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At least 343 records · Page 19

Identification of ancestral gnathostome Gli3 enhancers with activity in mammals

Abnormal expression of the transcriptional regulator and hedgehog (Hh) signaling pathway effector Gli3 is known to trigger congenital disease, most frequently affecting the central nervous system (CNS) and the limbs. Accurate delineation of the genomic cis-regulatory landscape controlling Gli3 transcription during embryonic development is critical for the interpretation of noncoding variants associated with congenital defects. Here, we employed a comparative genomic analysis on fish species with a slow rate of molecular evolution to identify seven previously unknown conserved noncoding elements (CNEs) in Gli3 intronic intervals (CNE15–21). Transgenic assays in zebrafish revealed that most of these elements drive activities in Gli3 expressing tissues, predominantly the fins, CNS, and the heart. Intersection of these CNEs with human disease associated SNPs identified CNE15 as a putative mammalian craniofacial enhancer, with conserved activity in vertebrates and potentially affected by mutation associated with human craniofacial morphology. Finally, comparative functional dissection of an appendage-specific CNE conserved in slowly evolving fish (elephant shark), but not in teleost (CNE14/hs1586) indicates co-option of limb specificity from other tissues prior to the divergence of amniotes and lobe-finned fish. In conclusion, these results uncover a novel subset of intronic Gli3 enhancers that arose in the common ancestor of gnathostomes and whose sequence components were likely gradually modified in other species during the process of evolutionary diversification.

59 BASIC BIOLOGICAL SCIENCES↗

Evaluation of survival estimates generated from tracking downstream migrating juvenile sea lamprey ( Petromyzon marinus ) with a miniature acoustic telemetry tag

Fish that undertake juvenile migration pass through habitats that vary in mortality risk. The ability to identify regions of persistently low survival would improve fishery management. We conducted a field study combined with predictive modeling of survival in downstream migrating juvenile sea lamprey using a new micro-acoustic telemetry tag designed for implantation into small, slender-bodied fishes. Detection data were collected from eight receivers placed across a coastal riverine–wetland–lake complex. Juvenile sea lamprey initiated downstream movement near nautical twilight, stopped frequently, and were more likely to move during high river discharge. Estimated survival was highest in the riverine reach, declined through the river–wetland complex, and dropped precipitously in the drowned rivermouth lake. However, the high transmission rate and resulting short battery life of the microtransmitters (as configured) likely resulted in missed detections in the lower reaches. Simulation analyses suggested survival estimation could be improved by increasing the number of tagged lamprey and staggering release locations. We offer practical recommendations for the use of this new transmitter in field studies with small anguilliform fish.

59 BASIC BIOLOGICAL SCIENCES↗

A subdermal tagging technique for juvenile sturgeon using a new self-powered acoustic tag

Abstract Background A new technology for a self-powered acoustic tag (SPT) was developed for active tracking of juvenile fish, intended to avoid the typical battery life constraints associated with active telemetry technology. We performed a laboratory study to evaluate a subdermal tagging technique for the SPT and effects of the tag on survival, tag retention, and growth in juvenile white sturgeon ( Acipenser transmontanus ). Results Survival was associated with tag retention. White sturgeon implanted with the SPT ( n = 30) had 93% survival and tag retention by day 28, 67% by day 101, and 38% by day 595 post-tagging. Sturgeon implanted with a passive integrated transponder (PIT) tag only (control group) had 96% survival and tag retention by day 28, and through day 101 post-tagging. Fish in the PIT group were repurposed after day 101, so no comparisons with this group were made at day 595 post-tagging. Specific growth rate (SGR) for fork length was a median of 0.25% day −1 by day 28 for the SPT group, which was significantly lower than the PIT group (median: 0.42% day −1 ; n = 27). The SPT and PIT groups had similar SGR fork length by day 101 post-tagging (0.22 and 0.25% day −1 , respectively). SGR weight was also lower for the SPT group compared to the PIT group on day 28 (1.39 and 2.11% day −1 , respectively), but the difference again dissipated by day 101 (0.79 and 0.88% day −1 , respectively). Conclusion The tagging technique and placement of the SPT allowed the tag to remain upright along the flank of the sturgeon to ensure maximum battery output of the SPT; however, retention rates of the SPT were not ideal. We provided suggestions to improve the tagging technique. Suggestions included tagging fish that are > 400 mm FL, moving the incision location to extend the cavity and create a pocket for the placement of the SPT, and performing a quantitative wound-healing evaluation. Future studies are therefore recommended to evaluate these suggestions.

59 BASIC BIOLOGICAL SCIENCES↗

Characterizing juvenile salmon predation risk during early marine residence

Predation mortality can influence the distribution and abundance of fish populations. While predation is often assessed using direct observations of prey consumption, potential predation can be predicted from co-occurring predator and prey densities under varying environmental conditions. Juvenile Pacific salmon Oncorhynchus spp. (i.e., smolts) from the Columbia River Basin experience elevated mortality during the transition from estuarine to ocean habitat, but a thorough understanding of the role of predation remains incomplete. We used a Holling type II functional response to estimate smolt predation risk based on observations of piscivorous seabirds (sooty shearwater [ Ardenna griseus ] and common murre [ Uria aalge ]) and local densities of alternative prey fish including northern anchovy ( Engraulis mordax ) in Oregon and Washington coastal waters during May and June 2010–2012. We evaluated predation risk relative to the availability of alternative prey and physical factors including turbidity and Columbia River plume area, and compared risk to returns of adult salmon. Seabirds and smolts consistently co-occurred at sampling stations throughout most of the study area (mean = 0.79 ± 0.41, SD), indicating that juvenile salmon are regularly exposed to avian predators during early marine residence. Predation risk for juvenile coho ( Oncorhynchus kisutch ), yearling Chinook salmon ( O . tshawytscha ), and subyearling Chinook salmon was on average 70% lower when alternative prey were present. Predation risk was greater in turbid waters, and decreased as water clarity increased. Juvenile coho and yearling Chinook salmon predation risk was lower when river plume surface areas were greater than 15,000 km 2 , while the opposite was estimated for subyearling Chinook salmon. These results suggest that plume area, turbidity, and forage fish abundance near the mouth of the Columbia River, all of which are influenced by river discharge, are useful indicators of potential juvenile salmon mortality that could inform salmonid management.

Phillips, Elizabeth M. (ORCID:0000000327752563)↗

Cumulative effects of piscivorous colonial waterbirds on juvenile salmonids: A multi predator-prey species evaluation

We investigated the cumulative effects of predation by piscivorous colonial waterbirds on the survival of multiple salmonid ( Oncorhynchus spp.) populations listed under the U.S. Endangered Species Act (ESA) and determined what proportion of all sources of fish mortality (1 –survival) were due to birds in the Columbia River basin, USA. Anadromous juvenile salmonids (smolts) were exposed to predation by Caspian terns ( Hydroprogne caspia ), double-crested cormorants ( Nannopterum auritum ), California gulls ( Larus californicus ), and ring-billed gulls ( L . delawarensis ), birds known to consume both live and dead fish. Avian consumption and survival probabilities (proportion of available fish consumed or alive) were estimated for steelhead trout ( O . mykiss ), yearling Chinook salmon ( O . tshawytscha ), sub-yearling Chinook salmon, and sockeye salmon ( O . nerka ) during out-migration from the lower Snake River to the Pacific Ocean during an 11-year study period (2008–2018). Results indicated that probabilities of avian consumption varied greatly across salmonid populations, bird species, colony location, river reach, and year. Cumulative consumption probabilities (consumption by birds from all colonies combined) were consistently the highest for steelhead, with annual estimates ranging from 0.22 (95% credible interval = 0.20–0.26) to 0.51 (0.43–0.60) of available smolts. The cumulative effects of avian consumption were significantly lower for yearling and sub-yearling Chinook salmon, with consumption probabilities ranging annually from 0.04 (0.02–0.07) to 0.10 (0.07–0.15) and from 0.06 (0.3–0.09) to 0.15 (0.10–0.23), respectively. Avian consumption probabilities for sockeye salmon smolts was generally higher than for Chinook salmon smolts, but lower than for steelhead smolts, ranging annually from 0.08 (0.03–0.22) to 0.25 (0.14–0.44). Although annual consumption probabilities for birds from certain colonies were more than 0.20 of available smolts, probabilities from other colonies were less than 0.01 of available smolts, indicating that not all colonies of birds posed a substantial risk to smolt mortality. Consumption probabilities were lowest for small colonies and for colonies located a considerable distance from the Snake and Columbia rivers. Total mortality attributed to avian consumption was relatively small for Chinook salmon (less than 10%) but was the single greatest source of mortality for steelhead (greater than 50%) in all years evaluated. Results suggest that the potential benefits to salmonid populations of managing birds to reduce smolt mortality would vary widely depending on the salmonid population, the species of bird, and the size and location of the breeding colony.

Evans, Allen F.↗

Hydrologic Evaluation of Smallmouth Bass Spawning Sites in the Upper Green River Using LiDAR

The smallmouth bass has been considered one of the most problematic invasive species in the upper Colorado River basin. As a predator of larval fish and juveniles, this nonnative species is an impediment to conservation efforts for endangered fish species of the Colorado River basin including Colorado pikeminnow (Ptychocheilus lucius), razorback sucker (Xyrauchen texanus), humpback chub (Gila cypha), and bonytail chub (Gila elegans). Several measures have been recommended to control smallmouth bass populations to conserve the endangered fish species. Among these measures are efforts to control flows during the spawning season to disrupt smallmouth bass reproduction. Previous work has suggested that smallmouth bass spawning in areas of the Green River could be inhibited during higher flows from the Flaming Gorge Dam due to lack of suitable habitat. Little research has been conducted to evaluate an optimal range of flow increases (“flow spikes”) needed to disrupt smallmouth bass reproduction in the Green River. Current research proposals to evaluate the effectiveness of flow spikes on controlling smallmouth bass reproduction target post-spawning flows of 4,500 cfs, maintained for three days, to inundate side-channel spawning habitats. In this report, we present results of a topographic study of smallmouth bass spawning sites in the upper Green River to characterize flow levels needed to inundate spawning habitats. This study used remotely sensed Light Detection and Ranging (LiDAR) data collected along the entire Green River, including channel margins and floodplain areas, to model water surface elevations and flow spikes needed to connect and inundate smallmouth bass spawning sites.

59 BASIC BIOLOGICAL SCIENCES↗

Making a Deal with the Devilfish: Biometric-Informed Screening Technology CRADA - 514 (Final Report)

This report documents an investigation into the performance of a novel fish-protection screen intended to prevent small aquatic and marine organisms from entering water intakes in free-flowing water bodies. The proposed prototype screen resembles conventional, slotted fish-protection screens with parallel wires or bars; however, the prototype bars are shaped to mimic the filter elements in the mouths of filter-feeding fishes such as the devil ray (Mobula tarapacana). Millions of years of evolution have perfected these structures to provide energetically efficient and clog-resistant filtering of zooplankton from seawater. The intent of the prototype is to exploit these mechanisms for the protection of similarly sized, or larger, organisms in settings where the freely flowing current is approximately parallel with the screen face (i.e., sweeping flow) and perpendicular to the screen bars.

42 ENGINEERING↗

PNNL CRADA No. 488, Amendment 2 with Natel Energy, Inc.: The Center Sender

Under the Cooperative Research and Development Agreement (CRADA) No. 488, awarded to Natel Energy, Inc. (Natel) for third place in the Fish Protection Prize 2020 initiative, research was conducted on the Center Sender concept, a simple physical or combined physical and electrical device intended to guide fish to the safest path through a hydropower intake or water diversion. Applying this to a hydropower turbine, the Center Sender can be designed to divert fish to the center of the turbine, where blade velocities are slower and the risk of severe injuries due blade strike, pinching, and grinding are reduced.

13 HYDRO ENERGY↗

Solar-Plus-Storage Program Design: Frameworks and Examples [Slides]

The Columbia River Treaty Tribes in the Pacific Northwest - the Nez Perce, Umatilla, Warm Springs, and Yakama - hold treaty-reserved fishing rights for the Columbia River, the largest river in North America flowing into the Pacific Ocean. The four Tribes, through the Columbia River Inter-Tribal Fish Commission (CRITFC), prepared a vision for a more harmonized energy and water system in their 2022 Energy Vision for the Columbia River Basin. In it, the four Tribes envision a future where the Columbia Basin electric power system supports healthy and harvestable fish and wildlife populations, protects Tribal treaty and cultural resources, and provides clean, reliable, and affordable electricity. To help realize the Energy Vision, CRITFC received technical assistance from the National Renewable Energy Laboratory (NREL) through the Communities Local Energy Action Program (LEAP) pilot with the goal of ensuring that the Tribes are fully informed and prepared to integrate their interests into regional power system planning. This resource aims to provide an overview of program and policy design frameworks for behind-the-meter (BTM) energy storage and solar-plus-storage programs and examples from across the United States. This information is intended to build CRITFC's understanding of potential policies and program designs that could support the deployment of solar photovoltaics (PV) and energy storage in the Pacific Northwest.

14 SOLAR ENERGY↗

HBET V3.0 Installation Manual

The Hydropower Biological Evaluation Toolset (HBET) V3.0 now requires Python v3.11.0 to be installed, following the addition of the absolute fish injury rate prediction feature. This version introduces two new strike metrics—based on velocity and pressure—to provide a more precise understanding of the biological effects of fish collisions with rigid structures within the fish passage system. Additionally, SQL Server 2019 is the supported database for this release. This installation guide will walk users through the process of installing HBET V3.0 along with all necessary dependencies.

13 HYDRO ENERGY↗

Hydropower Biological Evaluation Toolset (HBET) Version 3.0: User Guide

The Hydropower Biological Evaluation Tools (HBET) software package, developed by Pacific Northwest National Laboratory (PNNL), is designed to assemble, organize, and process data collected by Sensor Fish and live fish. HBET enable users to characterize the hydraulic conditions of hydropower structures and estimate fish injury and mortality rates from various stressors. Future updates of the software may support other technologies, such as bead tracking in physical models and computational fluid dynamics. The HBET program can be customized to analyze different hydraulic applications, including turbines, spillways, weirs, pumped storage, and other user-defined functions, and therefore, help researchers, turbine designers, hydropower operators, and regulators better evaluate hydropower structures regarding their environmental sustainability and cost-effectiveness. Added content to the user guide about the new feature for predicting absolute injury rates.

13 HYDRO ENERGY↗

Molecular To Mesoscale Targeting of Oxoanions with Multi-Tasking Hosts

Achieving a better understanding of anion interactions both in solution and crystalline state was the overarching goal of this project. Anions are everywhere throughout Nature and play important roles in biological and environmental processes. They can be beneficial or deleterious or both in different situations and concentrations. For either reason it is important to have molecules that can bind anions for key needs that benefit society. However, recognition of specific anions is challenging due to the diffuse nature of their negative charge(s) as well as their various shapes and sizes. Understanding the basic properties of anions and how they interact with other molecules and ions in surrounding environments is key to selective recognition. In this project multi-tasking molecules for selective binding of targeted anions were designed to achieve cooperativity and synergism in one rather than multiple host molecules, including (1) cation:anion pair hosts for anions with charges of -2 or greater; (2) pH and redox activated hosts for on-off binding and release; and (3) multiple anion capture in extended host networks. Our design strategy was to combine the use of simple inexpensive building blocks and high yield synthetic pathways to provide economically feasible scale-up for applications. Oxoanions representing multiple shapes and charges were chosen based on having the potential for significant impact on DOE separations needs. Amide/amine-based macrocycles and urea/amine-based chelates and macrocycles with multiple hydrogen bonding sites provided the basic anion-binding frameworks. Successful multi-tasking outcomes were forthcoming in all three tasks. In Task 1, successful ion pair binding for anions with multiple charges was achieved. Furthermore, the ion pair molecules were capable of extended interactions through supramolecular intertwining, like fishing nets for capturing pools of fish (also fitting with Task 3). In Task 2, molecules were synthesized possessing on-off switches. These included a pH sensitive sensor for on-off binding of anions in general, as well as an electrochemical sensor selective for sulfate capture. Three new classes of extended anion host networks capable of binding multiple ions was a major outcome of Task 3. These systems included: anion sensitive, fluorescent organogels; channel-forming macrocycles for studying anion-water including larger macrocyclic cluster sandwiches; and, the offshoot of Task 1, fishing net ion-pair networks for higher valent anions. These strategies can be expanded in the future to other ions and molecules for a better understanding of intermolecular and interionic interactions.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Assessing individual movement, habitat use, and behavior of non-breeding marine birds in relation to prey availability in the US Atlantic

Resource availability is a key factor driving marine bird movements and distributions, but direct information on prey availability is difficult to obtain at relevant scales. We present novel methods for describing multi-scale trophic associations, combining movement analyses of marine birds with estimates of forage fish surface aggregations from digital aerial survey data and species occupancy from bottom trawl survey data. We analyzed satellite telemetry data from northern gannets Morus bassanus , red-throated loons Gavia stellata , and long-tailed ducks Clangula hyemalis in the US Atlantic during the non-breeding period. Using discrete-time hidden Markov models to distinguish area-restricted (i.e. putative foraging) from transit movements, we examined how environmental factors influence movement, and how forage fish species distributions and surface aggregations influence habitat use by gannets and loons that have greater dietary reliance. Our results suggest that chlorophyll a concentration significantly affected movement behavior across species, highlighting the importance of higher-productivity areas around estuaries during colder months when regional productivity is low. Though variable across species and seasons, spatial cross-correlation analysis revealed that herring species (Family Clupeidae), including Atlantic menhaden Brevoortia tyrannus , may be important resources; it also showed positive spatial correlations with forage fish aggregations. This suggests that prey patch dynamics and factors driving aggregation formation may be as important as species composition. However, spatial patterns were generally low (<0.3), suggesting a mismatch in spatiotemporal resolution, exemplifying the challenges in quantifying trophic relationships in marine systems. Disentangling predator-prey relationships is critical to understanding the mechanisms driving marine bird behavior in rapidly changing marine systems.

Environmental Sciences & Ecology↗

The BIRDIES Experiment: Measuring Beryllium Isotopes to Resolve Dynamics in the Stratosphere

Cosmogenic beryllium-10 and beryllium-7, and the ratio of the two (10Be/7Be), are powerful atmospheric tracers of stratosphere–troposphere exchange (STE) processes; however, measurements are sparse for altitudes well above the tropopause. We present a novel high-altitude balloon campaign aimed to measure these isotopes in the mid-stratosphere called Beryllium Isotopes for Resolving Dynamics in the Stratosphere (BIRDIES). BIRDIES targeted gravity waves produced by tropopause-overshooting convection to study their propagation and impact on STE dynamics, including the production of turbulence in the stratosphere. Two custom-designed payloads called FiSH and GASP were flown at altitudes approaching 30 km to measure in situ turbulence and beryllium isotopes (on aerosols), respectively. These were flown on nine high-altitude balloon flights over Kansas, USA, in summer 2022. The atmospheric samples were augmented with a ground-based rainfall collection targeting isotopic signatures of deep convection overshooting. Our GASP samples yielded mostly negligible amounts of both 10Be and 7Be collected in the mid-stratosphere but led to design improvements to increase aerosol capture in low-pressure environments. Observations from FiSH and the precipitation collection were more fruitful. FiSH showed the presence of turbulent velocity, temperature, and acoustic fluctuations in the stratosphere, including length scales in the infra-sonic range and inertial subrange that indicated times of elevated turbulence. The precipitation collection, and subsequent statistical analysis, showed that large spatial datasets of 10Be/7Be can be measured in individual rainfall events with minimum terrestrial contamination. While the spatial patterns in rainfall suggested some evidence for overshooting convection, inter-event temporal variability was clearly observed and predicted with good agreement using the 3D chemical transport model GEOS-CHEM.

58 GEOSCIENCES↗

Early Immune Modulation in European Seabass (Dicentrarchus labrax) Juveniles in Response to Betanodavirus Infection

The early host–pathogen interaction between European seabass (Dicentrarchus labrax) and Betanodavirus was examined by using juvenile fish infected intramuscularly with RGNNV (red-spotted grouper nervous necrosis virus). The time course selected for sampling (0–144 h post-infection (hpi)) covered the early stages of infection, with hematological, antioxidant and immunological responses examined. Early activation of the host’s immune system was seen in the first few hours post-infection (6 to 9 hpi), as evidenced by an increase in tnfα, cd28 and c3 expression in the head kidney of infected fish. Most hematological parameters that were examined showed significant differences between sampling times, including differences in the number of thrombocytes and various leukocyte populations. The plasma lysozyme concentration decreased significantly over the course of the trial, and most antioxidant parameters examined in the liver showed significant differences over the infection period. At 144 hpi, peak expression of tnfα and il-1β coincided with the appearance of disease symptoms, peak levels of virus in the brain and high levels of fish mortality. The results of the study show the importance of analyzing the early interactions between European seabass and Betanodavirus to establish early indicators of infection to prevent more severe outcomes of the infection from occurring.

Vaz, Mariana↗

A Small Warm Tributary Provides Prespawning Resources for Colorado Pikeminnow in a Cold Dam-Regulated River

Abstract Riverine habitat mosaics, including tributaries, are an important reason the Green River subbasin supports the largest remaining population of federally endangered Colorado Pikeminnow Ptychocheilus lucius in the Colorado River Basin. Upstream Colorado Pikeminnow distribution is limited by Flaming Gorge Dam and few typically occurred in the reach immediately downstream of the dam, which is the reach most affected by thermal and hydrologic alterations. However, fish captures and passive integrated transponder (PIT) antenna sampling of previously tagged individuals from 2011 to 2021 revealed seasonal congregations of up to 75 Colorado Pikeminnow annually in the mouth of Vermillion Creek, a small tributary in the regulated reach. Approximately 11% (N = 93 individuals) of the entire 2017–2018 Green River basin population were encountered in Vermillion Creek over the 11-y study, an underestimate of use considering that untagged fish were not detected by antennas. Colorado Pikeminnow used Vermillion Creek primarily when Green River spring flows from Flaming Gorge Dam were high and cold in May through mid-June when the confluence was a large, deep backwater warmer than the main channel and supported forage fishes. Intra-annual encounters revealed seasonal residence times for individual Colorado Pikeminnow up to 91 d, and multiple inter-annual encounters indicated site fidelity. Frequent detections of individual Colorado Pikeminnow in a Yampa River spawning area soon after their detections in Vermillion Creek indicate this tributary may be an important resource for reproductive adults. The intensive and basin-wide PIT tagging and detection program for Colorado Pikeminnow enhanced our understanding of the importance of small habitat nodes such as Vermillion Creek in the Green River drainage network. Understanding and protecting these seasonally available riverine habitat mosaics used for prespawning conditioning may assist with recovery of Colorado Pikeminnow.

Biodiversity & Conservation↗

Application of ERTS-1 imagery to the harvest model of the US Menhaden fishery

Preliminary results of an experiment to demonstrate the utility of ERTS-1 imagery for providing significant information to the harvest model of the menhaden industry are reported. Fisheries and related environmental data were obtained discontinuously throughout the 1973 menhaden (a surface schooling, coastal species) fishing season in Mississippi Sound. The unexpected complexity of the physical environment in Mississippi Sound precluded simplistic analysis of fish/environment relationships. Preliminary indications are that an association does exist between fish availability and differences in water transparency (turbidity) within the Sound. A clearer relationship is developing between major turbid features, imaged by ERTS-1 and location of successful fishing attempts. On all occasions where relatively cloudfree ERTS-1 overflight days coincided with fishery activity, overlays of catch location of ERTS-1 images show an association of school position with interfaces between imaged turbid features. Analysis is currently underway to determine persistence of such associations in an attempt to define minimum satellite return time necessary to maintain continuity of associations.

Maughan, P. M.↗

Human eye movements during various forms of linear acceleration and weightlessness

Eye movements of human subjects were recorded electronystagmographically in complete darkness during rectilinear horizontal accelerations as achieved in cars on the ground and also during aircraft parabolic flight. The results were compared to the movements of blinded goldfish subjected to similar changes of gravitoinertial forces. The results indicate that there is a human correlation with the gravity reference response of fish. During horizontal forward accelerations on the ground the human eyes turn downward and during horizontal backward acceleration the eyes turn upward. The human eye response to g-loads below 1 g and to weightlessness is the reverse of the tilt of the fish. While fish dive down during low g, or loop forward during weightlessness, the eyes of subjects sitting upright in an aircraft which flies at 0 g move upward.

Vonbaumgarten, R. J.↗