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At least 829 records · Page 46

Hydropower Biological Evaluation Tools

This software is a set of analytical tools to evaluate the physical and biological performance of existing, refurbished, or newly installed conventional hydro-turbines nationwide where fish passage is a regulatory concern. The current version is based on information collected by the Sensor Fish. Future version will include other technologies. The tool set includes data acquisition, data processing, and biological response tools with applications to various turbine designs and other passage alternatives. The associated database is centralized, and can be accessed remotely. We have demonstrated its use for various applications including both turbines and spillways.

Source record↗

Automatic Classification of Biological Targets in a Tidal Channel Using a Multibeam Sonar

Multibeam sonars are widely used for environmental monitoring of fauna at marine renewable energy sites. However, they can rapidly accrue vast volumes of data, which poses a challenge for data processing. Here, using data from a deployment in a tidal channel with peak currents of 1–2 m s –1 , we demonstrate the data-reduction benefits of real-time automatic classification of targets detected and tracked in multibeam sonar data. First, we evaluate classification capabilities for three machine learning algorithms: random forests, support vector machines, and k-nearest neighbors. For each algorithm, a hill-climbing search optimizes a set of hand-engineered attributes that describe tracked targets. Here, the random forest algorithm is found to be most effective—in postprocessing, discriminating between biological and nonbiological targets with a recall rate of 0.97 and a precision of 0.60. In addition, 89% of biological targets are correctly classified as either seals, diving birds, fish schools, or small targets. Model dependence on the volume of training data is evaluated. Second, a real-time implementation of the model is shown to distinguish between biological targets and nonbiological targets with nearly the same performance as in postprocessing. From this, we make general recommendations for implementing real-time classification of biological targets in multibeam sonar data and the transferability of trained models.

16 TIDAL AND WAVE POWER↗

Multicellular magnetotactic bacteria are genetically heterogeneous consortia with metabolically differentiated cells

Consortia of multicellular magnetotactic bacteria (MMB) are currently the only known example of bacteria without a unicellular stage in their life cycle. Because of their recalcitrance to cultivation, most previous studies of MMB have been limited to microscopic observations. To study the biology of these unique organisms in more detail, we use multiple culture-independent approaches to analyze the genomics and physiology of MMB consortia at single-cell resolution. We separately sequenced the metagenomes of 22 individual MMB consortia, representing 8 new species, and quantified the genetic diversity within each MMB consortium. This revealed that, counter to conventional views, cells within MMB consortia are not clonal. Single consortia metagenomes were then used to reconstruct the species-specific metabolic potential and infer the physiological capabilities of MMB. To validate genomic predictions, we performed stable isotope probing (SIP) experiments and interrogated MMB consortia using fluorescence in situ hybridization (FISH) combined with nanoscale secondary ion mass spectrometry (NanoSIMS). By coupling FISH with bioorthogonal noncanonical amino acid tagging (BONCAT), we explored their in situ activity as well as variation of protein synthesis within cells. We demonstrate that MMB consortia are mixotrophic sulfate reducers and that they exhibit metabolic differentiation between individual cells, suggesting that MMB consortia are more complex than previously thought. These findings expand our understanding of MMB diversity, ecology, genomics, and physiology, as well as offer insights into the mechanisms underpinning the multicellular nature of their unique lifestyle.

59 BASIC BIOLOGICAL SCIENCES↗

Meiotic susceptibility for induction of sperm with chromosomal aberrations in patients receiving combination chemotherapy for Hodgkin lymphoma

Improvements in survival rates with gonad-sparing protocols for childhood and adolescence cancer have increased the optimism of survivors to become parents after treatment. Findings in rodents indicate that chromosomal aberrations can be induced in male germ cells by genotoxic exposures and transmitted to offspring and future generations with effects on development, fertility and health. Thus, there is a need for effective technologies to identify human sperm carrying chromosomal aberrations to assess the germ-line risks, especially for cancer survivors who have received genotoxic therapies. The time-dependent changes in the burden of sperm carrying structural chromosomal aberrations were assessed for the first time in a cancer setting, using the AM8 sperm FISH protocol which simultaneously detects abnormalities in chromosomal structure and number in sperm. Nine Hodgkin lymphoma (HL) patients provided 20 semen samples before, during, and after NOVP therapy (Novantrone, Oncovin, Velban and Prednisone) and radiation therapy that produced scattered gonadal doses from <0.05 to 0.6 Gy. Late meiosis was found to be the most sensitive to NOVP treatment for the production of sperm with chromosomal abnormalities, both in structure and number. Earlier stages of spermatogenesis were less sensitive and there was no evidence that therapy-exposed stem cells resulted in increased frequencies of sperm with abnormalities in chromosomal structure or number. This indicates that NOVP therapy may increase the risks for paternal transmission of chromosomal structural aberrations for sperm produced 32 to 45 days after a treatment with these drugs and implies that there are no excess risks for pregnancies conceived more than 6 months after this therapy. This clinical evaluation of the AM8 sperm FISH protocol indicates that it is a promising tool for assessing an individual’s burden of sperm carrying chromosomal structural aberrations as well as aneuploidies after cancer therapy, with broad applications in other clinical and environmental situations that may pose aneugenic or clastogenic risks to human spermatogenesis.

60 APPLIED LIFE SCIENCES↗

A correlation between seasonally changing photoperiod, whole body lipid, and condition factor in juvenile spring Chinook salmon (Oncorhynchus tshawytscha)

The regulation of lipid stores is a central process for the physiology and ecology of fishes. Seasonal variation in lipid stores has been directly linked to survival of fishes across periods of food deprivation. We assessed whether a seasonally changing photoperiod was correlated to seasonal changes in energetic status to help better understand these important processes. Groups of first feeding Chinook salmon fry were introduced to a seasonal photoperiod cycle, but the point of entrance into the seasonal cycle varied from near the winter solstice (December), to either side of the spring equinox (February & May). Temperature and feeding rate were similar for all treatments. Subsequently, condition factor and whole body lipid content were assessed through a seasonal progression. Throughout most of the experiment, length and weight did not differ between the different photoperiod treatments, however whole body lipid and Fulton’s condition factor did. Furthermore, changes in both whole body lipid and Fulton’s condition factor in all treatment groups followed a similar seasonal pattern that was inversely related to day length (highest K and lipid levels found during days with the least light). These results suggest that regardless of age or size, there is a correlation between seasonal changes in photoperiod and changes in body composition in juvenile Chinook salmonids.

Spangenberg, Dina K. (ORCID:000000018861395X)↗

Age at release affects developmental physiology and sex-specific phenotypic diversity of hatchery steelhead trout (Oncorhynchus mykiss)

Most steelhead trout hatcheries increase growth rate during rearing to produce and release yearling smolts for harvest augmentation, but natural steelhead exhibit variable age of smoltification, so this common rearing practice may not be ideal for programs focused on recovering imperiled wild stocks; therefore, it is important to investigate and compare alternative hatchery rearing methods that promote life history diversity. Over six consecutive years, the Winthrop National Fish Hatchery on the Methow River, WA reared and released paired groups of age-1 (S1) and age-2 (S2) steelhead smolts. To understand how the two rearing methods affected developmental ontogeny and life-history, fish were sampled prior to hatchery release for factors associated with smoltification (size, gill Na+/K+ ATPase activity, and a qualitative smolt phenotype) and sexual maturation (sex, pituitary and testis mRNA transcripts, gonadosomatic index, and plasma 11-ketotestosterone). Our objectives were to quantify levels of smoltification and male maturation during hatchery rearing, combine metrics to estimate residualism (failure to migrate upon release), and compare the treatments by sex. Overall, S2 rearing produced 7.8% more smolts and 44-fold (4.4 vs. 0.1%) more precociously mature males than S1 rearing. Conversely, S1 rearing produced 31.6% more residuals than S2 rearing. While the proportion of total male residuals was comparable between treatments, the S1 treatment produced approximately five-fold more female residuals (20.6 vs. 4.2%). Because residuals contribute minimally to adult returns and the number of returning adult females is critical to the success of salmonid supplementation efforts, developing rearing techniques that maximize migration in females is a management priority. Physiological assessments are useful for characterizing and quantifying the effects and risks of different hatchery rearing regimes on steelhead life-history, in addition to providing sex-specific guidance to inform and optimize conservation management goals in supplementation programs.

Middleton, Mollie A. (ORCID:0009000905577865)↗

Developing a High-Quality Linkage Map for the Atlantic Killifish Fundulus heteroclitus

Killifish (Fundulus heteroclitus) are widely distributed among different aquatic environments where they demonstrate an impressive range of highly-plastic and locally adaptive phenotypes. High-throughput sequencing has begun to unravel the mechanisms and evolutionary history of these interesting features by establishing relationships in the genotype-phenotype map. However, some genotype-phenotype analyses require a higher order of contiguity than what initial scaffolded (fragmented genome assembly where contigs have been assemble into scaffolds) genome assemblies can provide. Here, we used 5,685 high-quality RAD-Seq markers from a single mapping family to order 84% of the scaffolded genome assembly to 24 chromosomes. This serves to: 1) expand the killifish genomic toolkit, 2) estimate genome-wide recombination rates, and 3) compare genome synteny to humans and other fishes. After initially building our map, we found that the selection of thresholds for sequence data filtration highly impacted scaffold placement in the map. We outline each step of the approach that dramatically improved our map to help guide others toward more effective linkage mapping for genome assembly. Our final map supports strong conservation of genomic synteny among closely related fish species and reveals previously described chromosomal rearrangements between more distantly related clades. However, we also commonly found minor scaffold misorientations in F. heteroclitus and in other assemblies, suggesting that further mapping (such as optical mapping) is necessary for finer scale resolution of genome structure. Lastly, we discuss the problems that would be expected from misoriented/unplaced scaffolds and stress the importance of a quality mapped genome as a key feature for further investigating population and comparative genomic questions with F. heteroclitus and other taxa.

Genetics & Heredity↗

Acoustic Telemetry Evaluation of Juvenile Salmonid Passage and Survival at John Day Dam, 2011

This report presents survival, behavioral, and fish passage results for tagged yearling Chinook salmon and juvenile steelhead as part of a survival study conducted at John Day Dam during spring 2011. This study was designed to evaluate the passage and survival of yearling Chinook salmon and juvenile steelhead to assist managers in identifying dam operations for compliance testing as stipulated by the 2008 Federal Columbia River Power System Biological Opinion and the 2008 Columbia Basin Fish Accords. Survival estimates were based on a paired-release survival model.

Weiland, Mark A.↗

Multi-Scale Action Effectiveness Research in the Lower Columbia River and Estuary (Final Annual Report, 2012)

The study reported herein was conducted for the U.S. Army Corps of Engineers, Portland District (USACE) by researchers at the Pacific Northwest National Laboratory (PNNL), Oregon Department of Fish and Wildlife (ODFW), National Marine Fisheries Service (NMFS), University of Washington (UW), and U.S. Fish and Wildlife Service (USFWS). The goal of the study was to evaluate the ecological benefits of restoration actions for juvenile salmon in the lower Columbia River and estuary (LCRE; rkm 0–234). This multi-year study (2011–2018) addresses the ecological benefits of restoration actions at multiple spatial scales over time. The spatial scales include the 1) site scale as a result of an individual project, 2) landscape scale as a result of multiple restoration actions located within a ~50-km segment of the LCRE, and 3) estuary scale as a result of the cumulative effects of multiple restoration actions estuary-wide.

Johnson, Gary E.↗

Total Dissolved Gas Prediction and Optimization in RIVERWARE

Management and operation of dams within the Columbia River Basin (CRB) provides the region with irrigation, hydropower production, flood control, navigation, and fish passage. These various system-wide demands can require unique dam operations that may result in both voluntary and involuntary spill, thereby increasing tailrace levels of total dissolved gas (TDG) which can be fatal to fish. Appropriately managing TDG levels within the context of the systematic demands requires a predictive framework robust enough to capture the operationally related effects on TDG levels. Development of the TDG predictive methodology herein attempts to capture the different modes of hydro operation, thereby making it a viable tool to be used in conjunction with a real-time scheduling model such as RiverWare. The end result of the effort will allow hydro operators to minimize system-wide TDG while meeting hydropower operational targets and constraints. The physical parameters such as spill and hydropower flow proportions, accompanied by the characteristics of the dam such as plant head levels and tailrace depths, are used to develop the empirically-based prediction model. In the broader study, two different models are developed a simplified and comprehensive model. The latter model incorporates more specific bubble physics parameters for the prediction of tailrace TDG levels. The former model is presented herein and utilizes an empirically based approach to predict downstream TDG levels based on local saturation depth, spillway and powerhouse flow proportions, and entrainment effects. Representative data collected from each of the hydro projects is used to calibrate and validate model performance and the accuracy of predicted TDG uptake. ORNL, in conjunction with IIHR - Hydroscience & Engineering, The University of Iowa, carried out model adjustments to adequately capture TDG levels with respect to each plant while maintaining a generalized model configuration. Validation results indicate excellent model performance with coefficient of determination values exceeding 92% for all sites. This approach enables model extension to an increasingly wider array of hydropower plants, i.e., with the proper data input, TDG uptake can be calculated independent of actual physical component design. The TDG model is used as a module in the systematic optimization framework of RiverWare, a river and reservoir modeling tool used by federal agencies, public utility districts, and other dam owners and operators to forecast, schedule, and manage hydropower assets. The integration and testing of the TDG module within RiverWare, led by University of Colorado's Center for Advanced Decision Support for Water and Environmental Systems (CADSWES), will allow users to generate optimum system schedules based on the minimization of TDG. Optimization analysis and added value will be quantified as system wide reductions in TDG achieved while meeting existing hydropower constraints. Future work includes the development of a method to predict downstream reservoir forebay TDG levels as a function of upstream reservoir tailrace TDG values based on river hydrodynamics, hydro operations, and reservoir characteristics. Once implemented, a holistic model that predicts both TDG uptake and transport will give hydropower operators valuable insight into how system-wide environmental effects can be mitigated while simultaneously balancing stakeholder interests.

13 HYDRO ENERGY↗

Links between persistent DNA damage, genome instability, and aging

The goal of this study was to examine long-term effects of low-dose radiation exposure. One of the hypotheses was that radiation exposure would accelerate the normal aging process. The study was jointly funded by NASA and examined both low-LET radiation (γ-rays) and high-LET radiation (1000 MeV/nucleon 56 Fe ions) at doses of 0.1 Gy and up. The work used the Japanese medaka fish (Oryzias latipes), as a vertebrate model organism that can be maintained in large numbers at low cost for lifetime studies. Like other small laboratory fish, Japanese medaka share many anatomical and histological characteristics with other vertebrates, and a variety of genetic and genomic resources are available. Some work also used the zebrafish (Danio rerio), another widely used laboratory model organism.

62 RADIOLOGY AND NUCLEAR MEDICINE↗

Measuring changes in ambient noise levels from the installation and operation of a surge wave energy converter in the coastal ocean

Ecosystem impacts resulting from elevated underwater noise levels generated by anthropogenic activities in the coastal ocean are poorly understood and remain difficult to address as a result of a significant gap in knowledge for existing nearshore sound levels. Ambient noise is an important habitat component for marine mammals and fish that use sound for essential functions such as communication, navigation, and foraging. Questions surrounding the amplitudes, frequency distributions, and durations of noise emissions from renewable wave energy conversion (WEC) projects during their construction and operation present concerns for long-term consequences in marine habitats. Oregon’s dynamic nearshore environment presents significant challenges for passive acoustic monitoring that include flow noise contamination from wave orbital motions, turbulence from breaking surf, equipment burial, and fishing pressure from sport and commercial crabbers. This project included 2 techniques for passive acoustic data collection: 1) campaign style deployments of fixed hydrophone lander stations to capture temporal variations in noise levels and 2) a drifting hydrophone system to record spatial variations within the project site. The hydrophone lander deployments were effective and economically feasible for enabling robust temporal measurements of ambient noise levels in a variety of sea state conditions. Limiting factors for the fixed stations included 1) a flow shield mitigation strategy failure in the first deployment resulting in significant wideband data contamination and 2) flow noise contamination of the unshielded sensors restricting valuable analysis to frequencies above 500 Hz for subsequent deployments. Drifting hydrophone measurements were also effective and economically feasible (although logistically challenging in the beginning of the project due to vessel time constraints) providing a spatial distribution of sound levels, comparisons of noise levels in varying levels of vessel traffic during similar sea states, and reducing the frequencies contaminated by flow noise to f < 50 Hz by an effective drifting hydrophone system design strategy. Results from this project can still assist regulatory agencies and WEC developers in permitting and licensing, reducing project costs overall and assisting the economic development of the WEC industry, thus furthering the MHK energy industry and easing the U.S. reliance on foreign oil for energy production. Additionally, results from this project can be used to help inform coastal resource managers and regulatory agencies on existing baseline noise level variability and ecosystem health.

16 TIDAL AND WAVE POWER↗

Status of Federally Listed Threatened and Endangered Species at Los Alamos National Laboratory

Compliance with the Endangered Species Act at LANL is achieved through the implementation of the LANL Threatened and Endangered Species Habitat Management Plan (HMP; LANL 2017a). This plan is a formal agreement between the U.S. Department of Energy (DOE)/National Nuclear Security Administration (NNSA) and the U.S. Fish and Wildlife Service for the management of endangered species and their habitats at LANL. Actions and activities approved in the HMP were reviewed by the U.S. Fish and Wildlife Service and do not require further consultations. Projects that cannot follow the HMP requirements must go through separate section 7 consultations. The controls for Endangered Species Act compliance are incorporated into an internal project review process through which all LANL projects are reviewed for environmental compliance (LANL 2017b).

54 ENVIRONMENTAL SCIENCES↗

Utica Shale Energy and Environment Laboratory Final Scientific/Technical Report

The Ohio State University (OSU) was awarded a contract on October 1, 2014, from the Department of Energy National Energy Technology Laboratory (DOE-NETL) to develop the Utica Shale Energy and Environment Laboratory (USEEL) in the Utica-Point Pleasant shale play of the Appalachian Basin. It was designed to be an environmental and technology development lab that would enable the academic, industry, government, and non-governmental organization (NGO) research communities to better understand unconventional oil and gas (UOG) engineering practices and technology to increase production and safety, and decrease environmental effects. Political and economic consequences necessitated changes in project site location and design, from the Ohio State Eastern Agricultural Research Station (EARS) and the Muskingum Watershed Conservancy District (MWCD) in east-central Ohio to a site located at an Energy Corporation of America (ECA) Marcellus drill pad in Greene County, Pennsylvania. Although the overall project progressed little beyond planning and administration before termination on September 18, 2017, significant research and MS or PhD investigations were completed or continue today. An experimental study design for site specific and regional baseline assessments was developed utilizing ecoregions, United States Geological Survey (USGS) Hydraulic Unit Code watersheds, and GIS technology and databases. This can be utilized to build a defensible and scalable management and research framework for UOG investigations that can be extrapolated for predictive and comparative analyses. The most commonly mentioned perceived risks of shale energy development identified in a socioeconomic analysis included impacts to the environment and water resources, traffic and road deterioration, and crime. Economic benefits, such as the windfall wealth to residents, job opportunities, and the demand for hotels and restaurants emerged, as the main positive impact to the community. Preliminary results of an analysis of the location and mechanisms for extremely high pore pressures of the deep Utica-Point Pleasant formations of southwestern Pennsylvania and their possible relationship to high initial production rates indicate that the overpressure is caused by a combination disequilibrium compaction and fluid expansion. Drilling fluids research designed a proof-of-concept device to evaluate desalination and solvent separation in hydraulic fracturing flowback water that could facilitate water recycling and potentially mitigate deep-well injection. A groundwater study was devised to characterize the subsurface aquifers in terms of the geological framework and groundwater chemistry, including the chemistry of dissolved gases and salts. Brines and gases associated with hydrocarbon migration in groundwater (including noble gases and hydrocarbons) were to be specifically fingerprinted for use as tracers of fluid migration. Trace element analysis of fish otoliths, using laser ablation inductively coupled plasma mass spectrometry (LA-ICP-MS), is being utilized to assess surface water quality. This methodology will be used to reconstruct the exposure histories of fish from watersheds and discriminate between the signatures associated with hydraulic fracturing and coal mining activities.

03 NATURAL GAS↗

RACEE Energy Efficiency Implementation for Holy Cross, Alaska (Final Report)

The Deg Hit’an Athabascan village of Holy Cross is located along the Ghost Creek Slough bank of the Yukon River. Holy Cross is home to almost 170 people who are accustomed to both the advantages and disadvantages of living off the road system - the nearest major road is some 300 miles to the east. On one hand, Holy Cross residents have greater access to practicing traditional activities like subsistence hunting and fishing. Families in the area have fished, hunted, and gathered food together for many generations and the land is imbued with this special history. But compared to Alaskans living on the road system, the residents of Holy Cross pay higher prices for basic necessities since goods are transported via air service and seasonal barge shipments. Holy Cross residents also accumulate higher energy costs, as diesel fuel is the primary fuel source for heating and lighting and costs over $\$6$ per gallon. Affording these high living costs becomes a barrier for Holy Cross residents who want to stay in the village or participate in subsistence activities requiring transportation by boat or ATV.

32 ENERGY CONSERVATION, CONSUMPTION, AND UTILIZATI↗

Designing Hydropower Flows to Balance Energy and Environmental Needs (HydroWIRES Topic A Final Project Report)

Hydropower is expected to play a new role in the US electricity grid as more variable renewable energy sources like wind and solar come online. Wind and solar generation increase fluctuations in electrical supply increasing the value of flexible generation sources that can quickly ramp generation up and down. The flexible generation hydropower can provide as well as the ancillary services (e.g., frequency and voltage regulation and reserves, black start capability) it provides for balancing and stabilizing the power grid are predicted to be of increased value in these future grid scenarios. Yet, the flexibility of hydropower may come with environmental costs due to up- and down-ramping of hydropower plants (i.e., quickly increasing or decreasing generation flows, respectively) which may strand fish, dewater or scour fish nests, alter habitat, or create unsafe recreational conditions that may be unacceptable to participants in the hydropower regulatory process. These types of environmental impacts are often mitigated through environmental flow requirements that specify minimum or maximum flow releases, or ramp-rates changes allowed at a hydropower facility. While it is not currently known to what degree electrical grid reliability could be affected by environmental flow requirements, gaining a better understanding of these interactions before the grid becomes more deeply decarbonized can help define what policy, regulation, or infrastructure may be needed to support the clean energy transition. As the future grid will rely on hydropower to provide both flexibility and robust environmental protections, the analyses and tools described in this report are centered on making mechanistic linkages between energy and the environment in hydropower systems. This understanding of energy-environment linkages can provide the foundational understanding needed to quantitatively assess the trade-offs between the increased generation flexibility that hydropower will be expected to provide and the environmental impacts of this flexibility. This report seeks to provide an objective foundation for building future science and tools that can be used by a broad spectrum of the hydropower community that is involved in licensing or environmental regulatory proceedings tasked with balancing energy and environmental objectives through flow management.

13 HYDRO ENERGY↗

East Tennessee Technology Park Biological Monitoring and Abatement Program (2023 Fiscal Year Report)

In FY 2023, the East Tennessee Technology Park’s (ETTP’s) Biological Monitoring and Abatement Program (BMAP) consisted of two tasks that reflected different but complementary approaches to evaluating the effects of ETTP effluents on the ecological integrity of waters near ETTP. These tasks included (1) fish and clams bioaccumulation monitoring and (2) fish and benthic macroinvertebrate species richness and density monitoring. The sampling and analysis requirements for the ETTP BMAP in FY 2023 are outlined in the sampling and analysis plan (UCOR 2023).

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗

Survival and Passage of Yearling and Subyearling Chinook Salmon and Juvenile Steelhead at Lower Granite Dam, 2018

The purpose of this passage and survival study was to estimate fish performance metrics associated with passage through Lower Granite Dam (LGR) for migrating yearling (CH1) and subyearling (CH0) Chinook salmon (Oncorhynchus tshawytscha) and steelhead smolts (O. mykiss, STH) in 2018. Researchers at the Pacific Northwest National Laboratory (PNNL) collaborated with the U.S. Army Corps of Engineers (USACE) Walla Walla District (CENWW), the University of Washington, and Mainstem Fish Research to conduct a 2018 study to estimate dam passage survival and other performance metrics for CH1, CH0, and STH at LGR.

54 ENVIRONMENTAL SCIENCES↗