Search USGS⌕ Search

SEARCH · Search USGS

Results for “Fishes”

Search indexed USGS publications on groundwater, aquifers, geologic maps, mineral resources and earthquakes. Explore source records by subject and place.

Quote a phrase for an exact phrase match. Source license links do not imply unrestricted reuse.

At least 271 records · Page 15Linked to original sources
USGS2000

Effects of introduced crayfish on selected native fishes of Arizona

The virile crayfish ( Orconectes virilis ), an aggressive polytrophic species, has been introduced into many Arizona streams. I investigated competition and predation between this crayfish and several native Arizona fishes. I conducted field experiments to assess competition for food between crayfish and fish, and laboratory experiments to examine competition for shelter and food, and predation. In Sabino Creek, I manipulated crayfish densities in isolated pools to examine effects of crayfish on growth, mortality, and recruitment of Gila chub ( Gila intermedia ). Regardless of crayfish density, Gila chub declined slightly in weight and condition. Mortality and recruitment did not differ between densities of crayfish. I examined crayfish effects on benthic macroinvertebrates, a submerged aquatic macrophyte and associated invertebrates, and three fish species in a small stream in the White Mountains by fencing eight stream sections to prevent movement. The three fishes were speckled dace ( Rhinichthys osculus ), Sonora sucker ( Catostomus insignis ), and desert sucker ( C. clarki ). Molluscs > 10 mm and macrophytes were less abundant at sites with a high density of crayfish than at sites with low crayfish densities. Insect diversity was lower in high- vs. low-density sites. No treatment effect was observed on growth or condition of individually marked fish. Short-term laboratory experiments demonstrated predatory interactions and competition for shelter between crayfish and Gila chub, desert sucker, and speckled dace. Crayfish used shelter more than fish, displaced fish from shelter, and frequently attacked fish. Fish never attacked crayfish, and only once displaced crayfish from shelter. In predation experiments, crayfish preyed upon all species, but preyed most heavily upon desert suckers. Fish never altered use of the water column in the presence of crayfish. Density manipulation experiments in a laboratory measured food competition between crayfish and two native fishes. Growth of Gila chub was less affected by crayfish than by increased density of Gila chub. Thus crayfish are not strong competitors with Gila chub for food. However, growth of flannelmouth sucker ( Catostomus latipinnis ) was negatively impacted by presence of crayfish. These laboratory experiments provide evidence that introduced crayfish can reduce fish growth by competition for food, and that native fishes are vulnerable to crayfish predation.

Thesis↗
USGS2018

Key morphological features favor the success of nonnative fish species under reduced turbidity conditions in the lower Colorado River Basin

As a result of anthropomorphic alterations to the lower Colorado River basin and other southwestern rivers, water turbidity has been greatly reduced and introduced, nonnative fishes thrive in these waterways. To quantify key morphological features that may allow nonnative fishes to displace native fishes, we compared eye diameter (a proxy for visual acuity) and maximum anatomical gape (a proxy for maximum prey size) in native and nonnative fishes of the lower Colorado River basin. In general, nonnative fishes have larger eyes and larger gapes relative to native fishes. Native invertivorous and piscivorous fishes may be at a particular disadvantage when compared with nonnative species from the same trophic guild because native midwater predators have proportionally smaller eyes and mouths. In the historically turbid conditions of the Colorado River, native fish likely had a limited ability to use vision to locate prey and avoid predators. Similarly, native fishes could not identify potential food items from a distance in turbid waters so suction‐based prey capture (where the predator is in close proximity to the prey) may have been favored over ram‐based prey capture (where fish swim from a distance to overtake prey). Many nonnative fish species have a large eye diameter and maximum anatomical gape; these features likely facilitate their ability to visually identify and capture large, elusive prey. These results suggest that the large eyes and large gapes of nonnative fishes make them superior predators and competitors in the clear, anthropomorphically altered southwestern rivers of the USA.

Lower Colorado River Basin↗
USGS2024

Fish invasion of prairie pothole wetlands reduces amphipod abundance, a key vertebrate forage

Fishes have spread into previously fishless wetlands, likely affecting other species. In the Prairie Pothole Region of North America, the invasion of fish into wetlands is facilitated by interactions of altered land use, climate, and hydrology. We aimed to understand the effects of fishes on amphipods, which are macroinvertebrates that vertebrates rely on as forage. We hypothesized the presence and abundance of fish, particularly benthivores, would have detrimental effects on amphipod abundance. Our study design targeted a large gradient of amphipod abundances among wetlands, including very high abundances of two amphipod species: Gammarus lacustris and Hyalella azteca . We found that fishless basins had twice as many amphipods as those with fish, on average. Gammarus lacustris were not detected in the presence of Black Bullhead Ameiurus melas . The abundance of both amphipod species had negative associations with the most common fishes, Fathead Minnow Pimephales promelas and Brook Stickleback Culaea inconstans . A multivariate community analysis showed the benthivore-fish functional feeding guild was negatively associated with the amphipod community, as hypothesized. However, our study design captured several wetlands with anomalies of high abundances of both fish and amphipods, obscuring their relationships. Our results aid resource managers by confirming several fish guilds and species are associated with lower abundances of amphipods. These findings can inform resource managers who make decisions about managing for fish and wildlife; for example, they may choose to manage existing fish populations or protect existing wetlands with high amphipod densities from new fish invasions.

Wetlands↗
USGS2007

Use of avoidance response by rainbow trout to carbon dioxide for fish self-transfer between tanks

Convenient, economical, and reduced labor fish harvest and transfer systems are required to realize operating cost savings that can be achieved with the use of much larger and deeper circular culture tanks. To achieve these goals, we developed a new technology for transferring fish based on their avoidance behavior to elevated concentrations of dissolved carbon dioxide (CO2). We observed this behavioral response during controlled, replicated experiments that showed dissolved CO2 concentrations of 60-120 mg/L induced rainbow trout (Oncorhynchus mykiss) to swim out of their 11 m3 "growout" tank, through a transfer pipe carrying a flow with ???23 mg/L dissolved CO2, into a second 11 m3 "harvest" tank. The research was conducted using separate groups of rainbow trout held at commercially relevant densities (40-60 kg/m3). The average weight of fish ranged from 0.15 to 1.3 kg during the various trials. In all trials that used a constant flow of low CO2 water (???23 mg/L) entering the growout tank from the harvest tank, approximately 80-90% of the fish swam from the growout tank, through the transfer pipe, and into the harvest tank after the CO2 concentration in the growout tank had exceeded 60 mg/L. The fish that remained in the growout tank stayed within the area of relatively low CO2 water at the entrance of the transfer pipe. However, the rate of fish transfer from the growout tank to the harvest tank was more than doubled when the diameter of the transfer pipe was increased from 203 to 406 mm. To consistently achieve fish transfer efficiencies of 99%, water flow rate through the fish transfer pipe had to be reduced to 10-20% of the original flow just before the conclusion of each trial. Reducing the flow of relatively low CO2 water near the end of each fish transfer event, restricted the zone of relatively low CO2 water about the entrance of the fish transfer pipe, and provided the stimulus for all but a few remaining fish to swim out of the growout tank. Results indicate that the CO2 avoidance technique can provide a convenient, efficient, more economical, and reduced labor approach for fish transfer, especially in applications using large and well mixed circular culture tanks. ?? 2007 Elsevier B.V. All rights reserved.

Aquacultural Engineering↗
USGS2005

Resilience of predators to fishing pressure on coral patch reefs

Numbers and biomass of piscivorous fish and their predation on other fish may often be high in undisturbed coral reef communities. The effects of such predation have sometimes been studied by removal of piscivores (either experimentally or by fishermen). Such perturbations have usually involved removal of large, highly vulnerable, mobile piscivores that are often actively sought in fisheries. The effects of fishing on smaller, demersal, semi-resident piscivores have been little studied. We studied such effects on the fish communities of patch reefs at Midway atoll by experimentally removing major resident, demersal, piscivorous fishes. First, four control reefs and four experimental reefs were selected, their dimensions and habitats mapped, and their visible fish communities censused repeatedly over 1 year. Census of all control and experimental reefs was continued for the following 39 months, during which known piscivores were collected repeatedly by hand spearing. Records were kept of catch and effort to calculate CPUE as an index of predator density. Spearfishing on the experimental reefs removed 2504 piscivorous fish from 12 families and 43 taxa (mostly species). The species richness of the catch did not show an overall change over the duration of the experiment. Spearman rank correlation analysis showed some unexpected positive correlations for density in numbers and biomass of major fished piscivorous groups (especially lizardfish) over the experiment. Only two relatively minor fished piscivorous taxa declined in abundance over the experiment, while the overall abundance of piscivores increased. Visual censuses of fish on the experimental reefs also failed to show reduction of total piscivores over the full experimental period. No significant trend in the abundance of lizardfish censused over the full period was apparent on any of the control reefs. The high resilience of piscivores on these experimental reefs to relatively intense fishing pressure could result from their protracted recruitment seasons, high immigration rates, cryptic habits, or naturally high abundances. A major factor was the high immigration rates of lizardfish, replacing lizardfish and other less mobile piscivores removed from the reefs by spearing. On the fished reefs, the removed lizardfish population replaced itself >20 times during the experiment; other piscivorous taxa replaced themselves only 5 times.

Journal of Experimental Marine Biology and Ecology↗
USGS2016

Reservoirs and water management influence fish mercury concentrations in the western United States and Canada

Anthropogenic manipulation of aquatic habitats can profoundly alter mercury (Hg) cycling and bioaccumulation. The impoundment of fluvial systems is among the most common habitat manipulations and is known to increase fish Hg concentrations immediately following impoundment. However, it is not well understood how Hg concentrations differ between reservoirs and lakes at large spatial and temporal scales or how reservoir management influences fish Hg concentrations. This study evaluated total Hg (THg) concentrations in 64,386 fish from 883 reservoirs and 1387 lakes, across the western United States and Canada, to assess differences between reservoirs and lakes, as well as the influence of reservoir management on fish THg concentrations. Fish THg concentrations were 1.4-fold higher in reservoirs (0.13 ± 0.011 μg/g wet weight ± standard error) than lakes (0.09 ± 0.006), though this difference varied among ecoregions. Fish THg concentrations were 1.5- to 2.6-fold higher in reservoirs than lakes of the North American Deserts, Northern Forests, and Mediterranean California ecoregions, but did not differ between reservoirs and lakes in four other ecoregions. Fish THg concentrations peaked in three-year-old reservoirs then rapidly declined in 4–12 year old reservoirs. Water management was particularly important in influencing fish THg concentrations, which were up to 11-times higher in reservoirs with minimum water storage occurring in May, June, or July compared to reservoirs with minimum storage occurring in other months. Between-year changes in maximum water storage strongly influenced fish THg concentrations, but within-year fluctuations in water levels did not influence fish THg concentrations. Specifically, fish THg concentrations increased up to 3.2-fold over the range of between-year changes in maximum water storage in all ecoregions except Mediterranean California. These data highlight the role of reservoir creation and management in influencing fish THg concentrations and suggest that water management may provide an effective means of mitigating Hg bioaccumulation in some reservoirs.

Science of the Total Environment↗
USGS2022

Microhabitat use of larval fish in a South Carolina Piedmont stream

Understanding habitat use and nursery areas of larval fish is a key component to managing and conserving riverine fishes. Yet, freshwater researchers often focus only on adult fishes, resulting in a limited understanding of the habitat requirements for the early life stages of freshwater fishes. The goal of this study was to quantify the larval fish microhabitat use of three fish families in Twelvemile Creek, a fifth-order tributary of Lake Hartwell (Savannah River basin) in the Piedmont ecoregion of South Carolina, USA. We used handheld dipnets to sample larval fishes along 20 equidistant transects spaced 10 m apart weekly from May to July 2021 along a 200 m stream reach. We also collected microhabitat data at each larval fish capture location. Most captured individuals were in the metalarval stage and were identified to the family level. A partial distance-based redundancy analysis indicated that water velocity contributed to changes in larval fish assemblage structure. Larval fishes occupied a subset of the available habitat that was characterized by low water velocity, non- Podostemum substrate, and shallow habitats close to the shore or bed rock structure. We also detected temporal patterns in larval fish counts, with peak Percidae and Leuciscidae counts in late July and the highest Catostomidae counts in late May–early June. Our results suggest that larval fishes select habitats with low water velocity and shallow habitats close to shore microhabitat characteristics, and that riffle-pool sequences may serve as a nursery habitat for Percidae, Catostomidae and Leuciscidae metalarvae.

South Carolina↗
USGS2021

Predator and prey events at the entrance of a surface‐oriented fish collector at North Fork Dam, Oregon

Quantifiable estimates of predator–prey interactions and relationships in aquatic habitats are difficult to obtain and rare, especially when individuals cannot be readily observed. To overcome this observational impediment, imaging sonar was used to assess the cooccurrence of predator‐size fish and juvenile salmonids, Oncorhynchus spp., at the entrance to a floating surface collector (FSC) in the forebay of North Fork Dam on the Clackamas River, Oregon (USA). Imaging sonar can be used to transform active sound waves into visual data, making it possible to obtain continuous underwater observations on the presence and interspecific interactions between predator‐size fish and prey (juvenile salmonids). Hourly counts of smolt‐size fish tracks, diel phase, water clarity and river discharge were used as covariates within a zero‐inflated Poisson model to determine how these factors may influence the number of predators in front of the FSC. Both the number of smolt‐size fish tracks and diel phase had the strongest effects on the number of predator‐size fish tracks, with more predator‐size fish tracks observed during the daytime, and as the number of smolt‐size fish tracks increased. Additionally, the presence of predator‐size fish may affect the abundance and direction of travel of juvenile salmonids, as fewer smolt‐size fish were observed when predators were present, and a greater proportion of smolt‐size fish were observed travelling away from the FSC when predator‐size fish were present. This study provides estimates of predator and prey fish abundance in the vicinity of surface collection systems at moderate‐sized hydropower projects and could help resource managers better understand mechanisms that can influence the survival and passage behaviour of juvenile salmonids using surface collection structures at dams.

Oregon↗
USGS2012

Using stable isotopes to test for trophic niche partitioning: a case study with stream salamanders and fish

1. Stream salamanders and fish often co-occur even though fish prey on and outcompete salamanders. However, the mechanisms that allow palatable salamanders to coexist with fish are unknown. 2. We tested mechanisms in the field that promote coexistence between Idaho giant salamanders ( Dicamptodon aterrimus ) and stream salmonid fishes in headwater streams. Previous research in this system indicated that salamander dispersal did not promote coexistence with fish. We tested the hypothesis that D. aterrimus shift their diet when they occur with fish, facilitating coexistence through local niche partitioning. 3. We used nitrogen and carbon stable isotopes to describe the trophic niche of D. aterrimus and fish in three co-occurring populations of salamanders and fish and three populations of salamanders without fish. We used two approaches to quantify trophic niche partitioning with stable isotopes: 95% kernel density estimators and isotopic mixing models. 4. We found that salamanders and fish were generalists that consumed aquatic invertebrates primarily, but both species were also cannibalistic and predatory on one another. We also found no support for trophic niche partitioning as a coexistence mechanism because there were no differences in the trophic niche metrics among salamander populations with and without fish. 5. Although we did not identify mechanisms that facilitate salamander and fish coexistence, our empirical data and use of novel approaches to describe the trophic niche did yield important insights on the role of predator–prey interactions and cannibalism as alternative coexistence mechanisms. In addition, we found that 95% kernel estimators are a simple and robust method to describe population-level measure of trophic structure.

Freshwater Biology↗
USGS1997

Mercury concentrations in Maine sport fishes

To assess mercury contamination of fish in Maine, fish were collected from 120 randomly selected lakes. The collection goal for each lake was five fish of the single most common sport fish species within the size range commonly harvested by anglers. Skinless, boneless fillets of fish from each lake were composited, homogenized, and analyzed for total mercury. The two most abundant species, brook trout Salvelinus fontinalis and smallmouth bass Micropterus dolomieu , were also analyzed individually. The composite fish analyses indicate high concentrations of mercury, particularly in large and long‐lived nonsalmonid species. Chain pickerel Esox niger , smallmouth bass, largemouth bass Micropterus salmoides , and white perch Morone americana had the highest average mercury concentrations, and brook trout and yellow perch Perca flavescens had the lowest. The mean species composite mercury concentration was positively correlated with a factor incorporating the average size and age of the fish. Lakes containing fish with high mercury concentrations were not clustered near known industrial or population centers but were commonest in the area within 150 km of the seacoast, reflecting the geographical distribution of species that contained higher mercury concentrations. Stocked and wild brook trout were not different in length or weight, but wild fish were older and had higher mercury concentrations. Fish populations maintained by frequent introductions of hatchery‐produced fish and subject to high angler exploitation rates may consist of younger fish with lower exposure to environmental mercury and thus contain lower concentrations than wild populations.

Maine↗
USGS2003

Fish assemblage changes in an Ozark river after impoundment: A long-term perspective

We conducted an intensive fish survey in the tailwater reach of a large Ozark river 30 years after its impoundment and compared the recent fish assemblage with those prior to impoundment and shortly (4 years) after impoundment. Our primary objective was to assess whether relatively short-term monitoring following dam construction can adequately quantify the long-term effects of impoundment on downstream riverine fishes. The preimpoundment survey (1962-1963) described a fish assemblage composed of warmwater fish species, predominantly Cyprinidae, Ictaluridae, Centrarchidae, and Percidae. Yoke darter Etheostoma juliae (34%), central stoneroller Campostoma anomalum (24%), and Ozark madtom Noturus albater (7%) were the most abundant species. The postimpoundment surveys of 1965-1966 and 1968 documented immediate changes in the fish assemblage. No Ozark madtoms and only four yoke darters were collected shortly after impoundment. Central stonerollers accounted for 45-50% of the fish collected, and both short-term postimpoundment surveys collected five species of darters (Percidae) that accounted for 41-42% of the fish collected. Thirty years after impoundment, we found that the tailwater fish assemblage was composed almost entirely of coldwater species. Ozark sculpin Cottus hypselurus and four species of introduced trout (Salmonidae) accounted for 98% of the fish assemblage by number during the 1995-1997 surveys. The rank abundance of species was negatively correlated between our survey and the preimpoundment survey but not between our survey and the short-term postimpoundment surveys. Many species that we collected (54%) are habitat generalists, and we did not collect 77% of the fluvial-specialist species that were present in historical collections. All postimpoundment surveys documented dramatically reduced species richness and diversity. We conclude that short-term monitoring following impoundment is inadequate to determine the impact of dams on lotic fish assemblages and suggest long-term postimpoundment monitoring to determine when a fish assemblage has stabilized.

Transactions of the American Fisheries Society↗
USGS2007

Tag return models allowing for harvest and catch and release: Evidence of environmental and management impacts on striped bass fishing and natural mortality rates

Catch-and-release fisheries have become very important in the management of overexploited recreational fish stocks. Tag return studies, where the tag is removed regardless of fish disposition, have been used to assess the effectiveness of restoration efforts for these fisheries. We extend the instantaneous rate formulation of tag return models to allow for catch and release as well as harvest. The key point of our methods is that, given an estimate of the tag reporting rate, the fishing mortality rate (F) is separated into two components: the mortality on harvested fish and the "mortality" on tags (because the lags are removed) of fish released alive. The total fishing mortality rate for untagged fish is the sum of the Fs due to harvest and hooking mortality suffered by fish released alive. Natural mortality rates can also be estimated. Both age-independent models and age-dependent models are constructed, and the age-dependent models are illustrated by application to data from a study of striped bass Morone saxatilis in Chesapeake Bay from 1991 to 2003 by the Maryland Department of Natural Resources. By fitting models of the natural mortality rate with limited age and year dependence, we demonstrate an overall decrease in natural mortality rates as fish age and provide evidence of an increase in natural mortality beginning in the late 1990s, when an outbreak of the disease mycobacteriosis is thought to have begun. Our results indicate that fishing mortality is age dependent; selectivity increases up to age 6, when fish appear to be fully recruited to the fishery. There is also evidence of an increase in fishing mortality since 1995, when regulations were relaxed. ?? Copyright by the American Fisheries Society 2007.

North American Journal of Fisheries Management↗
USGS2019

Multiscale habitat factors explain variability in stream fish occurrence in the Ozark Highlands ecoregion, USA

The dynamic, multiscale nature of stream systems makes it challenging to establish basic ecological principles to guide stream fish conservation and management. For example, finer-scale instream habitat is often constrained by coarser-scale characteristics driving observed species distributions. Additionally, instream environmental variability can result in patchy species distributions within general upstream–downstream occurrence patterns (i.e., variation around a common theme). Groundwater contribution, an often-overlooked habitat characteristic in warmwater systems, has numerous influences on the instream environment and can play a role in fish habitat-use patterns and assemblage structure. We identified multiscale instream habitat characteristics associated with the occurrence probability of 20 Ozark Highland stream fishes. Fishes were surveyed using tow-barge electrofishing in 76 channel unit complexes (i.e., riffle-to-riffle habitat sequences) nested in 20 reaches of northwest Oklahoma and southwest Missouri. We used a multiscale, multispecies generalized linear mixed model to identify relationships between fish occurrence and both channel unit complex- and reach-scale variables. Stream fishes were more likely to occur in larger or deeper channel unit complexes. Fish occurrence was also associated with different levels of reach-scale groundwater contribution, bankfull width-to-depth ratio, and percent instream cover. Ten fishes, typically associated with warmer water temperatures, had lower occurrence probabilities in reaches with higher groundwater contribution, whereas Banded Sculpin Cottus carolinae and Creek Chub Semotilus atromaculatus occurrence probabilities were higher. There was no relationship between occurrence probabilities and instream cover for 11 fishes. The occurrence probabilities in relation to varying amounts of instream cover for the other nine stream fishes was dependent on bankfull width-to-depth ratio, where the direction and magnitude of the relationships varied among stream fishes. The variation in occurrence relationships can be attributed to thermal preferences, environmental interactions, and the use of multiple habitat types. Our findings demonstrate the multiscale nature of fish occurrence relationships and how conservation and management may benefit from considering this complexity when developing holistic instream habitat enhancement strategies.

Missouri, Oklahoma↗
USGS2006

Fish-assemblage variation between geologically defined regions and across a longitudinal gradient in the Monkey River Basin, Belize

Linkages between geology and fish assemblages have been inferred in many regions throughout the world, but no studies have yet investigated whether fish assemblages differ across geologies in Mesoamerica. The goals of our study were to: 1) compare physicochemical conditions and fish-assemblage structure across 2 geologic types in headwaters of the Monkey River Basin, Belize, and 2) describe basin-scale patterns in fish community composition and structure for the benefit of conservation efforts. We censused headwater-pool fishes by direct observation, and assessed habitat size, structure, and water chemistry to compare habitat and fish richness, diversity, evenness, and density between streams in the variably metamorphosed sedimentary geologic type typical of 80% of Belize’s Maya Mountains (the Santa Rosa Group), and an anomalous extrusive geologic formation in the same area (the Bladen Volcanic Member). We also collected species-presence data from 20 sites throughout the basin for analyses of compositional patterns from the headwaters to the top of the estuary. Thirty-nine fish species in 21 families were observed. Poeciliids were numerically dominant, making up 39% of individuals captured, followed by characins (25%), and cichlids (20%). Cichlidae was the most species-rich family (7 spp.), followed by Poeciliidae (6 spp.). Habitat size and water chemistry differed strongly between geologic types, but habitat diversity did not. Major fish-assemblage differences also were not obvious between geologies, despite a marked difference in the presence of the aquatic macrophyte, Marathrum oxycarpum (Podostemaceae), which covered 37% of the stream bottom in high-nutrient streams draining the Santa Rosa Group, and did not occur in the low-P streams draining the Bladen Volcanic Member. Correlation analyses suggested that distance from the sea and amount of cover within pools are important to fish-assemblage structure, but that differing abiotic factors may influence assemblage structure within each geologic type. The fauna showed weak compositional zonation into 3 groups (headwaters, coastal plain, and nearshore). Nearly 20% of the fish species collected have migratory life cycles (including Joturus pichardi , Agonostomus monticola , and Gobiomorus dormitor ) that use freshwater and marine habitats. Some of these species probably rely on a natural flow regime and longitudinal connectivity for reproduction and dispersal of young, and natural flow regime and longitudinal connectivity are important factors for maintenance of functional linkages between the uplands and the coast in the ridge-to-reef corridor where the Monkey River is located. Therefore, we suggest that the viability of migratory fish populations may be a good biological indicator of upland-to-estuary connectivity important both to fishes and coastal ecosystem function. We recommend follow-up studies to substantiate the relative strengths of relationships between community structure and abiotic factors in contrasting geologies and to examine potential bottom−up responses of stream biota to the higher nutrient levels that were observed in stream waters draining the Santa Rosa Group geologic type.

Journal of the North American Benthological Societ↗
USGS2024

Pilot framework for fish habitat assessments across tidal and non tidal waters in the Patuxent River Basin

As part of the 2014 Chesapeake Bay Watershed Agreement, all Bay States and the District of Columbia have committed to improving the condition of the Bay, which includes a goal to achieve sustainable fisheries. One outcome under that broad goal is improved effectiveness of fish habitat conservation and preservation efforts. In support of that outcome, the U.S. Geological Survey Eastern Ecological Science Center (USGS-EESC) and the National Oceanic and Atmospheric Association’s National Centers for Coastal Ocean Science (NOAA-NCCOS) are actively developing datasets, methods, and analyses to conduct fish habitat assessments in the Chesapeake Bay watershed, guided by recommendations from a regional stakeholder workshop held by the Chesapeake Bay Program’s (CBP) Fish Habitat Action Team (FHAT) in 2018. The joint USGS and NOAA team has been collaborating on methods for conducting inland and estuarine assessments and exploring whether a seamless headwater to estuary assessment could be developed. The goals of this assessment are to benefit both State and Federal fisheries managers, help advance fisheries science, and provide beneficial information for the public. While past national and regional assessments (e.g. the National Fish Habitat Partnership National Assessment) treated inland and estuarine fish habitat conditions separately due to differences in environments, GIS data representation, and data availability, a seamless habitat assessment could be of value for a broad range of stakeholders as many fish species, several of which are invasive or under federal jurisdiction, use habitats across both inland and estuarine waters. This project developed a pilot framework, explored and tested methods necessary for a finer scale, seamless assessment across both inland and estuarine waters, and demonstrated its use. Although there was interest by the CBP FHAT for the generation of a Baywide fish habitat assessment that spanned tidal salt, tidal fresh, warm non-tidal and cold non-tidal waters, there are a myriad of implementation details and considerations around conducting a Baywide assessment across all four of these general habitat areas. Therefore, the practical need to conduct a tributary-specific pilot assessment arose. At the beginning of this pilot process, members of the FHAT were presented with a decision matrix to choose a study basin using factors such as data availability and tributary size. FHAT members chose the Patuxent River basin, which has been relatively well sampled and studied. Several spatial frameworks were considered before selection of an inclusive gridded framework for summary and analysis that represented inland drainage networks and landscape influences as well as estuarine bathymetry. A suite of landscape and in-water stressor variables were summarized into the framework and were largely generalized over time. In order to assess the viability of the framework, we chose to use species distribution modeling for each of the species to test the framework’s ability to predict habitat use of non-tidal resident, estuarine resident, and migratory species. Tessellated darter (Etheostoma olmstedi), American eel (Anguilla rostrata), and white perch (Morone americana) were chosen as illustrative fish species based on data availability, and differences in life history and habitat use. A nested modeling approach, which involved successive model runs at multiple scales (1000m, 100m, and 10m raster grids) was developed to examine differences in variable importance at different spatial scales and to enhance modeling efficiency. For white perch, a complementary modeling analysis was performed for variables available only in estuarine waters. For all testing, an ensemble modeling approach was conducted, using a suite of potential statistical techniques driven by model strength and variable predictive power. The statistical testing that we conducted was intended only to test the framework and modeling approach, and not to definitively predict all habitats where specific fish species might be present. The modeling we conducted to test the framework did have some limitations. For example, the spatial distribution of favorable habitat areas for white perch was likely influenced by the predominance of fish survey locations near the center channel of the river and the use of generalized in-water conditions. For all species, the use of juvenile and adult fish survey data limits the estimation of habitat use to those life stages. Despite such limitations of the data inputs and modeling approach, we found the framework could seamlessly predict fish habitat distribution across freshwater and tidal environments and integrate the influence of landscape stressors with local in-water factors. The developed framework presented to the Sustainable Fisheries Goal Implementation Team (GIT) and FHAT is informative and could potentially be used for other modeling applications in the Chesapeake Bay watershed and elsewhere. In particular the framework and modeling approach lend themselves to evaluating living resource distributions and underlying habitat conditions in shallow tidal waters and beyond, as recommended by the recent Comprehensive Evaluation of System Response (CESR) report from the Chesapeake Bay Program.

Maryland↗
USGS2011

Composition and relative abundance of fish species in the lower White Salmon River, Washington, prior to the removal of Condit Dam

Information about the composition and relative abundance of fish species was collected by a rotary screw trap and backpack electrofishing in the lower White Salmon River, Washington. The information was collected downstream of Condit Dam, which is at river kilometer (rkm) 5.2, and is proposed for removal in October 2011. A rotary screw trap was installed in the White Salmon River at rkm 1.5 and operated from March through June during 2006–09. All captured fish were identified to species and enumerated. Daily subsets of fish were weighed, measured, and fin clipped for a genetic analysis by the U.S. Fish and Wildlife Service. Fall Chinook salmon ( Oncorhynchus tshawytscha ) were captured in the highest numbers (n=18, 640), and were composed of two stocks: tule and upriver bright. Almost all captured fall Chinook salmon were age-0, with only 16 (0.09 percent) being age-1 or older. Tule fall Chinook salmon, the native stock, generally out-migrated from mid-March through early April. The tule stock was the more abundant fall Chinook salmon subspecies, comprising 85 percent of those captured in the trap. Upriver bright fall Chinook salmon comprised 15 percent of the Chinook salmon catch and generally out-migrated from late May to early June. Coho salmon ( kisutch ) and steelhead trout ( O. mykiss ) were captured by the rotary screw trap in all years. Coho salmon were caught in low numbers (n=661) and 69 percent were age-0 fish. Steelhead were slightly more abundant (n=679) than coho salmon and 84 percent were age-1 or older fish. Trap efficiency estimates varied widely (range, 0-10 percent) by species, fish size, and time of year. However, if we use only the estimates from efficiency tests where more than 300 wild age-0 Chinook salmon were released, there was a mean trapping efficiency of 1.4 percent (n=4, median, 1.3 percent, range, 0.3–2.4 percent) during the tule out-migration period, and a mean trapping efficiency of 0.8 percent (n=2, range, 0.3–1.2 percent) during the upriver bright fall Chinook salmon out-migration period. When water levels in the White Salmon River declined in late summer, we electrofished the river margins in 2006–09 along three sites at rkm 1.5, 2.3, and 4.2. Age-0 steelhead were the most abundant fish captured (n=565, 62 percent), followed by age-0 coho salmon (n=222, 24 percent). In autumn, age-0 Chinook salmon were collected while electrofishing (n=40, 4 percent). This suggests that there may be a migration in the autumn as age-0 Chinook salmon or in the spring as age-1 Chinook salmon, since the Chinook salmon that migrate as age-0 fish in the spring departed several months earlier (the typical life history for fall Chinook salmon). The only age-1 salmonids captured while electrofishing were steelhead (n=84, 9 percent). Fish distribution and abundance will likely change when Condit Dam is removed and anadromous fish gain access to their historical spawning and rearing areas in the White Salmon River. These findings should provide a baseline with which to compare juvenile fish species composition and relative abundance after Condit Dam is removed.

Washington↗
USGS2004

A statistical model and national data set for partioning fish-tissue mercury concentration variation between spatiotemporal and sample characteristic effects

Many Federal, Tribal, State, and local agencies monitor mercury in fish-tissue samples to identify sites with elevated fish-tissue mercury (fish-mercury) concentrations, track changes in fish-mercury concentrations over time, and produce fish-consumption advisories. Interpretation of such monitoring data commonly is impeded by difficulties in separating the effects of sample characteristics (species, tissues sampled, and sizes of fish) from the effects of spatial and temporal trends on fish-mercury concentrations. Without such a separation, variation in fish-mercury concentrations due to differences in the characteristics of samples collected over time or across space can be misattributed to temporal or spatial trends; and/or actual trends in fish-mercury concentration can be misattributed to differences in sample characteristics. This report describes a statistical model and national data set (31,813 samples) for calibrating the aforementioned statistical model that can separate spatiotemporal and sample characteristic effects in fish-mercury concentration data. This model could be useful for evaluating spatial and temporal trends in fishmercury concentrations and developing fish-consumption advisories. The observed fish-mercury concentration data and model predictions can be accessed, displayed geospatially, and downloaded via the World Wide Web (http://emmma.usgs.gov). This report and the associated web site may assist in the interpretation of large amounts of data from widespread fishmercury monitoring efforts.

Scientific Investigations Report↗
USGS2006

Fish communities and related environmental conditions of the lower Boise River, southwestern Idaho, 1974-2004

Within the last century, the lower Boise River has been transformed from a meandering, braided, gravel-bed river that supported large runs of salmon to a channelized, regulated, urban river that provides flood control and irrigation water to more than 1,200 square miles of land. An understanding of the current status of the river's fish communities and related environmental conditions is important to support the ongoing management of the Boise River. Therefore, fish community data from the U.S. Geological Survey and the Idaho Department of Fish and Game collected since 1974 were analyzed to describe the status of fish communities in the lower Boise River. Each set of data was collected to address different study objectives, but is combined here to provide an overall distribution of fish in the lower Boise River over the last 30 years. Twenty-two species of fish in 7 families have been identified in the lower Boise River-3 salmonidae, trout and whitefish; 2 cottidae, sculpins; 3 catostomidae, suckers; 7 cyprinidae, minnows; 4 centrarchidae, sunfish; 2 ictaluridae, catfish; and 1 cobitidae, loach. Analysis of fish community data using an Index of Biotic Integrity (IBI) for Northwest rivers shows a decrease in the biotic integrity in a downstream direction, with the lowest IBI near the mouth of the Boise River. The number of tolerant and introduced fish were greater in the lower reaches of the river. Changes in land use, habitat, and water quality, as well as regulated streamflow have affected the lower Boise River fish community. IBI scores were negatively correlated with maximum instantaneous water temperature, specific conductance, and suspended sediment; as well as the basin land-use metrics, area of developed land, impervious surface area, and the number of major diversions upstream of a site. Fish communities in the upstream reaches were dominated by piscivorous fish, whereas the downstream reaches were dominated by tolerant, omnivorous fish. The percentage of sculpin in the river decreased in a downstream direction, and sculpin disappear completely at sites downstream of Glenwood Bridge. The sculpin population increased downstream of the Lander wastewater-treatment facility within the last decade, possibly as a result of improved wastewater treatment. The condition of the mountain whitefish (Prosopium williamsoni) throughout the lower Boise River was good and was similar both to the condition of mountain whitefish from least-disturbed rivers in southern Idaho and to the North American standard weight for mountain whitefish.

Scientific Investigations Report↗