or transmit these viruses.

Journal of Aquatic Animal Health↗