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DOE OSTI2025

Towards automated and real-time multi-object detection of anguilliform fishes from sonar data using YOLOv8 deep learning algorithm

Eels (Anguilla spp.), including American eels (Anguilla rostrata), European eels (Anguilla anguilla), and Japanese eels (Anguilla japonica), are species of critical management and regulatory concern due to their vulnerability to various stressors during downstream migrations. Accurate and efficient detection of migrating eels can improve our understanding of fish behaviors and fish-hydraulic structure interactions, thereby facilitating the design, operation, and optimization of more effective downstream passage facilities from both biological and economic perspectives. However, a real-time, automated framework for detecting migrating eels in real-world applications is currently lacking. Leveraging imaging sonar as a reliable technology for fish passage monitoring, field data are acquired using imaging sonar and then converted to single sonar frames/images for subsequent analysis. In this study, a framework based on the You Only Look Once Version 8 (YOLOv8)-based convolutional neural network is proposed for multi-object detection of eels and non-eel fish using the sonar images after image subtraction and additional wavelet denoising. The results from both training and testing phases demonstrate that the framework's ability can successfully detect both eels and non-eel fish in preprocessed sonar images, achieving F1-scores and mAP@0.50 exceeding 0.84. Additionally, the incorporation of wavelet denoising during preprocessing slightly improve detection performance. Furthermore, the transferability of this framework from eel to lamprey detection is demonstrated to be feasible given the similar morphological characteristics of these two species. Overall, the proposed framework achieves accurate and efficient detection of migrating eels, providing reliable and real-time information that can help conserve vulnerable eel and eel-like populations.

Deep learning↗

DOE OSTI2025

Overview of Fish Passage Facilities at Hydropower Developments across the Conterminous United States

This dataset contains geo-referenced information on the presence and types of fish passage facilities at hydropower developments across the conterminous United States (CONUS) presented in the ORNL Hydropower Fish Passage Database Webmap (https://www.ornl.gov/project/quantifying-national-fish-passage-data/webmap). It was developed through collaborative partnerships with fish passage engineers and biologists at both the US Fish and Wildlife Service (USFWS) and the National Marine Fisheries Service (NMFS), and hydropower experts at the Low Impact Hydropower Institute (LIHI). Information contained within this dataset has been provided by many different sources, including State and Federal resource management agencies, non-governmental organizations, hydropower industry members, and published datasets=. This dataset is intended to provide a high-level overview of the distribution of fish passage infrastructure at hydropower developments across CONUS; a more comprehensive database is anticipated to be released later in 2025. This dataset contains one data file in comma-separate (*.csv) format and the information within it was last updated on 24 March 2025.

13 HYDRO ENERGY↗

NASA NTRS1977

Implantable acoustic-beacon automatic fish-tracking system

A portable automatic fish tracking system was developed for monitoring the two dimensional movements of small fish within fixed areas of estuarine waters and lakes. By using the miniature pinger previously developed for this application, prototype tests of the system were conducted in the York River near the Virginia Institute of Marine Science with two underwater listening stations. Results from these tests showed that the tracking system could position the miniature pinger signals to within + or - 2.5 deg and + or - 135 m at ranges up to 2.5 km. The pingers were implanted in small fish and were successfully tracked at comparable ranges. No changes in either fish behavior or pinger performance were observed as a result of the implantation. Based on results from these prototype tests, it is concluded that the now commercially available system provides an effective approach to underwater tracking of small fish within a fixed area of interest.

Mayhue, R. J.↗

NASA NTRS1989

Continental shelf fish production estimation from CZCS chlorophyll data

A method for ocean fish production estimation was proposed for development. The method was to use data acquired with the Coastal Zone Color Scanner, and processed into chlorophyll concentrations by the GSFC ocean Sciences Division, in combination with fish production and primary production data acquired from different ocean areas. A linear relation exits between annual fish production and annual phytoplankton carbon production for a wide range of coastal ocean environments. The uses of several existing algorithms which relate primary production to CZCS chlorophyll data as input to the fish production regression model is proposed. A question relating phytoplankton production to CZCS chlorophyll was obtained by Eppley (1984) using chlorophyll data obtained from field samples, equivalent to chlorophyll data obtained from CZCS imagery, and primary production data obtained from ship-board observations on a wide variety of coastal and open ocean environments. This equation was modified with additional data and was successfully tested using CZCS data and field chlorophyll and phytoplankton production data obtained from northeastern North American continental shelf waters and Atlantic open ocean waters. The modified Eppley (1984) relation also estimated phytoplankton annual carbon production in the Sargasso Sea within the confidence limits of a mean value obtained from the Eppley (1984) equation for oceanic waters that provide about 90 percent of total ocean primary production. The modified Eppley production formula applied to CZCS chlorophyll data obtained from several northeastern North American coastal environments gave phytoplankton annual carbon production values similar to the values used in the fish production regression equation.

Iverson, Richard L.↗

NASA NTRS1995

Hand-portable gas chromatography-ion mobility spectrometer for the determination of the freshness of fish

A hand-held, portable gas chromatography-ion mobility spectrometer (GC-IMS) device was used to detect the presence of volatile amine compounds in the headspace of decomposing fish. The Food and Drug Administration (FDA) largely relies on olfactory discrimination with respect to fresh and spoiled, frozen and unfrozen fish. The fish are delivered at ship docks on pallets, and each pallet of fish can range from 30-40 thousand dollars in value. Fresh fish were placed in a teflon bag and the direct headspace was interrogated. In the first three days, only low molecular weight volatile amines were detected. On the fourth day, a number of spectral signatures were observed which indicated the presence of 1,5-diaminopentane, cadaverine. Analyses typically took from 0.5-1 minute.

Snyder, A. Peter↗

DOE OSTI2025

Per- and polyfluoroalkyl substances (PFAS) in fish collected from the Rio Grande and reservoirs in northern New Mexico

Per- and polyfluoroalkyl substances (PFAS) are a group of industrial and commercial chemicals widely used throughout the world due to their beneficial chemical properties. Because of their widespread use, their chemical stability, and their ability to be transported over long distances through atmospheric deposition and movement through waterways, PFAS are found throughout most aquatic ecosystems; yet large sampling gaps exist among reservoir and river ecosystems in the desert southwest of the United States. In this study, we examine PFAS concentrations in the tissue of fish (catfish [channel and blue], common carp, smallmouth bass, northern pike, walleye, white crappie and white sucker) collected in northern New Mexico, including examining PFAS composition and concentration relative to trophic level distribution. We collected fish from two man-made reservoirs and from the Rio Grande. We then collected muscle and liver tissues from fish specimens, which were screened for 39 PFAS compounds. We detected PFAS compounds in most fish tissue sampled, including the biomagnification of PFAS compounds within liver samples, with PFOS concentrations ranged from 1.13 to 350.1 (64.4 average) times higher in the liver samples compared to muscle samples. Most PFAS concentrations within muscle samples were within the range of atmospheric transportation previously reported and average tissue concentrations of PFAS were calculated to be 2.02 ± 1.81 ng g -1 . Using stable isotopes as a predictor of trophic-foraging exposure and PFAS concentrations, we noted a correlation between enriched δ 15 N values, which had higher perfluorodecanoic acid concentrations.

54 ENVIRONMENTAL SCIENCES↗

DOE OSTI2025

Autonomous sensor suite for evaluating fish-turbine interactions and environmental impacts in marine renewable energy and hydropower

Marine renewable energy (MRE) harnesses ocean-based resources such as waves, tides, currents, and thermal or salinity gradients for sustainable power generation. It has the potential to complement existing renewable resources, support remote communities, and contribute to decarbonization efforts. However, understanding the hydrodynamic forces created by MRE devices and their impacts on marine life is critical for responsible deployment. Here, to address these concerns, advanced sensor devices, including the Marine Sensor Fish (MSF), Sensor Fish Mini (SF Mini), and Flexible Sensor Fish (FSF), were developed to measure interactions between aquatic organisms and MRE systems. This paper details the design, manufacturing, calibration, and field deployment of these sensor suites, highlighting their ability to capture key physical stressors such as shear forces, pressure changes, and collision impacts. The MSF successfully evaluated turbine interactions at a tidal turbine in the Salish Sea, capturing data on turbulence, collision impact, and pressure gradients. The SF Mini validated hydrodynamic conditions in scaled hydraulic models, supporting computational fluid dynamics simulations. The FSF, with its flexible silicone body, measured species-specific impacts in turbulent environments. This research demonstrates the potential of Sensor Fish technology to advance sustainable marine energy systems by reducing biological impacts and informing environmentally sustainable designs.

Ecological impacts↗

NASA NTRS2002

Fish oil increases mitochondrial phospholipid unsaturation, upregulating reactive oxygen species and apoptosis in rat colonocytes

We have shown that a combination of fish oil (high in n-3 fatty acids) with the butyrate-producing fiber pectin, upregulates apoptosis in colon cells exposed to the carcinogen azoxymethane, protecting against colon tumor development. We now hypothesize that n-3 fatty acids prime the colonocytes such that butyrate can initiate apoptosis. To test this, 30 Sprague-Dawley rats were provided with diets differing in the fatty acid composition (corn oil, fish oil or a purified fatty acid ethyl ester diet). Intact colon crypts were exposed ex vivo to butyrate, and analyzed for reactive oxygen species (ROS), mitochondrial membrane potential (MMP), translocation of cytochrome C to the cytosol, and caspase-3 activity (early events in apoptosis). The fatty acid composition of the three major mitochondrial phospholipids was also determined, and an unsaturation index calculated. The unsaturation index in cardiolipin was correlated with ROS levels (R = 0.99; P = 0.02). When colon crypts from fish oil and FAEE-fed rats were exposed to butyrate, MMP decreased (P = 0.041); and translocation of cytochrome C to the cytosol (P = 0.037) and caspase-3 activation increased (P = 0.032). The data suggest that fish oil may prime the colonocytes for butyrate-induced apoptosis by enhancing the unsaturation of mitochondrial phospholipids, especially cardiolipin, resulting in an increase in ROS and initiating apoptotic cascade.

Non-NASA Center↗

NASA NTRS2001

Complex expression patterns of lymphocyte-specific genes during the development of cartilaginous fish implicate unique lymphoid tissues in generating an immune repertoire

Cartilaginous fish express canonical B and T cell recognition genes, but their lymphoid organs and lymphocyte development have been poorly defined. Here, the expression of Ig, TCR, recombination-activating gene (Rag)-1 and terminal deoxynucleosidase (TdT) genes has been used to identify roles of various lymphoid tissues throughout development in the cartilaginous fish, Raja eglanteria (clearnose skate). In embryogenesis, Ig and TCR genes are sharply up-regulated at 8 weeks of development. At this stage TCR and TdT expression is limited to the thymus; later, TCR gene expression appears in peripheral sites in hatchlings and adults, suggesting that the thymus is a source of T cells as in mammals. B cell gene expression indicates more complex roles for the spleen and two special organs of cartilaginous fish-the Leydig and epigonal (gonad-associated) organs. In the adult, the Leydig organ is the site of the highest IgM and IgX expression. However, the spleen is the first site of IgM expression, while IgX is expressed first in gonad, liver, Leydig and even thymus. Distinctive spatiotemporal patterns of Ig light chain gene expression also are seen. A subset of Ig genes is pre-rearranged in the germline of the cartilaginous fish, making expression possible without rearrangement. To assess whether this allows differential developmental regulation, IgM and IgX heavy chain cDNA sequences from specific tissues and developmental stages have been compared with known germline-joined genomic sequences. Both non-productively rearranged genes and germline-joined genes are transcribed in the embryo and hatchling, but not in the adult.

Non-NASA Center↗

NASA NTRSDate not supplied

FATE: The drifting Fish Aggregating Device (dFAD) TrajEctory Modeling Tool for Marine Protected Area Management

Drifting fish aggregating devices (dFADs) routinely enter marine protected areas (MPAs) and may undermine MPA protections by drifting out of the MPA with the aggregated fish biomass, or grounding and damaging sensitive coral reef habitats. MPA managers must decide whether to deploy resources in response to dFAD intrusions. To address this issue, we propose to quantify dFAD activity in relation to ocean currents, fish biomass, and animal telemetry at Palmyra Atoll, part of the Pacific Remote Islands Marine National Monument in the central Pacific Ocean. Specifically, we propose to develop the dFAD TrajEctory Tool (FATE). FATE is an innovative decision support tool that will use NASA observations and numerical models to predict future dFAD trajectories and inform TNC and USFWS whether they should deploy tactical resources (boats, personnel) to monitor, intercept, or retrieve dFADs that have entered the Refuge. The objectives are to use NASA observational constraints on ocean winds and currents to assist with the ecological management of the Palmyra Atoll NWR and MPA. Specifically, we will deliver an operational software tool that quantifies the grounding risk associated with each tracked dFAD and decision support for grounding risk mitigation via intercept at sea. This project addresses Element 3.3: Protected area management of the 2022 Ecological Conservation Solicitation by developing a tool needed by MPA managers to make tactical and strategic decisions focused on improving the effectiveness of MPAs. By quantifying the riskof dFADs, this project will help monitor and better inform the deployment of tactical (ships/personnel) and strategic (legislative) resources to better manage MPAs. This project is a collaboration between The Nature Conservancy, who operate long-term projects within the Palmyra MPA, and the U.S. Fish and Wildlife Service, who have the authority to make decisions related to its management. We expect that the results of our proposal will benefit marine resources within the Palmyra MPA and could be transferred to other remote MPAs within the US and other island nations within the Pacific Ocean.

TrajEctory↗

DOE OSTI2024

Definition and Execution of Regulatory requirements for acceptance of the Whooshh Fish Transport System (Abstract)

The purpose of this project is to assist in the definition, summarization, and execution of the regulatory requirements that validate the Whooshh Fish Transport System (WFTS) as an accepted method of fish passage transport for Endangered Species Act- (ESA) listed species; moving these fish past in-stream barriers, such as hydropower facilities. Validation of this technology, through testing by PNNL, means that regulatory agencies will have documented evidence from which to support an approval decision enabling Whooshh to quickly commercialize their product for use in waterways with ESA listed species and provide the hydropower relicense/development marketplace a viable solution to the fish passage problem that threatens the hydropower industry. Given the definition of “take” in the ESA, without validation, commercialization in this space in the U.S. will not happen because the regulatory agencies will not have the determinative study results they require to authorize the use of this new technology that interact with ESA-listed species.

13 HYDRO ENERGY↗

DOE OSTI2025

Evaluating User Errors and Temporal Trends in Marine Fish Communities Using 360-Degree Underwater Photography

The use of environmental DNA (eDNA) sampling has been proposed as a complementary method to monitor fish species in marine environments, offering a non-invasive and potentially more efficient approach to marine species observations. eDNA monitoring could be especially useful in and around sites targeted for marine energy generation as these regions need regular monitoring that would be impractical with traditional techniques. Before we can fully rely upon eDNA, we must first verify its accuracy against other proven methods, such as the use of underwater photography. In this study, I deployed a 360-degree camera in the tidal channel of Sequim Bay once a month during several hours overlapping slack tide. I investigated how having multiple people identify and count fish on underwater images could affect the overall results. Using chi square tests in R, I compared my fish identifications and counts to those made by another intern on the same images recorded in August. I found significant differences in the number of species identified and the total individual counts between the two different datasets. I also tested the statistical differences in both Shannon diversity and Pielou evenness indices between the August, September, and November camera deployments using a Hutcheson t-test. Only one significant difference was found in the Shannon index comparisons, and none were found between the Pielou evenness comparisons. These findings show that if multiple identifiers are used to process underwater images, quality control checks must be made to reduce the potential for error. This also points toward the possibility to leverage more advanced image analysis processes, such as automated image analysis software. The findings from this study also show that the dynamics of marine fish communities can vary over a few months; however, further analysis is needed to determine the extent of the seasonal changes in Sequim Bay.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2025

Evaluation of Howard A. Hanson Dam Juvenile Fish Passage and Survival Study: Downstream Passage and Survival (Acoustic Telemetry) (Task Final Report)

The Downstream Passage and Survival (Acoustic Telemetry) task was one of several tasks for the Evaluation of Howard A. Hanson Dam (HAHD) Juvenile Fish Passage and Survival study. For this task, a juvenile fish passage and survival study was conducted at HAHD from March 10, 2024 through June 27, 2024 for arrays in the HAHD Reservoir and Green River, and through July 9, 2024 for the arrays in the Duwamish River. Fish releases occurred over four times from March through May. Active tag (acoustic telemetry) technology was used to provide biological baseline information for the passage and survival of juvenile Puget Sound (PS) Chinook salmon (Oncorhynchus tshawytscha). Results will be used by biologists, engineers, resource managers, and regional decision-makers to inform the engineering design of the new fish passage facility (FPF) at HAHD. However, hatchery sub-yearling PS Chinook salmon of the appropriate size for tag implantation during the study period (> 95 mm in fork length, Geist et al. 2018) were unavailable. Therefore, yearling Coho salmon (O. kisutch) were used as a surrogate species for this acoustic telemetry study.

13 HYDRO ENERGY↗

NASA NTRS1978

Locomotor behavior of fish hatched from embryos exposed to flight conditions

Embryos of Fundulus heteroclitus in various stages of development were exposed to space flight conditions aboard Apollo spacecraft and Cosmos satellites. The objective of the study was to ascertain whether fish hatched from these embryos displayed locomotor behavior different from that of control fish of the same age. An electronic monitoring technique was used to record behavior. Results indicate no change in locomotor behavior in fish on Apollo Spacecraft, but inexplicable significant changes were noted in fish aboard Cosmos Satellites.

Kleerekoper, H.↗

NASA NTRS1978

Effect of prehatching weightlessness on adult fish behavior in dynamic environments

At 16-17 months of age, three groups of fish from the embryonated eggs in the ASTP killifish experiment were subjected to postflight tests consisting of rapidly changing environments. It was found that the group of fish with the least amount of development at orbital insertion (A-32) had a decreased rheotropism for both the moving background and the rotating water current tests when compared to ground control fish. Exposure to parabolic aircraft flight conditions revealed that the A-32 fish were less disoriented during zero gravity periods and were hypersensitive to high-gravity periods. These results suggested a modified vestibular competency due to a 9-d prehatching weightlessness exposure.

Hoffman, R. B.↗

NASA NTRS1995

Sensory Cells of the Fish Ear: A Hairy Enigma

Analysis of the structure of the ears in teleost fishes has led to the tentative suggestion that otolithic endorgans may function differently, in different species. Recently, evidence has demonstrated different 'types' of sensory hair cells can be found in the ears of teleost fishes, and individual hair cell types are found in discrete regions of individual sensory, epithelia. The presence of multiple hair cell types in fishes provides strong support to the hypothesis of regional differences in the responses of individual otolithic sensory epithelia. The finding of hair cell types in fishes that closely resemble those found in amniote vestibular endorgans also suggests that hair cell heterogeneity arose earlier in the evolution of the vertebrate ear than previously thought.

Popper, A. N.↗

DOE OSTI2024

Fish Friendly Water Rules' Impact On the Power Grid with High VRE Levels

Columbia River basin multipurpose reservoirs are operated for hydropower production and many other purposes considering the aquatic habitat of the river basin. Specifically, the river basin fish population is a vital element for the tribal community of the river basin. When conventional thermal power plants are retired, hydropower flexibility balances the wind and solar variability of the power grid and provides grid services to maximize the high renewable power absorption. On the other hand, over-reliance on hydropower could harm the river basin fish habitat. For example, water release pulses during peak electricity demand hours and shorter-term water release variation could harm the fish population. Power grid planners, environmentalists, Columbia Basin tribes, hydro regulators, and water resource planners work together to understand the impacts of Columbia River basin operation in a fish-friendly way in the current power grid and power grid with higher renewable power share. We examine different levels of renewable share in the Western Interconnection to understand the multiple weather years and future climate projection and operating scenario impact on the power grid and water system. We measure power grid impacts for various water resources planning scenarios in terms of total system operating cost, system reliability indicators, changes in wind and solar generation and curtailments, local marginal prices, and revenue for hydropower producers. The study results inform reservoir operating rules decisions from hydropower power producers, system operators, other water users, tribes, environmentalists, and other stakeholders.

environmental↗

DOE OSTI2025

Analysis of the linear and nonlinear stability of Alfven eigenmodes and fish-bones in JET DT discharges: mode identification and shear flows generation

The plasma in future nuclear fusion reactors will be heated by neutral beam injectors (NBIs) and high frequency electromagnetic waves as well as fusion born alpha particles. Energetic particles (EPs), with energies up to two orders of magnitude larger than the thermal plasma, can trigger EP driven modes and induce harmful EP losses, reducing the plasma heating efficiency and the economical viability of the reactor. The present study is dedicated to analyze the Alfven Eigenmode (AE) activity in JET D–T discharges, the closest experiment to reactor-like operation performed until now. There, EP driven modes are induced by the combined effect of tangential NBIs and ion cyclotron resonance heating (ICRH) driven EP. Linear and nonlinear simulations are performed with the gyro-fluid FAR3d code to analyze the AE activity observed in the discharge 99896. The linear simulations reproduce the unstable n = 3 to 5 toroidal AEs (TAE) at the inner plasma region observed in the experiment, triggered by highly energetic passing deuterium populations injected by the tangential NBIs, further accelerated by the effect of the ICRH up to 1 MeV. In addition, fish-bones triggered by energetic trapped hydrogen induced by the ICRH are also reproduced. On the other hand, the alpha particles density is too small to destabilize AEs in the experiment. Nonetheless, increasing artificially the alpha density by one order of magnitude, an n = 1 beta induced AE can be destabilized in the inner plasma region. Nonlinear simulations indicate the generation of zonal structures during the AE/fish-bone saturation phase. TAE and fish-bones causes a rather weak increase of the passing D and trapped H EP (around 2%), respectively. Shear flows and zonal currents are generated during the saturation of TAE and fish-bones. Nonlinear simulations performed for D–T and pure deuterium thermal plasma indicate AE/fish-bone activity is weaker and shear flows are less intense in the pure deuterium case, trends consistent with the experimental observations that also indicates a deterioration of the thermal plasma confinement. Therefore, both numerical studies and experimental evidence indicate the generation of shear flows by AE/fish-bones could be connected with an improvement of the thermal plasma confinement.

AE↗