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USGS2016

Mercury in fish and macroinvertebrates from New York's streams and rivers: A compendium of data sources

The U.S. Geological Survey has compiled a list of existing data sets, from selected sources, containing mercury (Hg) concentration data in fish and macroinvertebrate samples that were collected from flowing waters of New York State from 1970 through 2014. Data sets selected for inclusion in this report were limited to those that contain fish and (or) macroinvertebrate data that were collected across broad areas, cover relatively long time periods, and (or) were collected as part of a broader-scale (e.g. national) study or program. In addition, all data sets listed were collected, processed, and analyzed with documented methods, and contain critical sample information (e.g. fish species, fish size, Hg species) that is needed to analyze and interpret the reported Hg concentration data. Fourteen data sets, all from state or federal agencies, are listed in this report, along with selected descriptive information regarding each data source and data set contents. Together, these 14 data sets contain Hg and related data for more than 7,000 biological samples collected from more than 700 unique stream and river locations between 1970 and 2014.

New York↗

USGS2016

Federal interagency nature‐like fishway passage design guidelines for Atlantic coast diadromous fishes

The National Marine Fisheries Service (NMFS), the U.S. Geological Survey (USGS) and the U.S. Fish and Wildlife Service (USFWS) have collaborated to develop passage design guidance for use by engineers and other restoration practitioners considering and designing nature‐like fishways (NLFs). The primary purpose of these guidelines is to provide a summary of existing fish swimming and leaping performance data and the best available scientific information on safe, timely and effective passage for 14 diadromous fish species using Atlantic Coast rivers and streams. These guidelines apply to passage sites where complete barrier removal is not possible. This technical memorandum presents seven key physical design parameters based on the biometrics and swimming mode and performance of each target fishes for application in the design of NLFs addressing passage of a species or an assemblage of these species. The passage parameters include six dimensional guidelines recommended for minimum weir opening width and depth, minimum pool length, width and depth, and maximum channel slope, along with a maximum flow velocity guideline for each species. While these guidelines are targeted for the design of step‐pool NLFs, the information may also have application in the design of other NLF types being considered at passage restoration sites and grade control necessary for infrastructure protection upstream of some dam removals, and in considering passage performance at sites such as natural bedrock features.

Atlantic Ocean↗

USGS2016

Documenting the use of the Long Term Resource Monitoring element’s fish monitoring methodologies throughout the Midwest

The Upper Mississippi River Restoration (UMRR) Program’s Long Term Resource Monitoring (LTRM) element is designed to monitor and assess long term trends in the Upper Mississippi River System (UMRS). To accomplish this, standardized methods are used that allow for comparisons across pools and rivers. In recent years, other projects and other agencies have adopted the LTRM fish methodologies for use outside the UMRR. To determine how widespread the use of the Fish Component’s methods are, a twelve question survey was delivered via SurveyMonkey.com through the states comprising the American Fisheries Society (AFS) North Central Division and the Upper Mississippi River Conservation Committee. Approximately 2,000 professionals were reached with ≈11 percent participating. Results indicate that nearly all (95 percent) respondents use standardized methods in their sampling and 48 percent are familiar with the LTRM fish methodologies. Roughly one-third (35 percent) of all respondents have used the methods in the past and most (78 percent) of those have modified the methods to suit the information needs specific to their fishery. Results indicate that the LTRM methods have indeed spread outside the UMRR and are now a well-known and potentially widely used technique to sample fish communities.

Illinois, Iowa, Minnesota, Missouri, Wisconsin↗

USGS1986

Fish assemblages in Macrocystis and Nereocystis kelp forests off Central California

The abundance and species composition of conspicuous fishes were compared within two canopy forming kelp forests (giant kelp, Macrocystis pyrifera , and bull kelp, Nereocystis luetkeana ) in Central California. The primary investigative method was a subtidal belt transect, in which visual observation was used. The species composition of fish assemblages in the two canopy types was similar. Densities of fish were generally greater in Macrocystis than in Nereocystis forests. The major difference was the density of midwater species of the genus Sebastes . The blue rockfish, Sebastes mystinus , was the numerically dominant species in both canopy types. Estimates of the biomass of fish were about 2.4 times greater in Macrocystis beds than in Nereocystis beds.

California↗

USGS2002

Response of seabirds to fluctuations in forage fish density

Following the Exxon Valdez Oil Spill (EVOS), one concern was that prevailing ecological conditions in the Gulf of Alaska (GOA) would not favor recovery of damaged seabird populations. To address this issue, we examined relationships between oceanography, forage fish and seabirds near three seabird colonies in lower Cook Inlet (LCI) in 1995-1999 (some colony work continued until 2001). Upwelling of cold, nutrient-rich GOA waters at the entrance to the shallow LCI estuary supports a high density of juvenile pollock, sand lance, and capelin; which in turn are exploited by high densities of breeding seabirds (murres, kittiwakes, puffins, etc.) on the east side of LCI. Waters on the west side of LCI are oceanographically distinct (warmer, less saline, outflowing), and much less productive for forage fish and seabirds. Patterns of seabird foraging behavior, productivity and population change reflected patterns of forage fish abundance and distribution, which in turn depended on local oceanography. Most seabird parameters varied with forage fish density in a non-linear (e.g., sigmoidal, exponential) fashion, and in some areas and years, productivity was limited by food availability. Current and projected ecological conditions favor recovery of seabirds from the EVOS at some colonies. In 14 chapters, this report summarizes data and compiles it into 247 tables, figures and appendices. Chapter 14 provides a thorough synthesis of overall project findings. Final analyses and interpretations of data will be published later in peer-reviewed journals (in addition to 61 articles already completed).

Report↗

USGS2016

Response of fish assemblages to decreasing acid deposition in Adirondack Mountain lakes

The CAA and other federal regulations have clearly reduced emissions of NOx and SOx, acidic deposition, and the acidity and toxicity of waters in the ALTM lakes, but these changes have not triggered widespread recovery of brook trout populations or fish communities. The lack of detectable biological recovery appears to result from relatively recent chemical recovery and an insufficient period for species populations to take advantage of improved water quality. Recovery of extirpated species’ populations may simply require more time for individuals to migrate to and repopulate formerly occupied lakes. Supplemental stocking of selected species may be required in some lakes with no remnant (or nearby) populations or with physical barriers between the recovered lake and source populations. The lack of detectable biological recovery could also be related to our inability to calculate measures of uncertainty or error and, thus, examine temporal changes or differences in populations and community metrics in more depth (e.g., within individual lakes) using existing datasets. Indeed, recovery of brook trout populations and partial recovery of fish communities are documented in several lakes of the region, both with and without human intervention. Multiple fish surveys (annually or within the same year) or the use of mark and recapture methods within individual lakes would help alleviate the issue (provide measures of error for key fishery metrics) within the context of a more focused sampling strategy. Efforts to evaluate and detect recovery in fish assemblages from streams may be more effective than in lakes because various life stages, species’ populations, and entire assemblages are easier to quantify, with known levels of error, in streams than in lakes. Such long-term monitoring efforts could increase our ability to detect and quantify biological recovery in recovering (neutralizing) surface waters throughout the Adirondack Region.

New York↗

USGS2006

Variation in spring nearshore resident fish species composition and life histories in the lower San Joaquin watershed and delta

Providing freshwater to human populations while protecting or rehabilitating ecosystem health is a significant challenge to water resource managers and requires accurate knowledge of aquatic resources. Previous studies of fish assemblages in the San Francisco Estuary and watershed have focused on specific habitat types, water bodies, or geographic subregions. In this study, we use seining data from two monitoring programs to provide an integrated view of spring nearshore resident fish species composition and life history characteristics in five regions: the San Joaquin River, the upper Sacramento River, the lower Sacramento River, the northern Sacramento-San Joaquin Delta (North Delta), and the Interior Delta. Data for the period March-May from 1994 to 2002, showed that spring species composition of the San Joaquin River was very different from the other four regions. Total catch in the San Joaquin River was dominated by small, short-lived batch spawning alien species (93%), particularly red shiner Cyprinella lutrensis (>75% of total catch). The upper and lower Sacramento River were very similar in species composition and life history characteristics and less dominated by alien fish (<45% of total catch). Ordination of species percentage abundances by non–metric multidimensional scaling confirmed that the major gradient was from assemblages dominated by native species to assemblages dominated by alien species. Two-way analysis of variance of ordination scores indicated that spatial variability was more important than annual variability in explaining patterns in species composition. The potential benefits of San Joaquin River native fish restoration appear high because there is so much potential for improvement; however, it is unclear how to best manipulate the system to achieve such restoration. Addressing such uncertainties is necessary if society desires the reservation and restoration of native biodiversity as human demands on water resources increase.

California↗

USGS2019

Effects of high flow experiments on warm-water native and nonnative fishes

The harsh environmental conditions and extreme flooding that created Grand Canyon also shaped the unique native fish that evolved in the Colorado River. Native fish have evolved their physiology, morphology and behavior to withstand high flood events. Flooding has been shown to benefit spawning, survival and recruitment of juvenile native fishes in many southwestern rivers. Annual pre-dam flooding on the Colorado River was sometimes more than double the flows released during a typical High-Flow Experiment (HFE). It is therefore unlikely that the 3-4 days of high flow created by HFEs will have negative impacts on native fish directly. However, HFEs can cause dispersal of flood adapted non-native species like green sunfish that utilize floods to invade and colonize new environments. Continued efforts to reduce known populations of green sunfish that inhabit backwater ponds before conducting HFEs may be necessary to reduce risks of spreading invasive green sunfish downstream.

Arizona↗

USGS2019

Non-native marine fishes in Florida: Updated checklist, population status and early detection/rapid response

It has been ten years since the last comprehensive assessment of non-native marine fishes in Florida. Herein, we report sightings of 41 species from Florida coastal waters since the earliest reported sighting in 1984. Information is provided on the population status of each species (e.g., established, eradicated, unknown), and our early detection/rapid response program to remove these fish is described. Of the 41 species, five have established reproducing populations. Nineteen species are either eradicated or failed, while the status of 17 additional species is unknown. Since 1999, 18 individuals comprising 13 species have been removed from coastal waters, most of which were collected through our early-detection/rapid-response program. Many of those fishes were transferred to public aquaria where they were displayed to provide educational information to the public. Most reports of non-native marine fishes originated from citizen scientists, emphasizing the importance of outreach and education.

Florida↗

USGS2019

Status and trends of prey fish populations in Lake Michigan, 2018

The U.S. Geological Survey Great Lakes Science Center has conducted lake-wide surveys of the fish community in Lake Michigan each fall since 1973 using standard 12 m bottom trawls towed along contour at depths of 9 to 110 m at each of seven index transects. The survey provides relative abundance and biomass estimates between the 5 m and 114 m depth contours of the lake for prey fish populations, as well as for burbot and yellow perch. The resulting data are used to estimate various population parameters that are in turn used by state and tribal agencies in managing Lake Michigan fish stocks. All seven established index transects of the survey were completed in 2018, although depths 64 m and greater offshore of Frankfort could not be completed due to excessive dreissenid mussel biomass on our multiple tow attempts. Mean biomass of alewives in 2018 was estimated at 0.54 kg/ha, which was the highest value since 2013, but still only 6.7% of the long-term average (7.96 kg/ha). Age distribution of alewives remained truncated with no alewife age exceeding 5 years. Bloater biomass was 2.60 kg/ha in 2018, relatively unchanged from 2017, but still only 14% of the long-term average. Round goby biomass was 1.25 kg/ha in 2018, the 3rd largest estimate in the time series and 62% higher than the average since they were first sampled in 2003. Rainbow smelt biomass was 0.45 kg/ha, which was the highest since 2006 but only 21% of the long-term average. Likewise, deepwater sculpin biomass was 1.30 kg/ha in 2018, which was the highest since 2007 but only 20% of the long-term average. Slimy sculpin biomass was only 0.07 kg/ha in 2018, and similar to the very low levels estimated since 2012 and only 17% of the long-term average. Ninespine stickleback remained very rare in 2018 (0.004 kg/ha), and only 1% of the long-term average. Overall, the total prey fish biomass (sum of alewife, bloater, rainbow smelt, deepwater sculpin, slimy sculpin, round goby, and ninespine stickleback) in 2018 was 6.22 kg/ha, roughly 65% greater than in 2017 but still only 17% of the long-term average. With respect to other species of interest, burbot biomass was only 0.04 kg/ha in 2018 (18% of the long-term average) and no age-0 yellow perch were caught in 2018, indicating a weak year-class.

Lake Michigan↗

USGS2021

Fish Rhabdoviruses (Rhabdoviridae)

The family Rhabdoviridae currently has 18 genera accepted by the International Committee for Virus Taxonomy (ICTV), and three of those genera contain fish rhabdoviruses. In the genera Novirhabdovirus, Sprivivirus, and Perhabdovirus all viruses infect fish hosts, and there are no fish viruses in any of the other 15 rhabdovirus genera. In the overall phylogeny of the Rhabdoviridae the three fish virus genera are well separated from each other, and the novirhabdovirus genus occupies a position basal to all other genera.

Book chapter↗

USGS2023

Evaluate propagation efforts and determine dispersal patterns for Quadrula fragosa from tagged, artificially infested host fish (Ictalurus punctatus) in the St. Croix National Scenic Riverway (SACN)

The St. Croix National Scenic Riverway (SACN) has been the site of propagation and restoration efforts for two federally endangered unionid mussels: Higgins’ Eye, Lampsilis higginsii and Winged Mapleleaf (WML), Quadrula fragosa. Since about 2000, government agencies have collaboratively developed techniques to successfully propagate Higgins’ Eye and reintroduce the captive-reared subadult mussels into rehabilitated habitats in the upper Mississippi River Basin and several tributaries, including the SACN. However, propagation efforts for the WML have had limited success from 2003 to present. The population of WML in the SACN has high value because it is physically isolated and genetically distinct from four southern populations, and it is the only known self-sustaining population within the upper Mississippi River. Unionids have a complex reproductive cycle that includes a parasitic larval stage (glochidia) that requires species-specific fish hosts. WML are one of the few species that are fall, short-term (~6 weeks) brooders—brooding begins at end of August. In the SACN, Channel Catfish ( Ictalurus punctatus ) are the only known host for WML and glochidia are assumed to overwinter on their host fish and detach the following spring. Research has shown that holding hatchery reared channel catfish that are infested with WML glochidia in cages, either in situ or in a hatchery, over winter has been a challenge due to high fish mortality; rearing juveniles after transformation has also resulted in high mortality rates and juvenile loss (Wege et al. 2007). The importance of the overwintering parasitic period and the overall health of the host fish for successful transformation of juvenile WML is unknown, but these key criteria could play an important role in successful propagation efforts. This research has three objectives: (1) compile historic data from >14 years of Q. fragosa propagation efforts into a searchable database to identify potential knowledge gaps that could be limiting its success, (2) explore in situ and ex situ propagation techniques to optimize production of Q. fragosa juveniles, and (3) characterize the movement pattern of Channel Catfish that are artificially inoculated with the SACN strain of Q. fragosa to identify potential juvenile release survey locations in future years.

Minnesota, Wisconsin↗

USGS2023

Lake Ontario April prey fish survey results and Alewife assessment, 2023

The April bottom trawl survey and Alewife Alosa pseudoharengus population assessment provides science to inform Lake Ontario fisheries management. The 2023 survey included 215 trawls in the main lake and embayments, and sampled depths from 6.5 to 252 m (21-833 ft). The survey captured 1,012,178 fish from 32 species with a total weight of 12,136 kg (26,700 lbs.). Alewife were 92% of the catch by number while Rainbow Smelt, Osmerus mordax , Deepwater Sculpin, Myoxocephalus thompsonii , and Round Goby, Neogobius melanostomus , comprised 3%, 3%, and 1% of the catch, respectively. To improve the accuracy of prey fish biomass and density estimates we reanalyzed trawl sensor data from each of three participating survey vessels and created vessel-specific relationships predicting how bottom trawl bottom contact time, wing width, and area-swept varies with depth. Total Alewife biomass increased in 2023 due to growth and survival of the abundant 2020 year class (now age-3) and an abundant 2022 year class (age-1). The 2023 mean Alewife biomass (81.1 kg·ha -1 ) was the largest since whole lake sampling began in 2016 and was the ninth largest value observed in the modern time series (1997-2023, maximum value in 2000 = 91.8 kg·ha -1 ). The 2023 Alewife density (6795 n·ha -1 ) was the greatest density observed in the modern time series. These high biomass and density values are due to above average Alewife reproductive success in 2020 and 2022. Simulation modeling suggests the 2024 and 2025 Alewife biomass index may be substantially higher than the 2023 observations. In 2023, the Rainbow Smelt biomass index increased relative to the 2022 index, as did the biomass index for Cisco, Coregonus artedi . In contrast, Emerald Shiner Notropis atherinoides and Threespine Stickleback Gasterosteus aculeatus , biomass values continue to be low (< 0.01 kg·ha -1 ). Three Bloater Coregonus hoyi , were captured during the 2023 survey. Hydroacoustic sampling conducted during the bottom trawl survey estimated prey fish densities in pelagic habitats not sampled by the bottom trawl (3 m below the surface to 3 m above the lake bottom) and these densities were hundreds to thousands of times lower than bottom trawl-based densities. These results support the idea that, in April, when the warmest water is on the lake bottom, Alewife and most other pelagic prey fish are near the lake bottom and can be effectively sampled with bottom trawling.

Lake Ontario↗

USGS2022

Evaluate propagation efforts and determine dispersal patterns for Quadrula fragosa from tagged, artificially infested host fish (Ictalurus punctatus) in the St. Croix National Scenic Riverway (SACN)

Minnesota, Wisconsin↗

USGS2024

Evaluation of fish passage for assessment of invasive carp deterrents at locks in the upper Mississippi River

Invasive carps are established in the upper, middle, and lower Mississippi River and their expansion upstream threatens a variety of aquatic ecosystem services including fishing and recreational boating. The physical and operational characteristics of Lock and Dam (LD) 19 restrict upstream movement of fishes because the only upstream fish passage route is through the lock chamber. This restriction might be hindering consistent reproduction and recruitment of invasive carps enough to reduce their abundance upstream from LD 19. Locks and Dams 5, 14, and 15 (upriver from LD 19) are infrequently at open-condition and may also be limiting the continued upstream expansion of invasive carps. Upstream passage of fishes at these locations would be limited to the lock chamber for the majority of the year (Wilcox et al. 2004; Bouska 2021).

Illinois, Iowa, Minnesota, Missouri, Wisconsin↗

USGS2024

Evaluation of fish passage for assessment of invasive carp deterrents at locks in the Upper Mississippi River

Invasive carp are established in the upper, middle, and lower Mississippi River and their expansion upstream threatens a variety of aquatic ecosystem services including fishing and recreational boating (U.S. Geological Survey, 2021). The physical and operational characteristics of Lock and Dam (LD) 19 restrict upstream movement of fishes because the only upstream fish passage route is through the lock chamber. This restriction might be hindering consistent reproduction and recruitment of Silver Carp Hypophthalmichthys molitrix and bighead carp H. nobilis (collectively referred to as bigheaded carp) enough to reduce their abundance upstream of LD 19. Locks and Dams 14 and 15 are infrequently in open-river condition (defined as the time when the adjustable spillway gates of the dam are raised out of the water, passing unobstructed water through the gates) and may also be limiting the continued upstream spread of invasive carp populations. Upstream passage of fishes at these locations would be limited to the lock chamber for the majority of the year (Wilcox et al., 2004; Bouska, 2021).

Illinois, Iowa, Minnesota, Missouri, Wisconsin↗

USGS1973

Unharvested fishes in the U. S. commercial fishery of western Lake Erie in 1969

Potential commercial fish production was estimated for U.S. waters of western Lake Erie in 1969 from pounds landed and pounds discarded. Periodic observations of catches in haul seines and trap nets revealed that about 37% of the catch (by weight) in haul seines and 26% of that in trap nets were low-value fishes that were discarded. Projection of these discarded catches to include the total fishing effort indicated that an additional 2.8 million lb of low-value species would have been landed in 1969 if a reasonable profit had been assured. It is concluded that the sustained yield could be increased considerably with only a moderate increase in fishing effort.

Special Scientific Report - Fisheries↗

USGS1970

A brief history of commercial fishing in Lake Erie

Salient features of the development of the industry from about 1815 to 1968, changes in fishing gears and methods, changes in the kinds and abundance of fishes caught, and the attendant effects of disappearing species on the stability of the fishery are described. The history and present status of the walleye, yellow perch, and eight other fishes, still taken in commercial quantities, are presented in more detail and are considered in the context of their effect on the current moribund state of the U.S. fishery. Past and present contributions of Lake Erie's tributaries and northerly connecting waters to the fishery are outlined briefly. The "outlook" for the fishery under present conditions of selective overfishing for high-value species, excessive pollution, ineffective and uncoordinated regulation, and antiquated methods of handling, processing, and marketing fish are discussed, and possible solutions to these problems are suggested.

Lake Erie↗