WorldWideScience

Sample records for modeling fish passage

  1. Downstream fish passage guide walls: A hydraulic scale model analysis

    Science.gov (United States)

    Mulligan, Kevin; Towler, Brett; Haro, Alexander J.; Ahlfeld, David P.

    2018-01-01

    Partial-depth guide walls are used to improve passage efficiency and reduce the delay of out-migrating anadromous fish species by guiding fish to a bypass route (i.e. weir, pipe, sluice gate) that circumvents the turbine intakes, where survival is usually lower. Evaluation and monitoring studies, however, indicate a high propensity for some fish to pass underneath, rather than along, the guide walls, compromising their effectiveness. In the present study we evaluated a range of guide wall structures to identify where/if the flow field shifts from sweeping (i.e. flow direction primarily along the wall and towards the bypass) to downward-dominant. Many migratory fish species, particularly juveniles, are known to drift with the flow and/or exhibit rheotactic behaviour during their migration. When these behaviours are present, fish follow the path of the flow field. Hence, maintaining a strong sweeping velocity in relation to the downward velocity along a guide wall is essential to successful fish guidance. Nine experiments were conducted to measure the three-dimensional velocity components upstream of a scale model guide wall set at a wide range of depths and angles to flow. Results demonstrated how each guide wall configuration affected the three-dimensional velocity components, and hence the downward and sweeping velocity, along the full length of the guide wall. In general, the velocities produced in the scale model were sweeping dominant near the water surface and either downward dominant or close to the transitional depth near the bottom of the guide wall. The primary exception to this shift from sweeping do downward flow was for the minimum guide wall angle tested in this study (15°). At 15° the flow pattern was fully sweeping dominant for every cross-section, indicating that a guide wall with a relatively small angle may be more likely to produce conditions favorable to efficient guidance. A critical next step is to evaluate the behaviour of migratory fish as

  2. Evaluation of Fish Passage at Whitewater Parks Using 2D and 3D Hydraulic Modeling

    Science.gov (United States)

    Hardee, T.; Nelson, P. A.; Kondratieff, M.; Bledsoe, B. P.

    2016-12-01

    In-stream whitewater parks (WWPs) are increasingly popular recreational amenities that typically create waves by constricting flow through a chute to increase velocities and form a hydraulic jump. However, the hydraulic conditions these structures create can limit longitudinal habitat connectivity and potentially inhibit upstream fish migration, especially of native fishes. An improved understanding of the fundamental hydraulic processes and potential environmental effects of whitewater parks is needed to inform management decisions about Recreational In-Channel Diversions (RICDs). Here, we use hydraulic models to compute a continuous and spatially explicit description of velocity and depth along potential fish swimming paths in the flow field, and the ensemble of potential paths are compared to fish swimming performance data to predict fish passage via logistic regression analysis. While 3d models have been shown to accurately predict trout movement through WWP structures, 2d methods can provide a more cost-effective and manager-friendly approach to assessing the effects of similar hydraulic structures on fish passage when 3d analysis in not feasible. Here, we use 2d models to examine the hydraulics in several WWP structures on the North Fork of the St. Vrain River at Lyons, Colorado, and we compare these model results to fish passage predictions from a 3d model. Our analysis establishes a foundation for a practical, transferable and physically-rigorous 2d modeling approach for mechanistically evaluating the effects of hydraulic structures on fish passage.

  3. A multi-scale GIS and hydrodynamic modelling approach to fish passage assessment: Clarence and Shoalhaven Rivers, NSW Australia

    Science.gov (United States)

    Bonetti, Rita M.; Reinfelds, Ivars V.; Butler, Gavin L.; Walsh, Chris T.; Broderick, Tony J.; Chisholm, Laurie A.

    2016-05-01

    Natural barriers such as waterfalls, cascades, rapids and riffles limit the dispersal and in-stream range of migratory fish, yet little is known of the interplay between these gradient dependent landforms, their hydraulic characteristics and flow rates that facilitate fish passage. The resurgence of dam construction in numerous river basins world-wide provides impetus to the development of robust techniques for assessment of the effects of downstream flow regime changes on natural fish passage barriers and associated consequences as to the length of rivers available to migratory species. This paper outlines a multi-scale technique for quantifying the relative magnitude of natural fish passage barriers in river systems and flow rates that facilitate passage by fish. First, a GIS-based approach is used to quantify channel gradients for the length of river or reach under investigation from a high resolution DEM, setting the magnitude of identified passage barriers in a longer context (tens to hundreds of km). Second, LiDAR, topographic and bathymetric survey-based hydrodynamic modelling is used to assess flow rates that can be regarded as facilitating passage across specific barriers identified by the river to reach scale gradient analysis. Examples of multi-scale approaches to fish passage assessment for flood-flow and low-flow passage issues are provided from the Clarence and Shoalhaven Rivers, NSW, Australia. In these river systems, passive acoustic telemetry data on actual movements and migrations by Australian bass (Macquaria novemaculeata) provide a means of validating modelled assessments of flow rates associated with successful fish passage across natural barriers. Analysis of actual fish movements across passage barriers in these river systems indicates that two dimensional hydraulic modelling can usefully quantify flow rates associated with the facilitation of fish passage across natural barriers by a majority of individual fishes for use in management

  4. Fish Passage Assessment of an Advanced Hydropower Turbine and Conventional Turbine Using Blade-Strike Modeling

    Directory of Open Access Journals (Sweden)

    Zhiqun Deng

    2011-01-01

    Full Text Available Hydropower is the largest renewable energy source in the world. However, in the Columbia and Snake River basins, several species of Pacific salmon and steelhead have been listed for protection under the Endangered Species Act due to significant declines of fish population. Dam operators and design engineers are thus faced with the task of making hydroelectric facilities more fish friendly through changes in hydro-turbine design and operation. Public Utility District No. 2 of Grant County, Washington, applied for relicensing from the U.S. Federal Energy Regulatory Commission to replace the 10 turbines at Wanapum Dam with advanced hydropower turbines that were designed to increase power generation and improve fish passage conditions. We applied both deterministic and stochastic blade-strike models to compare fish passage performance of the newly installed advanced turbine to an existing turbine. Modeled probabilities were compared to the results of a large-scale live-fish survival study and a Sensor Fish study under the same operational parameters. Overall, injury rates predicted by the deterministic model were higher than experimental rates of injury, while those predicted by the stochastic model were in close agreement with experimental results. Fish orientation at the time of entry into the plane of the leading edges of the turbine runner blades was an important factor contributing to uncertainty in modeled results. The advanced design turbine had slightly higher modeled injury rates than the existing turbine design; however, no statistical evidence suggested significant differences in blade-strike injuries between the two turbines, thus the hypothesis that direct fish survival rate through the advanced hydropower turbine is equal to or higher than that for fish passing through the conventional turbine could not be rejected.

  5. A computational fluid dynamics modeling study of guide walls for downstream fish passage

    Science.gov (United States)

    Mulligan, Kevin; Towler, Brett; Haro, Alexander J.; Ahlfeld, David P.

    2017-01-01

    A partial-depth, impermeable guidance structure (or guide wall) for downstream fish passage is typically constructed as a series of panels attached to a floating boom and anchored across a water body (e.g. river channel, reservoir, or power canal). The downstream terminus of the wall is generally located nearby to a fish bypass structure. If guidance is successful, the fish will avoid entrainment in a dangerous intake structure (i.e. turbine intakes) while passing from the headpond to the tailwater of a hydroelectric facility through a safer passage route (i.e. the bypass). The goal of this study is to determine the combination of guide wall design parameters that will most likely increase the chance of surface-oriented fish being successfully guided to the bypass. To evaluate the flow field immediately upstream of a guide wall, a parameterized computational fluid dynamics model of an idealized power canal was constructed in © ANSYS Fluent v 14.5 (ANSYS Inc., 2012). The design parameters investigated were the angle and depth of the guide wall and the average approach velocity in the power canal. Results call attention to the importance of the downward to sweeping flow ratio and demonstrate how a change in guide wall depth and angle can affect this important hydraulic cue to out-migrating fish. The key findings indicate that a guide wall set at a small angle (15° is the minimum in this study) and deep enough such that sweeping flow dominant conditions prevail within the expected vertical distribution of fish approaching the structure will produce hydraulic conditions that are more likely to result in effective passage.

  6. Cowlitz Falls fish passage

    International Nuclear Information System (INIS)

    1995-09-01

    The upper Cowlitz was once home to native salmon and steelhead. But the combined impacts of overharvest, farming, logging and road building hammered fish runs. And in the 1960s, a pair of hydroelectric dams blocked the migration path of ocean-returning and ocean-going fish. The lower Cowlitz still supports hatchery runs of chinook, coho and steelhead. But some 200 river miles in the upper river basin--much of it prime spawning and rearing habitat--have been virtually cut off from the ocean for over 26 years. Now the idea is to trap-and-haul salmon and steelhead both ways and bypass previously impassable obstacles in the path of anadromous fish. The plan can be summarized, for the sake of explanation, in three steps: (1) trap and haul adult fish--collect ocean-returning adult fish at the lowermost Cowlitz dam, and truck them upstream; (2) reseed--release the ripe adults above the uppermost dam, and let them spawn naturally, at the same time, supplement these runs with hatchery born fry that are reared and imprinted in ponds and net pens in the watershed; (3) trap and haul smolts--collection the new generation of young fish as they arrive at the uppermost Cowlitz dam, truck them past the three dams, and release them to continue their downstream migration to the sea. The critical part of any fish-collection system is the method of fish attraction. Scientists have to find the best combination of attraction system and screens that will guide young fish to the right spot, away from the turbine intakes. In the spring of 1994 a test was made of a prototype system of baffles and slots on the upriver face of the Cowlitz Falls Dam. The prototype worked at 90% efficiency in early tests, and it worked without the kind of expensive screening devices that have been installed on other dams. Now that the success of the attraction system has been verified, Harza engineers and consultants will design and build the appropriate collection part of the system

  7. The future of fish passage science, engineering, and practice

    DEFF Research Database (Denmark)

    Silva, Ana T.; Lucas, Martyn C.; Castro-Santos, Theodore

    2018-01-01

    science today involves a wide range of disciplines from fish behaviour to socioeconomics to complex modelling of passage prioritization options in river networks. River barrier impacts on fish migration and dispersal are currently better understood than historically, but basic ecological knowledge...... innovation. While the use of fishways in river restoration demands a transition towards fish passage at the community scale, advances in selective fishways are also needed to manage invasive fish colonization. Because of the erroneous view in some literature and communities of practice that fish passage...

  8. Yakima Basin Fish Passage Project, Phase 2

    International Nuclear Information System (INIS)

    1991-08-01

    Implementation of the Yakima Basin Fish Passage Project -- Phase 2 would significantly improve the production of anadromous fish in the Yakima River system. The project would provide offsite mitigation and help to compensate for lower Columbia River hydroelectric fishery losses. The Phase 2 screens would allow greater numbers of juvenile anadromous fish to survive. As a consequence, there would be higher returns of adult salmon and steelhead to the Yakima River. The proposed action would play an integral part in the overall Yakima River anadromous fish enhancement program (fish passage improvement, habitat enhancement, hatchery production increases, and harvest management). These would be environmental benefits associated with implementation of the Fish Passage and Protective Facilities Phase 2 Project. Based on the evaluation presented in this assessment, there would be no significant adverse environmental impacts if the proposed action was carried forward. No significant adverse environmental effects have been identified from construction and operation of the Yakima Phase 2 fish passage project. Proper design and implementation of the project will ensure no adverse effects will occur. Based on the information in this environmental analysis, BPA's and Reclamation's proposal to construct these facilities does not constitute a major Federal action that could significantly affect the quality of the human environment. 8 refs., 4 figs., 6 tabs

  9. Yakima Basin Fish Passage Project, Phase 2

    Energy Technology Data Exchange (ETDEWEB)

    1991-08-01

    Implementation of the Yakima Basin Fish Passage Project -- Phase 2 would significantly improve the production of anadromous fish in the Yakima River system. The project would provide offsite mitigation and help to compensate for lower Columbia River hydroelectric fishery losses. The Phase 2 screens would allow greater numbers of juvenile anadromous fish to survive. As a consequence, there would be higher returns of adult salmon and steelhead to the Yakima River. The proposed action would play an integral part in the overall Yakima River anadromous fish enhancement program (fish passage improvement, habitat enhancement, hatchery production increases, and harvest management). These would be environmental benefits associated with implementation of the Fish Passage and Protective Facilities Phase 2 Project. Based on the evaluation presented in this assessment, there would be no significant adverse environmental impacts if the proposed action was carried forward. No significant adverse environmental effects have been identified from construction and operation of the Yakima Phase 2 fish passage project. Proper design and implementation of the project will ensure no adverse effects will occur. Based on the information in this environmental analysis, BPA's and Reclamation's proposal to construct these facilities does not constitute a major Federal action that could significantly affect the quality of the human environment. 8 refs., 4 figs., 6 tabs.

  10. The future of fish passage science, engineering, and practice

    Science.gov (United States)

    Silva, Ana T.; Lucas, Martyn C.; Castro-Santos, Theodore R.; Katopodis, Christos; Baumgartner, Lee J.; Thiem, Jason D.; Aarestrup, Kim; Pompeu, Paulo S.; O'Brien, Gordon C.; Braun, Douglas C.; Burnett, Nicholas J.; Zhu, David Z.; Fjeldstad, Hans-Petter; Forseth, Torbjorn; Rajarathnam, Nallamuthu; Williams, John G.; Cooke, Steven J.

    2018-01-01

    Much effort has been devoted to developing, constructing and refining fish passage facilities to enable target species to pass barriers on fluvial systems, and yet, fishway science, engineering and practice remain imperfect. In this review, 17 experts from different fish passage research fields (i.e., biology, ecology, physiology, ecohydraulics, engineering) and from different continents (i.e., North and South America, Europe, Africa, Australia) identified knowledge gaps and provided a roadmap for research priorities and technical developments. Once dominated by an engineering‐focused approach, fishway science today involves a wide range of disciplines from fish behaviour to socioeconomics to complex modelling of passage prioritization options in river networks. River barrier impacts on fish migration and dispersal are currently better understood than historically, but basic ecological knowledge underpinning the need for effective fish passage in many regions of the world, including in biodiversity hotspots (e.g., equatorial Africa, South‐East Asia), remains largely unknown. Designing efficient fishways, with minimal passage delay and post‐passage impacts, requires adaptive management and continued innovation. While the use of fishways in river restoration demands a transition towards fish passage at the community scale, advances in selective fishways are also needed to manage invasive fish colonization. Because of the erroneous view in some literature and communities of practice that fish passage is largely a proven technology, improved international collaboration, information sharing, method standardization and multidisciplinary training are needed. Further development of regional expertise is needed in South America, Asia and Africa where hydropower dams are currently being planned and constructed.

  11. Downstream fish passage on Black River system

    International Nuclear Information System (INIS)

    Downstream fish passage of juvenile alewife at the Black River hydroelectric system has traditionally been directed by a major screen assembly to a route avoiding altogether four out of five small hydroelectric power plants. This system includes retention of larvae/juveniles in a lake until mid July, diversion of fish via a major screen assembly and by-passing of a station using a fish ladder. However, difficulties with the arrangement have resulted in increasing numbers of fish passing by all five stations. A second option which reduces labour and maintenance activities and promotes increased growth of fish as they pass from reservoir to reservoir involves use of simple fishways coupled with fish pulsers to deflect fish from the station intakes. The fish pulsers use 100 Hz frequency at 20 pulses per minute placed directly in front of the station intake at a depth of 3 m. Both strategies have contributed to increased fish production and migration such that the present run is 5 million to 8 million fish. 4 refs., 4 figs

  12. Development of computational fluid dynamics--habitat suitability (CFD-HSI) models to identify potential passage--Challenge zones for migratory fishes in the Penobscot River

    Science.gov (United States)

    Haro, Alexander J.; Dudley, Robert W.; Chelminski, Michael

    2012-01-01

    A two-dimensional computational fluid dynamics-habitat suitability (CFD–HSI) model was developed to identify potential zones of shallow depth and high water velocity that may present passage challenges for five anadromous fish species in the Penobscot River, Maine, upstream from two existing dams and as a result of the proposed future removal of the dams. Potential depth-challenge zones were predicted for larger species at the lowest flow modeled in the dam-removal scenario. Increasing flows under both scenarios increased the number and size of potential velocity-challenge zones, especially for smaller species. This application of the two-dimensional CFD–HSI model demonstrated its capabilities to estimate the potential effects of flow and hydraulic alteration on the passage of migratory fish.

  13. Fish ladders: safe fish passage or hotspot for predation?

    Directory of Open Access Journals (Sweden)

    Angelo Antonio Agostinho

    Full Text Available Fish ladders are a strategy for conserving biodiversity, as they can provide connectivity between fragmented habitats and reduce predation on shoals that accumulate immediately below dams. Although the impact of predation downstream of reservoirs has been investigated, especially in juvenile salmonids during their downstream movements, nothing is known about predation on Neotropical fish in the attraction and containment areas commonly found in translocation facilities. This study analysed predation in a fish passage system at the Lajeado Dam on the Tocantins River in Brazil. The abundance, distribution, and the permanence (time spent of large predatory fish along the ladder, the injuries imposed by piranhas during passage and the presence of other vertebrate predators were investigated. From December 2002 to October 2003, sampling was conducted in four regions (downstream, along the ladder, in the forebay, and upstream of the reservoir using gillnets, cast nets and counts or visual observations. The captured fish were tagged with thread and beads, and any mutilations were registered. Fish, birds and dolphins were the main predator groups observed, with a predominance of the first two groups. The entrance to the ladder, in the downstream region, was the area with the highest number of large predators and was the only region with relevant non-fish vertebrates. The main predatory fish species were Rhaphiodon vulpinus, Hydrolycus armatus, and Serrasalmus rhombeus. Tagged individuals were detected predating along the ladder for up to 90 days. Mutilations caused by Serrasalmus attacks were noted in 36% of species and 4% of individuals at the top of the ladder. Our results suggested that the high density of fish in the restricted ladder environment, which is associated with injuries suffered along the ladder course and the presence of multiple predator groups with different predation strategies, transformed the fish corridor into a hotspot for

  14. Fish Passage Center 2001 annual report.; ANNUAL

    International Nuclear Information System (INIS)

    Fish Passage Center

    2002-01-01

    Extremely poor water conditions within the Columbia River Basin along with extraordinary power market conditions created an exceptionally poor migration year for juvenile salmon and steelhead. Monthly 2001 precipitation at the Columbia above Grand Coulee, the Snake River above Ice Harbor, and the Columbia River above The Dalles was approximately 70% of average. As a result the 2001 January-July runoff volume at The Dalles was the second lowest in Columbia River recorded history. As a compounding factor to the near record low flows in 2001, California energy deregulation and the resulting volatile power market created a financial crisis for the Bonneville Power Administration (BPA). Power emergencies were first declared in the summer and winter of 2000 for brief periods of time. In February of 2001, and on April 3, the BPA declared a ''power emergency'' and suspended many of the Endangered Species Act (ESA) and Biological Opinion (Opinion) measures that addressed mainstem Columbia and Snake Rivers juvenile fish passage. The river and reservoir system was operated primarily for power generation. Power generation requirements in January through March coincidentally provided emergence and rearing flows for the Ives-Pierce Islands spawning area below Bonneville Dam. In particular, flow and spill measures to protect juvenile downstream migrant salmon and steelhead were nearly totally suspended. Spring and summer flows were below the Opinion migration target at all sites. Maximum smolt transportation was implemented instead of the Opinion in-river juvenile passage measures. On May 16, the BPA Administrator decided to implement a limited spill for fish passage at Bonneville and The Dalles dams. On May 25, a limited spill program was added at McNary and John Day dams. Spill extended to July 15. Juvenile migrants, which passed McNary Dam after May 21, experienced a noticeable, improved survival, as a benefit of spill at John Day Dam. The suspension of Biological Opinion

  15. Fish Passage Center 2007 Annual Report.

    Energy Technology Data Exchange (ETDEWEB)

    DeHart, Michele [Fish Passage Center of the Columbia Basin Fish & Wildlife Authority

    2008-11-25

    and McNary dams), whereas prior to 2005 spill was terminated at these projects after the spring period. In addition, the 2007 operations agreement provided regardless of flow conditions. For the first time spill for fish passage was provided in the low flow conditions that prevailed in the Snake River throughout the spring and summer migration periods. Gas bubble trauma (GBT) monitoring continued throughout the spill period. A higher incidence of rank 1, GBT signs were observed in late arriving steelhead smolts arriving after the 95% passage date had occurred. During this time dissolved gas levels were generally below the 110% water quality standard in the forebay where fish were sampled. This occurrence was due to prolonged exposure and extended travel times due to low migration flows. The 2007 migration conditions differed from any year in the historic record. The migration conditions combined low river flows in the Snake River with spill throughout the spring and summer season. The juvenile migration characteristics observed in 2007 were unique compared to past years in that high levels of 24 hour spill for fish passage were provided in low flow conditions, and with a delayed start to the smolt transportation program a smaller proportion of the total run being transported. This resulted in relatively high spring juvenile survival despite the lower flows. The seasonal spring average flow in the Snake River was 61 Kcfs much lower than the spring time average of 120 Kcfs that occurred in 2006. However juvenile steelhead survival through the Lower Granite to McNary reach in 2007 was nearly 70% which was similar to the juvenile steelhead survival seen in 2006 under higher migration flows. The low flows in the May-July period of 2007 were similar to the 2001 low flow year, yet survival for fall chinook juveniles in this period in 2007 was much higher. In 2001 the reach survival estimate for juvenile fall Chinook from Lower Granite to McNary Dam ranged from 0

  16. 75 FR 5626 - Cle Elum Dam Fish Passage Facilities and Fish Reintroduction Project; Kittitas County, WA INT-DES...

    Science.gov (United States)

    2010-02-03

    ... DEPARTMENT OF THE INTERIOR Bureau of Reclamation Cle Elum Dam Fish Passage Facilities and Fish... Act (NEPA) on the Cle Elum Dam Fish Passage Facilities and Fish Reintroduction Project. The Washington... passage and upstream adult fish passage facilities at the dam, as well as analyses associated with the...

  17. Hydroacoustic Evaluation of Fish Passage Through Bonneville Dam in 2000

    National Research Council Canada - National Science Library

    Ploskey, Gene

    2002-01-01

    .... It was a joint study by the ERDC Environmental Laboratory and Pacific Northwest National Laboratory to evaluate the performance of a Prototype Surface Collector and the fish passage efficiency (FPE...

  18. Australian experience of fish passage past instream structures

    International Nuclear Information System (INIS)

    Lewis, B.

    2008-01-01

    The growth in hydropower has resulted in the construction of various structures across rivers and streams, such as dams and weirs, which may impede essential fish movements and result in local extinctions of some fish species. When it is not practical to build instream structures that provide for fish passage, it may be appropriate to install some type of fishway. Site specific factors such as the fish species present, topography, flow characteristics and cost effectiveness will determine how best to provide for fish passage. The types of fishways suitable at small dams and weirs up to five metres high were described in this paper along with their benefits and effectiveness. The purpose was to provide simple and appropriate solutions that can improve the health of rivers considerably by managing the native aquatic habitat. The upstream passage past obstacles can be provided for through several types of fishways such as pool-type fishways, Denil fish passes, rock ramps, nature-like bypass channels, fish lifts or locks, collection and transportation facilities. In addition to environmental benefits, providing for fish passage can have long term social and economic benefits as well. 17 refs., 3 figs

  19. Hydroacoustic Evaluation of Fish Passage through Bonneville Dam in 2004

    Energy Technology Data Exchange (ETDEWEB)

    Ploskey, Gene R.; Weiland, Mark A.; Schilt, Carl R.; Kim, Jina; Johnson, Peter N.; Hanks, Michael E.; Patterson, Deborah S.; Skalski, John R.; Hedgepeth, J

    2005-12-22

    The Portland District of the U.S. Army Corps of Engineers requested that the Pacific Northwest National Laboratory (PNNL) conduct fish-passage studies at Bonneville Dam in 2004. These studies support the Portland District's goal of maximizing fish-passage efficiency (FPE) and obtaining 95% survival for juvenile salmon passing Bonneville Dam. Major passage routes include 10 turbines and a sluiceway at Powerhouse 1 (B1), an 18-bay spillway, and eight turbines and a sluiceway at Powerhouse 2 (B2). In this report, we present results of four studies related to juvenile salmonid passage at Bonneville Dam. The studies were conducted between April 15 and July 15, 2004, encompassing most of the spring and summer migrations. Studies included evaluations of (1) Project fish passage efficiency and other major passage metrics, (2) B2 fish guidance efficiency and gap loss, (3) smolt approach and fate at the B2 Corner Collector (B2CC), and (4) B2 vertical barrier screen head differential.

  20. Technologies for evaluating fish passage through turbines

    Energy Technology Data Exchange (ETDEWEB)

    Weiland, Mark A. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Carlson, Thomas J. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States)

    2003-10-01

    This study evaluated the feasibility of two types of technologies to observe fish and near neutrally buoyant drogues as they move through hydropower turbines. Existing or reasonably modified light-emitting and ultrasonic technologies were used to observe flow patterns, the response of fish to flow, and interactions between fish and turbine structures with good spatial and temporal accuracy. This information can be used to assess the biological benefits of turbine design features such as reductions in gaps at the tips and hub of turbine runner blades, reshaping wicket gates and stay vanes, modifications to draft tube splitter piers, and design changes that enhance egress through the powerhouse and tailrace.

  1. 76 FR 20707 - Cle Elum Dam Fish Passage Facilities and Fish Reintroduction Project; Kittitas County, WA

    Science.gov (United States)

    2011-04-13

    ... DEPARTMENT OF THE INTERIOR Bureau of Reclamation [INT-FES 11-02] Cle Elum Dam Fish Passage.... ACTION: Notice of availability of the Final Environmental Impact Statement (FEIS) for the Cle Elum Dam... (Reclamation) is notifying the public that it has prepared an FEIS on the proposed Cle Elum Dam Fish Passage...

  2. Hydroacoustic Evaluation of Fish Passage Through Bonneville Dam in 2005

    Energy Technology Data Exchange (ETDEWEB)

    Ploskey, Gene R.; Weiland, Mark A.; Zimmerman, Shon A.; Hughes, James S.; Bouchard, Kyle E.; Fischer, Eric S.; Schilt, Carl R.; Hanks, Michael E.; Kim, Jina; Skalski, John R.; Hedgepeth, J.; Nagy, William T.

    2006-12-04

    The Portland District of the U.S. Army Corps of Engineers requested that the Pacific Northwest National Laboratory (PNNL) conduct fish-passage studies at Bonneville Dam in 2005. These studies support the Portland District's goal of maximizing fish-passage efficiency (FPE) and obtaining 95% survival for juvenile salmon passing Bonneville Dam. Major passage routes include 10 turbines and a sluiceway at Powerhouse 1 (B1), an 18-bay spillway, and eight turbines and a sluiceway at Powerhouse 2 (B2). In this report, we present results of two studies related to juvenile salmonid passage at Bonneville Dam. The studies were conducted between April 16 and July 15, 2005, encompassing most of the spring and summer migrations. Studies included evaluations of (1) Project fish passage efficiency and other major passage metrics, and (2) smolt approach and fate at B1 Sluiceway Outlet 3C from the B1 forebay. Some of the large appendices are only presented on the compact disk (CD) that accompanies the final report. Examples include six large comma-separated-variable (.CSV) files of hourly fish passage, hourly variances, and Project operations for spring and summer from Appendix E, and large Audio Video Interleave (AVI) files with DIDSON-movie clips of the area upstream of B1 Sluiceway Outlet 3C (Appendix H). Those video clips show smolts approaching the outlet, predators feeding on smolts, and vortices that sometimes entrained approaching smolts into turbines. The CD also includes Adobe Acrobat Portable Document Files (PDF) of the entire report and appendices.

  3. Fish Passage Center : Fish Passage Center of the Columbia Basin Fish and Wildlife Authority; Annual report 1998

    International Nuclear Information System (INIS)

    DeHart, Michele

    1999-01-01

    The 1998 operations of the Columbia and Snake rivers system illustrated that there was potential flexibility in the operation of the hydrosystem to improve fish passage for juvenile salmon and increase the degree to which the NMS Biological Opinion measures could have been implemented successfully. This additional flexibility was not exercised. Some measures of the Biological Opinion were not implemented. The 1998 operation showed that the Hells Canyon Complex, operation, the Upper Snake River operation and Non-treaty storage operation could have provided flexibility to meet early spring and later summer flows

  4. Fish Passage Center 2000 annual report.; ANNUAL

    International Nuclear Information System (INIS)

    Fish Passage Center

    2001-01-01

    The year 2000 hydrosystem operations illustrated two main points: (1) that the NMFS Biological Opinion on the operations of the Federal Columbia River Power System (FCRPS) fish migration measures could not be met in a slightly below average water year, and; (2) the impacts and relationships of energy deregulation and volatile wholesale energy prices on the ability of the FCRPS to provide the Biological Opinion fish migration measures. In 2000, a slightly below average water year, the flow targets were not met and, when energy ''emergencies'' were declared, salmon protection measures were reduced. The 2000 migration year was a below average runoff volume year with an actual run off volume of 61.1 MAF or 96% of average. This year illustrated the ability of the hydro system to meet the migration protection measures established by the NMFS Biological Opinion. The winter operation of storage reservoirs was based upon inaccurate runoff volume forecasts which predicted a January-July runoff volume forecast at The Dalles of 102 to 105% of average, from January through June. Reservoir flood control drafts during the winter months occurred according to these forecasts. This caused an over-draft of reservoirs that resulted in less volume of water available for fish flow augmentation in the spring and the summer. The season Biological Opinion flow targets for spring and summer migrants at Lower Granite and McNary dams were not met. Several power emergencies were declared by BPA in the summer of 2000. The first in June was caused by loss of resources (WNP2 went off-line). The second and third emergencies were declared in August as a result of power emergencies in California and in the Northwest. The unanticipated effects of energy deregulation, power market volatility and rising wholesale electricity prices, and Californian energy deregulation reduced the ability of the FCRPS to implement fish protection measures. A Spill Plan Agreement was implemented in the FCRPS. Under this

  5. Fish Passage Assessment: Big Canyon Creek Watershed, Technical Report 2004.

    Energy Technology Data Exchange (ETDEWEB)

    Christian, Richard

    2004-02-01

    This report presents the results of the fish passage assessment as outlined as part of the Protect and Restore the Big Canyon Creek Watershed project as detailed in the CY2003 Statement of Work (SOW). As part of the Northwest Power Planning Council's Columbia Basin Fish and Wildlife Program (FWP), this project is one of Bonneville Power Administration's (BPA) many efforts at off-site mitigation for damage to salmon and steelhead runs, their migration, and wildlife habitat caused by the construction and operation of federal hydroelectric dams on the Columbia River and its tributaries. The proposed restoration activities within the Big Canyon Creek watershed follow the watershed restoration approach mandated by the Fisheries and Watershed Program. Nez Perce Tribal Fisheries/Watershed Program vision focuses on protecting, restoring, and enhancing watersheds and treaty resources within the ceded territory of the Nez Perce Tribe under the Treaty of 1855 with the United States Federal Government. The program uses a holistic approach, which encompasses entire watersheds, ridge top to ridge top, emphasizing all cultural aspects. We strive toward maximizing historic ecosystem productive health, for the restoration of anadromous and resident fish populations. The Nez Perce Tribal Fisheries/Watershed Program (NPTFWP) sponsors the Protect and Restore the Big Canyon Creek Watershed project. The NPTFWP has the authority to allocate funds under the provisions set forth in their contract with BPA. In the state of Idaho vast numbers of relatively small obstructions, such as road culverts, block thousands of miles of habitat suitable for a variety of fish species. To date, most agencies and land managers have not had sufficient, quantifiable data to adequately address these barrier sites. The ultimate objective of this comprehensive inventory and assessment was to identify all barrier crossings within the watershed. The barriers were then prioritized according to the

  6. Automatic system for monitoring fish passage at dams

    Science.gov (United States)

    Castignolles, Nathalie; Cattoen, Michel; Larinier, M.

    1994-09-01

    Devices called fishways or fish passes are constructed in rivers to help migratory fish get over obstacles (dams). There counting windows are used to monitor fish passage by video-based counting. Our goal is to design and construct a vision system to automate this process. Images are taken by a video camera fitted with an electronic shutter in a backlit fishway. They are stored on optical disks in real time but are processed in delayed time. Faced with high volumes of data, a compression is necessary and an electronic board has been designed to accomplish it in real time. The coding method used is based on a run description of binarized images. Then, a tracking process is implemented on a micro-computer to count the fish crossing the pass. It includes fish recognition, which is based on a Bayesian classification process. In order to reduce processing times, recognition operations (labelling, parameter extraction) are accomplished on coded images. Classification results are satisfactory and are improved by the temporal redundancy generated by the tracking process. Image processing time permits the user, on average, to process images faster than they have been stored. Thus there is no data accumulation. At the end of the processing it is possible to edit a result file, to choose a fish, view its crossing images and change its species if wrong.

  7. Average-passage flow model development

    Science.gov (United States)

    Adamczyk, John J.; Celestina, Mark L.; Beach, Tim A.; Kirtley, Kevin; Barnett, Mark

    1989-01-01

    A 3-D model was developed for simulating multistage turbomachinery flows using supercomputers. This average passage flow model described the time averaged flow field within a typical passage of a bladed wheel within a multistage configuration. To date, a number of inviscid simulations were executed to assess the resolution capabilities of the model. Recently, the viscous terms associated with the average passage model were incorporated into the inviscid computer code along with an algebraic turbulence model. A simulation of a stage-and-one-half, low speed turbine was executed. The results of this simulation, including a comparison with experimental data, is discussed.

  8. Computational study of fish passage through circular culverts in Northeast Ohio.

    Science.gov (United States)

    2013-11-01

    An investigation has been carried out in Northeast Ohio to determine the percentage of culverts that act : as barriers for fish passage and to identify the design parameters that can be associated with passage : success through stream simulation in t...

  9. Passage relevance models for genomics search

    Directory of Open Access Journals (Sweden)

    Frieder Ophir

    2009-03-01

    Full Text Available Abstract We present a passage relevance model for integrating syntactic and semantic evidence of biomedical concepts and topics using a probabilistic graphical model. Component models of topics, concepts, terms, and document are represented as potential functions within a Markov Random Field. The probability of a passage being relevant to a biologist's information need is represented as the joint distribution across all potential functions. Relevance model feedback of top ranked passages is used to improve distributional estimates of query concepts and topics in context, and a dimensional indexing strategy is used for efficient aggregation of concept and term statistics. By integrating multiple sources of evidence including dependencies between topics, concepts, and terms, we seek to improve genomics literature passage retrieval precision. Using this model, we are able to demonstrate statistically significant improvements in retrieval precision using a large genomics literature corpus.

  10. Sensor Fish: an autonomous sensor package for characterizing complex flow fields and fish passage

    Energy Technology Data Exchange (ETDEWEB)

    Deng, Zhiqun; Martinez, Jayson J.; Lu, Jun

    2016-10-04

    Fish passing through dams or other hydraulic structures may be injured or killed despite advances in turbine design, project operations, and other fish bypass systems. The Sensor Fish (SF) device is an autonomous sensor package that characterizes the physical conditions and stressors to which fish are exposed during passage through hydro facilities. It was designed to move passively as a neutrally buoyant object through severe hydraulic environments, while collecting high-resolution sensor data. Since its first generation1, the SF device has been successfully deployed in many fish passage studies and has evolved to be a major tool for characterizing fish passage conditions during fish passage in the Columbia River Basin. To better accelerate hydropower development, the U.S. Department of Energy Water Power Program provided funding to develop a new generation (Gen 2 SF) to incorporate more capabilities and accommodate a wider range of users over a broader range of turbine designs and operating environments. The Gen 2 SF (Figure 1) is approximately the size and density of a yearling salmon smolt and is nearly neutrally buoyant. It contains three-dimensional (3D) rotation sensors, 3D linear acceleration sensors, a pressure sensor, a temperature sensor, a 3D orientation sensor, a radiofrequency (RF) transmitter, and a recovery module2. A low-power microcontroller collects data from the sensors and stores up to 5 min of data on internal flash memory at a sampling frequency of 2048 Hz. The recovery module makes the SF positively buoyant after a pre-programmed period of time, causing it to float to the surface for recovery.

  11. Comparative Study of Barotrauma Risk during Fish Passage through Kaplan Turbines

    Energy Technology Data Exchange (ETDEWEB)

    Richmond, Marshall C. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States). Hydrology Group; Romero-Gomez, Pedro [Pacific Northwest National Lab. (PNNL), Richland, WA (United States). Hydrology Group; Serkowski, John A. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States). Hydrology Group; Rakowski, Cynthia L. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States). Hydrology Group; Graf, Michael J. [Voith Hydro, York, PA (United States)

    2015-10-01

    Rapid pressure changes in hydroelectric turbine flows can cause barotrauma that can be hazardous to the passage of fish, in particular migratory juvenile salmonids. Although numerous laboratory tests have evaluated the effect of rapid decompression in fish species of relevance, numerical modeling studies offer the advantage of predicting, for new turbine designs, the potential risks of mortality and injury from rapid pressure change during turbine passage. However, rapid pressure change is only one of several hydraulic risks encountered by fish during turbine passage in addition to blade strike, shear, and turbulence. To better understand the role of rapid pressure changes, the present work focuses on the application of a computational fluid dynamics based method for evaluating the risk of pressure-related mortality to fish passing through an early 1960s era original hydroelectric Kaplan turbine at Wanapum Dam (Columbia River, Washington), and a modern advanced Kaplan turbine installed in 2005. The results show that the modeling approach acceptably reproduced the nadir pressure distributions compared to field data previously collected at the site using an autonomous sensor. Our findings show that the new advanced-design unit performs better, in terms of reduced barotrauma risk to fish from exposure to low pressures, than the original turbine unit. The outcomes allow for comparative analyses of turbine designs and operations prior to installation, an advantage that can potentially be integrated in the process of designing new turbine units to achieve superior environmental performance. Overall, the results show that modern turbine designs can achieve the multiple objectives of increasing power generation, lowering cavitation potential, and reducing barotrauma risks to passing fish.

  12. Fish passage post-construction issues: analysis of distribution, attraction and passage efficiency metrics at the Baguari Dam fish ladder to approach the problem

    Directory of Open Access Journals (Sweden)

    Luiz Gustavo Martins da Silva

    Full Text Available Fish passages are considered the oldest management tool used to minimize the impact of blocking fish migratory routes by hydroelectric power plants. However, fish passages are being installed without specific criteria in Brazil, with severe consequences to the conservation of the local fish fauna. Therefore, basic data gathered for fish passages already constructed could contribute to define operational rules, in addition to offer subsidies to decision-making and design of future facilities. Thus, the fish ladder of Baguari Dam was evaluated regarding temporal distribution, attraction, and ascension of the local fish fauna. A total of 20 fish samples were conducted immediately downstream of the dam and inside the fish ladder, from January 2010 to June 2011. Seasonal variation in fish abundance and richness was registered below the dam and inside the passage, with higher number of migratory fish in the reproductive season (Kruskall-Wallis, p = 0.04 and p = 0.05. Furthermore, higher concentration of migratory allochthonous and non-migratory species was registered for the spill bay (Wilcoxon, p = 0.009 and p = 0.006 compared to the tailrace, where the fish ladder entrance is located. This result suggests low efficiency of the attraction system of the mechanism during the reproductive period. Once entering the fish ladder, migratory species apparently ascend the facility due to the similar distribution throughout different stretches. Generally, the results showed that an operational rule for the Baguari Dam fish ladder should consider running the facility only during the reproductive period, unless the objectives of the passage are well defined. The attraction system must be more precisely evaluated, using technologies such as radiotelemetry. Similarly, fish ascension also should be better analyzed to evaluate the time spent to ascend and its influence in the reproductive biology of the species using the ladder. Pit-tag system could be used to

  13. Review of mitigation methods for fish passage, instream flows, and water quality

    International Nuclear Information System (INIS)

    Railsback, S.F.

    1991-01-01

    This paper reports on current environmental mitigation practices at nonfederal hydropower projects. Information was obtained from project operators on dissolved oxygen (DO) mitigation, instream flows, upstream fish passage facilities, and downstream fish passage facilities. The most common method for DO mitigation is the use of spill flows, which are costly because of lost power generation. DO concentrations are commonly monitored, but biological effects of DO mitigation are not. At many projects, instream flow requirements have been set without reference to formalized methods. About half of the projects with instream flow requirements monitor flow rates, but few monitor fish populations to verify that instream flows are effective. Angled bar racks are the most commonly used downstream fish passage devices and fish ladders are the most commonly used upstream fish passage devices. Fish passage rates or populations have been monitored to verify the effectiveness of passage mitigation at few projects. This analysis is the first phase of an evaluation of the costs, benefits, and effectiveness of mitigation measures

  14. The Application of Traits-Based Assessment Approaches to Estimate the Effects of Hydroelectric Turbine Passage on Fish Populations

    Energy Technology Data Exchange (ETDEWEB)

    Cada, Glenn F [ORNL; Schweizer, Peter E [ORNL

    2012-04-01

    ) found useful turbine passage survival data for only 30 species. Tests of advanced hydropower turbines have been limited to seven species - Chinook and coho salmon, rainbow trout, alewife, eel, smallmouth bass, and white sturgeon. We are investigating possible approaches for extending experimental results from the few tested fish species to predict turbine passage survival of other, untested species (Cada and Richmond 2011). In this report, we define the causes of injury and mortality to fish tested in laboratory and field studies, based on fish body shape and size, internal and external morphology, and physiology. We have begun to group the large numbers of unstudied species into a small number of categories, e.g., based on phylogenetic relationships or ecological similarities (guilds), so that subsequent studies of a few representative species (potentially including species-specific Biological Index Testing) would yield useful information about the overall fish community. This initial effort focused on modifying approaches that are used in the environmental toxicology field to estimate the toxicity of substances to untested species. Such techniques as the development of species sensitivity distributions (SSDs) and Interspecies Correlation Estimation (ICE) models rely on a considerable amount of data to establish the species-toxicity relationships that can be extended to other organisms. There are far fewer studies of turbine passage stresses from which to derive the turbine passage equivalent of LC{sub 50} values. Whereas the SSD and ICE approaches are useful analogues to predicting turbine passage injury and mortality, too few data are available to support their application without some form of modification or simplification. In this report we explore the potential application of a newer, related technique, the Traits-Based Assessment (TBA), to the prediction of downstream passage mortality at hydropower projects.

  15. Fish Passage Center; Columbia Basin Fish and Wildlife Authority, 2004 Annual Report.

    Energy Technology Data Exchange (ETDEWEB)

    DeHart, Michele (Columbia Basin Fish and Wildlife Authority, Portland, OR)

    2005-07-01

    The runoff volume for 2004 was below average throughout the Columbia Basin. At The Dalles the January-July runoff volume was 77% of average or 83.0 MAF. Grand Coulee, Hungry Horse, and Libby were below their Biological Opinion reservoir target elevations on April 10 at the beginning of the spring salmon migration season. All major storage reservoirs except Libby, Grand Coulee, Hungry Horse, Dworshak, and Brownlee were within a few feet of full by the end of June and early July. Overall, NOAA Biological Opinion seasonal flow targets were not met at any project for either spring or summer migrations of salmon and steelhead. Overall, spill was reduced in 2004. Implementation of Biological Opinion spill for fish passage measures was wrought with contention in 2004, particularly for summer spill which was finally the subject of litigation. The spring migration spill season began with debate among the fishery mangers and tribes and action agencies regarding spill at Bonneville Dam for the Spring Creek Hatchery release. The USFWS agreed to a spill test versus a corner collector operation to determine the best route for survival for these fish. The USFWS agreement includes no spill for early Spring Creek Hatchery releases for the next two years. Spring spill at Snake River transportation sites was eliminated after April 23, and transportation was maximized. The federal operators and regulators proposed to reduce Biological Opinion summer spill measures, while testing the impact of those reductions. This proposal was eventually rejected in challenges in the Federal Ninth Circuit Court. The Corps of Engineers reported that spill at Bonneville Dam in the 2002 to 2004 period was actually lower than reported due to a spill calibration error at the project. Because flows were low and spill levels were easily controlled few fish were observed with any signs of Gas Bubble Trauma. The annual Smolt Monitoring Program was implemented and provided in-season timing and passage

  16. Walla Walla River Fish Passage Operations Project : Annual Progress Report October 2007 - September 2008.

    Energy Technology Data Exchange (ETDEWEB)

    Bronson, James P.; Duke, Bill; Loffink, Ken

    2008-12-30

    In the late 1990s, the Confederated Tribes of the Umatilla Indian Reservation, Oregon Department of Fish and Wildlife, and Washington Department of Fish and Wildlife, along with many other agencies, began implementing fisheries restoration activities in the Walla Walla Basin. An integral part of these efforts is to alleviate the inadequate fish migration conditions in the basin. Migration concerns are being addressed by removing diversion structures, constructing fish passage facilities, implementing minimum instream flow requirements, and providing trap and haul efforts when needed. The objective of the Walla Walla River Fish Passage Operations Project is to increase the survival of migrating adult and juvenile salmonids in the Walla Walla River basin. The project is responsible for coordinating operation and maintenance of ladders, screen sites, bypasses, trap facilities, and transportation equipment. In addition, the project provides technical input on passage and trapping facility design, operation, and criteria. Operation of the various passage facilities and passage criteria guidelines are outlined in an annual operations plan that the project develops. Beginning in March of 2007, two work elements from the Walla Walla Fish Passage Operations Project were transferred to other projects. The work element Enumeration of Adult Migration at Nursery Bridge Dam is now conducted under the Walla Walla Basin Natural Production Monitoring and Evaluation Project and the work element Provide Transportation Assistance is conducted under the Umatilla Satellite Facilities Operation and Maintenance Project. Details of these activities can be found in those project's respective annual reports.

  17. Fish passage mitigation of impacts from hydroelectric power projects in the United States

    International Nuclear Information System (INIS)

    Cada, G.F.

    1996-01-01

    Obstruction of fish movements by dams continues to be the major environmental issue facing the hydropower industry in the US. Dams block upstream migrations, which can cut off adult fish form their historical spawning grounds and severely curtail reproduction. Conversely, downstream-migrating fish may be entrained into the turbine intake flow and suffer turbine-passage injury or mortality. Hydroelectric projects can interfere with the migrations of a wide variety of fish. Maintenance, restoration or enhancement of populations of these species may require the construction of facilities to allow for upstream and downstream fish passage. The Federal Energy Regulatory Commission (FERC), by law, must give fish and wildlife resources equal consideration with power production in its licensing decisions, must be satisfied that a project is consistent with comprehensive plans for a waterway (including fisheries management plans), and must consider all federal and state resource agency terms and conditions for the protection of fish and wildlife. As a consequence, FERC often requires fish passage mitigation measures as a condition of the hydropower license when such measures are deemed necessary for the protection of fish. Much of the recent research and development efforts of the US Department of Energy's Hydropower Program have focused on the mitigation of impacts to upstream and downstream fish passage. This paper descries three components of that effort: (1) a survey of environmental mitigation measures at hydropower sites across the country; (2) a critical review of the effectiveness of fish passage mitigation measures at 16 case study sites; and (3) ongoing efforts to develop new turbine designs that minimize turbine-passage mortality

  18. Characterization of Fish Passage Conditions through a Francis Turbine and Regulating Outlet at Cougar Dam, Oregon, Using Sensor Fish, 2009–2010

    Energy Technology Data Exchange (ETDEWEB)

    Duncan, Joanne P.

    2011-05-23

    Fish passage conditions through a Francis turbine and a regulating outlet (RO) at Cougar Dam on the south fork of the McKenzie River in Oregon were evaluated by Pacific Northwest National Laboratory for the U.S. Army Corps of Engineers, Portland District, using Sensor Fish devices. The objective of the study was to describe and compare passage exposure conditions, identifying potential fish injury regions encountered during passage via specific routes. The RO investigation was performed in December 2009 and the turbine evaluation in January 2010, concurrent with HI-Z balloon-tag studies by Normandeau Associates, Inc. Sensor Fish data were analyzed to estimate 1) exposure conditions, particularly exposure to severe collision, strike, and shear events by passage route sub-regions; 2) differences in passage conditions between passage routes; and 3) relationships to live-fish injury and mortality data estimates. Comparison of the three passage routes evaluated at Cougar Dam indicates that the RO passage route through the 3.7-ft gate opening was relatively the safest route for fish passage under the operating conditions tested; turbine passage was the most deleterious. These observations were supported also by the survival and malady estimates obtained from live-fish testing. Injury rates were highest for turbine passage. Compared to mainstem Columbia River passage routes, none of the Cougar Dam passage routes as tested are safe for juvenile salmonid passage.

  19. Downstream passage of fish larvae and eggs through a small-sized reservoir, Mucuri river, Brazil

    Directory of Open Access Journals (Sweden)

    Paulo S. Pompeu

    2011-12-01

    Full Text Available In South America, one important symptom of the failure of fish passages to sustain fish migratory recruitment is the inability of eggs and larvae to reach the nurseries. This is especially so when the breeding areas are located upstream of a reservoir, and the floodplain is downstream of the dam. Therefore, the transport of fish larvae and eggs across reservoir barriers is a key factor in the development of effective conservation strategies. In this paper, we evaluate the potential for migratory fish larvae and egg transportation across a small size reservoir in eastern Brazil. We sampled fish daily between 15th October 2002 and 15th February 2003 (spawning period in the Mucuri River, immediately upstream of the reservoir and downstream of the Santa Clara Power Plant dam. Our study was the first to indicate the possibility of successful larval passage through the reservoir of a hydroelectric reservoir and dam in South America, and showed that the passage of migratory fish larvae was associated significantly with residence time of water in the reservoir. The relatively short water residence time and elevated turbidity of the Santa Clara's reservoir waters during the rainy season certainly contributed to the successful passage, and can be considered as key factors for a priori evaluations of the feasibility of a downstream larval passage.

  20. Environmental mitigation at hydroelectric projects. Volume 2, Benefits and costs of fish passage and protection

    Energy Technology Data Exchange (ETDEWEB)

    Francfort, J.E.; Rinehart, B.N.; Sommers, G.L. [EG and G Idaho, Inc., Idaho Falls, ID (United States); Cada, G.F.; Jones, D.W. [Oak Ridge National Lab., TN (United States); Dauble, D.D. [Pacific Northwest Lab., Richland, WA (United States); Hunt, R.T. [Hunt (Richard) Associates, Inc., Concord, NH (United States); Costello, R.J. [Northwest Water Resources Advisory Services (United States)

    1994-01-01

    This study examines envirorunental mitigation practices that provide upstream and downstream fish passage and protection at hydroelectric projects. The study includes a survey of fish passage and protection mitigation practices at 1,825 hydroelectric plants regulated by the Federal Energy Regulatory Commission (FERC) to determine frequencies of occurrence, temporal trends, and regional practices based on FERC regions. The study also describes, in general terms, the fish passage/protection mitigation costs at 50 non-Federal hydroelectric projects. Sixteen case studies are used to examine in detail the benefits and costs of fish passage and protection. The 16 case studies include 15 FERC licensed or exempted hydroelectric projects and one Federally-owned and-operated hydroelectric project. The 16 hydroelectric projects are located in 12 states and range in capacity from 400 kilowatts to 840 megawatts. The fish passage and protection mitigation methods at the case studies include fish ladders and lifts, an Eicher screen, spill flows, airburst-cleaned inclined and cylindrical wedgewire screens, vertical barrier screens, and submerged traveling screens. The costs, benefits, monitoring methods, and operating characteristics of these and other mitigation methods used at the 16 case studies are examined.

  1. Sensor Fish Characterization of Fish Passage Conditions through John Day Dam Spillbay 20 with a Modified Flow Deflector

    Energy Technology Data Exchange (ETDEWEB)

    Duncan, Joanne P.

    2011-04-29

    Fish passage conditions over a modified deflector in Spillbay 20 at John Day Dam were evaluated by Pacific Northwest National Laboratory for the U.S. Army Corps of Engineers (USACE), Portland District, using Sensor Fish devices. The objectives of the study were to describe and compare passage exposure conditions at two spill discharges, 2.4 and 4.0 thousand cubic feet per second (kcfs), identifying potential fish injury regions within the routes, and to evaluate a low-tailwater condition at the 2.4-kcfs discharge. The study was performed in April 2010 concurrent with HI-Z balloon-tag studies by Normandeau Associates, Inc. Sensor Fish data were analyzed to estimate 1) exposure conditions, particularly exposure to severe collision and shear events; 2) differences in passage conditions between treatments; and 3) relationships to live-fish injury and mortality data estimates. Nearly all Sensor Fish significant events were classified as collisions; the most severe occurred at the gate, on the spillbay chute, or at the deflector transition. Collisions in the gate region were observed only during the 2.4-kcfs discharge, when the tainter gate was open 1.2 ft. One shear event was observed during the evaluation, occurring at the deflector transition during passage at the 2.4-kcfs discharge at low tailwater. Flow quality, computed using the Sensor Fish turbulence index, was best for passage at the low-flow low-tailwater condition as well. The worst flow quality was observed for the 4.0-kcfs test condition. Contrasting the passage exposure conditions, the 2.4-kcfs low-tailwater treatment would be most deleterious to fish survival and well-being.

  2. Walla Walla River Fish Passage Operations Program, 2004-2005 Annual Report.

    Energy Technology Data Exchange (ETDEWEB)

    Bronson, James P. (Confederated Tribes of the Umatilla Indian Reservation, Department of Natural Resources, Pendleton, OR); Duke, Bill B. (Oregon Department of Fish and Wildlife, Pendleton, OR)

    2006-02-01

    In the late 1990s, the Confederated Tribes of the Umatilla Indian Reservation, Oregon Department of Fish and Wildlife, and Washington Department of Fish and Wildlife, along with many other agencies, began implementing fisheries restoration activities in the Walla Walla Basin. An integral part of these efforts is to alleviate the inadequate fish migration conditions in the basin. The migration concerns are being addressed by removing diversion structures, constructing fish passage facilities, implementing minimum instream flow requirements, and providing trap and haul efforts when needed. The objective of the Walla Walla River Fish Passage Operations Project is to increase the survival of migrating adult and juvenile salmonids in the Walla Walla River basin. The project is responsible for coordinating operation and maintenance of ladders, screen sites, bypasses, trap facilities, and transportation equipment. In addition, the project provides technical input on passage criteria and passage and trapping facility design and operation. Operation of the various passage facilities and passage criteria guidelines are outlined in an annual operations plan that the project develops. During the 2004-2005 project year, there were 590 adult summer steelhead, 31 summer steelhead kelts (Oncorhynchus mykiss), 70 adult bull trout (Salvelinus confluentus); 80 adult and 1 jack spring Chinook (O. tshawytscha) enumerated at the Nursery Bridge Dam fishway video counting window between December 13, 2004, and June 16, 2005. Summer steelhead and spring chinook were observed moving upstream while bull trout were observed moving both upstream and downstream of the facility. In addition, the old ladder trap was operated by ODFW in order to enumerate fish passage. Of the total, 143 adult summer steelhead and 15 summer steelhead kelts were enumerated at the west ladder at Nursery Bridge Dam during the video efforts between February 4 and May 23, 2005. Operation of the Little Walla Walla River

  3. Fish Passage Center; Columbia Basin Fish and Wildlife Authority, 2003 Annual Report.

    Energy Technology Data Exchange (ETDEWEB)

    DeHart, Michele (Columbia Basin Fish and Wildlife Authority, Fish Passage Center, Portland, OR)

    2004-09-01

    The runoff volumes in 2003 were below average for the January to July period above Lower Granite Dam (79%) and The Dalles Dam (82%). The year 2003 hydrosystem operations and runoff conditions resulted in flows that met the spring seasonal Biological Opinion flow objectives at Lower Granite Dam, McNary Dam and Priest Rapids Dam. However, summer seasonal flows at Lower Granite Dam and McNary Dam were considerably below the Biological Opinion objectives of 50.7 Kcfs at Lower Granite Dam and 2000 Kcfs at McNary Dam. Actual summer seasonal flows were just 32.3 Kcfs and 135.5 Kcfs, respectively. In most instances spill was provided as described by the Biological Opinion program for fish passage, within the constraints of the State waivers for total dissolved gas supersaturation levels. Spill was altered during spill testing and most notably during the month of August at Ice Harbor dam. At this project spill was modified from a 24-hour program to a 12-hour nightly spill period pending the evaluation of studies being conducted in-season. Spill was not returned to full implementation of the Biological Opinion levels even after data showed that spillway passage had the highest associated fish survival. This experience demonstrated the difficulty of managing the hydrosystem for fish passage based on preliminary data and data collected in-season. Increased hatchery releases and higher wild fish production resulted in a population of yearling chinook at Lower Granite Dam being one of the highest observed in recent years. However, the increased hatchery production may have been offset to some extent by decreased survival from release to Lower Granite Dam as suggested by the lower than average survival observed for the PIT tagged trap released fish to Lower Monumental Dam. Travel times were also longer for hatchery spring chinook compared to recent past years. The short duration of high flows that occurred in the Lower Snake River was too late for yearling chinook, but likely was

  4. Australian experience of providing for fish passage at small instream structures

    International Nuclear Information System (INIS)

    Lewis, B.

    2006-01-01

    Various instream structures have been constructed in Australia as a result of increasing agricultural activities. However, even small structures such as culverts and stream gauging stations can restrict essential fish movements and result in the extinction of local fish species. This paper discussed methods of modifying and designing new structures to ensure adequate fish passage. It was suggested that instream structures can provide for fish passage through the provision of bridges, or through the use of low profile structures for small weirs. Recommendations for site-specific instream structures included an assessment of fish species, topography, flow characteristics and cost effectiveness. Solutions for reducing the impact of small instream barriers to fish movement were also discussed. Provision for fish passage is an important consideration for planners and designers of dams. Legislation is now in place to ensure a planning and approval process prior to the commencement of construction and operation. It was concluded that significant works are now being undertaken to restore fish migration pathways caused by barriers that restrict fish movement. However, monitoring is needed to ensure that designs operate effectively. 17 refs., 3 figs

  5. A new technique for assessing fish passage survival at hydro power stations

    International Nuclear Information System (INIS)

    Heisey, P.G.; Mathur, D.; D'Allesandro, L.

    1993-01-01

    The HI-Z Turb'N Tag recovery method is presented as a new technique that has been successfully used at ten hydropower stations to determine turbine or spillway passage survival of fish. According to this technique, fish are tagged with the Turb'N Tag, which is pear-shaped, made of inflatable latex, and ca 35 mm long and 13 mm wide. The tag is designed to inflate after passage through the turbine, where it then floats the fish to the surface where it can be easily spotted and netted. One tag is sufficient to retrieve fish less than 18 cm long, while three tags may be needed for fish longer than 30 cm. In tests, fish were recovered in under 10 minutes from the tailrace after being tagged and released into a turbine. The tag allowed over 90% recovery of fish in most tests. The technique had minimal effect on the well-being of both hardy and sensitive species and provided an opportunity to examine recovered fish for injuries and retain them up to 72 h to assess possible delayed effects. The technique overcomes most of the logistical problems associated with conventional methods (netting, radio telemetry, mass mark-recapture) to determine turbine passage survival. The technique can also be used to assess effects of spill and fish bypass structures. 9 refs., 2 figs., 1 tab

  6. Characterization of Fish Passage Conditions through a Francis Turbine, Spillway, and Regulating Outlet at Detroit Dam, Oregon, Using Sensor Fish, 2009

    Energy Technology Data Exchange (ETDEWEB)

    Duncan, Joanne P.; Carlson, Thomas J.

    2011-05-06

    Fish passage conditions through two spillways, a Francis turbine, and a regulating outlet (RO) at Detroit Dam on the North Santiam River in Oregon were evaluated by Pacific Northwest National Laboratory for the U.S. Army Corps of Engineers (USACE), Portland District, using Sensor Fish devices. The objective of the study was to describe and compare passage exposure conditions, identifying potential fish injury regions within the routes. The study was performed in July, October, and December 2009 concurrent with HI-Z balloon-tag studies by Normandeau Associates, Inc. Sensor Fish data were analyzed to estimate 1) exposure conditions, particularly exposure to severe strike, collision, and shear events by passage route sub-regions; 2) differences in passage conditions between passage routes; and 3) relationships to live-fish injury and mortality data estimates. Comparison of the three passage routes evaluated at Detroit Dam indicates that the RO passage route through the 5-ft gate opening was relatively the safest route for fish passage under the operating conditions tested; turbine passage was the most deleterious. These observations were supported also by the survival and malady estimates obtained from live-fish testing. Injury rates were highest for turbine and spillway passage. However, none of the passage routes tested is safe for juvenile salmonid passage.

  7. Dam Removal Provides Fish Passage, Water Quality Benefits

    Science.gov (United States)

    The Bishopville Pond Dam in Maryland has been replaced with a series of pools, runs and step-like structures, improving water quality downstream and providing access for key fish species to spawn upstream.

  8. Exploring the Role of Shear Stress and Severe Turbulence in Downstream Fish Passage

    Energy Technology Data Exchange (ETDEWEB)

    Cada, G.; Carlson, T.; Ferguson, J.; Richmond, M.; Sale, M.

    1999-07-06

    Fish may be exposed to damaging levels of fluid shear stress and turbulence while passing through hydroelectric power plants. The generally assumed locations for such potential damage are the turbine and draft tube passages, although it is possible that fish are also injured during passage over the spillway or through sluiceways and fish bypass outfalls. Unless mitigated, fluid-induced injuries and mortality could frustrate efforts to develop advanced, fish-friendly turbines or to provide safe alternate downstream passages. The effects of shear stress and turbulence on fish are poorly understood, in part because of the difficulties in conceptualizing these phenomena, determining their magnitudes and distribution within hydroelectric systems, and then recreating them in a controlled laboratory environment. We define the fluid phenomena that are relevant to the assessment of effects on fish. The magnitudes of fluid stresses associated with man-altered aquatic environments are often considerably higher than those found in natural environments (e.g., normal river flows). However, levels of shear stresses that occur during flash floods appear to be comparable to those expected within a turbine. Past studies of the effects of shear stress on fish are of limited value, mainly because of their narrow scope and lack of instrumentation to measure velocities on appropriately small scales. A laboratory experiment to study the effects of shear stress and turbulence on fish is described.

  9. Adolescent Rites of Passage: An Experiential Model.

    Science.gov (United States)

    Venable, Stephen F.

    1997-01-01

    Discusses the origins and context of adolescence as a cultural phenomenon and illustrates how rites of passage can nurture healthy developmental changes in adolescents. Describes and evaluates the application of a rite of passage during a backpacking experience that was designed to usher teens from adolescence to adulthood in a Christian context.…

  10. Walla Walla River Fish Passage Operations Program, 2002-2003 Annual Report.

    Energy Technology Data Exchange (ETDEWEB)

    Bronson, James P. (Confederated Tribes of the Umatilla Indian Reservation, Department of Natural Resources, Pendleton, OR); Duke, Bill B. (Oregon Department of Fish and Wildlife, Pendleton, OR)

    2004-03-01

    In the late 1990's, the Confederated Tribes of the Umatilla Indian Reservation, Oregon Department of Fish and Wildlife, and Washington Department of Fish and Wildlife, along with many other agencies, began implementing fisheries restoration activities in the Walla Walla Basin. An integral part of these efforts is to alleviate the inadequate fish migration conditions in the basin. The migration concerns are being addressed by removing diversion structures, constructing fish passage facilities, implementing minimum instream flow requirements, and initiating trap and haul efforts. The objective of the Walla Walla River Fish Passage Operations Project is to increase the survival of migrating adult and juvenile salmonids in the Walla Walla River basin. The project is responsible for coordinating operation and maintenance of ladders, screen sites, bypasses, trap facilities, and transportation equipment. In addition, the project provides technical input on passage criteria and passage and trapping facility design and operation. Operation of the various passage facilities and passage criteria guidelines are outlined in an annual operations plan that the project develops. During the 2002-2003 project year, there were 545 adult summer steelhead (Oncorhynchus mykiss), 29 adult bull trout (Salvelinus confluentus); 1 adult and 1 jack spring chinook (O. tshawytscha) enumerated at the Nursery Bridge Dam fishway adult trap between January 1 and June 23, 2003. Summer steelhead and spring chinook were observed moving upstream while bull trout were observed moving both upstream and downstream of the facility. Operation of the Little Walla Walla River juvenile trap for trap and haul purposes was not necessary this year. The project transported 21 adult spring chinook from Ringold Springs Hatchery and 281 from Threemile Dam to the South Fork Walla Walla Brood Holding Facility. Of these, 290 were outplanted in August for natural spawning in the basin.

  11. A comparison of metrics to evaluate the effects of hydro-facility passage stressors on fish

    Energy Technology Data Exchange (ETDEWEB)

    Colotelo, Alison H.; Goldman, Amy E.; Wagner, Katie A.; Brown, Richard S.; Deng, Z. Daniel; Richmond, Marshall C.

    2017-03-01

    Hydropower is the most common form of renewable energy, and countries worldwide are considering expanding hydropower to new areas. One of the challenges of hydropower deployment is mitigation of the environmental impacts including water quality, habitat alterations, and ecosystem connectivity. For fish species that inhabit river systems with hydropower facilities, passage through the facility to access spawning and rearing habitats can be particularly challenging. Fish moving downstream through a hydro-facility can be exposed to a number of stressors (e.g., rapid decompression, shear forces, blade strike and collision, and turbulence), which can all affect fish survival in direct and indirect ways. Many studies have investigated the effects of hydro-turbine passage on fish; however, the comparability among studies is limited by variation in the metrics and biological endpoints used. Future studies investigating the effects of hydro-turbine passage should focus on using metrics and endpoints that are easily comparable. This review summarizes four categories of metrics that are used in fisheries research and have application to hydro-turbine passage (i.e., mortality, injury, molecular metrics, behavior) and evaluates them based on several criteria (i.e., resources needed, invasiveness, comparability among stressors and species, and diagnostic properties). Additionally, these comparisons are put into context of study setting (i.e., laboratory vs. field). Overall, injury and molecular metrics are ideal for studies in which there is a need to understand the mechanisms of effect, whereas behavior and mortality metrics provide information on the whole body response of the fish. The study setting strongly influences the comparability among studies. In laboratory-based studies, stressors can be controlled by both type and magnitude, allowing for easy comparisons among studies. In contrast, field studies expose fish to realistic passage environments but the comparability is

  12. Fish Passage Center; Columbia Basin Fish and Wildlife Authority, 2001 Annual Report.

    Energy Technology Data Exchange (ETDEWEB)

    DeHart, Michele (Columbia Basin Fish and Wildlife Authority, Fish Passage Center, Portland, OR)

    2002-07-01

    Extremely poor water conditions within the Columbia River Basin along with extraordinary power market conditions created an exceptionally poor migration year for juvenile salmon and steelhead. Monthly 2001 precipitation at the Columbia above Grand Coulee, the Snake River above Ice Harbor, and the Columbia River above The Dalles was approximately 70% of average. As a result the 2001 January-July runoff volume at The Dalles was the second lowest in Columbia River recorded history. As a compounding factor to the near record low flows in 2001, California energy deregulation and the resulting volatile power market created a financial crisis for the Bonneville Power Administration (BPA). Power emergencies were first declared in the summer and winter of 2000 for brief periods of time. In February of 2001, and on April 3, the BPA declared a ''power emergency'' and suspended many of the Endangered Species Act (ESA) and Biological Opinion (Opinion) measures that addressed mainstem Columbia and Snake Rivers juvenile fish passage. The river and reservoir system was operated primarily for power generation. Power generation requirements in January through March coincidentally provided emergence and rearing flows for the Ives-Pierce Islands spawning area below Bonneville Dam. In particular, flow and spill measures to protect juvenile downstream migrant salmon and steelhead were nearly totally suspended. Spring and summer flows were below the Opinion migration target at all sites. Maximum smolt transportation was implemented instead of the Opinion in-river juvenile passage measures. On May 16, the BPA Administrator decided to implement a limited spill for fish passage at Bonneville and The Dalles dams. On May 25, a limited spill program was added at McNary and John Day dams. Spill extended to July 15. Juvenile migrants, which passed McNary Dam after May 21, experienced a noticeable, improved survival, as a benefit of spill at John Day Dam. The suspension of

  13. White River Falls Fish Passage Project, Tygh Valley, Oregon : Final Technical Report, Volume I..

    Energy Technology Data Exchange (ETDEWEB)

    Oregon. Dept. of Fish and Wildlife; Mount Hood National Forest (Or.)

    1985-06-01

    Studies were conducted to describe current habitat conditions in the White River basin above White River Falls and to evaluate the potential to produce anadromous fish. An inventory of spawning and rearing habitats, irrigation diversions, and enhancement opportunities for anadromous fish in the White River drainage was conducted. Survival of juvenile fish at White River Falls was estimated by releasing juvenile chinook and steelhead above the falls during high and low flow periods and recapturing them below the falls in 1983 and 1984. Four alternatives to provide upstream passage for adult salmon and steelhead were developed to a predesign level. The cost of adult passage and the estimated run size of anadromous fish were used to determine the benefit/cost ratio of the preferred alternative. Possible effects of the introduction of anadromous fish on resident fish and on nearby Oak Springs Hatchery were evaluated. This included an inventory of resident species, a genetic study of native rainbow, and the identification of fish diseases in the basin. 28 figs., 23 tabs.

  14. Optimizing Hydro Power Turbines in Order to Secure the Passage of Fishes in Khuzestan province

    Directory of Open Access Journals (Sweden)

    Moona Mohammadi

    2015-04-01

    Full Text Available Nowadays,it is important to consider environmental issues,as ecological problems and their severe effect intensify in Iran,particularly in Khuzestan province.The environmental effects of hydroelectric plants are highly regarded due to their significant impact on an extensive area.The lack of safe path for fish passing through the turbines is one of these damages. In order to deal with these challenges,researchers are trying to optimize hydro power turbines.In this optimization,old runners were replaced,while conditions of fish passing through the turbines and fish survival have been improved.Considering the existence of six hydroelectric power plants in Khuzestan province,it would be possible to conduct optimization or constructing studies with a fish-friendly approach for the safe passage of fishes to slightly reduce the extent of environmental damages.

  15. Walla Walla River Fish Passage Operations Program, 2003-2004 Annual Report.

    Energy Technology Data Exchange (ETDEWEB)

    Bronson, James P. (Confederated Tribes of the Umatilla Indian Reservation, Department of Natural Resources, Pendleton, OR)

    2004-12-01

    In the late 1990s, the Confederated Tribes of the Umatilla Indian Reservation, Oregon Department of Fish and Wildlife, and Washington Department of Fish and Wildlife, along with many other agencies, began implementing fisheries restoration activities in the Walla Walla Basin. An integral part of these efforts is to alleviate the inadequate fish migration conditions in the basin. The migration concerns are being addressed by removing diversion structures, constructing fish passage facilities, implementing minimum instream flow requirements, and providing trap and haul efforts when needed. The objective of the Walla Walla River Fish Passage Operations Project is to increase the survival of migrating adult and juvenile salmonids in the Walla Walla River basin. The project is responsible for coordinating operation and maintenance of ladders, screen sites, bypasses, trap facilities, and transportation equipment. In addition, the project provides technical input on passage criteria and passage and trapping facility design and operation. Operation of the various passage facilities and passage criteria guidelines are outlined in an annual operations plan that the project develops. During the 2003-2004 project year, there were 379 adult summer steelhead (Oncorhynchus mykiss), 36 adult bull trout (Salvelinus confluentus); 108 adult and 3 jack spring chinook (O. tshawytscha) enumerated at the Nursery Bridge Dam fishway video counting window between December 21, 2003, and June 30, 2004. Summer steelhead and spring chinook were observed moving upstream while bull trout were observed moving both upstream and downstream of the facility. In addition, the old ladder trap was operated by the WWBNPME project in order to radio tag spring chinook adults. A total of 2 adult summer steelhead, 4 bull trout, and 23 adult spring chinook were enumerated at the west ladder at Nursery Bridge Dam during the trapping operations between May 6 and May 23, 2004. Operation of the Little Walla Walla

  16. Dams in the Mekong River Basin: Options for Improved Sediment and Fish Passage

    Science.gov (United States)

    Wild, T. B.; Loucks, D. P.

    2014-12-01

    The Mekong River and its tributaries comprise one of the most productive fish habitats in the world today. The economic value of the Mekong fishery in Lao PDR, Cambodia and Vietnam is among the highest in the world, providing income and food security to tens of millions of people. However, the construction of multiple dams in the basin will reduce sediment discharge, which will adversely impact nutrient transport and habitat quality and availability, and disrupt fish migration routes. Thus, of considerable interest is the identification of alternatives to the location, design and operation of planned hydropower dams that could improve sediment passage, enable migratory fish passage, and sustain fish production for local use. This paper describes the results of simulation studies designed to identify and evaluate such alternatives, as well as their potential impact on hydropower production. Dam sites in Cambodia and Lao PDR on tributaries and on the mainstream Mekong River will be discussed. Evaluations of sediment management techniques such as flushing, sluicing and bypassing will be discussed. This study is intended to inform decision makers in Cambodia, Lao PDR and Vietnam about potential alternatives to current plans as they prepare decisions regarding the development of over 100 hydropower dams throughout the basin.

  17. Evaluation of Fish Passage Sites in the Walla Walla River Basin, 2008

    Energy Technology Data Exchange (ETDEWEB)

    Chamness, Mickie A. [Pacific Northwest National Laboratory

    2008-08-29

    In 2008, Pacific Northwest National Laboratory evaluated the Hofer Dam fish screen and provided technical assistance at two other fish passage sites as requested by the Bonneville Power Administration, the Walla Walla Watershed Council, or the Confederated Tribes of the Umatilla Indian Reservation. Evaluation of new sites such as Hofer Dam focuses on their design, construction, operation, and maintenance to determine if they effectively provide juvenile salmonids with safe passage through irrigation diversions. There were two requests for technical assistance in 2008. In the first, the Confederated Tribes of the Umatilla Indian Reservation requested an evaluation of the Nursery Bridge fish screens associated with the fish ladder on the east side of the Walla Walla River. One set of brushes that clean the screens was broken for an extended period. Underwater videography and water velocity measurements were used to determine there were no potential adverse effects on juvenile salmonids when the west set of screens was clean enough to pass water normally. A second request, received from the National Marine Fisheries Service and the Walla Walla Watershed Council, asked for evaluation of water velocities through relatively new head gates above and adjacent to the Eastside Ditch fish screens on the Walla Walla River. Water moving through the head gates and not taken for irrigation is diverted to provide water for the Nursery Bridge fish ladder on the east side of the river. Elevations used in the design of the head gates were incorrect, causing excessive flow through the head gates that closely approached or exceeded the maximum swimming burst speed of juvenile salmonids. Hofer Dam was evaluated in June 2008. PNNL researchers found that conditions at Hofer Dam will not cause impingement or entrainment of juvenile salmonids but may provide habitat for predators and lack strong sweeping flows to encourage juvenile salmonid passage downstream. Further evaluation of

  18. Clackamas/Hood River Habitat Enhancement Program; Collawash River Falls Fish Passage Project, 1992 Annual Report.

    Energy Technology Data Exchange (ETDEWEB)

    Deibel, Robert H. (Mount Hood National Forest, Clackamas River Ranger District, Estacada, OR)

    1993-04-01

    The Forest Service conducted physical habitat and biological monitoring of the project area in 1992. The physical habitat monitoring included determining if the Forest Service needed to do additional channel work and also documenting how the channel changed at various flow events. There appeared to be little change in conditions at the site from 1991 to 1992. In the spring of 1992, summer steelhead were seen upstream of the falls area and one spring chinook salmon was observed in the first pool below the initial cascade. These results imply that the reduction in the number of cascades facilitates fish access through the area. The Forest Service plans to continue monitoring channel changes through time and also plans to continue to do biological monitoring of the upstream areas. Physical habitat monitoring will be conducted to determine if channel maintenance work is necessary to ensure that fish passage remains at the levels approximating conditions seen in 1991 and 1992.

  19. Identifying and Evaluating Options for Improving Sediment Management and Fish Passage at Hydropower Dams in the Lower Mekong River Basin

    Science.gov (United States)

    Wild, T. B.; Reed, P. M.; Loucks, D. P.

    2015-12-01

    The Mekong River basin in Southeast Asia is undergoing intensive and pervasive hydropower development to satisfy demand for increased energy and income to support its growing population of 60 million people. Just 20 years ago this river flowed freely. Today some 30 large dams exist in the basin, and over 100 more are being planned for construction. These dams will alter the river's natural water, sediment and nutrient flows, thereby impacting river morphology and ecosystems, and will fragment fish migration pathways. In doing so, they will degrade one of the world's most valuable and productive freshwater fish habitats. For those dams that have not yet been constructed, there still exist opportunities to modify their siting, design and operation (SDO) to potentially achieve a more balanced set of tradeoffs among hydropower production, sediment/nutrient passage and fish passage. We introduce examples of such alternative SDO opportunities for Sambor Dam in Cambodia, planned to be constructed on the main stem of the Mekong River. To evaluate the performance of such alternatives, we developed a Python-based simulation tool called PySedSim. PySedSim is a daily time step mass balance model that identifies the relative tradeoffs among hydropower production, and flow and sediment regime alteration, associated with reservoir sediment management techniques such as flushing, sluicing, bypassing, density current venting and dredging. To date, there has been a very limited acknowledgement or evaluation of the significant uncertainties that impact the evaluation of SDO alternatives. This research is formalizing a model diagnostic assessment of the key assumptions and parametric uncertainties that strongly influence PySedSim SDO evaluations. Using stochastic hydrology and sediment load data, our diagnostic assessment evaluates and compares several Sambor Dam alternatives using several performance measures related to energy production, sediment trapping and regime alteration, and

  20. Risk Modelling for Passages in Approach Channel

    Directory of Open Access Journals (Sweden)

    Leszek Smolarek

    2013-01-01

    Full Text Available Methods of multivariate statistics, stochastic processes, and simulation methods are used to identify and assess the risk measures. This paper presents the use of generalized linear models and Markov models to study risks to ships along the approach channel. These models combined with simulation testing are used to determine the time required for continuous monitoring of endangered objects or period at which the level of risk should be verified.

  1. Fish Passage Center; Columbia Basin Fish and Wildlife Authority, 2000 Annual Report.

    Energy Technology Data Exchange (ETDEWEB)

    DeHart, Michele (Columbia Basin Fish and Wildlife Authority, Fish Passage Center, Portland, OR)

    2001-06-01

    The year 2000 hydrosystem operations illustrated two main points: (1) that the NMFS Biological Opinion on the operations of the Federal Columbia River Power System (FCRPS) fish migration measures could not be met in a slightly below average water year, and; (2) the impacts and relationships of energy deregulation and volatile wholesale energy prices on the ability of the FCRPS to provide the Biological Opinion fish migration measures. In 2000, a slightly below average water year, the flow targets were not met and, when energy ''emergencies'' were declared, salmon protection measures were reduced. The 2000 migration year was a below average runoff volume year with an actual run off volume of 61.1 MAF or 96% of average. This year illustrated the ability of the hydro system to meet the migration protection measures established by the NMFS Biological Opinion. The winter operation of storage reservoirs was based upon inaccurate runoff volume forecasts which predicted a January-July runoff volume forecast at The Dalles of 102 to 105% of average, from January through June. Reservoir flood control drafts during the winter months occurred according to these forecasts. This caused an over-draft of reservoirs that resulted in less volume of water available for fish flow augmentation in the spring and the summer. The season Biological Opinion flow targets for spring and summer migrants at Lower Granite and McNary dams were not met. Several power emergencies were declared by BPA in the summer of 2000. The first in June was caused by loss of resources (WNP2 went off-line). The second and third emergencies were declared in August as a result of power emergencies in California and in the Northwest. The unanticipated effects of energy deregulation, power market volatility and rising wholesale electricity prices, and Californian energy deregulation reduced the ability of the FCRPS to implement fish protection measures. A Spill Plan Agreement was implemented in

  2. Fish Passage Center; Columbia Basin Fish and Wildlife Authority, 2002 Annual Report.

    Energy Technology Data Exchange (ETDEWEB)

    DeHart, Michele; Berggren, Thomas J.; Filardo, Margaret (Columbia Basin Fish and Wildlife Authority, Fish Passage Center, Portland, OR)

    2003-09-01

    The runoff volumes in 2002 were near average for the January to July period above Lower Granite Dam (80%) and The Dalles Dam (97%). The year 2002 hydrosystem operations and runoff conditions resulted in flows that were less than the seasonal Biological Opinion (Opinion) flow objectives at Lower Granite Dam for both the spring and summer period. The seasonal flow objectives for Priest Rapids and McNary dams were exceeded for the spring period, but at McNary Dam summer flow objectives were not met. While seasonal flow objectives were exceeded for the spring at McNary Dam, the 2002 season illustrated that Biological Opinion management to seasonal flow targets can result in conditions where a major portion of the juvenile fish migration migrates in conditions that are less than the flow objectives. The delay in runoff due to cool weather conditions and the inability of reservoirs to augment flows by drafting lower than the flood control elevations, resulted in flows less than the Opinion objectives until May 22, 2002. By this time approximately 73% of the yearling chinook and 56% of steelhead had already passed the project. For the most part, spill in 2002 was managed below the gas waiver limits for total dissolved gas levels and the NMFS action criteria for dissolved gas signs were not exceeded. The exception was at Lower Monumental Dam where no Biological Opinion spill occurred due to the need to conduct repairs in the stilling basin. Survival estimates obtained for PIT tagged juveniles were similar in range to those observed prior to 2001. A multi-year analysis of juvenile survival and the factors that affect it was conducted in 2002. A water transit time and flow relation was demonstrated for spring migrating chinook and steelhead of Snake River and Mid Columbia River origin. Returning numbers of adults observed at Bonneville Dam declined for spring chinook, steelhead and coho, while summer and fall chinook numbers increased. However, all numbers were far greater

  3. Natural Propagation and Habitat Improvement, Washington, Volume IIA, Tumwater Falls and Dryden Dam Fish Passage, 1983 Final Report.

    Energy Technology Data Exchange (ETDEWEB)

    Unknown Author

    1984-05-01

    This engineering feasibility and predesign report on the Tumwater Falls and Dryden Dam Fish Passage Project provides BPA with information for planning purposes and will serve as a discussion document for interested agencies. Tumwater Falls and Dryden Dams, both on the Wenatchee River, were built in the early 1900's as diversions for hydropower, and irrigation and hydropower, respectively. The present fishway facilities at both sites are inadequate to properly pass the anadromous fish runs in the Wenatchee River. These runs include spring and summer chinook salmon, sockeye salmon, coho salmon and steelhead trout. Predesign level drawings are provided in this report that represent fishway schemes capable of adequately passing present and projected fish runs. The effects of present passage facilities on anadromous fish stocks is addressed both quantitatively and qualitatively. The quantitative treatment assesses losses of adult migrants due to the structures and places an estimated value on those fish. The dollar figure is estimated to be between $391,000 and $701,000 per year for both structures. The qualitative approach to benefits deals with the concept of stock vigor, the need for passage improvements to help ensure the health of the anadromous fish stock. 29 references, 27 figures, 5 tables.

  4. Synthesis of Sensor Fish Data for Assessment of Fish Passage Conditions at Turbines, Spillways, and Bypass Facilities – Phase 1: The Dalles Dam Spillway Case Study

    Energy Technology Data Exchange (ETDEWEB)

    Deng, Zhiqun; Serkowski, John A.; Fu, Tao; Carlson, Thomas J.; Richmond, Marshall C.

    2007-12-31

    This report summarizes the characterization of spillway passage conditions at The Dalles Dam in 2006 and the effort to complete a comprehensive database for data sets from The Dalles Dam spillway Sensor Fish and balloon-tagged live fish experiments. Through The Dalles Dam spillway case study, Pacific Northwest National Laboratory (PNNL) researchers evaluated the database as an efficient means for accessing and retrieving system-wide data for the U.S Army Corps of Engineers (USACE).

  5. Umatilla River Fish Passage Operations Program, 2002-2003 Annual Report.

    Energy Technology Data Exchange (ETDEWEB)

    Bronson, James P. (Confederated Tribes of the Umatilla Indian Reservation, Department of Natural Resources, Pendleton, OR); Duke, Bill B. (Oregon Department of Fish and Wildlife, Pendleton, OR)

    2004-03-01

    Threemile Falls Dam (Threemile Dam), located near the town of Umatilla, is the major collection and counting point for adult salmonids returning to the Umatilla River. Returning salmon and steelhead were enumerated at Threemile Dam from August 17, 2002 to September 29, 2003. A total of 3,080 summer steelhead (Oncorhynchus mykiss); 1716 adult, 617 jack, and 1,709 subjack fall chinook (O. tshawytscha); 3,820 adult and 971 jack coho (O. kisutch); and 3,607 adult and 135 jack spring chinook (O. tshawytscha) were counted. All fish were enumerated at the east bank facility. Of the fish counted, 6 summer steelhead and 330 adult and 49 jack spring chinook were hauled upstream from Threemile Dam. There were 2,882 summer steelhead; 1161 adult, 509 jack and 1,546 subjack fall chinook; 3,704 adult and 915 jack coho; and 2,406 adult and 31 jack spring chinook either released at, or allowed to volitionally migrate past, Threemile Dam. Also, 109 summer steelhead; 532 adult and 32 jack fall chinook; and 560 adult and 28 jack spring chinook were collected for brood. In addition, 282 spring chinook were collected for the outplanting efforts in the Walla Walla Basin. The Westland Canal juvenile facility (Westland), located near the town of Echo at rivermile (RM) 27, is the major collection point for outmigrating juvenile salmonids and steelhead kelts. The canal was open for 159 days between January 27 and July 4, 2003. During that period, fish were bypassed back to the river 145 days and were trapped 11 days. An estimated 205 pounds of juvenile fish were transported from Westland to the Umatilla River boat ramp (RM 0.5). Approximately 82% of the juveniles transported were salmonids. No steelhead kelts were hauled from Westland this year. The Threemile Dam west bank juvenile bypass was opened on September 16, 2002. and continued until November 1, 2002. The bypass was reopened March 3, 2003 and ran until July 3, 2003. The juvenile trap was operated by the Umatilla Passage Evaluation

  6. Hungry Horse Dam fisheries mitigation program: Fish passage and habitat improvement in the Upper Flathead River basin

    International Nuclear Information System (INIS)

    Knotek, W.L.; Deleray, M.; Marotz, B.

    1997-08-01

    In the past 50 years, dramatic changes have occurred in the Flathead Lake and River system. Degradation of fishery resources has been evident, in part due to deterioration of aquatic habitat and introduction of non-endemic fish and invertebrate species. Habitat loss has been attributed to many factors including the construction and operation of Hungry Horse Dam, unsound land use practices, urban development, and other anthropogenic and natural disturbances. Fish migration has also been limited by barriers such as dams and impassible culverts. Cumulatively, these factors have contributed to declines in the distribution and abundance of native fish populations. Recovery of fish populations requires that a watershed approach be developed that incorporates long-term aquatic habitat needs and promotes sound land use practices and cooperation among natural resource management agencies. In this document, the authors (1) describe completed and ongoing habitat improvement and fish passage activities under the Hungry Horse Fisheries Mitigation Program, (2) describe recently identified projects that are in the planning stage, and (3) develop a framework for identifying prioritizing, implementing, and evaluating future fish habitat improvement and passage projects

  7. Characterizing the Fish Passage Environment at The Dalles Dam Spillway: 2001-2004

    Energy Technology Data Exchange (ETDEWEB)

    Richmond, Marshall C.; Carlson, Thomas J.; Serkowski, John A.; Cook, Chris B.; Duncan, Joanne P.; Perkins, William A.

    2007-10-10

    The spill environment at The Dalles Dam in 2001-2004 was characterized using a field-deployed autonomous sensor (the so-called Sensor Fish), computational fluid dynamics (CFD) modeling, and Lagrangian particle tracking. The sensor fish has a self-contained capability to digitally the record pressure and triaxial accelerations it was exposed to following its release into the spillway. After recovery downstream of the tailrace, the data stored in the memory of the sensor are downloaded and stored for analysis. The spillway, stilling basin, and tailrace hydrodynamics were simulated using an unsteady, free-surface, three-dimensional CFD code that solved the Reynolds-averaged Navier-Stokes equations in conjunction with a two-equation turbulence model. The results from the CFD simulations were then used in a Lagrangian particle tracking model that included the effects of mass, drag, and buoyancy in the particle equation of motion. A random walk method was used to simulate the effects of small-scale turbulence on the particle motion. Several operational and structural conditions were evaluated using the Sensor Fish, CFD, and particle tracking. Quantifying events such as strike and stilling basin retention time characterized exposure conditions in the spill environment.

  8. A barrier to upstream migration in the fish passage of Itaipu Dam (Canal da Piracema, Paraná River basin

    Directory of Open Access Journals (Sweden)

    Hélio Martins Fontes Júnior

    Full Text Available The majority of the fish passages built in the Neotropical region are characterised by low efficiency and high selectivity; in many cases, the benefits to fish populations are uncertain. Studies conducted in the Canal da Piracema at Itaipu dam on the Parana River indicate that the system component designated as the Discharge channel in the Bela Vista River (herein named Canal de deságue no rio Bela Vista or CABV, a 200 m long technical section, was the main barrier to the upstream migration. The aim of this study was to evaluate the degree of restriction imposed by the CABV on upstream movements of Prochilodus lineatus and Leporinus elongatus, Characiformes. Fish were tagged with passive integrated transponders (PIT tags and released both downstream and upstream of this critical section. Individuals of both species released downstream of the CABV took much more time to reach the upper end of the system (43.6 days vs. 15.9 days, and passed in much lower proportions (18% vs. 60.8% than those tagged upstream of this component. Although more work is needed to differentiate between fishway effects and natural variation in migratory motivation, the results clearly demonstrate passage problems at the CABV.

  9. A barrier to upstream migration in the fish passage of Itaipu Dam (Canal da Piracema), Paraná River basin

    Science.gov (United States)

    ,; Fontes Júnior, Hélio Martins; Makrakis, Sergio; Gomes, Luiz Carlos; Latini, João Dirço

    2012-01-01

    The majority of the fish passages built in the Neotropical region are characterised by low efficiency and high selectivity; in many cases, the benefits to fish populations are uncertain. Studies conducted in the Canal da Piracema at Itaipu dam on the Parana River indicate that the system component designated as the Discharge channel in the Bela Vista River (herein named Canal de deságue no rio Bela Vista or CABV), a 200 m long technical section, was the main barrier to the upstream migration. The aim of this study was to evaluate the degree of restriction imposed by the CABV on upstream movements of Prochilodus lineatus and Leporinus elongatus, Characiformes. Fish were tagged with passive integrated transponders (PIT tags) and released both downstream and upstream of this critical section. Individuals of both species released downstream of the CABV took much more time to reach the upper end of the system (43.6 days vs. 15.9 days), and passed in much lower proportions (18% vs. 60.8%) than those tagged upstream of this component. Although more work is needed to differentiate between fishway effects and natural variation in migratory motivation, the results clearly demonstrate passage problems at the CABV.

  10. Knowledge exchange for efficient passage of fish in the southern hemispere (KEEPFISH)

    DEFF Research Database (Denmark)

    Wilkes, M. A.; Aarestrup, Kim; Jepsen, Niels

    The decline of freshwater fish biodiversity is proceeding at an alarming and persistent rate. Given that most fish must undertake some form of migration in order to complete their life-cycle, of particular concern is the proliferation of hydropower schemes that block migration routes, as well...

  11. Identifying the effects on fish of changes in water pressure during turbine passage

    Energy Technology Data Exchange (ETDEWEB)

    Becker, James M. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Abernathy, C. Scott [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Dauble, Dennis D. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States)

    2003-09-01

    This article discusses experiments conducted by the Pacific Northwest National Laboratory to determine how water pressure and dissolved gas levels associated with hydroelectric facilities may affect the survival of fish. The results of the experiments are discussed as well as how these results can be applied to turbine designs and plant operation.

  12. Umatilla River Fish Passage Operations Project : Annual Progress Report October 2007 - September 2008.

    Energy Technology Data Exchange (ETDEWEB)

    Bronson, James P.; Loffink, Ken; Duke, Bill

    2008-12-31

    Threemile Falls Dam (Threemile Dam), located near the town of Umatilla, is the major collection and counting point for adult salmonids returning to the Umatilla River. Returning salmon and steelhead were enumerated at Threemile Dam from June 7, 2007 to August 11, 2008. A total of 3,133 summer steelhead (Oncorhynchus mykiss); 1,487 adult, 1,067 jack, and 999 subjack fall Chinook (O. tshawytscha); 5,140 adult and 150 jack coho (O. kisutch); and 2,009 adult, 517 jack, and 128 subjack spring Chinook (O. tshawytscha) were counted. All fish were enumerated at the east bank facility. Of the fish counted, 1,442 summer steelhead and 88 adult and 84 jack spring Chinook were hauled upstream from Threemile Dam. There were 1,497 summer steelhead; 609 adult, 1,018 jack and 979 subjack fall Chinook; 5,036 adult and 144 jack coho; and 1,117 adult, 386 jack and 125 subjack spring Chinook either released at, or allowed to volitionally migrate past, Threemile Dam. Also, 110 summer steelhead; 878 adult and 43 jack fall Chinook; and 560 adult and 28 jack spring Chinook were collected as broodstock for the Umatilla River hatchery program. In addition, there were 241 adult and 15 jack spring Chinook collected at Threemile Dam for outplanting in the South Fork Walla Walla River and Mill Cr, a tributary of the mainstem Walla Walla River. The Westland Canal juvenile facility (Westland), located near the town of Echo at river mile (RM) 27, is the major collection point for out-migrating juvenile salmonids and steelhead kelts. The canal was open for 158 days between February 11, 2008 and July 18, 2008. During that period, fish were bypassed back to the river 150 days and were trapped 6 days. There were also 2 days when fish were directed into and held in the canal forebay between the time the bypass was closed and the trap opened. An estimated 64 pounds of fish were transported from the Westland trapping facility. Approximately 25.8% of the fish transported were salmonids. In addition, one

  13. Umatilla River Fish Passage Operations Program, 2003-2004 Annual Report.

    Energy Technology Data Exchange (ETDEWEB)

    Bronson, James P. (Confederated Tribes of the Umatilla Indian Reservation, Department of Natural Resources, Pendleton, OR); Duke, Bill B. (Oregon Department of Fish and Wildlife, Pendleton, OR)

    2005-08-01

    Threemile Falls Dam (Threemile Dam), located near the town of Umatilla, is the major collection and counting point for adult salmonids returning to the Umatilla River. Returning salmon and steelhead were enumerated at Threemile Dam from August 19, 2003 to July 8, 2004. A total of 3,388 summer steelhead (Oncorhynchus mykiss); 1,482 adult, 638 jack, and 2,150 subjack fall chinook (O. tshawytscha); 8,319 adult and 667 jack coho (O. kisutch); and 2,965 adult and 270 jack spring chinook (O. tshawytscha) were counted. All fish were enumerated at the east bank facility. Of the fish counted, 34 summer steelhead and 31 adult and 9 jack spring chinook were hauled upstream from Threemile Dam. There were 3,166 summer steelhead; 1,076 adult, 554 jack and 2,026 subjack fall chinook; 8,213 adult and 647 jack coho; and 2,152 adult and 174 jack spring chinook either released at, or allowed to volitionally migrate past, Threemile Dam. Also, 121 summer steelhead; 388 adult and 19 jack fall chinook; and 561 adult and 29 jack spring chinook were collected for brood. In addition, 239 spring chinook were collected for the outplanting efforts in the Walla Walla Basin. There were also 25 pair hatchery steelhead adults collected for the progeny maker study. The Westland Canal juvenile facility (Westland), located near the town of Echo at rivermile (RM) 27, is the major collection point for outmigrating juvenile salmonids and steelhead kelts. The canal was open for 184 days between January 12 and July 6, 2004. During that period, fish were bypassed back to the river 173 days and were trapped 10 days. An estimated 44 pounds of juvenile fish were transported from Westland to the Umatilla River boat ramp (RM 0.5). Approximately 84% of the juveniles transported were salmonids. No steelhead kelts were hauled from Westland this year. The Threemile Dam west bank juvenile bypass was opened on February 10, 2004 for outmigration sampling and continued until July 7, 2004 when sampling was discontinued

  14. Statistical modelling of fish stocks

    DEFF Research Database (Denmark)

    Kvist, Trine

    1999-01-01

    for modelling the dynamics of a fish population is suggested. A new approach is introduced to analyse the sources of variation in age composition data, which is one of the most important sources of information in the cohort based models for estimation of stock abundancies and mortalities. The approach combines...... and it is argued that an approach utilising stochastic differential equations might be advantagous in fish stoch assessments....

  15. Synthesis of downstream fish passage information at projects owned by the U.S. Army Corps of Engineers in the Willamette River Basin, Oregon

    Science.gov (United States)

    Hansen, Amy C.; Kock, Tobias J.; Hansen, Gabriel S.

    2017-08-07

    The U.S. Army Corps of Engineers (USACE) operates the Willamette Valley Project (Project) in northwestern Oregon, which includes a series of dams, reservoirs, revetments, and fish hatcheries. Project dams were constructed during the 1950s and 1960s on rivers that supported populations of spring Chinook salmon (Oncorhynchus tshawytscha), winter steelhead (O. mykiss), and other anadromous fish species in the Willamette River Basin. These dams, and the reservoirs they created, negatively affected anadromous fish populations. Efforts are currently underway to improve passage conditions within the Project and enhance populations of anadromous fish species. Research on downstream fish passage within the Project has occurred since 1960 and these efforts are documented in numerous reports and publications. These studies are important resources to managers in the Project, so the USACE requested a synthesis of existing literature that could serve as a resource for future decision-making processes. In 2016, the U.S. Geological Survey conducted an extensive literature review on downstream fish passage studies within the Project. We identified 116 documents that described studies conducted during 1960–2016. Each of these documents were obtained, reviewed, and organized by their content to describe the state-of-knowledge within four subbasins in the Project, which include the North Santiam, South Santiam, McKenzie, and Middle Fork Willamette Rivers. In this document, we summarize key findings from various studies on downstream fish passage in the Willamette Project. Readers are advised to review specific reports of interest to insure that study methods, results, and additional considerations are fully understood.

  16. Natural Propagation and Habitat Improvement, Volume I, Oregon Supplement 5: White River Falls Fish Passage, 1983 Annual Report.

    Energy Technology Data Exchange (ETDEWEB)

    Lindsay, Robert

    1984-04-01

    Biological and physical characteristics of White River drainage were studied in 1983 to determine the feasibility of introducing anadromous salmonids into the watershed. Access to White River by anadromous fish is presently blocked by waterfalls located 3.4 km from the confluence with the Deschutes River. Mortality of juvenile chinook salmon from a 43 m free fall at White River Falls does not appear to be significant during high flows (300 to 500 cfs) but may be significant at low flows (115 to 150 cfs). At low flow the recapture of fish released in the south channel above the falls was 54% lower than the recapture of control fish released below the falls. The recapture of two releases in the north channel was 37% lower than the recapture of control groups. We surveyed 94 km of the lower reaches of 7 tributaries below the boundary of the Mt. Hood National Forest. We identified 8325 m/sup 2/ of anadromous spawning gravel of which 52% was good quality, 20 water withdrawals for irrigation that took a total of 33 cfs of water, 13 barriers to upstream migration of which 3 were waterfalls of 3.1 to 7.6 m, and 138 major holding and rearing pools. Maximum water temperatures of 25/sup 0/C or greater and diurnal fluctuations of around 10/sup 0/C were recorded in the lower reaches of several streams. The maximum water temperature in upper reaches of streams above the forest boundary was 13 to 14/sup 0/C. Habitat improvement opportunities identified in surveys of the lower reaches included barrier modifications for upstream passage, in-stream structures to develop pools and retain gravels, structures to reduce bank erosion, and streamside fensing to protect riparian zones. 10 references, 34 figures, 20 tables.

  17. A model for closing the inviscid form of the average passage equation system

    Science.gov (United States)

    Adamczyk, John J.; Mulac, R. A.; Celestina, M. L.

    1996-01-01

    A mathematical model for closing or mathematically completing the system of equations is proposed. The model describes the time average flow field through the blade passages of multistage turbomachinery. These average-passage equation systems govern a conceptual model useful in turbomachinery aerodynamic design and analysis. The closure model was developed to insure a consistency between these equations and the axisymmetric through-flow equations. The closure model was incorporated into a calculation code for use in the simulation of the flow field about a high-speed counter rotating propeller and a high-speed fan stage.

  18. A model for closing the inviscid form of the average-passage equation system

    Science.gov (United States)

    Adamczyk, J. J.; Mulac, R. A.; Celestina, M. L.

    1986-01-01

    A mathematical model is proposed for closing or mathematically completing the system of equations which describes the time average flow field through the blade passages of multistage turbomachinery. These equations referred to as the average passage equation system govern a conceptual model which has proven useful in turbomachinery aerodynamic design and analysis. The closure model is developed so as to insure a consistency between these equations and the axisymmetric through flow equations. The closure model was incorporated into a computer code for use in simulating the flow field about a high speed counter rotating propeller and a high speed fan stage. Results from these simulations are presented.

  19. A 2.5D Single Passage CFD Model for Centrifugal Pumps

    Science.gov (United States)

    Nakamura S.; Ding, W.; Yano, K.

    1998-01-01

    This paper describes the single passage model based on CFD to analyze the flow in blade passages of a centrifugal pump. The model consists of the flow passage between two impeller blades and the spaces in the inlet eye as well as in the volute. The incompressible Navier-Stokes equations in the conservation form are solved by a finite difference method. The code is designed to investigate the velocity and pressure distributions and intended to investigate how the pump design affects fluid flow through the rotor as well as the pump performance. An early part of the paper investigates the behavior of the model as well as validity of the assumptions made in the model. Then, applications to a rotodynamic heart pump are presented.

  20. Invasive zebra mussels (Driessena polymorpha) and Asian clams (Corbicula fluminea) survive gut passage of migratory fish species: implications for dispersal

    Science.gov (United States)

    Gatlin, Michael R.; Shoup, Daniel E.; Long, James M.

    2013-01-01

    The introduction and spread of invasive species is of great concern to natural resource managers in the United States. To effectively control the spread of these species, managers must be aware of the multitude of dispersal methods used by the organisms. We investigated the potential for survival through the gut of a migrating fish (blue catfish, Ictalurus furcatus) as a dispersal mechanism for two invasive bivalves: zebra mussel (Driessena polymorpha) and Asian clam (Corbicula fluminea). Blue catfish (N = 62) were sampled over several months from Sooner Lake, Oklahoma, transported to a laboratory and held in individual tanks for 48 h. All fecal material was collected and inspected for live mussels. Survival was significantly related to water temperature in the lake at the time of collection, with no mussels surviving above 21.1 C°, whereas 12 % of zebra mussels (N = 939) and 39 % of Asian clams (N = 408) consumed in cooler water survived gut passage. This research demonstrates the potential for blue catfish to serve as a dispersal vector for invasive bivalves at low water temperatures.

  1. Analysis of environmental issues related to small-scale hydroelectric development IV: fish mortality resulting from turbine passage

    Energy Technology Data Exchange (ETDEWEB)

    Turbak, S. C.; Reichle, D. R.; Shriner, C. R.

    1981-01-01

    This document presents a state-of-the-art review of literature concerning turbine-related fish mortality. The review discusses conventional and, to a lesser degree, pumped-storage (reversible) hydroelectric facilities. Much of the research on conventional facilities discussed in this report deals with studies performed in the Pacific Northwest and covers both prototype and model studies. Research conducted on Kaplan and Francis turbines during the 1950s and 1960s has been extensively reviewed and is discussed. Very little work on turbine-related fish mortality has been undertaken with newer turbine designs developed for more modern small-scale hydropower facilities; however, one study on a bulb unit (Kaplan runner) has recently been released. In discussing turbine-related fish mortality at pumped-storage facilities, much of the literature relates to the Ludington Pumped Storage Power Plant. As such, it is used as the principal facility in discussing research concerning pumped storage.

  2. Hungry Horse Dam Fisheries Mitigation : Fish Passage and Habitat Improvement in the Upper Flathead River Basin, 1991-1996 Progress Report.

    Energy Technology Data Exchange (ETDEWEB)

    Knotek, W.Ladd; Deleray, Mark; Marotz, Brian L.

    1997-08-01

    In the past 50 years, dramatic changes have occurred in the Flathead Lake and River system. Degradation of fishery resources has been evident, in part due to deterioration of aquatic habitat and introduction of non-endemic fish and invertebrate species. Habitat loss has been attributed to many factors including the construction and operation of Hungry Horse Dam, unsound land use practices, urban development, and other anthropogenic and natural disturbances. Fish migration has also been limited by barriers such as dams and impassible culverts. Cumulatively, these factors have contributed to declines in the distribution and abundance of native fish populations. Recovery of fish populations requires that a watershed approach be developed that incorporates long-term aquatic habitat needs and promotes sound land use practices and cooperation among natural resource management agencies. In this document, the authors (1) describe completed and ongoing habitat improvement and fish passage activities under the Hungry Horse Fisheries Mitigation Program, (2) describe recently identified projects that are in the planning stage, and (3) develop a framework for identifying prioritizing, implementing, and evaluating future fish habitat improvement and passage projects.

  3. Evaluation of the Fish Passage Effectiveness of the Bonneville I Prototype Surface Collector using Three-Dimensional Ultrasonic Fish Tracking

    Energy Technology Data Exchange (ETDEWEB)

    Faber, Derrek M.; Weiland, Mark A.; Moursund, Robert; Carlson, Thomas J.; Adams, Noah; Rhondorf, D.

    2001-05-01

    This report describes tests conducted at Bonneville Dam on the Columbia River in the spring of 2000 using three-dimensional acoustic telemetry and computational fluid dynamics hydraulic modeling to observe the response of outmigrating juvenile steelhead and yearling chinook to a prototype surface collector installed at the Powerhouse. The study described in this report was one of several conducted for the U.S. Army Corps of Engineers to prepare a decision document on which of two bypass methods: surface flow bypass or extended-length submersible bar screens to use to help smolts pass around Bonneville dams without going through the turbines.

  4. Feasibility of Documenting and Estimating Adult Fish Passage at Large Hydroelectric Facilities in the Snake River Using Video Technology; 1993 Final Report.

    Energy Technology Data Exchange (ETDEWEB)

    Hatch, Douglas R.; Pederson, David R.; Fryer, Jeffrey

    1994-07-01

    Lower Granite Dam on the Snake River to evaluate the feasibility of using video technology to document and estimate fish ladder passage of chinook salmon Oncorhynchus tshawytscha, sockeye salmon O. nerka, and steelhead O. mykiss. A video system was to produced video images during salmon passage periods. A technician identified and counted fish images from the video record. Fish ladder passage estimates of target species made from the video record were similar to estimates made by on-site counters during daytime periods, indicating that the two methods were relatively precise. We also found that a significant percentage (6.4% and 8.3%) of target salmonids migrated during nighttime periods when on-site counts were not typically made during the two years of study. Analysis of the video record permitted verification of individual sockeye salmon identified and counted by on-site count personnel, and provided data useful to managers of this ESA-listed stock. Analysis of the video record also permitted collection of additional data such as length measurements of individual specimens, which was used to regulate a fishery located upstream.

  5. Passage and behaviour of cultured Lake Sturgeon in a prototype side-baffle fish ladder: I. Ladder hydraulics and fish ascent

    Science.gov (United States)

    Kynard, B.; Pugh, D.; Parker, T.

    2011-01-01

    Research and development of a fish ladder for sturgeons requires understanding ladder hydraulics and sturgeon behaviour in the ladder to insure the ladder is safe and provides effective passage. After years of research and development, we designed and constructed a full-scale prototype side-baffle ladder inside a spiral flume (38.3m long??1m wide??1m high) on a 6% (1:16.5) slope with a 1.92-m rise in elevation (bottom to top) to test use by sturgeons. Twenty-eight triangular side baffles, each extending part way across the flume, alternated from inside wall to outside wall down the ladder creating two major flow habitats: a continuous, sinusoidal flow down the ladder through the vertical openings of side-baffles and an eddy below each side baffle. Ascent and behaviour was observed on 22 cultured Lake Sturgeon=LS (Acipenser fulvescens) repeatedly tested in groups as juveniles (as small as 105.1cm TL, mean) or as adults (mean TL, 118cm) during four periods (fall 2002 and 2003; spring 2003 and 2007). Percent of juveniles entering the ladder that ascended to the top was greater in spring (72.7%) than in fall (40.9-45.5%) and 90.9% of 11 adults, which ascended as juveniles, ascended to the top. Six LS (27.3%) never swam to the top and seven (31.8%) swam to the top in all tests, indicating great variability among individuals for ascent drive. Some LS swam directly to the top in <1min, but most rested in an eddy during ascent. Juveniles swimming through outside wall baffle slots (mean velocity, 1.2ms-1) swam at 1.8-2.2body lengthss-1 and 3.2-3.3tail beatss-1, either at or approaching prolonged swimming speed. The side-baffle ladder was stream-like and provided key factors for a sturgeon ladder: a continuous flow and no full cross-channel walls, abundant eddies for resting, an acceptable water depth, and a water velocity fish could ascend swimming 2bls-1. A side-baffle ladder passes LS and other moderate-swimming fishes. ?? 2011 Blackwell Verlag, Berlin.

  6. Fast and accurate calculations for cumulative first-passage time distributions in Wiener diffusion models

    DEFF Research Database (Denmark)

    Blurton, Steven Paul; Kesselmeier, M.; Gondan, Matthias

    2012-01-01

    We propose an improved method for calculating the cumulative first-passage time distribution in Wiener diffusion models with two absorbing barriers. This distribution function is frequently used to describe responses and error probabilities in choice reaction time tasks. The present work extends ...

  7. Numerical modeling of the 1964 Alaska tsunami in western Passage Canal and Whittier, Alaska

    Directory of Open Access Journals (Sweden)

    D. J. Nicolsky

    2010-12-01

    Full Text Available A numerical model of the wave dynamics in Passage Canal, Alaska during the Mw 9.2 megathrust earthquake is presented. During the earthquake, several types of waves were identified at the city of Whittier, located at the head of Passage Canal. The first wave is thought to have been a seiche, while the other two waves were probably triggered by submarine landslides. We model the seiche wave, landslide-generated tsunami, and tectonic tsunami in Passage Canal and compute inundation by each type of wave during the 1964 event. Modeled results are compared with eyewitness reports and an observed inundation line. Results of the numerical experiments let us identify where the submarine landslides might have occurred during the 1964 event. We identify regions at the head and along the northern shore of Passage Canal, where landslides triggered a wave that caused most of the damage in Whittier. An explanation of the fact that the 1964 tectonic tsunami in Whittier was unnoticed is presented as well. The simulated inundation by the seiche, landslide-generated tsunami, and tectonic tsunami can help to mitigate tsunami hazards and prepare Whittier for a potential tsunami.

  8. Passage of fish larvae and eggs through the Funil, Itutinga and Camargos Reservoirs on the upper Rio Grande (Minas Gerais, Brazil

    Directory of Open Access Journals (Sweden)

    Fábio Mineo Suzuki

    Full Text Available The objective of this study was to evaluate the passage of fish eggs and larvae through the Funil, Itutinga and Camargos Reservoirs, located in the upper Rio Grande basin, Minas Gerais, Brazil. Samples were taken downstream and upstream of the dams using a conical ichthyoplankton net and were collected every two weeks, twice per sampling day, between November 2008 and March 2009. Although eggs and larvae were abundant immediately upstream of the reservoirs, no ichthyoplankton were captured immediately downstream of the dams, possibly indicating that eggs and larvae do not pass through the reservoirs. The arrival of ichthyoplankton in the reservoirs without its effective passage downstream makes the survival of these eggs and larvae unlikely. Furthermore, this lack of downstream movement may compromise the recruitment of species to downstream stretches, especially in the case of the Funil Reservoir (because of the presence of a fish pass in this dam. We emphasize that the fish lift operation at the Funil Dam must be carefully assessed, considering not only its efficiency but also its short- and long-term effects on the recruitment of migratory fish species from the river.

  9. High-resolution modeling assessment of tidal stream resource in Western Passage of Maine, USA

    Science.gov (United States)

    Yang, Zhaoqing; Wang, Taiping; Feng, Xi; Xue, Huijie; Kilcher, Levi

    2017-04-01

    Although significant efforts have been taken to assess the maximum potential of tidal stream energy at system-wide scale, accurate assessment of tidal stream energy resource at project design scale requires detailed hydrodynamic simulations using high-resolution three-dimensional (3-D) numerical models. Extended model validation against high quality measured data is essential to minimize the uncertainties of the resource assessment. Western Passage in the State of Maine in U.S. has been identified as one of the top ranking sites for tidal stream energy development in U.S. coastal waters, based on a number of criteria including tidal power density, market value and transmission distance. This study presents an on-going modeling effort for simulating the tidal hydrodynamics in Western Passage using the 3-D unstructured-grid Finite Volume Community Ocean Model (FVCOM). The model domain covers a large region including the entire the Bay of Fundy with grid resolution varies from 20 m in the Western Passage to approximately 1000 m along the open boundary near the mouth of Bay of Fundy. Preliminary model validation was conducted using existing NOAA measurements within the model domain. Spatial distributions of tidal power density were calculated and extractable tidal energy was estimated using a tidal turbine module embedded in FVCOM under different tidal farm scenarios. Additional field measurements to characterize resource and support model validation were discussed. This study provides an example of high resolution resource assessment based on the guidance recommended by the International Electrotechnical Commission Technical Specification.

  10. Migratory delay leads to reduced passage success of Atlantic salmon smolts at a hydroelectric dam

    Science.gov (United States)

    Nyqvist, Daniel; Greenberg, L.; Goerig, E.; Calles, O.; Bergman, E.; Ardren, William R.; Castro-Santos, Theodore R.

    2017-01-01

    Passage of fish through hydropower dams is associated with mortality, delay, increased energy expenditure and migratory failure for migrating fish and the need for remedial measures for both upstream and downstream migration is widely recognised. A functional fish passage must ensure safe and timely passage routes that a substantial portion of migrating fish will use. Passage solutions must address not only the number or percentage of fish that successfully pass a barrier, but also the time it takes to pass. Here, we used radiotelemetry to study the functionality of a fish bypass for downstream-migrating wild-caught and hatchery-released Atlantic salmon smolts. We used time-to-event analysis to model the influence of fish characteristics and environmental variables on the rates of a series of events associated with dam passage. Among the modelled events were approach rate to the bypass entry zone, retention rates in both the forebay and the entry zone and passage rates. Despite repeated attempts, only 65% of the tagged fish present in the forebay passed the dam. Fish passed via the bypass (33%), via spill (18%) and via turbines (15%). Discharge was positively related to approach, passage and retention rates. We did not detect any differences between wild and hatchery fish. Even though individual fish visited the forebay and the entry zone on multiple occasions, most fish passed during the first exposures to these zones. This study underscores the importance of timeliness to passage success and the usefulness of time-to-event analysis for understanding factors governing passage performance.

  11. New Concepts in Fish Ladder Design: Analysis of Barriers to Upstream Fish Migration, Volume IV of IV, Investigation of the Physical and Biological Conditions Affecting Fish Passage Success at Culverts and Waterfalls, 1982-1984 Final Report.

    Energy Technology Data Exchange (ETDEWEB)

    Powers, Patrick D.; Orsborn, John F.

    1985-08-01

    A synopsis of the project components was prepared to provide an overview for persons who are not fisheries scientists or engineers. This short report can be used also by technical persons who are interested in the scope of the project, and as a summary of the three main reports. The contents includes an historical perspective on fishway design which provides the basis for this project. The major project accomplishments and significant additions to the body of knowledge about the analysis and design of fishways are discussed. In the next section the research project organization, objectives and components are presented to familiarize the reader with the scope of this project. The summary report concludes with recommendations for assisting in the enhancement and restoration of fisheries resources from the perspective of fish passage problems and their solution. Promising research topics are included.

  12. Validation of a Functional Pyelocalyceal Renal Model for the Evaluation of Renal Calculi Passage While Riding a Roller Coaster.

    Science.gov (United States)

    Mitchell, Marc A; Wartinger, David D

    2016-10-01

    The identification and evaluation of activities capable of dislodging calyceal renal calculi require a patient surrogate or validated functional pyelocalyceal renal model. To evaluate roller coaster facilitation of calyceal renal calculi passage using a functional pyelocalyceal renal model. A previously described adult ureteroscopy and renoscopy simulator (Ideal Anatomic) was modified and remolded to function as a patient surrogate. Three renal calculi of different sizes from the patient who provided the original computed tomographic urograph on which the simulator was based were used. The renal calculi were suspended in urine in the model and taken for 20 rides on the Big Thunder Mountain Railroad roller coaster at Walt Disney World in Orlando, Florida. The roller coaster rides were analyzed using variables of renal calculi volume, calyceal location, model position on the roller coaster, and renal calculi passage. Sixty renal calculi rides were analyzed. Independent of renal calculi volume and calyceal location, front seating on the roller coaster resulted in a passage rate of 4 of 24. Independent of renal calculi volume and calyceal location, rear seating on the roller coaster resulted in a passage rate of 23 of 36. Independent of renal calculi volume in rear seating, calyceal location differed in passage rates, with an upper calyceal calculi passage rate of 100%; a middle calyceal passage rate of 55.6%; and a lower calyceal passage rate of 40.0%. The functional pyelocalyceal renal model serves as a functional patient surrogate to evaluate activities that facilitate calyceal renal calculi passage. The rear seating position on the roller coaster led to the most renal calculi passages.

  13. Modelling of Conveyor Belt Passage by Driving Drum Using Finite Element Methods

    Directory of Open Access Journals (Sweden)

    Nikoleta Mikušová

    2017-12-01

    Full Text Available The finite element methods are used in many disciplines by the development of products, typically in mechanical engineering (for example in automotive industry, biomechanics, etc.. Some modern programs of the finite element's methods have specific tools (electromagnetic, fluid and structural simulations. The finite elements methods allow detailed presentation of structures by bending or torsion, complete design, testing and optimization before the prototype production. The aims of this paper were to the model of conveyor belt passage by driving drum. The model was created by the program Abaqus CAE. The created model presented data about forces, pressures, and deformation of the belt conveyor.

  14. Brook trout passage performance through culverts

    Science.gov (United States)

    Goerig, Elsa; Castro-Santos, Theodore R.; Bergeron, Normand

    2016-01-01

    Culverts can restrict access to habitat for stream-dwelling fishes. We used passive integrated transponder telemetry to quantify passage performance of >1000 wild brook trout (Salvelinus fontinalis) attempting to pass 13 culverts in Quebec under a range of hydraulic and environmental conditions. Several variables influenced passage success, including complex interactions between physiology and behavior, hydraulics, and structural characteristics. The probability of successful passage was greater through corrugated metal culverts than through smooth ones, particularly among smaller fish. Trout were also more likely to pass at warmer temperatures, but this effect diminished above 15 °C. Passage was impeded at higher flows, through culverts with steep slopes, and those with deep downstream pools. This study provides insight on factors influencing brook trout capacity to pass culverts as well as a model to estimate passage success under various conditions, with an improved resolution and accuracy over existing approaches. It also presents methods that could be used to investigate passage success of other species, with implications for connectivity of the riverscape.

  15. Hydropower R&D: Recent Advances in Turbine Passage Technology

    Energy Technology Data Exchange (ETDEWEB)

    Rinehart, Bennie Nelson; Cada, G. F.

    2000-04-01

    The purpose of this report is to describe the recent and planned R&D activities across the U.S. related to survival of fish entrained in hydroelectric turbines. In this report, we have considered studies that are intended to develop new information that can be used to mitigate turbine-passage mortality. This review focuses on the effects on fish of physical or operational modifications to turbines, comparisons to survival in other downstream passage routes (e.g., bypass systems and spillways), and applications of new modeling, experimental, and technological approaches to develop a greater understanding of the stresses associated with turbine passage. In addition, the emphasis is on biological studies, as opposed to the engineering studies (e.g., turbine index testing) that re often carried out in support of fish passage mitigation efforts.

  16. Hydropower R&D: Recent advances in turbine passage technology

    Energy Technology Data Exchange (ETDEWEB)

    Cada, Glenn F. [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Rinehart, Ben N. [Idaho National Lab. (INL), Idaho Falls, ID (United States). Idaho National Engineering and Environmental Lab. (INEEL)

    2000-04-01

    The purpose of this report is to describe the recent and planned R&D activities across the U.S. related to survival of fish entrained in hydroelectric turbines. In this report, we have considered studies that are intended to develop new information that can be used to mitigate turbine-passage mortality. This review focuses on the effects on fish of physical or operational modifications to turbines, comparisons to survival in other downstream passage routes (e.g., bypass systems and spillways), and applications of new modeling, experimental, and technological approaches to develop a greater understanding of the stresses associated with turbine passage. In addition, the emphasis is on biological studies, as opposed to the engineering studies (e.g., turbine index testing) that are often carried out in support of fish passage mitigation efforts.

  17. Evaluation of the fish passage effectiveness of the Bonneville I prototype surface collector using three-dimensional ultrasonic fish tracking - Final Report

    Science.gov (United States)

    Faber, D.M; Weiland, M.A.; Moursund, R.A.; Carlson, T.J.; Adams, N.; Rondorf, D.

    2001-01-01

    This report describes tests conducted at Bonneville Dam on the Columbia River in the spring of 2000. The studies used three-dimensional (3D) acoustic telemetry and computational fluid dynamics (CFD) hydraulic modeling techniques to evaluate the response of outmigrating juvenile steelhead (Oncorhynchus mykiss) and yearling chinook (O. tshawytscha) to the Prototype Surface Collector (PSC) installed at Powerhouse I of Bonneville Dam in 1998 to test the concept of using a deep-slot surface bypass collector to divert downstream migrating salmon from turbines. The study was conducted by Pacific Northwest National Laboratory (PNNL), the Waterways Experiment Station of the U.S. Army Corp of Engineers (COE), Asci Corporation, and the U.S. Geological Survey (USGS), and was sponsored by COE’s Portland District. The goal of the study was to observe the three-dimensional behavior of tagged fish (fish bearing ultrasonic micro-transmitters) within 100 meters (m) of the surface flow bypass structure to test hypotheses about the response of migrants to flow stimuli generated by the presence of the surface flow bypass prototype and its operation. Research was done in parallel with radio telemetry studies conducted by USGS and hydroacoustic studies conducted by WES & Asci to evaluate the prototype surface collector.

  18. Therapeutic Benefit for Late, but Not Early, Passage Mesenchymal Stem Cells on Pain Behaviour in an Animal Model of Osteoarthritis

    Directory of Open Access Journals (Sweden)

    Victoria Chapman

    2017-01-01

    Full Text Available Background. Mesenchymal stem cells (MSCs have a therapeutic potential for the treatment of osteoarthritic (OA joint pathology and pain. The aims of this study were to determine the influence of a passage number on the effects of MSCs on pain behaviour and cartilage and bone features in a rodent model of OA. Methods. Rats underwent either medial meniscal transection (MNX or sham surgery under anaesthesia. Rats received intra-articular injection of either 1.5 × 106 late passage MSCs labelled with 10 μg/ml SiMAG, 1.5 × 106 late passage mesenchymal stem cells, the steroid Kenalog (200 μg/20 μL, 1.5 × 106 early passage MSCs, or serum-free media (SFM. Sham-operated rats received intra-articular injection of SFM. Pain behaviour was quantified until day 42 postmodel induction. Magnetic resonance imaging (MRI was used to localise the labelled cells within the knee joint. Results. Late passage MSCs and Kenalog attenuated established pain behaviour in MNX rats, but did not alter MNX-induced joint pathology at the end of the study period. Early passage MSCs exacerbated MNX-induced pain behaviour for up to one week postinjection and did not alter joint pathology. Conclusion. Our data demonstrate for the first time the role of a passage number in influencing the therapeutic effects of MSCs in a model of OA pain.

  19. A passage retrieval method based on probabilistic information retrieval model and UMLS concepts in biomedical question answering.

    Science.gov (United States)

    Sarrouti, Mourad; Ouatik El Alaoui, Said

    2017-04-01

    Passage retrieval, the identification of top-ranked passages that may contain the answer for a given biomedical question, is a crucial component for any biomedical question answering (QA) system. Passage retrieval in open-domain QA is a longstanding challenge widely studied over the last decades. However, it still requires further efforts in biomedical QA. In this paper, we present a new biomedical passage retrieval method based on Stanford CoreNLP sentence/passage length, probabilistic information retrieval (IR) model and UMLS concepts. In the proposed method, we first use our document retrieval system based on PubMed search engine and UMLS similarity to retrieve relevant documents to a given biomedical question. We then take the abstracts from the retrieved documents and use Stanford CoreNLP for sentence splitter to make a set of sentences, i.e., candidate passages. Using stemmed words and UMLS concepts as features for the BM25 model, we finally compute the similarity scores between the biomedical question and each of the candidate passages and keep the N top-ranked ones. Experimental evaluations performed on large standard datasets, provided by the BioASQ challenge, show that the proposed method achieves good performances compared with the current state-of-the-art methods. The proposed method significantly outperforms the current state-of-the-art methods by an average of 6.84% in terms of mean average precision (MAP). We have proposed an efficient passage retrieval method which can be used to retrieve relevant passages in biomedical QA systems with high mean average precision. Copyright © 2017 Elsevier Inc. All rights reserved.

  20. White River Falls Fish Passage Project, Tygh Valley, Oregon : Final Technical Report, Volume III, Appendix B, Fisheries Report; Appendix C, Engineering Alternative Evaluation; Appendix D, Benefit/Cost Analysis.

    Energy Technology Data Exchange (ETDEWEB)

    Oregon. Dept. of Fish and Wildlife; Mount Hood National Forest (Or.)

    1985-06-01

    Studies were conducted to describe current habitat conditions in the White River basin above White River Falls and to evaluate the potential to produce anadromous fish. An inventory of spawning and rearing habitats, irrigation diversions, and enhancement opportunities for anadromous fish in the White River drainage was conducted. Survival of juvenile fish at White River Falls was estimated by releasing juvenile chinook and steelhead above the falls during high and low flow periods and recapturing them below the falls in 1983 and 1984. Four alternatives to provide upstream passage for adult salmon and steelhead were developd to a predesign level. The cost of adult passage and the estimated run size of anadromous fish were used to determine the benefit/cost of the preferred alternative. Possible effects of the introduction of anadromous fish on resident fish and on nearby Oak Springs Hatchery were evaluated. This included an inventory of resident species, a genetic study of native rainbow, and the identification of fish diseases in the basin. This volume contains appendices of habitat survey data, potential production, resident fish population data, upstream passage designs, and benefit/cost calculations. (ACR)

  1. The first-passage time distribution for the diffusion model with variable drift

    DEFF Research Database (Denmark)

    Blurton, Steven Paul; Kesselmeier, Miriam; Gondan, Matthias

    2017-01-01

    The Ratcliff diffusion model is now arguably the most widely applied model for response time data. Its major advantage is its description of both response times and the probabilities for correct as well as incorrect responses. The model assumes a Wiener process with drift between two constant...... absorbing barriers. The first-passage times at the upper and lower boundary describe the responses in simple two-choice decision tasks, for example, in experiments with perceptual discrimination or memory search. In applications of the model, a usual assumption is a varying drift of the Wiener process...... across trials. This extra flexibility allows accounting for slow errors that often occur in response time experiments. So far, the predicted response time distributions were obtained by numerical evaluation as analytical solutions were not available. Here, we present an analytical expression...

  2. Diffusive spatio-temporal noise in a first-passage time model for intracellular calcium release

    KAUST Repository

    Flegg, Mark B.

    2013-01-01

    The intracellular release of calcium from the endoplasmic reticulum is controlled by ion channels. The resulting calcium signals exhibit a rich spatio-temporal signature, which originates at least partly from microscopic fluctuations. While stochasticity in the gating transition of ion channels has been incorporated into many models, the distribution of calcium is usually described by deterministic reaction-diffusion equations. Here we test the validity of the latter modeling approach by using two different models to calculate the frequency of localized calcium signals (calcium puffs) from clustered IP3 receptor channels. The complexity of the full calcium system is here limited to the basic opening mechanism of the ion channels and, in the mathematical reduction simplifies to the calculation of a first passage time. Two models are then studied: (i) a hybrid model, where channel gating is treated stochastically, while calcium concentration is deterministic and (ii) a fully stochastic model with noisy channel gating and Brownian calcium ion motion. The second model utilises the recently developed two-regime method [M. B. Flegg, S. J. Chapman, and R. Erban, "The two-regime method for optimizing stochastic reaction-diffusion simulations," J. R. Soc., Interface 9, 859-868 (2012)] in order to simulate a large domain with precision required only near the Ca2+ absorbing channels. The expected time for a first channel opening that results in a calcium puff event is calculated. It is found that for a large diffusion constant, predictions of the interpuff time are significantly overestimated using the model (i) with a deterministic non-spatial calcium variable. It is thus demonstrated that the presence of diffusive noise in local concentrations of intracellular Ca2+ ions can substantially influence the occurrence of calcium signals. The presented approach and results may also be relevant for other cell-physiological first-passage time problems with small ligand concentration

  3. On the dynamics of strait flows: an ocean model study of the Aleutian passages and the Bering Strait

    Science.gov (United States)

    Ezer, Tal; Oey, Lie-Yauw

    2013-03-01

    A high-resolution numerical ocean circulation model of the Bering Sea (BS) is used to study the natural variability of the BS straits. Three distinct categories of strait dynamics have been identified: (1) Shallow passages such as the Bering Strait and the Unimak Passage have northward, near barotropic flow with periodic pulses of larger transports; (2) wide passages such as Near Straits, Amukta Pass, and Buldir Pass have complex flow patterns driven by the passage of mesoscale eddies across the strait; and (3) deep passages such as Amchitka Pass and Kamchatka Strait have persistent deep return flows opposite in direction to major surface currents; the deep flows persist independent of the local wind. Empirical orthogonal function analyses reveal the spatial structure and the temporal variability of strait flows and demonstrate how mesoscale variations in the Aleutian passages influence the Bering Strait flow toward the Arctic Ocean. The study suggests a general relation between the barotropic and baroclinic Rossby radii of deformations in each strait, and the level of flow variability through the strait, independent of geographical location. The mesoscale variability in the BS seems to originate from two different sources: a remote origin from variability in the Alaskan Stream that enters the BS through the Aleutian passages and a local origin from the interaction of currents with the Bowers Ridge in the Aleutian Basin. Comparisons between the flow in the Aleutian passages and flow in other straits, such as the Yucatan Channel and the Faroe Bank Channel, suggest some universal topographically induced dynamics in strait flows.

  4. Analysis of Environmental Issues Related to Small-Scale Hydroelectric Development IV: Fish Mortality Resulting From Turbine Passage

    Energy Technology Data Exchange (ETDEWEB)

    Turbak, Susan C. [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Reichle, Donna R. [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Shriner, Carole R. [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States)

    1981-01-01

    The purpose of this report is to provide summary information for use by potential developers and regulators of small-scale hydroelectric projects (defined as existing dams that can be retrofitted to a total site capacity of ≤30 MW), where turbine-related mortality of fish is a potential issue affecting site-specific development. Mitigation techniques for turbine-related mortality are not covered in this report.

  5. Survival and Passage of Yearling and Subyearling Chinook Salmon and Juvenile Steelhead at McNary Dam, 2012

    Energy Technology Data Exchange (ETDEWEB)

    Hughes, James S. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Weiland, Mark A. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Woodley, Christa M. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Ploskey, Gene R. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Carpenter, Scott M. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Hennen, Matthew J. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Fischer, Eric S. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Batton, George [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Carlson, Thomas J. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Cushing, Aaron W. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Deng, Zhiqun [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Etherington, D. J. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Fu, Tao [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Greiner, Michael J. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Ingraham, John M. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Kim, Jin A. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Li, Xi [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Martinez, Jayson J. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Mitchell, T. D. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Rayamajhi, Bishes [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Seaburg, Adam [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Skalski, J. R. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Townsend, Richard L. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Wagner, Katie A. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Zimmerman, Shon A. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States)

    2013-12-23

    The study was designed to evaluate the passage and survival of yearling and subyearling Chinook salmon and juvenile steelhead at McNary Dam as stipulated by the 2008 Biological Opinion and Fish Accords and to assess performance measures including route-specific fish passage proportions, travel times, and survival based upon a virtual/paired-release model. This study supports the USACE’s continual effort to improve conditions for juvenile anadromous fish passing through Columbia River dams.

  6. The Carancas meteorite impact crater, Peru: Geologic surveying and modeling of crater formation and atmospheric passage

    Science.gov (United States)

    Kenkmann, T.; Artemieva, N. A.; Wünnemann, K.; Poelchau, M. H.; Elbeshausen, D.; Núñez Del Prado, H.

    2009-08-01

    The recent Carancas meteorite impact event caused a worldwide sensation. An H4-5 chondrite struck the Earth south of Lake Titicaca in Peru on September 15, 2007, and formed a crater 14.2 m across. It is the smallest, youngest, and one of two eye-witnessed impact crater events on Earth. The impact violated the hitherto existing view that stony meteorites below a size of 100 m undergo major disruption and deceleration during their passage through the atmosphere and are not capable of producing craters. Fragmentation occurs if the strength of the meteoroid is less than the aerodynamic stresses that occur in flight. The small fragments that result from a breakup rain down at terminal velocity and are not capable of producing impact craters. The Carancas cratering event, however, demonstrates that meter-sized stony meteoroids indeed can survive the atmospheric passage under specific circumstances. We present results of a detailed geologic survey of the crater and its ejecta. To constrain the possible range of impact parameters we carried out numerical models of crater formation with the iSALE hydrocode in two and three dimensions. Depending on the strength properties of the target, the impact energies range between approximately 100-1000 MJ (0.024- 0.24 t TNT). By modeling the atmospheric traverse we demonstrate that low cosmic velocities (12- 14 kms-1) and shallow entry angles (<20°) are prerequisites to keep aerodynamic stresses low (<10 MPa) and thus to prevent fragmentation of stony meteoroids with standard strength properties. This scenario results in a strong meteoroid deceleration, a deflection of the trajectory to a steeper impact angle (40-60°), and an impact velocity of 350-600 ms-1, which is insufficient to produce a shock wave and significant shock effects in target minerals. Aerodynamic and crater modeling are consistent with field data and our microscopic inspection. However, these data are in conflict with trajectories inferred from the analysis of

  7. Accuracy of fish-eye lens models.

    Science.gov (United States)

    Hughes, Ciarán; Denny, Patrick; Jones, Edward; Glavin, Martin

    2010-06-10

    The majority of computer vision applications assumes that the camera adheres to the pinhole camera model. However, most optical systems will introduce undesirable effects. By far, the most evident of these effects is radial lensing, which is particularly noticeable in fish-eye camera systems, where the effect is relatively extreme. Several authors have developed models of fish-eye lenses that can be used to describe the fish-eye displacement. Our aim is to evaluate the accuracy of several of these models. Thus, we present a method by which the lens curve of a fish-eye camera can be extracted using well-founded assumptions and perspective methods. Several of the models from the literature are examined against this empirically derived curve.

  8. Hydroacoustic Evaluation of Juvenile Salmonid Passage and Distribution at Detroit Dam, 2011

    Energy Technology Data Exchange (ETDEWEB)

    Khan, Fenton; Royer, Ida M.; Johnson, Gary E.; Ham, Kenneth D.

    2012-11-15

    increased somewhat in September 2011. When the spillway was operated simultaneously with the turbines, spillway efficiency (efficiency is estimated as spillway passage divided by total project passage) was 0.72 and effectiveness (fish:flow ratio—proportion fish passage at a route (e.g., spillway) divided by proportion water through that route out of the total project) was 2.69. That is, when the spillway was open, 72% of the fish passing the dam used the spillway and 28% passed into the turbine penstocks. Diel distribution for smolt-size fish at the spillway shows a distinct peak in passage between mid-morning and mid-afternoon and low passage at night. We estimated that 23,339 smolt-size fish (± 572 fish, 95% CI) passed via the Regulating Outlet (RO) when it was open from October 29 through November 12, 2011, January 2-6, and January 20 through February 3, 2012. During the October–November period, RO passage peaked at 1,086 fish on November 5, with a second peak on November 7 (1,075 fish). When the RO was operated simultaneously with the turbines, RO efficiency was 0.33 and effectiveness was 0.89. In multiple regression analyses, a relatively parsimonious model was selected that predicted the observed fish passage data well. The best model included forebay temperature at depth, forebay elevation, total discharge, hours of daylight, and the operation period. The vertical distribution of fish in the forebay near the face of the dam where the transducers sampled showed fish were generally distributed throughout the water column during all four operational periods. During the refill and full pool periods, vertical distribution was bi-modal with surface-layer and mid-water modes. Patterns for day and night distributions were variable. Fish were distributed above and below the thermocline when it was present (full pool and drawdown periods).

  9. Design and performance of radio telemetry systems for assessing juvenile fish passage at three hydroelectric dams: Chapter 6.5

    Science.gov (United States)

    Beeman, John W.; Hockersmith, Eric; Stevenson, John R.; Adams, Noah S.; Beeman, John W.; Eiler, John H.

    2012-01-01

    Telemetry provides a powerful and flexible tool for studying fish and other aquatic animals, and its use has become increasingly commonplace. However, telemetry is gear intensive and typically requires more specialized knowledge and training than many other field techniques. As with other scientific methods, collecting good data is dependent on an understanding of the underlying principles behind the approach, knowing how to use the equipment and techniques properly, and recognizing what to do with the data collected. This book provides a road map for using telemetry to study aquatic animals, and provides the basic information needed to plan, implement, and conduct a telemetry study under field conditions. Topics include acoustic or radio telemetry study design, tag implantation techniques, radio and acoustic telemetry principles and case studies, and data management and analysis.

  10. Hydroacoustic Evaluation of Juvenile Salmonid Passage and Distribution at Lookout Point Dam, 2010

    Energy Technology Data Exchange (ETDEWEB)

    Khan, Fenton; Johnson, Gary E.; Royer, Ida M.; Hughes, James S.; Fischer, Eric S.; Trott, Donna M.; Ploskey, Gene R.

    2012-05-31

    project discharge (P<0.001). This relationship was positive, but there was no relationship between total project passage and forebay elevation (P=0.48) or forebay elevation delta, i.e., day-to-day change in forebay elevation (P=0.16). In multiple regression analyses, a relatively parsimonious model was selected that predicted the observed data well. The multiple regression model indicates a positive trend between expected daily fish passage and each of the three variables in the model-Julian day, log(discharge), and log(abs(forebay delta)); i.e., as any of the environmental variables increase, expected daily fish passage increases. For vertical distribution of fish at the face of the dam, fish were surface-oriented with 62%-80% occurring above 10 m deep. The highest percentage of fish (30%-60%) was found between 5-10-m-deep. During spring and summer, mean target strengths for the analysis periods ranged from -44.2 to -42.1 dB. These values are indicative of yearling-sized juvenile salmon. In contrast, mean target strengths in fall and winter were about -49.0 dB, which are representative of subyearling-sized fish. The high-resolution spatial and temporal data reported herein provide detailed information about vertical, horizontal, diel, daily, and seasonal fish passage rates and distributions at LOP from March 2010 through January 2011. This information will support management decisions on design and development of surface passage and collection devices to help restore Chinook salmon populations in the Middle Fork Willamette River watershed above LOP.

  11. The fishing industry - toward supply chain modelling

    DEFF Research Database (Denmark)

    Jensen, Toke Koldborg; Nielsen, Jette; Larsen, Erling P.

    requirements onto the chains. In this paper, we consider the supply chain structure of the Danish fishing industry and illustrate the potential of using mathematical models to identify quality and value-adding activities. This is a first step toward innovative supply chain modelling aimed to identify benefits......Mathematical models for simulating and optimizing supply chain aspects such as distribution planning and optimal use of raw materials are widely used. However, modelling based on a holistic chain view is less studied, and food-related aspects such as quality and shelf life issues enforce additional...... for actors along chains in the fishing industry....

  12. A martingale analysis of first passage times of time-dependent Wiener diffusion models.

    Science.gov (United States)

    Srivastava, Vaibhav; Feng, Samuel F; Cohen, Jonathan D; Leonard, Naomi Ehrich; Shenhav, Amitai

    2017-04-01

    Research in psychology and neuroscience has successfully modeled decision making as a process of noisy evidence accumulation to a decision bound. While there are several variants and implementations of this idea, the majority of these models make use of a noisy accumulation between two absorbing boundaries. A common assumption of these models is that decision parameters, e.g., the rate of accumulation (drift rate), remain fixed over the course of a decision, allowing the derivation of analytic formulas for the probabilities of hitting the upper or lower decision threshold, and the mean decision time. There is reason to believe, however, that many types of behavior would be better described by a model in which the parameters were allowed to vary over the course of the decision process. In this paper, we use martingale theory to derive formulas for the mean decision time, hitting probabilities, and first passage time (FPT) densities of a Wiener process with time-varying drift between two time-varying absorbing boundaries. This model was first studied by Ratcliff (1980) in the two-stage form, and here we consider the same model for an arbitrary number of stages (i.e. intervals of time during which parameters are constant). Our calculations enable direct computation of mean decision times and hitting probabilities for the associated multistage process. We also provide a review of how martingale theory may be used to analyze similar models employing Wiener processes by re-deriving some classical results. In concert with a variety of numerical tools already available, the current derivations should encourage mathematical analysis of more complex models of decision making with time-varying evidence.

  13. Even faster and even more accurate first-passage time densities and distributions for the Wiener diffusion model

    DEFF Research Database (Denmark)

    Gondan, Matthias; Blurton, Steven Paul; Kesselmeier, Miriam

    2014-01-01

    The Wiener diffusion model with two absorbing barriers is often used to describe response times and error probabilities in two-choice decisions. Different representations exist for the density and cumulative distribution of first-passage times, all including infinite series, but with different co...... of Mathematical Psychology)....

  14. Modeling Fish Growth in Low Dissolved Oxygen

    Science.gov (United States)

    Neilan, Rachael Miller

    2013-01-01

    This article describes a computational project designed for undergraduate students as an introduction to mathematical modeling. Students use an ordinary differential equation to describe fish weight and assume the instantaneous growth rate depends on the concentration of dissolved oxygen. Published laboratory experiments suggest that continuous…

  15. Variações temporais na passagem de peixes pelo elevador da Usina Hidrelétrica de Santa Clara, rio Mucuri, leste brasileiro Temporal patterns of fish passage in Santa Clara Power Plant's fish lift, Mucuri River, east Brazil

    Directory of Open Access Journals (Sweden)

    Paulo dos S. Pompeu

    2006-06-01

    Full Text Available O presente estudo teve como objetivo determinar padrões temporais na passagem de peixes pelo elevador da Usina Hidrelétrica de Santa, localizado no rio Mucuri. Durante quatro meses, de novembro de 2003 a março de 2004, foram realizados ciclos de transposição a cada duas horas, quando todos os indivíduos foram contados e identificados. Durante este período foram transpostos 67.838 indivíduos de 31 espécies. A abundância de Characiformes migradores no elevador foi maior no período diurno, enquanto Siluriformes foram observados em maior quantidade à noite. A abundância de peixes no elevador foi relacionada significativamente com as vazões no rio Mucuri. O padrão encontrado torna possível a melhor utilização do elevador, priorizando sua operação durante o dia e em períodos de maior vazão.The current study had the objective of determining temporal patterns of fish passage in Santa Clara Power Plant's fish lift, Mucuri River. During four months, from November 2003 to March 2004, transposition cycles were performed each two hours, when the specimens were counted and identified. During this migration period 67,838 individuals of 31 species passed through the lift. Migratory Characiformes abundance was larger during the day, whereas the Siluriformes were registered mainly at night. Fish abundance in the lift was significantly related to the Mucuri river flow. The temporal pattern found makes possible a better utilization of the lift, focusing cycles during the day and high flows periods.

  16. The fish industry - toward supply chain modelling

    DEFF Research Database (Denmark)

    Jensen, Toke Koldborg; Nielsen, Jette; Larsen, Erling

    2010-01-01

    such as quality and shelf-life issues enforce additional requirements onto the chains. In this article, we consider the supply chain structure of the fish industry. We discuss and illustrate the potential of using mathematical models to identify quality and value-adding activities. The article provides a first......Mathematical models for simulating and optimizing aspects of supply chains such as distribution, planning, and optimal handling of raw materials are widely used. However, modeling based on a holistic chain view including several or all supply chain agents is less studied, and food-related aspects...... step toward innovative supply chain modeling aimed to identify benefits for all agents along chains in the fish industry....

  17. para-Sulphonato-calix[n]arenes as selective activators for the passage of molecules across the Caco-2 model intestinal membrane.

    Science.gov (United States)

    Roka, Eszter; Vecsernyes, Miklos; Bacskay, Ildiko; Félix, Caroline; Rhimi, Moez; Coleman, Anthony W; Perret, Florent

    2015-06-07

    The passage of Lucifer Yellow across the Caco-2 intestinal model membrane has been studied for the para-sulphonato-calix[n]arenes, the results show that para-sulphonato-calix[4]arene and para-sulphonato-calix[8]arene activate membrane passage when used simultaneously with a transport probe, Lucifer Yellow, whereas para-sulphonato-calix[6]arene has no effect.

  18. Survival and Passage of Juvenile Chinook Salmon and Steelhead Passing through Bonneville Dam, 2011

    Energy Technology Data Exchange (ETDEWEB)

    Ploskey, Gene R. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Batten, G. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Cushing, Aaron W. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Kim, Jin A. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Johnson, Gary E. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Skalski, J. R. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Townsend, Richard L. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Seaburg, Adam [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Weiland, Mark A. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Woodley, Christa M. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Hughes, James S. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Carlson, Thomas J. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Carpenter, Scott M. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Deng, Zhiqun [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Etherington, D. J. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Fischer, Eric S. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Fu, Tao [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Greiner, Michael J. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Hennen, Matthew J. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Martinez, Jayson J. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Mitchell, T. D. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Rayamajhi, Bishes [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Zimmerman, Shon A. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States)

    2013-02-15

    Pacific Northwest National Laboratory (PNNL) and subcontractors conducted an acoustic-telemetry study of juvenile salmonid fish passage and survival at Bonneville Dam in 2011. The study was conducted to assess the readiness of the monitoring system for official compliance studies under the 2008 Biological Opinion and Fish Accords and to assess performance measures including route-specific fish passage proportions, travel times, and survival based upon a virtual/paired-release model. The study relied on releases of live Juvenile Salmon Acoustic Telemetry System tagged smolts in the Columbia River and used acoustic telemetry to evaluate the approach, passage, and survival of passing juvenile salmon using a virtual release, paired reference release survival model. This study supports the U.S. Army Corps of Engineers’ continual effort to improve conditions for juvenile anadromous fish passing through Columbia River dams.

  19. On perpetual American put valuation and first-passage in a regime-switching model with jumps

    OpenAIRE

    Jiang, Z.; Pistorius, M. R.

    2008-01-01

    In this paper we consider the problem of pricing a perpetual American put option in an exponential regime-switching L\\'{e}vy model. For the case of the (dense) class of phase-type jumps and finitely many regimes we derive an explicit expression for the value function. The solution of the corresponding first passage problem under a state-dependent level rests on a path transformation and a new matrix Wiener-Hopf factorization result for this class of processes.

  20. Survival and Passage of Juvenile Chinook Salmon and Steelhead Passing through Bonneville Dam, 2010

    Energy Technology Data Exchange (ETDEWEB)

    Ploskey, Gene R.; Weiland, Mark A.; Hughes, James S.; Woodley, Christa M.; Deng, Zhiqun; Carlson, Thomas J.; Kim, Jin A.; Royer, Ida M.; Batten, George W.; Cushing, Aaron W.; Carpenter, Scott M.; Etherington, D. J.; Faber, Derrek M.; Fischer, Eric S.; Fu, Tao; Hennen, Matthew J.; Mitchell, Tyler; Monter, Tyrell J.; Skalski, John R.; Townsend, Richard L.; Zimmerman, Shon A.

    2011-12-01

    Pacific Northwest National Laboratory (PNNL) and subcontractors conducted an acoustic-telemetry study of juvenile salmonid fish passage and survival at Bonneville Dam in 2010. The study was conducted to assess the readiness of the monitoring system for official compliance studies under the 2008 Biological Opinion and Fish Accords and to assess performance measures including route-specific fish passage proportions, travel times, and survival based upon a single-release model. This also was the last year of evaluation of effects of a behavioral guidance device installed in the Powerhouse 2 forebay. The study relied on releases of live Juvenile Salmon Acoustic Telemetry System tagged smolts in the Columbia River and used acoustic telemetry to evaluate the approach, passage, and survival of passing juvenile salmon. This study supports the U.S. Army Corps of Engineers continual effort to improve conditions for juvenile anadromous fish passing through Columbia River dams.

  1. Survival and Passage of Juvenile Chinook Salmon and Steelhead Passing Through Bonneville Dam, 2010

    Energy Technology Data Exchange (ETDEWEB)

    Ploskey, Gene R.; Weiland, Mark A.; Hughes, James S.; Woodley, Christa M.; Deng, Zhiqun; Carlson, Thomas J.; Kim, Jin A.; Royer, Ida M.; Batten, George W.; Cushing, Aaron W.; Carpenter, Scott M.; Etherington, D. J.; Faber, Derrek M.; Fischer, Eric S.; Fu, Tao; Hennen, Matthew J.; Mitchell, T. D.; Monter, Tyrell J.; Skalski, J. R.; Townsend, Richard L.; Zimmerman, Shon A.

    2012-09-01

    Pacific Northwest National Laboratory (PNNL) and subcontractors conducted an acoustic-telemetry study of juvenile salmonid fish passage and survival at Bonneville Dam in 2010. The study was conducted to assess the readiness of the monitoring system for official compliance studies under the 2008 Biological Opinion and Fish Accords and to assess performance measures including route-specific fish passage proportions, travel times, and survival based upon a single-release model. This also was the last year of evaluation of effects of a behavioral guidance device installed in the Powerhouse 2 forebay. The study relied on releases of live Juvenile Salmon Acoustic Telemetry System tagged smolts in the Columbia River and used acoustic telemetry to evaluate the approach, passage, and survival of passing juvenile salmon. This study supports the U.S. Army Corps of Engineers continual effort to improve conditions for juvenile anadromous fish passing through Columbia River dams.

  2. Six-Degree-of-Freedom Sensor Fish Design: Governing Equations and Motion Modeling

    Energy Technology Data Exchange (ETDEWEB)

    Deng, Zhiqun; Richmond, Marshall C.; Simmons, Carver S.; Carlson, Thomas J.

    2004-08-19

    The Sensor Fish device is being used at Northwest hydropower projects to better understand the conditions fish experience during passage through hydroturbines and other dam bypass alternatives. Since its initial development in 1997, the Sensor Fish has undergone numerous design changes to improve its function and extend the range of its use. The most recent Sensor Fish design, the three degree of freedom (3DOF) device, has been used successfully to characterize the environment fish experience when passing through turbines, in spill, or in engineered fish bypass facilities at dams. Pacific Northwest National Laboratory (PNNL) is in the process of redesigning the current 3DOF Sensor Fish device package to improve its field performance. Rate gyros will be added to the new six degree of freedom (6DOF) device so that it will be possible to observe the six linear and angular accelerations of the Sensor Fish as it passes the dam. Before the 6DOF Sensor Fish device can be developed and deployed, governing equations of motion must be developed in order to understand the design implications of instrument selection and placement within the body of the device. In this report, we describe a fairly general formulation for the coordinate systems, equations of motion, force and moment relationships necessary to simulate the 6DOF movement of an underwater body. Some simplifications are made by considering the Sensor Fish device to be a rigid, axisymmetric body. The equations of motion are written in the body-fixed frame of reference. Transformations between the body-fixed and interial reference frames are performed using a formulation based on quaternions. Force and moment relationships specific to the Sensor Fish body are currently not available. However, examples of the trajectory simulations using the 6DOF equations are presented using existing low and high-Reynolds number force and moment correlations. Animation files for the test cases are provided in an attached CD. The next

  3. Larval fish data collected during shipboard surveys (NF1001 and NF1002) in 2010 in Vieques Sound, Virgin Passage and surrounding regions.

    Data.gov (United States)

    National Oceanic and Atmospheric Administration, Department of Commerce — In conjunction with the Vieques Sound and Virgin Passage Transport Study, the USVI larval distribution and supply study completed its fourth research cruise during...

  4. Fish-Friendly Hydropower Turbine Development & Deployment: Alden Turbine Preliminary Engineering and Model Testing

    Energy Technology Data Exchange (ETDEWEB)

    Foust, J. [Voith Hydro, Inc., York, PA (USA); Hecker, G. [Alden Research Laboratory, Inc., Holden, MA (USA); Li, S. [Alden Research Laboratory, Inc., Holden, MA (USA); Allen, G. [Alden Research Laboratory, Inc., Holden, MA (USA)

    2011-10-01

    The Alden turbine was developed through the U.S. Department of Energy's (DOE's) former Advanced Hydro Turbine Systems Program (1994-2006) and, more recently, through the Electric Power Research Institute (EPRI) and the DOE's Wind & Water Power Program. The primary goal of the engineering study described here was to provide a commercially competitive turbine design that would yield fish passage survival rates comparable to or better than the survival rates of bypassing or spilling flow. Although the turbine design was performed for site conditions corresponding to 92 ft (28 m) net head and a discharge of 1500 cfs (42.5 cms), the design can be modified for additional sites with differing operating conditions. During the turbine development, design modifications were identified for the spiral case, distributor (stay vanes and wicket gates), runner, and draft tube to improve turbine performance while maintaining features for high fish passage survival. Computational results for pressure change rates and shear within the runner passage were similar in the original and final turbine geometries, while predicted minimum pressures were higher for the final turbine. The final turbine geometry and resulting flow environments are expected to further enhance the fish passage characteristics of the turbine. Computational results for the final design were shown to improve turbine efficiencies by over 6% at the selected operating condition when compared to the original concept. Prior to the release of the hydraulic components for model fabrication, finite element analysis calculations were conducted for the stay vanes, wicket gates, and runner to verify that structural design criteria for stress and deflections were met. A physical model of the turbine was manufactured and tested with data collected for power and efficiency, cavitation limits, runaway speed, axial and radial thrust, pressure pulsations, and wicket gate torque. All parameters were observed to fall

  5. Challenges of transferring models of fish abundance between coral reefs.

    Science.gov (United States)

    Sequeira, Ana M M; Mellin, Camille; Lozano-Montes, Hector M; Meeuwig, Jessica J; Vanderklift, Mathew A; Haywood, Michael D E; Babcock, Russell C; Caley, M Julian

    2018-01-01

    Reliable abundance estimates for species are fundamental in ecology, fisheries, and conservation. Consequently, predictive models able to provide reliable estimates for un- or poorly-surveyed locations would prove a valuable tool for management. Based on commonly used environmental and physical predictors, we developed predictive models of total fish abundance and of abundance by fish family for ten representative taxonomic families for the Great Barrier Reef (GBR) using multiple temporal scenarios. We then tested if models developed for the GBR (reference system) could predict fish abundances at Ningaloo Reef (NR; target system), i.e., if these GBR models could be successfully transferred to NR. Models of abundance by fish family resulted in improved performance (e.g., 44.1% fish abundance (9% fish species richness from the GBR to NR, transferability for these fish abundance models was poor. When compared with observations of fish abundance collected in NR, our transferability results had low validation scores ( R 2   0.05). High spatio-temporal variability of patterns in fish abundance at the family and population levels in both reef systems likely affected the transferability of these models. Inclusion of additional predictors with potential direct effects on abundance, such as local fishing effort or topographic complexity, may improve transferability of fish abundance models. However, observations of these local-scale predictors are often not available, and might thereby hinder studies on model transferability and its usefulness for conservation planning and management.

  6. First-passage dynamics of linear stochastic interface models: numerical simulations and entropic repulsion effect

    Science.gov (United States)

    Gross, Markus

    2018-03-01

    A fluctuating interfacial profile in one dimension is studied via Langevin simulations of the Edwards–Wilkinson equation with non-conserved noise and the Mullins–Herring equation with conserved noise. The profile is subject to either periodic or Dirichlet (no-flux) boundary conditions. We determine the noise-driven time-evolution of the profile between an initially flat configuration and the instant at which the profile reaches a given height M for the first time. The shape of the averaged profile agrees well with the prediction of weak-noise theory (WNT), which describes the most-likely trajectory to a fixed first-passage time. Furthermore, in agreement with WNT, on average the profile approaches the height M algebraically in time, with an exponent that is essentially independent of the boundary conditions. However, the actual value of the dynamic exponent turns out to be significantly smaller than predicted by WNT. This ‘renormalization’ of the exponent is explained in terms of the entropic repulsion exerted by the impenetrable boundary on the fluctuations of the profile around its most-likely path. The entropic repulsion mechanism is analyzed in detail for a single (fractional) Brownian walker, which describes the anomalous diffusion of a tagged monomer of the interface as it approaches the absorbing boundary. The present study sheds light on the accuracy and the limitations of the weak-noise approximation for the description of the full first-passage dynamics.

  7. High Resolution 3-D Finite-Volume Coastal Ocean Modeling in Lower Campbell River and Discovery Passage, British Columbia, Canada

    Directory of Open Access Journals (Sweden)

    Yuehua Lin

    2014-03-01

    Full Text Available The 3-D unstructured-grid, Finite-Volume Coastal Ocean Model (FVCOM was used to simulate the flows in Discovery Passage including the adjoining Lower Campbell River, British Columbia, Canada. Challenges in the studies include the strong tidal currents (e.g., up to 7.8 m/s in Seymour Narrows and tailrace discharges, small-scale topographic features and steep bottom slopes, and stratification affected by the Campbell River freshwater discharges. Two applications of high resolution 3-D FVCOM modeling were conducted. One is for the Lower Campbell River extending upstream as far as the John Hart Hydroelectric dam. The horizontal resolution varies from 0.27 m to 32 m in the unstructured triangular mesh to resolve the tailrace flow. The bottom elevation decreases ~14 m within the distance of ~1.4 km along the river. This pioneering FVCOM river modeling demonstrated a very good performance in simulating the river flow structures. The second application is to compute ocean currents immediately above the seabed along the present underwater electrical cable crossing routes across Discovery Passage. Higher resolution was used near the bottom with inter-layer spacing ranging from 0.125 to 0.0005 of total water depth. The model behaves very well in simulating the strong tidal currents in the area at high resolution in both the horizontal and vertical. One year maximum near bottom tidal current along the routes was then analyzed using the model results.

  8. Endogenous fishing mortalities: a state-space bioeconomic model

    OpenAIRE

    DA-ROCHA JOSÉ MARIA; GARCÍA-CUTRÍN JAVIER; GUTIÉRREZ MARÍA-JOSÉ; GAMITO JARDIM JOSÉ ERNESTO

    2017-01-01

    A methodology that endogenously determines catchability functions that link fishing mortality with contemporaneous stock abundance is presented. We consider a stochastic age-structured model for a fishery composed by a number of fishing units (fleets, vessels or métiers) that optimally select the level of fishing effort to be applied considering total mortalities as given. The introduction of a balance constrain which guarantees that total mortality is equal to the sum of individual fishing m...

  9. The impact of mouse passaging of Mycobacterium tuberculosis strains prior to virulence testing in the mouse and guinea pig aerosol models.

    Directory of Open Access Journals (Sweden)

    Paul J Converse

    2010-04-01

    Full Text Available It has been hypothesized that the virulence of lab-passaged Mycobacterium tuberculosis and recombinant M. tuberculosis mutants might be reduced due to multiple in vitro passages, and that virulence might be augmented by passage of these strains through mice before quantitative virulence testing in the mouse or guinea pig aerosol models.By testing three M. tuberculosis H37Rv samples, one deletion mutant, and one recent clinical isolate for survival by the quantitative organ CFU counting method in mouse or guinea pig aerosol or intravenous infection models, we could discern no increase in bacterial fitness as a result of passaging of M. tuberculosis strains in mice prior to quantitative virulence testing in two animal models. Surface lipid expression as assessed by neutral red staining and thin-layer chromatography for PDIM analysis also failed to identify virulence correlates.These results indicate that animal passaging of M. tuberculosis strains prior to quantitative virulence testing in mouse or guinea pig models does not enhance or restore potency to strains that may have lost virulence due to in vitro passaging. It is critical to verify virulence of parental strains before genetic manipulations are undertaken and comparisons are made.

  10. Markov chain model for demersal fish catch analysis in Indonesia

    Science.gov (United States)

    Firdaniza; Gusriani, N.

    2018-03-01

    As an archipelagic country, Indonesia has considerable potential fishery resources. One of the fish resources that has high economic value is demersal fish. Demersal fish is a fish with a habitat in the muddy seabed. Demersal fish scattered throughout the Indonesian seas. Demersal fish production in each Indonesia’s Fisheries Management Area (FMA) varies each year. In this paper we have discussed the Markov chain model for demersal fish yield analysis throughout all Indonesia’s Fisheries Management Area. Data of demersal fish catch in every FMA in 2005-2014 was obtained from Directorate of Capture Fisheries. From this data a transition probability matrix is determined by the number of transitions from the catch that lie below the median or above the median. The Markov chain model of demersal fish catch data was an ergodic Markov chain model, so that the limiting probability of the Markov chain model can be determined. The predictive value of demersal fishing yields was obtained by calculating the combination of limiting probability with average catch results below the median and above the median. The results showed that for 2018 and long-term demersal fishing results in most of FMA were below the median value.

  11. Sensitivity of modeled estuarine circulation to spatial and temporal resolution of input meteorological forcing of a cold frontal passage

    Science.gov (United States)

    Weaver, Robert J.; Taeb, Peyman; Lazarus, Steven; Splitt, Michael; Holman, Bryan P.; Colvin, Jeffrey

    2016-12-01

    In this study, a four member ensemble of meteorological forcing is generated using the Weather Research and Forecasting (WRF) model in order to simulate a frontal passage event that impacted the Indian River Lagoon (IRL) during March 2015. The WRF model is run to provide high and low, spatial (0.005° and 0.1°) and temporal (30 min and 6 h) input wind and pressure fields. The four member ensemble is used to force the Advanced Circulation model (ADCIRC) coupled with Simulating Waves Nearshore (SWAN) and compute the hydrodynamic and wave response. Results indicate that increasing the spatial resolution of the meteorological forcing has a greater impact on the results than increasing the temporal resolution in coastal systems like the IRL where the length scales are smaller than the resolution of the operational meteorological model being used to generate the forecast. Changes in predicted water elevations are due in part to the upwind and downwind behavior of the input wind forcing. The significant wave height is more sensitive to the meteorological forcing, exhibited by greater ensemble spread throughout the simulation. It is important that the land mask, seen by the meteorological model, is representative of the geography of the coastal estuary as resolved by the hydrodynamic model. As long as the temporal resolution of the wind field captures the bulk characteristics of the frontal passage, computational resources should be focused so as to ensure that the meteorological model resolves the spatial complexities, such as the land-water interface, that drive the land use responsible for dynamic downscaling of the winds.

  12. Model of passage of vessels through the waterway section forming the schedule in the course of its implementation

    Directory of Open Access Journals (Sweden)

    S. N. Plotnikov

    2017-01-01

    Full Text Available The model of passage of vessels through a section of the waterway is considered, which independently determines the order of passage of vessels with limited capacity of sections of the track. Such a model will consist of a number of standard algorithmic networks. When composing the schedule in the model, the following preference rules were used: first-come-first-served (that is, if the ship occupied the workplace, this decision is not canceled; The rule of the shortest operation; For the swamps the priority of vessels going downstream (the direction of flow from the source to the drain. An algorithmic network that implements the search for an acceptable schedule must implement the following for conflicting operations: the operation that has started is not interrupted; If several operations simultaneously claim for one workplace (port, reach and their number is greater than its throughput, then the conflict resolution is carried out in accordance with predefined preference rules or based on the user's decision; If the operation is waiting for the release of the workplace, it does not occupy the resource; The resource is returned immediately after the operation is completed. The considered design of algorithmic networks allows to resolve the conflict, with a simultaneous resource request, to take the resource once, remember that it was received and return it after the end of the operation, then the resource receives a contra-controlling operation for execution. However, the use of this design introduces redundancy into the model, even if it is used only for conflicting operations. The model is presented in the language of algorithmic networks and is implemented in the system of modeling automation KOGNITRON.

  13. Mathematical modeling of dissolved oxygen in fish ponds ...

    African Journals Online (AJOL)

    The effects of organic feeds, aeration and fish activity were added to the model developed by Kayombo et al. for Waste Stabilization Ponds (Ecological Modelling 127(2000): 21 - 31) to reflect the situation in fish ponds. Model calibration and validation was done by use of average DO, pH, temperature, COD, CO2 and algae ...

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

    Energy Technology Data Exchange (ETDEWEB)

    Weiland, Mark A.; Woodley, Christa M.; Ploskey, Gene R.; Hughes, James S.; Hennen, Matthew J.; Kim, Jin A.; Deng, Zhiqun; Fu, Tao; Skalski, J. R.; Townsend, Richard L.; Wagner, Katie A.; Fischer, Eric S.; Duncan, Joanne P.; Batten, G.; Carlson, Thomas J.; Carpenter, Scott M.; Cushing, Aaron W.; Elder, T.; Etherington, D. J.; Johnson, Gary E.; Khan, Fenton; Miracle, Ann L.; Mitchell, T. D.; Prather, K.; Rayamajhi, Bishes; Royer, Ida; Seaburg, Adam; Zimmerman, Shon A.

    2013-06-21

    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.

  15. Acoustic Telemetry Evaluation of Juvenile Salmonid Passage and Survival at John Day Dam, 2010

    Energy Technology Data Exchange (ETDEWEB)

    Weiland, Mark A.; Woodley, Christa M.; Ploskey, Gene R.; Hughes, James S.; Kim, Jin A.; Deng, Zhiqun; Fu, Tao; Fischer, Eric S.; Skalski, J. R.; Townsend, Richard L.; Duncan, Joanne P.; Hennen, Matthew J.; Wagner, Katie A.; Arntzen, Evan V.; Miller, Benjamin L.; Miracle, Ann L.; Zimmerman, Shon A.; Royer, Ida M.; Khan, Fenton; Cushing, Aaron W.; Etherington, D. J.; Mitchell, T. D.; Elder, T.; Batton, George; Johnson, Gary E.; Carlson, Thomas J.

    2013-05-01

    This report presents survival, behavioral, and fish passage results for yearling and subyearling Chinook salmon smolts and juvenile steelhead tagged with JSATS acoustic micro-transmitters as part of a survival study conducted at John Day Dam during 2010. This study was designed to evaluate the passage and survival of yearling and subyearling 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 single-release survival estimate model.

  16. Low-traffic limit and first-passage times for a simple model of the continuous double auction

    Science.gov (United States)

    Scalas, Enrico; Rapallo, Fabio; Radivojević, Tijana

    2017-11-01

    We consider a simplified model of the continuous double auction where prices are integers varying from 1 to N with limit orders and market orders, but quantity per order limited to a single share. For this model, the order process is equivalent to two M / M / 1 queues. We study the behavior of the auction in the low-traffic limit where limit orders are immediately matched by market orders. In this limit, the distribution of prices can be computed exactly and gives a reasonable approximation of the price distribution when the ratio between the rate of order arrivals and the rate of order executions is below 1 / 2. This is further confirmed by the analysis of the first-passage time in 1 or N.

  17. Bioenergetics modeling of percid fishes: Chapter 14

    Science.gov (United States)

    Madenjian, Charles P.; Kestemont, Patrick; Dabrowski, Konrad; Summerfelt, Robert C.

    2015-01-01

    A bioenergetics model for a percid fish represents a quantitative description of the fish’s energy budget. Bioenergetics modeling can be used to identify the important factors determining growth of percids in lakes, rivers, or seas. For example, bioenergetics modeling applied to yellow perch (Perca flavescens) in the western and central basins of Lake Erie revealed that the slower growth in the western basin was attributable to limitations in suitably sized prey in western Lake Erie, rather than differences in water temperature between the two basins. Bioenergetics modeling can also be applied to a percid population to estimate the amount of food being annually consumed by the percid population. For example, bioenergetics modeling applied to the walleye (Sander vitreus) population in Lake Erie has provided fishery managers valuable insights into changes in the population’s predatory demand over time. In addition, bioenergetics modeling has been used to quantify the effect of the difference in growth between the sexes on contaminant accumulation in walleye. Field and laboratory evaluations of percid bioenergetics model performance have documented a systematic bias, such that the models overestimate consumption at low feeding rates but underestimate consumption at high feeding rates. However, more recent studies have shown that this systematic bias was due, at least in part, to an error in the energy budget balancing algorithm used in the computer software. Future research work is needed to more thoroughly assess the field and laboratory performance of percid bioenergetics models and to quantify differences in activity and standard metabolic rate between the sexes of mature percids.

  18. Simulating high ebb currents in the North Passage of the Yangtze estuary using a vertical 1-D model

    Science.gov (United States)

    Shao, Yuyang; Shen, Xiaoteng; Maa, Jerome P.-Y.; Shen, Jian

    2017-09-01

    A strong maximum ebb current (>3 m/s) in the upper water column was observed at Station CS3 in the middle of the North Passage of the Yangtze River Estuary during the wet season, which was higher than either its upstream or downstream counterparts. To better understand the mechanisms and factors causing the strong ebb current, a vertical one-dimensional (1-D) model was used to conduct a diagnostic study. The model used time series of observed tidal amplitudes, vertical salinity, and suspended sediment concentration (SSC) profiles to compute the density and turbulence. Two tunable parameters, the tidal amplitude attenuation coefficient (i.e., the phase lag) and the background surface pressure gradient that represents the net pressure gradient induced by the freshwater discharge and baroclinic effect, were used to determine the best match with the observed high velocity amplitudes in addition to the bottom roughness height. Three hypotheses of possible causes are tested: (1) the large freshwater discharge, (2) the bottom stratification effects (which were caused by a possible high near-bed suspended sediment gradient), and (3) the unique location of the CS3 station that was influenced by local geometry. The findings show that neither of the first two factors has much influence on the pronounced ebb velocities. Instead, the energy loss caused by the change of channel geometry and a maximum convex bathymetry in the North Passage of the Yangtze River Estuary are the main reasons behind the extremely high observed ebb current velocity profiles. The high near-bottom SSC and gradient located within 0.5 m above the bed only slightly alters the velocity profiles. This 1-D model is convenient for testing a different hypothesis and for coupling with other selected variables to account for the floc size distributions in future studies.

  19. Mathematical modeling of dissolved oxygen in fish ponds ...

    African Journals Online (AJOL)

    Mathematical modeling of dissolved oxygen in fish ponds. WJS Mwegoha, ME Kaseva, SMM Sabai. Abstract. A mathematical model was developed to predict the effects of wind speed, light, pH, Temperature, dissolved carbon dioxide and chemical oxygen demand (COD) on Dissolved Oxygen (DO) in fish ponds. The effects ...

  20. NOAA Point Shapefile - 100m2 Fish Density for Virgin Passage, United States Virgin Islands, Project NF-10-03-USVI, 2010, WGS84

    Data.gov (United States)

    National Oceanic and Atmospheric Administration, Department of Commerce — This data contains densities of fishes detected using mobile fisheries sonar on board the NOAA Ship Nancy Foster. The data were acquired in concert with a multibeam...

  1. A Single Amino Acid Change in the Marburg Virus Glycoprotein Arises during Serial Cell Culture Passages and Attenuates the Virus in a Macaque Model of Disease.

    Science.gov (United States)

    Alfson, Kendra J; Avena, Laura E; Delgado, Jenny; Beadles, Michael W; Patterson, Jean L; Carrion, Ricardo; Griffiths, Anthony

    2018-01-01

    Marburg virus (MARV) causes disease with high case fatality rates, and there are no approved vaccines or therapies. Licensing of MARV countermeasures will likely require approval via the FDA's Animal Efficacy Rule, which requires well-characterized animal models that recapitulate human disease. This includes selection of the virus used for exposure and ensuring that it retains the properties of the original isolate. The consequences of amplification of MARV for challenge studies are unknown. Here, we serially passaged and characterized MARV through 13 passes from the original isolate. Surprisingly, the viral genome was very stable, except for a single nucleotide change that resulted in an amino acid substitution in the hydrophobic region of the signal peptide of the glycoprotein (GP). The particle/PFU ratio also decreased following passages, suggesting a role for the amino acid in viral infectivity. To determine if amplification introduces a phenotype in an animal model, cynomolgus macaques were exposed to either 100 or 0.01 PFU of low- and high-passage-number MARV. All animals succumbed when exposed to 100 PFU of either passage 3 or 13 viruses, although animals exposed to the high-passage-number virus survived longer. However, none of the passage 13 MARV-exposed animals succumbed to 0.01-PFU exposure compared to 75% of passage 3-exposed animals. This is consistent with other filovirus studies that show some particles that are unable to yield a plaque in cell culture can cause lethal disease in vivo . These results have important consequences for the design of experiments that investigate MARV pathogenesis and that test the efficacy of MARV countermeasures. IMPORTANCE Marburg virus (MARV) causes disease with a high case fatality rate, and there are no approved vaccines or therapies. Serial amplification of viruses in cell culture often results in accumulation of mutations, but the effect of such cell culture passage on MARV is unclear. Serial passages of MARV

  2. Development of Solar Drying Model for Selected Cambodian Fish Species

    Directory of Open Access Journals (Sweden)

    Anna Hubackova

    2014-01-01

    Full Text Available A solar drying was investigated as one of perspective techniques for fish processing in Cambodia. The solar drying was compared to conventional drying in electric oven. Five typical Cambodian fish species were selected for this study. Mean solar drying temperature and drying air relative humidity were 55.6°C and 19.9%, respectively. The overall solar dryer efficiency was 12.37%, which is typical for natural convection solar dryers. An average evaporative capacity of solar dryer was 0.049 kg·h−1. Based on coefficient of determination (R2, chi-square (χ2 test, and root-mean-square error (RMSE, the most suitable models describing natural convection solar drying kinetics were Logarithmic model, Diffusion approximate model, and Two-term model for climbing perch and Nile tilapia, swamp eel and walking catfish and Channa fish, respectively. In case of electric oven drying, the Modified Page 1 model shows the best results for all investigated fish species except Channa fish where the two-term model is the best one. Sensory evaluation shows that most preferable fish is climbing perch, followed by Nile tilapia and walking catfish. This study brings new knowledge about drying kinetics of fresh water fish species in Cambodia and confirms the solar drying as acceptable technology for fish processing.

  3. Transcriptional analysis of genes associated with stress and adhesion in Lactobacillus acidophilus NCFM during the passage through an in vitro gastrointestial tract model

    DEFF Research Database (Denmark)

    Weiss, Gudrun Margarethe; Jespersen, Lene

    2010-01-01

    The aim of the present study was to investigate the transcription of genes associated with stress and adhesion in Lactobacillus acidophilus NCFM during the passage through an in vitro gastrointestinal tract model. As acidified milk exerted a protective effect on the bacteria leading to increased ...... passage through the gastrointestinal tract; hence, they provide an implementable basis for the selection of prospective probiotic candidates.......The aim of the present study was to investigate the transcription of genes associated with stress and adhesion in Lactobacillus acidophilus NCFM during the passage through an in vitro gastrointestinal tract model. As acidified milk exerted a protective effect on the bacteria leading to increased...... juice, but they were significantly upregulated during incubation in duodenal juice and bile (6- to 7-fold). A significant induction of the gene encoding the S-layer protein was not detected. Our results give a better understanding of the functionality of L. acidophilus NCFM and other probiotics during...

  4. Evaluation of the passage of Lactobacillus gasseri K7 and bifidobacteria from the stomach to intestines using a single reactor model

    Directory of Open Access Journals (Sweden)

    von Ah Ueli

    2009-05-01

    Full Text Available Abstract Background Probiotic bacteria are thought to play an important role in the digestive system and therefore have to survive the passage from stomach to intestines. Recently, a novel approach to simulate the passage from stomach to intestines in a single bioreactor was developed. The advantage of this automated one reactor system was the ability to test the influence of acid, bile salts and pancreatin. Lactobacillus gasseri K7 is a strain isolated from infant faeces with properties making the strain interesting for cheese production. In this study, a single reactor system was used to evaluate the survival of L. gasseri K7 and selected bifidobacteria from our collection through the stomach-intestine passage. Results Initial screening for acid resistance in acidified culture media showed a low tolerance of Bifidobacterium dentium for this condition indicating low survival in the passage. Similar results were achieved with B. longum subsp. infantis whereas B. animalis subsp. lactis had a high survival. These initial results were confirmed in the bioreactor model of the stomach-intestine passage. B. animalis subsp. lactis had the highest survival rate (10% attaining approximately 5 × 106 cfu ml-1 compared to the other tested bifidobacteria strains which were reduced by a factor of up to 106. Lactobacillus gasseri K7 was less resistant than B. animalis subsp. lactis but survived at cell concentrations approximately 1000 times higher than other bifidobacteria. Conclusion In this study, we were able to show that L. gasseri K7 had a high survival rate in the stomach-intestine passage. By comparing the results with a previous study in piglets we could confirm the reliability of our simulation. Of the tested bifidobacteria strains, only B. animalis subsp. lactis showed acceptable survival for a successful passage in the simulation system.

  5. A mathematical model of the passage of an asteroid-comet body through the Earth’s atmosphere

    Energy Technology Data Exchange (ETDEWEB)

    Shaydurov, V., E-mail: shaidurov04@mail.ru [Institute of Computational Modeling of SB RAS, 660036 Akademgorodok, Krasnoyarsk (Russian Federation); Siberian Federal University, 79 Svobodny pr., 660041 Krasnoyarsk (Russian Federation); Shchepanovskaya, G.; Yakubovich, M. [Institute of Computational Modeling of SB RAS, 660036 Akademgorodok, Krasnoyarsk (Russian Federation)

    2015-10-28

    In the paper, a mathematical model and a numerical algorithm are proposed for modeling the complex of phenomena which accompany the passage of a friable asteroid-comet body through the Earth’s atmosphere: the material ablation, the dissociation of molecules, and the radiation. The proposed model is constructed on the basis of the Navier-Stokes equations for viscous heat-conducting gas with an additional equation for the motion and propagation of a friable lumpy-dust material in air. The energy equation is modified for the relation between two its kinds: the usual energy of the translation of molecules (which defines the temperature and pressure) and the combined energy of their rotation, oscillation, electronic excitation, dissociation, and radiation. For the mathematical model of atmosphere, the distribution of density, pressure, and temperature in height is taken as for the standard atmosphere. An asteroid-comet body is taken initially as a round body consisting of a friable lumpy-dust material with corresponding density and significant viscosity which far exceed those for the atmosphere gas. A numerical algorithm is proposed for solving the initial-boundary problem for the extended system of Navier-Stokes equations. The algorithm is the combination of the semi-Lagrangian approximation for Lagrange transport derivatives and the conforming finite element method for other terms. The implementation of these approaches is illustrated by a numerical example.

  6. Statistical Modelling of Fishing Activities in the North Atlantic

    NARCIS (Netherlands)

    Fernández, C.; Ley, E.; Steel, M.F.J.

    1997-01-01

    This paper deals with the issue of modeling daily catches of fishing boats in the Grand Bank fishing grounds. We have data on catches per species for a number of vessels collected by the European Union in the context of the North Atlantic Fisheries Organization. Many variables can be thought to

  7. Southern Ocean deep convection in global climate models: A driver for variability of subpolar gyres and Drake Passage transport on decadal timescales

    Science.gov (United States)

    Behrens, Erik; Rickard, Graham; Morgenstern, Olaf; Martin, Torge; Osprey, Annette; Joshi, Manoj

    2016-06-01

    We investigate the individual and joint decadal variability of Southern Ocean state quantities, such as the strength of the Ross and Weddell Gyres, Drake Passage transport, and sea ice area, using the National Institute of Water and Atmospheric Research UK Chemistry and Aerosols (NIWA-UKCA) model and CMIP5 models. Variability in these quantities is stimulated by strong deep reaching convective events in the Southern Ocean, which produce an Antarctic Bottom Water-like water mass and affect the large-scale meridional density structure in the Southern Ocean. An increase in the (near) surface stratification, due to freshwater forcing, can be a precondition for subsequent strong convection activity. The combination of enhanced-gyre driven sea ice and freshwater export, as well as ongoing subsurface heat accumulation, lead to a time lag between changes in oceanic freshwater and heat content. This causes an ongoing weakening of the stratification until sudden strong mixing events emerge and the heat is released to the atmosphere. We find that strong convection reduces sea ice cover, weakens the subpolar gyres, increases the meridional density gradient and subsequently results in a positive Drake Passage transport anomaly. Results of available CMIP5 models confirm that variability in sea ice, Drake Passage transport, and the Weddell Gyre strength is enhanced if models show strong open ocean convective events. Consistent relationships between convection, sea ice, Drake Passage transport, and Ross Gyre strength variability are evident in most models, whether or not they host open ocean convection.

  8. Fishing

    Energy Technology Data Exchange (ETDEWEB)

    Walker, G.

    1984-09-01

    Two classifications of fishing jobs are discussed: open hole and cased hole. When there is no casing in the area of the fish, it is called open hole fishing. When the fish is inside the casing, it is called cased hole fishing. The article lists various things that can become a fish-stuck drill pipe, including: broken drill pipe, drill collars, bit, bit cones, hand tools dropped in the well, sanded up or mud stuck tubing, packers become stuck, and much more. It is suggested that on a fishing job, all parties involved should cooperate with each other, and that fishing tool people obtain all the information concerning the well. That way they can select the right tools and methods to clean out the well as quickly as possible.

  9. Survival and passage of ingested New Zealand mudsnails through the intestinal tract of rainbow trout

    Science.gov (United States)

    Bruce, R. Louise; Moffitt, Christine M.; Dennis, Brian

    2009-01-01

    We conducted laboratory trials to determine the transit time and survival of New Zealand mudsnails Potamopyrgus antipodarum in the gastrointestinal tract of rainbow trout Oncorhynchus mykiss. To assess the rate of snail passage, we force-fed groups of fish a known quantity of snails and then held them in tanks. At selected intervals we removed individual fish from the test tanks and recorded the number of snails, their condition (live or dead), and their location in the gastrointestinal tract (stomach, anterior intestine, and posterior intestine). Feces were removed from tanks and examined for live snails. We repeated evaluations of passage rate and snail survival to determine the effects of varying the number of snails ingested, fish size, snail size, and feeding a commercial diet to fish after snail ingestion. We plotted and modeled gut evacuation using a stochastic model for ordinal data to consider each test variable. Snail passage rates were faster in fish that were fed smaller snails. Surprisingly, fish fed snails and then administered rations of commercial fish feed retained the snails longer in their stomach than did fish that were not administered fish feeds after being fed snails. Increased retention time of snails in the stomach decreased the probability of snail survival when voided in fecal material. Snails that passed through the gastrointestinal tract within 12–24 h of ingestion were often recovered live in fecal samples. However, no live snails were recovered from the posterior intestine or fecal material collected 24 h after ingestion. Using our results we propose potential management options that could reduce the risks of introducing live snails into new locations when stocking fish from infested hatcheries.

  10. Linking effort and fishing mortality in a mixed fisheries model

    DEFF Research Database (Denmark)

    Thøgersen, Thomas Talund; Hoff, Ayoe; Frost, Hans Staby

    2012-01-01

    Since the implementation of the Common Fisheries Policy of the European Union in 1983, the management of EU fisheries has been enormously challenging. The abundance of many fish stocks has declined because too much fishing capacity has been utilised on healthy fish stocks. Today, this decline...... in fish stocks has led to overcapacity in many fisheries, leading to incentives for overfishing. Recent research has shown that the allocation of effort among fleets can play an important role in mitigating overfishing when the targeting covers a range of species (multi-species—i.e., so-called mixed...... fisheries), while simultaneously optimising the overall economic performance of the fleets. The so-called FcubEcon model, in particular, has elucidated both the biologically and economically optimal method for allocating catches—and thus effort—between fishing fleets, while ensuring that the quotas...

  11. DISCRETE ELEMENT MODELING OF BLADE–STRIKE FREQUENCY AND SURVIVAL OF FISH PASSING THROUGH HYDROKINETIC TURBINES

    Energy Technology Data Exchange (ETDEWEB)

    Romero Gomez, Pedro DJ; Richmond, Marshall C.

    2014-04-17

    aspects of the passage event ---which the probabilistic method does--- as well as the fluid-particle interactions ---which the Lagrangian particle method does. The DEM-based survival rates were comparable to laboratory results for small fish but not for mid-size fish because of the considerably different turbine diameters. The modeling framework can be used for applications that aim at evaluating the biological performance of MHK turbine units during the design phase and to provide information to regulatory agencies needed for the environmental permitting process.

  12. A new model for simulating growth in fish

    Directory of Open Access Journals (Sweden)

    Johannes Hamre

    2014-01-01

    Full Text Available A real dynamic population model calculates change in population sizes independent of time. The Beverton & Holt (B&H model commonly used in fish assessment includes the von Bertalanffy growth function which has age or accumulated time as an independent variable. As a result the B&H model has to assume constant fish growth. However, growth in fish is highly variable depending on food availability and environmental conditions. We propose a new growth model where the length increment of fish living under constant conditions and unlimited food supply, decreases linearly with increasing fish length until it reaches zero at a maximal fish length. The model is independent of time and includes a term which accounts for the environmental variation. In the present study, the model was validated in zebrafish held at constant conditions. There was a good fit of the model to data on observed growth in Norwegian spring spawning herring, capelin from the Barents Sea, North Sea herring and in farmed coastal cod. Growth data from Walleye Pollock from the Eastern Bering Sea and blue whiting from the Norwegian Sea also fitted reasonably well to the model, whereas data from cod from the North Sea showed a good fit to the model only above a length of 70 cm. Cod from the Barents Sea did not grow according to the model. The last results can be explained by environmental factors and variable food availability in the time under study. The model implicates that the efficiency of energy conversion from food decreases as the individual animal approaches its maximal length and is postulated to represent a natural law of fish growth.

  13. DISPLACE: a dynamic, individual-based model for spatial fishing planning and effort displacement: Integrating underlying fish population models

    DEFF Research Database (Denmark)

    Bastardie, Francois; Nielsen, J. Rasmus; Miethe, Tanja

    or to the alteration of individual fishing patterns. We demonstrate that integrating the spatial activity of vessels and local fish stock abundance dynamics allow for interactions and more realistic predictions of fishermen behaviour, revenues and stock abundance......We previously developed a spatially explicit, individual-based model (IBM) evaluating the bio-economic efficiency of fishing vessel movements between regions according to the catching and targeting of different species based on the most recent high resolution spatial fishery data. The main purpose...... was to test the effects of alternative fishing effort allocation scenarios related to fuel consumption, energy efficiency (value per litre of fuel), sustainable fish stock harvesting, and profitability of the fisheries. The assumption here was constant underlying resource availability. Now, an advanced...

  14. Enloe Dam Passage Project, Volume I, 1984 Annual Report.

    Energy Technology Data Exchange (ETDEWEB)

    Fanning, M.L.

    1985-07-01

    This report discusses issues related to the provision of fish passage facilities at Enloe Dam and the introduction of anadromous salmonid fish to the upper Similkameen River basin. The species of fish being considered is a summer run of steelhead trout adapted to the upper Columbia basin. (ACR)

  15. Damped trophic cascades driven by fishing in model marine ecosystems

    DEFF Research Database (Denmark)

    Andersen, Ken Haste; Pedersen, Martin

    2010-01-01

    The largest perturbation on upper trophic levels of many marine ecosystems stems from fishing. The reaction of the ecosystem goes beyond the trophic levels directly targeted by the fishery. This reaction has been described either as a change in slope of the overall size spectrum or as a trophic...... cascade triggered by the removal of top predators. Here we use a novel size- and trait-based model to explore how marine ecosystems might react to perturbations from different types of fishing pressure. The model explicitly resolves the whole life history of fish, from larvae to adults. The results show...... that fishing does not change the overall slope of the size spectrum, but depletes the largest individuals and induces trophic cascades. A trophic cascade can propagate both up and down in trophic levels driven by a combination of changes in predation mortality and food limitation. The cascade is damped...

  16. Fish larval transport in the coastal waters through ecological modelling

    Digital Repository Service at National Institute of Oceanography (India)

    George, G.

    plata estuary, argentina-uruguay. Fisheries Bulletin- Argentina, 2003. M. G. Hadfield and D. Scheuer. Evidence of for a soluble metamorphic inducer in Phestilla: ecological,chemical and biological data. Bulletin of Marine Science, 37:556– 566, 1985. S. J... in India- an overview. In B. M. Kurup and K. Ravindran, editors, Sustain Fish, pages 84–101. Paico press, School of Industrial Fisheries, Cochin, 2006. T. V. Sathianandan. Modelling and forecasting of marine fish landings in Kerala using multiple time...

  17. Culvert Length and Interior Lighting Impacts to Topeka Shiner Passage

    Science.gov (United States)

    2017-11-01

    Culverts can act as barriers to fish passage for a number of reasons including insufficient water depth or excess velocity. In addition, concern is being raised over behavioral barriers where culvert conditions elicit an avoidance response that deter...

  18. Development of a Nebraska culvert aquatic organism passage screening tool.

    Science.gov (United States)

    2012-12-01

    Culverts channelize water relative to natural stream reaches, which can increase the velocity of water passing through them. Increased water velocities can alter stream morphology and create a possible barrier or obstacle to fish passage, which may a...

  19. Physiology-based modelling approaches to characterize fish habitat suitability

    NARCIS (Netherlands)

    Teal, L.R.; Marras, Stefano; Peck, M.A.; Domenici, Paolo

    2018-01-01

    Models are useful tools for predicting the impact of global change on species distribution and abundance. As ectotherms, fish are being challenged to adapt or track changes in their environment, either in time through a phenological shift or in space by a biogeographic shift. Past modelling efforts

  20. A multi-year analysis of passage and survival at McNary Dam, 2004-09

    Science.gov (United States)

    Adams, Noah S.; Walker, C.E.; Perry, R.W.

    2011-01-01

    We analyzed 6 years (2004–09) of passage and survival data collected at McNary Dam to determine how dam operations and environmental conditions affect passage and survival of juvenile salmonids. A multinomial logistic regression was used to examine how environmental variables and dam operations relate to passage behavior of juvenile salmonids at McNary Dam. We used the Cormack-Jolly-Seber release-recapture model to determine how the survival of juvenile salmonids passing through McNary Dam relates to environmental variables and dam operations. Total project discharge and the proportion of flow passing the spillway typically had a positive effect on survival for all species and routes. As the proportion of water through the spillway increased, the number of fish passing the spillway increased, as did overall survival. Additionally, survival generally was higher at night. There was no meaningful difference in survival for fish that passed through the north or south portions of the spillway or powerhouse. Similarly, there was no difference in survival for fish released in the north, middle, or south portions of the tailrace. For subyearling Chinook salmon migrating during the summer season, increased temperatures had a drastic effect on passage and survival. As temperature increased, survival of subyearling Chinook salmon decreased through all passage routes and the number of fish that passed through the turbines increased. During years when the temporary spillway weirs (TSWs) were installed, passage through the spillway increased for spring migrants. However, due to the changes made in the location of the TSW between years and the potential effect of other confounding environmental conditions, it is not certain if the increase in spillway passage was due solely to the presence of the TSWs. The TSWs appeared to improve forebay survival during years when they were operated.

  1. Geolocating fish using Hidden Markov Models and Data Storage Tags

    DEFF Research Database (Denmark)

    Thygesen, Uffe Høgsbro; Pedersen, Martin Wæver; Madsen, Henrik

    2009-01-01

    Geolocation of fish based on data from archival tags typically requires a statistical analysis to reduce the effect of measurement errors. In this paper we present a novel technique for this analysis, one based on Hidden Markov Models (HMM's). We assume that the actual path of the fish is generated...... by a biased random walk. The HMM methodology produces, for each time step, the probability that the fish resides in each grid cell. Because there is no Monte Carlo step in our technique, we are able to estimate parameters within the likelihood framework. The method does not require the distribution...... of inference in state-space models of animals. The technique can be applied to geolocation based on light, on tidal patterns, or measurement of other variables that vary with space. We illustrate the method through application to a simulated data set where geolocation relies on depth data exclusively....

  2. Six-degree-of-freedom Sensor Fish design - Governing equations and motion modeling

    Energy Technology Data Exchange (ETDEWEB)

    Zeng, D. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Richmond, M. C. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Simmons, C. S. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Carlson, T. J. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States)

    2004-07-01

    The Sensor Fish device is being used at Northwest hydropower projects to better understand the conditions fish experience during passage through hydro turbines and other dam bypass alternatives. Since its initial development in 1997, the Sensor Fish has undergone numerous design changes to improve its function and extend the range of its use. The most recent Sensor Fish design, the three degree of freedom (3DOF) device, has been used successfully to characterize the environment fish experience when passing through turbines, in spill, or in engineered fish bypass facilities at dams. Pacific Northwest National Laboratory (PNNL) is in the process of redesigning the current 3DOF Sensor Fish device package to improve its field performance. Rate gyros will be added to the new six degree of freedom (6DOF) device so that it will be possible to observe the six linear and angular accelerations of the Sensor Fish as it passes the dam. Before the 6DOF Sensor Fish device can be developed and deployed, governing equations of motion must be developed in order to understand the design implications of instrument selection and placement within the body of the device. The report describes a fairly general formulation for the coordinate systems, equations of motion, force and moment relationships necessary to simulate the 6DOF movement of an underwater body.

  3. Characterization of Gravity Regulated Osteoprotegerin Expression in Fish Models

    Science.gov (United States)

    Renn, J.; Nourizadeh-Lillabadi, R.; Alestrom, P.; Seibt, D.; Goerlich, R.; Schartl, M.; Winkler, C.

    Human osteoprotegerin (opg) is a secreted protein of 401 amino acids that acts as a decoy receptor for RANKL (receptor activator of NFB ligand). Opg prevents binding of RANKL to its receptor, which is present on osteoclasts and their precursors. Thereby, opg blocks the formation, differentiation and activation of osteoclasts and stimulates apoptosis of mature osteoclasts. As a consequence, opg regulates the degree of bone resorption in order to keep a constant bone mass under normal gravity conditions. Recently, clinorotation experiments using mammalian cell cultures have shown that the opg gene is down-regulated in simulated microgravity at the transcriptional level (Kanematsu et al., Bone 30, 2002). We have identified opg genes in the fish models Medaka and zebrafish to study gravity regulation of opg expression in these models at the organismal level. In Medaka embryos, opg expression starts at stages when first skeletal elements are already detectable. Putative consensus binding sites for transcription factors were identified in the promoter region of the Medaka opg gene indicating possible evolutionary conservation of gene regulatory mechanisms between fish and mammals. To analyze, whether model fish species are suitable tools to study microgravity induced changes at the molecular level in vivo, we investigated regulation of fish opg genes as a consequence of altered gravity. For this, we performed centrifugation and clinorotation experiments, subjecting fish larvae to hypergravity and simulated microgravity, and analyzed expression profiles of skeletal genes by real-time PCR. Our data represent the first experiments using whole animal model organisms to study gravity induced alteration of skeletal factors at the molecular level. Acknowledgement: This work is supported by the German Aerospace Center (DLR) (50 WB 0152) and the European Space Agency (AO-LS-99-MAP-LSS-003).

  4. Fish Processed Production Planning Using Integer Stochastic Programming Model

    Science.gov (United States)

    Firmansyah, Mawengkang, Herman

    2011-06-01

    Fish and its processed products are the most affordable source of animal protein in the diet of most people in Indonesia. The goal in production planning is to meet customer demand over a fixed time horizon divided into planning periods by optimizing the trade-off between economic objectives such as production cost and customer satisfaction level. The major decisions are production and inventory levels for each product and the number of workforce in each planning period. In this paper we consider the management of small scale traditional business at North Sumatera Province which performs processing fish into several local seafood products. The inherent uncertainty of data (e.g. demand, fish availability), together with the sequential evolution of data over time leads the production planning problem to a nonlinear mixed-integer stochastic programming model. We use scenario generation based approach and feasible neighborhood search for solving the model. The results which show the amount of each fish processed product and the number of workforce needed in each horizon planning are presented.

  5. Cooperative Fish and Wildlife Research Units - A model partnership program

    Science.gov (United States)

    Dennerline, Donald E.; Childs, Dawn E.

    2017-04-20

    The U.S. Geological Survey (USGS) Cooperative Fish and Wildlife Research Units (CRU) program is a unique model of cooperative partnership among the USGS, other U.S. Department of the Interior and Federal agencies, universities, State fish and wildlife agencies, and the Wildlife Management Institute. These partnerships are maintained as one of the USGS’s strongest links to Federal and State land and natural resource management agencies.Established in 1935 to meet the need for trained professionals in the growing field of wildlife management, the program currently consists of 40 Cooperative Fish and Wildlife Research Units located on university campuses in 38 States and supports 119 research scientist positions when fully funded. The threefold mission of the CRU program is to (1) conduct scientific research for the management of fish, wildlife, and other natural resources; (2) provide technical assistance to natural resource managers in the application of scientific information to natural resource policy and management; and (3) train future natural resource professionals.

  6. Fish habitat simulation models and integrated assessment tools

    International Nuclear Information System (INIS)

    Harby, A.; Alfredsen, K.

    1999-01-01

    Because of human development water use increases in importance, and this worldwide trend is leading to an increasing number of user conflicts with a strong need for assessment tools to measure the impacts both on the ecosystem and the different users and user groups. The quantitative tools must allow a comparison of alternatives, different user groups, etc., and the tools must be integrated while impact assessments includes different disciplines. Fish species, especially young ones, are indicators of the environmental state of a riverine system and monitoring them is a way to follow environmental changes. The direct and indirect impacts on the ecosystem itself are measured, and impacts on user groups is not included. Fish habitat simulation models are concentrated on, and methods and examples are considered from Norway. Some ideas on integrated modelling tools for impact assessment studies are included. One dimensional hydraulic models are rapidly calibrated and do not require any expert knowledge in hydraulics. Two and three dimensional models require a bit more skilled users, especially if the topography is very heterogeneous. The advantages of using two and three dimensional models include: they do not need any calibration, just validation; they are predictive; and they can be more cost effective than traditional habitat hydraulic models when combined with modern data acquisition systems and tailored in a multi-disciplinary study. Suitable modelling model choice should be based on available data and possible data acquisition, available manpower, computer, and software resources, and needed output and accuracy in the output. 58 refs

  7. Turbine related fish mortality

    International Nuclear Information System (INIS)

    Eicher, G.J.

    1993-01-01

    A literature review was conducted to assess the factors affecting turbine-related fish mortality. The mechanics of fish passage through a turbine is outlined, and various turbine related stresses are described, including pressure and shear effects, hydraulic head, turbine efficiency, and tailwater level. The methodologies used in determining the effects of fish passage are evaluated. The necessity of adequate controls in each test is noted. It is concluded that mortality is the result of several factors such as hardiness of study fish, fish size, concentrations of dissolved gases, and amounts of cavitation. Comparisons between Francis and Kaplan turbines indicate little difference in percent mortality. 27 refs., 5 figs

  8. Mean First-Passage Time of an Asymmetric Kinetic Model Driven by Two Different Kinds of Colored Noises

    Science.gov (United States)

    Li, Dong-Xi; Xu, Wei; Guo, Yong-Feng; Wang, Liang

    2008-03-01

    The mean first-passage time (MFPT) of an asymmetric bistable system between multiplicative non-Gaussian noise and additive Gaussian white noise with nonzero cross-correlation time is investigated. Firstly, the non-Markov process is reduced to the Markov process through a path-integral approach; Secondly, the approximate Fokker-Planck equation is obtained by applying the unified colored noise approximation and the Novikov Theorem. The steady-state probability distribution (SPD) is also obtained. The basal functional analysis and simplification are employed to obtain the approximate expressions of MFPT T±. The effects of the asymmetry parameter β, the non-Gaussian parameter (measures deviation from Gaussian character) r, the noise correlation times τ and τ2, the coupling coefficient λ, the intensities D and α of noise on the MFPT are discussed. It is found that the asymmetry parameter β, the non-Gaussian parameter r and the coupling coefficient λ can induce phase transition. Moreover, the main findings are that the effect of self-existent parameters (D, α, and τ) of noise and cross-correlation parameters (λ,τ2) between noises on MFPT T± is different.

  9. Fish elevator and method of elevating fish

    Science.gov (United States)

    Truebe, Jonathan; Drooker, Michael S.

    1984-01-01

    A means and method for transporting fish from a lower body of water to a higher body of water. The means comprises a tubular lock with a gated entrance below the level of the lower body of water through which fish may enter the lock and a discharge passage above the level of the upper body of water. The fish raising means in the lock is a crowder pulled upward by a surface float as water from the upper body of water gravitationally flows into the closed lock filling it to the level of the upper body. Water is then pumped into the lock to raise the level to the discharge passage. The crowder is then caused to float upward the remaining distance through the water to the level of the discharge passage by the introduction of air into a pocket on the underside of the crowder. The fish are then automatically discharged from the lock into the discharge passage by the out of water position of the crowder. The movement of the fish into the discharge passage is aided by the continuous overflow of water still being pumped into the lock. A pipe may be connected to the discharge passage to deliver the fish to a selected location in the upper body of water.

  10. Endogenous Fishing Mortality in Life History Models: Relaxing Some Implicit Assumptions

    OpenAIRE

    Smith, Martin D.

    2007-01-01

    Life history models can include a wide range of biological and ecological features that affect exploited fish populations. However, they typically treat fishing mortality as an exogenous parameter. Implicitly, this approach assumes that the supply of fishing effort is perfectly inelastic. That is, the supply curve of effort is vertical. Fishery modelers often run simulations for different values of fishing mortality, but his exercise also assumes vertical supply and simply explores a series o...

  11. Hydroacoustic Evaluation of Juvenile Salmonid Passage and Distribution at Lookout Point Dam, 2010

    Energy Technology Data Exchange (ETDEWEB)

    Khan, Fenton; Johnson, Gary E.; Royer, Ida M.; Hughes, James S.; Fischer, Eric S.; Trott, Donna M.; Ploskey, Gene R.

    2011-07-01

    This report presents the results of an evaluation of juvenile salmonid passage and distribution at Lookout Point Dam (LOP) on the Middle Fork Willamette River. The study was conducted by the Pacific Northwest National Laboratory for the U.S. Army Corps of Engineers, Portland District (USACE). The goal of the study was to provide fish passage and distribution data to support decisions on long-term measures to enhance downstream passage at LOP and others dams in USACE’s Willamette Valley Project in response to the listing of Upper Willamette River Spring Chinook salmon (Oncorhynchus tshawytscha) and Upper Willamette River steelhead (O. mykiss) as threatened under the Endangered Species Act. During the year-long study period - February 1, 2010 to January 31, 2011the objectives of the hydroacoustic evaluation of fish passage and distribution at LOP were to: 1. Estimate passage rates, run timing, horizontal distribution, and diel distribution at turbine penstock intakes for smolt-size fish. 2. Estimate passage rates, run timing and diel distribution at turbine penstock intakes for small-size fish. 3. Estimate passage rates and run timing at the regulating outlets for smolt-size fish. 4. Estimate vertical distribution of smolt-size fish in the forebay near the upstream face of the dam. The fixed-location hydroacoustic technique was used to accomplish the objectives of this study. Transducers (420 kHz) were deployed in each penstock intake, above each RO entrance, and on the dam face; a total of nine transducers (2 single-beam and 7 split-beam) were used. We summarize the findings from the hydroacoustic evaluation of juvenile salmonid passage and distribution at LOP during February 2010 through January 2011 as follows. • Fish passage rates for smolt-size fish (> ~90 mm) were highest during December-January and lowest in mid-summer through early fall. • During the entire study period, an estimated total of 142,463 fish ± 4,444 (95% confidence interval) smolt

  12. The Northwest Passage Dispute

    DEFF Research Database (Denmark)

    Burke, Danita Catherine

    2018-01-01

    This is an article written for the Oxford Research Group "Sustainable Security" series. It gives an overview of the dispute of the Northwest Passage and discusses factors which will contribute to the evolution of the dispute in the 21st century. This short contribution summarizes and adds to the ...... to the research recently published by the author through Palgrave Macmillan, Danita Catherine Burke, 2018, International Disputes and Cultural Ideas in the Canadian Arctic...

  13. Use of Mathematical Optimization Models to Derive Healthy and Safe Fish Intake

    DEFF Research Database (Denmark)

    Persson, Maria; Fagt, Sisse; Pires, Sara Monteiro

    2018-01-01

    Recommended fish intake differs substantially from observed fish intake. In Denmark, ∼15% of the population consumes the state-recommended fish intake. How much fish individuals eat varies greatly, and this variation cannot be captured by considering the fish intake of the average population. We...... developed a method intended to provide realistic and achievable personalized dietary recommendations based on an individual's body weight and current fish intake. The objective of the study was to propose specific fish intake levels for individuals that meet the recommendations for eicosapentaenoic acid......, docosahexaenoic acid, and vitamin D without violating the permitted intake recommendations for methyl mercury, dioxins, and polychlorinated biphenyls. Two mathematical optimization models were developed that apply quadratic programming to model personalized recommended fish intake, fulfilling criteria...

  14. A very efficient approach to compute the first-passage probability density function in a time-changed Brownian model: Applications in finance

    Science.gov (United States)

    Ballestra, Luca Vincenzo; Pacelli, Graziella; Radi, Davide

    2016-12-01

    We propose a numerical method to compute the first-passage probability density function in a time-changed Brownian model. In particular, we derive an integral representation of such a density function in which the integrand functions must be obtained solving a system of Volterra equations of the first kind. In addition, we develop an ad-hoc numerical procedure to regularize and solve this system of integral equations. The proposed method is tested on three application problems of interest in mathematical finance, namely the calculation of the survival probability of an indebted firm, the pricing of a single-knock-out put option and the pricing of a double-knock-out put option. The results obtained reveal that the novel approach is extremely accurate and fast, and performs significantly better than the finite difference method.

  15. Performance of a surface bypass structure to enhance juvenile steelhead passage and survival at Lower Granite Dam, Washington

    Science.gov (United States)

    Adams, Noah S.; Plumb, John M.; Perry, Russell W.; Rondorf, Dennis W.

    2014-01-01

    An integral part of efforts to recover stocks of Pacific salmon Oncorhynchus spp. and steelhead O. mykiss in Pacific Northwest rivers is to increase passage efficacy and survival of juveniles past hydroelectric dams. As part of this effort, we evaluated the efficacy of a prototype surface bypass structure, the removable spillway weir (RSW), installed in a spillbay at Lower Granite Dam, Washington, on the Snake River during 2002, 2003, 2005, and 2006. Radio-tagged juvenile steelhead were released upstream from the dam and their route of passage through the turbines, juvenile bypass, spillway, or RSW was recorded. The RSW was operated in an on-or-off condition and passed 3–13% of the total discharge at the dam when it was on. Poisson rate models were fit to the passage counts of hatchery- and natural-origin juvenile steelhead to predict the probability of fish passing the dam. Main-effect predictor variables were RSW operation, diel period, day of the year, proportion of flow passed by the spillway, and total discharge at the dam. The combined fish passage through the RSW and spillway was 55–85% during the day and 37–61% during the night. The proportion of steelhead passing through nonturbine routes was 95% when the RSW was on during the day. The ratio of the proportion of steelhead passed to the proportion of water passing the RSW was from 6.3:1 to 10.0:1 during the day and from 2.7:1 to 5.2:1 during the night. Steelhead passing through the RSW exited the tailrace about 15 min faster than fish passing through the spillway. Mark–recapture single-release survival estimates for steelhead passing the RSW ranged from 0.95 to 1.00. The RSW appeared to be an effective bypass structure compared with other routes of fish passage at the dam.

  16. Modelling malaria control by introduction of larvivorous fish.

    Science.gov (United States)

    Lou, Yijun; Zhao, Xiao-Qiang

    2011-10-01

    Malaria creates serious health and economic problems which call for integrated management strategies to disrupt interactions among mosquitoes, the parasite and humans. In order to reduce the intensity of malaria transmission, malaria vector control may be implemented to protect individuals against infective mosquito bites. As a sustainable larval control method, the use of larvivorous fish is promoted in some circumstances. To evaluate the potential impacts of this biological control measure on malaria transmission, we propose and investigate a mathematical model describing the linked dynamics between the host-vector interaction and the predator-prey interaction. The model, which consists of five ordinary differential equations, is rigorously analysed via theories and methods of dynamical systems. We derive four biologically plausible and insightful quantities (reproduction numbers) that completely determine the community composition. Our results suggest that the introduction of larvivorous fish can, in principle, have important consequences for malaria dynamics, but also indicate that this would require strong predators on larval mosquitoes. Integrated strategies of malaria control are analysed to demonstrate the biological application of our developed theory.

  17. Compliance Monitoring of Subyearling Chinook Salmon Survival and Passage at The Dalles Dam, Summer 2012

    Energy Technology Data Exchange (ETDEWEB)

    Skalski, J. R.; Townsend, Richard L.; Seaburg, Adam; Ploskey, Gene R.; Weiland, Mark A.; Hughes, James S.; Woodley, Christa M.; Deng, Zhiqun; Carlson, Thomas J.; Johnson, Gary E.

    2013-05-01

    The purpose of this compliance study was to estimate dam passage survival of subyearling Chinook salmon at The Dalles Dam during summer 2012. Under the 2008 Federal Columbia River Power System Biological Opinion, dam passage survival is required to be greater than or equal to 0.93 and estimated with a standard error (SE) less than or equal to 0.015. The study also estimated survival from the forebay 2 km upstream of the dam and through the tailrace to 2 km downstream of the dam, forebay residence time, tailrace egress time, spill passage efficiency (SPE), and fish passage efficiency (FPE), as required by the 2008 Columbia Basin Fish Accords.

  18. Modeling Tribal Exposures to Methyl Mercury from Fish Consumption

    Data.gov (United States)

    U.S. Environmental Protection Agency — data is from NHANES study and EPA fish intake and HG concentration in fish tissue. This dataset is associated with the following publication: Xue , J., V. Zartarian...

  19. Using data from an encounter sampler to model fish dispersal

    Science.gov (United States)

    Obaza, A.; DeAngelis, D.L.; Trexler, J.C.

    2011-01-01

    A method to estimate speed of free-ranging fishes using a passive sampling device is described and illustrated with data from the Everglades, U.S.A. Catch per unit effort (CPUE) from minnow traps embedded in drift fences was treated as an encounter rate and used to estimate speed, when combined with an independent estimate of density obtained by use of throw traps that enclose 1 m2 of marsh habitat. Underwater video was used to evaluate capture efficiency and species-specific bias of minnow traps and two sampling studies were used to estimate trap saturation and diel-movement patterns; these results were used to optimize sampling and derive correction factors to adjust species-specific encounter rates for bias and capture efficiency. Sailfin mollies Poecilia latipinna displayed a high frequency of escape from traps, whereas eastern mosquitofish Gambusia holbrooki were most likely to avoid a trap once they encountered it; dollar sunfish Lepomis marginatus were least likely to avoid the trap once they encountered it or to escape once they were captured. Length of sampling and time of day affected CPUE; fishes generally had a very low retention rate over a 24 h sample time and only the Everglades pygmy sunfish Elassoma evergladei were commonly captured at night. Dispersal speed of fishes in the Florida Everglades, U.S.A., was shown to vary seasonally and among species, ranging from 0.05 to 0.15 m s-1 for small poeciliids and fundulids to 0.1 to 1.8 m s-1 for L. marginatus. Speed was generally highest late in the wet season and lowest in the dry season, possibly tied to dispersal behaviours linked to finding and remaining in dry-season refuges. These speed estimates can be used to estimate the diffusive movement rate, which is commonly employed in spatial ecological models.

  20. Study on residues of 14C-fenitrothion in model rice-fish ecosystem and field rice-fish ecosystem

    International Nuclear Information System (INIS)

    Zhang Zhongliang; Wang Huaxin; Guo Dazhi; Chen Zhiyu; wu Suqiong

    1994-01-01

    When equal amounts of the pesticide are applied, the extractable residues in brown rice (equivalent to 34.3 +- 1.9 μg/kg fenitrothion) and rice stems and leaves (20.9 +- 1.5 μg/kg) of the model rice-fish ecosystem are 10-15 times higher than those of the field rice-fish ecosystem (4.48 +- 0.13 μg/kg and 1.27 +- 0.34 μg/kg respectively). Residues in upper part of the soil (6.50 +- 0.1-8.10 +- 0.2 μg/kg) and lower part of the soil (1.30 +- 0.1-1.50 +- 0.1 μg/kg)of the model rice-fish ecosystem are 10-40 times higher than those of the field rice-fish ecosystem (0.17 +- 0.01 μg/kg). The extractable residues in paddy water of the model ecosystem (0.30 +- 0.01 μg/kg) are similar to that the the field ecosystem (0.20 +- 0.02 μg/kg). When the fenitrothion is sprayed on the rice plants, residues in brown rice, fish body, soil and paddy water are lower than those when the pesticide is sprayed on the surface of the soil

  1. Modelling an exploited marine fish community with 15 parameters - results from a simple size-based model

    NARCIS (Netherlands)

    Pope, J.G.; Rice, J.C.; Daan, N.; Jennings, S.; Gislason, H.

    2006-01-01

    To measure and predict the response of fish communities to exploitation, it is necessary to understand how the direct and indirect effects of fishing interact. Because fishing and predation are size-selective processes, the potential response can be explored with size-based models. We use a

  2. Passage and survival probabilities of juvenile Chinook salmon at Cougar Dam, Oregon, 2012

    Science.gov (United States)

    Beeman, John W.; Evans, Scott D.; Haner, Philip V.; Hansel, Hal C.; Hansen, Amy C.; Smith, Collin D.; Sprando, Jamie M.

    2014-01-01

    survival probabilities were estimated using the Route-Specific-Survival Model with data from surface-acclimated fish released near the water surface directly upstream of the temperature control tower (treatment group) and slightly downstream of the dam (control group). In this study, apparent survival is the joint probability of surviving and migrating through the study area during the life of the transmitters. Two rearing groups were used to enable sufficient sample sizes for the studies. The groups differed in feed type, and for the December study only, the rearing location. Fish from each group were divided nearly equally among all combinations of release sites, release times, and surgeons. The sizes, travel times, and survivals of the two rearing groups were similar. There were statistical differences in fish lengths and travel times of the two groups, but they were small and likely were not biologically meaningful. There also was evidence of a difference in single-release estimates of survival between the rearing groups during the December study, but the differences had little effect on the relative survival estimates so the analyses of passage and survival were based on data from the rearing groups pooled. Conditions during the December study were more conducive to passing volitionally migrating fish than conditions during the November study. The passage percentage of the fish released in the reservoir was similar between studies (about 70 percent), but the passage occurred in a median of 1.0 day during the December study and a median of 9.3 days during the November study. More than 93 percent of the dam passage of volitionally migrating fish occurred at night during each study. This finding corroborates results of previous studies at Cougar Dam and suggests that the operating conditions at night are most important to volitionally migrating fish, given the current configuration of the dam. Most fish released near the temperature control tower passed through the RO. A

  3. Assessing the zearalenone-binding activity of adsorbent materials during passage through a dynamic in vitro gastrointestinal model

    NARCIS (Netherlands)

    Avantaggiato, G.; Havenaar, R.; Visconti, A.

    2003-01-01

    A novel approach is presented herein to study the intestinal absorption of mycotoxins by using a laboratory model that mimics the metabolic processes of the gastrointestinal (GI) tract of healthy pigs. This model was used to evaluate the small-intestinal absorption of zearalenone from contaminated

  4. Quantifying Fish Backscattering using SONAR Instrument and Kirchhoff Ray Mode (KRM) Model

    Science.gov (United States)

    Manik, Henry M.

    2016-08-01

    Sonar instrument was used to study backscattering from tuna fish. Extraction of target strength, incidence angle, and frequency dependence of the backscattered signal for individual scatterer was important for biological information. For this purpose, acoustic measurement of fish backscatter was conducted in the laboratory. Characteristics and general trends of the target strength of fish with special reference to tuna fish were investigated by using a Kirchhoff Ray Mode (KRM) model. Backscattering strength were calculated for the KRM having typical morphological and physical parameters of actual fish. Those backscattering amplitudes were shown as frequency, body length, backscattering patterns, the density and sound speed dependences, and orientation dependence. These results were compared with experimentally measured target strength data and good agreement was found. Measurement and model showed the target strength from the fish are depend on the presence of swimbladder. Target Strength increase with increasing the frequency and fish length.

  5. Behaviour and locomotor activity of a migratory catostomid during fishway passage.

    Directory of Open Access Journals (Sweden)

    Ana T Silva

    Full Text Available Fishways have been developed to restore longitudinal connectivity in rivers. Despite their potential for aiding fish passage, fishways may represent a source of significant energetic expenditure for fish as they are highly turbulent environments. Nonetheless, our understanding of the physiological mechanisms underpinning fishway passage of fish is still limited. We examined swimming behaviour and activity of silver redhorse (Moxostoma anisurum during its upriver spawning migration in a vertical slot fishway. We used an accelerometer-derived instantaneous activity metric (overall dynamic body acceleration to estimate location-specific swimming activity. Silver redhorse demonstrated progressive increases in activity during upstream fishway passage. Moreover, location-specific passage duration decreased with an increasing number of passage attempts. Turning basins and the most upstream basin were found to delay fish passage. No relationship was found between basin-specific passage duration and activity and the respective values from previous basins. The results demonstrate that successful fishway passage requires periods of high activity. The resultant energetic expenditure may affect fitness, foraging behaviour and increase susceptibility to predation, compromising population sustainability. This study highlights the need to understand the physiological mechanisms underpinning fishway passage to improve future designs and interpretation of biological evaluations.

  6. Compliance Monitoring of Yearling and Subyearling Chinook Salmon and Juvenile Steelhead Survival and Passage at John Day Dam, 2012

    Energy Technology Data Exchange (ETDEWEB)

    Skalski, J. R.; Townsend, Richard L.; Seaburg, Adam; Weiland, Mark A.; Woodley, Christa M.; Hughes, James S.; Ploskey, Gene R.; Deng, Zhiqun; Carlson, Thomas J.

    2013-05-01

    The purpose of this compliance study was to estimate dam passage survival of yearling and subyearling Chinook salmon and steelhead smolts at John Day Dam during the spring and summer outmigrations in 2012. Under the 2008 Federal Columbia River Power System (FCRPS) Biological Opinion (BiOp), dam passage survival should be greater than or equal to 0.96 for spring migrants and greater than or equal to 0.93 for summer migrants, estimated with a standard error (SE) less than or equal to 0.015. The study also estimated smolt passage survival from the forebay 2 km upstream of the dam to the tailrace 3 km downstream of the dam, as well as the forebay residence time, tailrace egress time, spill passage efficiency (SPE), and fish passage efficiency (FPE), as required in the Columbia Basin Fish Accords (Fish Accords). A virtual/paired-release design was used to estimate dam passage survival at John Day Dam. The approach included releases of smolts, tagged with acoustic micro-transmitters, above John Day Dam that contributed to the formation of a virtual release at the face of John Day Dam. A survival estimate from this release was adjusted by a paired release below John Day Dam. A total of 3376 yearling Chinook salmon, 5726 subyearling Chinook salmon, and 3239 steelhead smolts were used in the virtual releases. Sample sizes for the below-dam paired releases (R2 and R3, respectively) were 997 and 995 for yearling Chinook salmon smolts, 986 and 983 for subyearling Chinook salmon smolts, and 1000 and 1000 for steelhead smolts. The Juvenile Salmon Acoustic Telemetry System (JSATS) tags were manufactured by Advanced Telemetry Systems. Model SS300 tags, weighing 0.304 g in air, were surgically implanted in yearling and subyearling Chinook salmon, and Model SS130 tag, weighing 0.438 g in air, were surgically implanted in juvenile steelhead for this investigation. The intent of the spring study was to estimate dam passage survival during both 30% and 40% spill conditions. The two

  7. Computational fluid dynamics-habitat suitability index (CFD-HSI) modelling as an exploratory tool for assessing passability of riverine migratory challenge zones for fish

    Science.gov (United States)

    Haro, Alexander J.; Chelminski, Michael; Dudley, Robert W.

    2015-01-01

    We developed two-dimensional computational fluid hydraulics-habitat suitability index (CFD-HSI) models to identify and qualitatively assess potential zones of shallow water depth and high water velocity that may present passage challenges for five major anadromous fish species in a 2.63-km reach of the main stem Penobscot River, Maine, as a result of a dam removal downstream of the reach. Suitability parameters were based on distribution of fish lengths and body depths and transformed to cruising, maximum sustained and sprint swimming speeds. Zones of potential depth and velocity challenges were calculated based on the hydraulic models; ability of fish to pass a challenge zone was based on the percent of river channel that the contiguous zone spanned and its maximum along-current length. Three river flows (low: 99.1 m3 sec-1; normal: 344.9 m3 sec-1; and high: 792.9 m3 sec-1) were modelled to simulate existing hydraulic conditions and hydraulic conditions simulating removal of a dam at the downstream boundary of the reach. Potential depth challenge zones were nonexistent for all low-flow simulations of existing conditions for deeper-bodied fishes. Increasing flows for existing conditions and removal of the dam under all flow conditions increased the number and size of potential velocity challenge zones, with the effects of zones being more pronounced for smaller species. The two-dimensional CFD-HSI model has utility in demonstrating gross effects of flow and hydraulic alteration, but may not be as precise a predictive tool as a three-dimensional model. Passability of the potential challenge zones cannot be precisely quantified for two-dimensional or three-dimensional models due to untested assumptions and incomplete data on fish swimming performance and behaviours.

  8. Upstream Atlantic salmon (Salmo salar) passage

    International Nuclear Information System (INIS)

    Clay, C.H.

    1993-01-01

    Upstream salmon passage though a dam is discussed with respect to three main components: the fishway entrance, the fishway, and the exit. Design considerations and alternative types of components are presented. For fishway entrances, an important consideration is the positioning of the entrance as far upstream as the fish can swim with respect to obstacles. For powerhouses using water diverted from a river, the problem of leading fish past the powerhouse may be overcome by either installing a tailrace barrier or increasing the flow until the home stream odor is sufficient to attract fish. Swimming ability should be the first consideration in fishway design. Fishways with 50 cm drops per pool would be satisfactory in most cases. The problem of headwater fluctuation is overcome through careful fishway selection. Fish locks, hoists, and elevators are other alternatives to pool/weir fishways. The location for a fish exit must be decided on the basis of whether the fishway will be used only for upstream migrations. 5 refs., 1 fig., 1 tab

  9. Hydroacoustic Evaluation of Juvenile Salmonid Passage at The Dalles Dam Sluiceway, 2005

    Energy Technology Data Exchange (ETDEWEB)

    Johnson, Gary E.; Khan, Fenton; Hedgepeth, J; Mueller, Robert P.; Rakowski, Cynthia L.; Richmond, Marshall C.; Serkowski, John A.; Skalski, John R.

    2006-06-01

    The U.S. Army Corps of Engineers Portland District engaged the Pacific Northwest National Laboratory to evaluate fish passage at The Dalles Dam powerhouse in 2005. The goal of the study was to provide information on smolt passage that will inform decisions on long-term measures and operations to enhance sluiceway passage and reduce turbine passage to improve smolt survival at the dam. The study addressed one of the main programs dedicated to improving juvenile salmonid survival at The Dalles Dam: Surface Flow Bypass. The study objectives (see below) were met using a combination of hydroacoustic and hydraulic data. The study incorporated fixed-location hydroacoustic methods across the entire powerhouse, with especially intense sampling using multiple split-beam transducers at all sluiceway portals. We did not sample fish passage at the spillway in 2005. In the sluiceway nearfield, we used an acoustic camera to track fish movements. The fish data were interpreted with hydraulic data from a computational fluid dynamics (CFD) model. Fish passage data were collected in the framework of an “experiment” using a randomized block design (3-day treatments; two treatments) to compare two sluiceway operational configurations: Sluice 2+5 and Sluice 2+19 (six gates open for each configuration). Total project outflow was 76% of the 10-year average for spring and 71% of the 10-year average for summer. Based on these findings, we make the following recommendations: 1) The sluice should be operated 24 h/d from April until November. 2) Open six rather than three sluice gates to take advantage of the maximum hydraulic capacity of the sluiceway. 3) Open the three gates above the western-most operating main turbine unit and the three gates at MU 8 where turbine passage rates are relatively high. 4) Operate the turbine units below open sluice gates as a standard fish operations procedure. 5) Develop hydraulic and entrance enhancements to the sluiceway to tap the potential of The

  10. Mapping reef fish and the seascape: using acoustics and spatial modeling to guide coastal management.

    Directory of Open Access Journals (Sweden)

    Bryan Costa

    Full Text Available Reef fish distributions are patchy in time and space with some coral reef habitats supporting higher densities (i.e., aggregations of fish than others. Identifying and quantifying fish aggregations (particularly during spawning events are often top priorities for coastal managers. However, the rapid mapping of these aggregations using conventional survey methods (e.g., non-technical SCUBA diving and remotely operated cameras are limited by depth, visibility and time. Acoustic sensors (i.e., splitbeam and multibeam echosounders are not constrained by these same limitations, and were used to concurrently map and quantify the location, density and size of reef fish along with seafloor structure in two, separate locations in the U.S. Virgin Islands. Reef fish aggregations were documented along the shelf edge, an ecologically important ecotone in the region. Fish were grouped into three classes according to body size, and relationships with the benthic seascape were modeled in one area using Boosted Regression Trees. These models were validated in a second area to test their predictive performance in locations where fish have not been mapped. Models predicting the density of large fish (≥ 29 cm performed well (i.e., AUC = 0.77. Water depth and standard deviation of depth were the most influential predictors at two spatial scales (100 and 300 m. Models of small (≤ 11 cm and medium (12-28 cm fish performed poorly (i.e., AUC = 0.49 to 0.68 due to the high prevalence (45-79% of smaller fish in both locations, and the unequal prevalence of smaller fish in the training and validation areas. Integrating acoustic sensors with spatial modeling offers a new and reliable approach to rapidly identify fish aggregations and to predict the density large fish in un-surveyed locations. This integrative approach will help coastal managers to prioritize sites, and focus their limited resources on areas that may be of higher conservation value.

  11. Mapping reef fish and the seascape: using acoustics and spatial modeling to guide coastal management.

    Science.gov (United States)

    Costa, Bryan; Taylor, J Christopher; Kracker, Laura; Battista, Tim; Pittman, Simon

    2014-01-01

    Reef fish distributions are patchy in time and space with some coral reef habitats supporting higher densities (i.e., aggregations) of fish than others. Identifying and quantifying fish aggregations (particularly during spawning events) are often top priorities for coastal managers. However, the rapid mapping of these aggregations using conventional survey methods (e.g., non-technical SCUBA diving and remotely operated cameras) are limited by depth, visibility and time. Acoustic sensors (i.e., splitbeam and multibeam echosounders) are not constrained by these same limitations, and were used to concurrently map and quantify the location, density and size of reef fish along with seafloor structure in two, separate locations in the U.S. Virgin Islands. Reef fish aggregations were documented along the shelf edge, an ecologically important ecotone in the region. Fish were grouped into three classes according to body size, and relationships with the benthic seascape were modeled in one area using Boosted Regression Trees. These models were validated in a second area to test their predictive performance in locations where fish have not been mapped. Models predicting the density of large fish (≥ 29 cm) performed well (i.e., AUC = 0.77). Water depth and standard deviation of depth were the most influential predictors at two spatial scales (100 and 300 m). Models of small (≤ 11 cm) and medium (12-28 cm) fish performed poorly (i.e., AUC = 0.49 to 0.68) due to the high prevalence (45-79%) of smaller fish in both locations, and the unequal prevalence of smaller fish in the training and validation areas. Integrating acoustic sensors with spatial modeling offers a new and reliable approach to rapidly identify fish aggregations and to predict the density large fish in un-surveyed locations. This integrative approach will help coastal managers to prioritize sites, and focus their limited resources on areas that may be of higher conservation value.

  12. Evaluation of fish models of soluble epoxide hydrolase inhibition.

    Science.gov (United States)

    Newman, J W; Denton, D L; Morisseau, C; Koger, C S; Wheelock, C E; Hinton, D E; Hammock, B D

    2001-01-01

    Substituted ureas and carbamates are mechanistic inhibitors of the soluble epoxide hydrolase (sEH). We screened a set of chemicals containing these functionalities in larval fathead minnow (Pimphales promelas) and embryo/larval golden medaka (Oryzias latipes) models to evaluate the utility of these systems for investigating sEH inhibition in vivo. Both fathead minnow and medaka sEHs were functionally similar to the tested mammalian orthologs (murine and human) with respect to substrate hydrolysis and inhibitor susceptibility. Low lethality was observed in either larval or embryonic fish exposed to diuron [N-(3,4-dichlorophenyl), N'-dimethyl urea], desmethyl diuron [N-(3,4-dichlorophenyl), N'-methyl urea], or siduron [N-(1-methylcyclohexyl), N'-phenyl urea]. Dose-dependent inhibition of sEH was a sublethal effect of substituted urea exposure with the potency of siduron diuron = diuron, differing from the observed in vitro sEH inhibition potency of siduron > desmethyl diuron > diuron. Further, siduron exposure synergized the toxicity of trans-stilbene oxide in fathead minnows. Medaka embryos exposed to diuron, desmethyl diuron, or siduron displayed dose-dependent delays in hatch, and elevated concentrations of diuron and desmethyl diuron produced developmental toxicity. The dose-dependent toxicity and in vivo sEH inhibition correlated, suggesting a potential, albeit undefined, relationship between these factors. Additionally, the observed inversion of in vitro to in vivo potency suggests that these fish models may provide tools for investigating the in vivo stability of in vitro inhibitors while screening for untoward effects. PMID:11171526

  13. A Capacitated Location-Allocation Model for Flood Disaster Service Operations with Border Crossing Passages and Probabilistic Demand Locations

    DEFF Research Database (Denmark)

    Mirzapour, S. A.; Wong, K. Y.; Govindan, K.

    2013-01-01

    , a p-center location problem is considered in order to determine the locations of some relief rooms in a city and their corresponding allocation clusters. This study presents a mixed integer nonlinear programming model of a capacitated facility location-allocation problem which simultaneously considers......Potential consequences of flood disasters, including severe loss of life and property, induce emergency managers to find the appropriate locations of relief rooms to evacuate people from the origin points to a safe place in order to lessen the possible impact of flood disasters. In this research...... the probabilistic distribution of demand locations and a fixed line barrier in a region. The proposed model aims at minimizing the maximum expected weighted distance from the relief rooms to all the demand regions in order to decrease the evacuation time of people from the affected areas before flood occurrence...

  14. A Capacitated Location-Allocation Model for Flood Disaster Service Operations with Border Crossing Passages and Probabilistic Demand Locations

    Directory of Open Access Journals (Sweden)

    Seyed Ali Mirzapour

    2013-01-01

    Full Text Available Potential consequences of flood disasters, including severe loss of life and property, induce emergency managers to find the appropriate locations of relief rooms to evacuate people from the origin points to a safe place in order to lessen the possible impact of flood disasters. In this research, a p-center location problem is considered in order to determine the locations of some relief rooms in a city and their corresponding allocation clusters. This study presents a mixed integer nonlinear programming model of a capacitated facility location-allocation problem which simultaneously considers the probabilistic distribution of demand locations and a fixed line barrier in a region. The proposed model aims at minimizing the maximum expected weighted distance from the relief rooms to all the demand regions in order to decrease the evacuation time of people from the affected areas before flood occurrence. A real-world case study has been carried out to examine the effectiveness and applicability of the proposed model.

  15. Compliance Monitoring of Yearling Chinook Salmon and Juvenile Steelhead Survival and Passage at Bonneville Dam, Spring 2011

    Energy Technology Data Exchange (ETDEWEB)

    Skalski, J. R.; Townsend, Richard L.; Seaburg, Adam; Ploskey, Gene R.; Carlson, Thomas J.

    2012-03-01

    The study was designed to estimate dam passage survival at Bonneville Dam as stipulated by the 2008 Federal Columbia River Power System (FCRPS) Biological Opinion (BiOp) and to provide additional fish passage performance measures at that site as stipulated in the Columbia Basin Fish Accords.

  16. Compliance Monitoring of Yearling Chinook Salmon and Juvenile Steelhead Survival and Passage at John Day Dam, Spring 2011

    Energy Technology Data Exchange (ETDEWEB)

    Skalski, J. R.; Townsend, Richard L.; Seaburg, Adam; Weiland, Mark A.; Woodley, Christa M.; Hughes, James S.; Carlson, Thomas J.

    2012-02-01

    The study was designed to estimate dam passage survival at John Day Dam as stipulated by the 2008 Federal Columbia River Power System (FCRPS) Biological Opinion (BiOp) and to provide additional fish passage performance measures at that site as stipulated in the Columbia Basin Fish Accords.

  17. Compliance Monitoring of Yearling Chinook Salmon and Juvenile Steelhead Survival and Passage at John Day Dam, Spring 2011

    Energy Technology Data Exchange (ETDEWEB)

    Skalski, J. R.; Townsend, Richard L.; Seaburg, Adam; Weiland, Mark A.; Woodley, Christa M.; Hughes, James S.; Carlson, Thomas J.

    2012-06-01

    The study was designed to estimate dam passage survival at John Day Dam as stipulated by the 2008 Federal Columbia River Power System (FCRPS) Biological Opinion (BiOp) and to provide additional fish passage performance measures at that site as stipulated in the Columbia Basin Fish Accords.

  18. Compliance Monitoring of Yearling Chinook Salmon and Juvenile Steelhead Survival and Passage at Bonneville Dam, Spring 2011

    Energy Technology Data Exchange (ETDEWEB)

    Skalski, John R.; Townsend, Richard L.; Seaburg, Adam; Ploskey, Gene R.; Carlson, Thomas J.

    2012-06-07

    The study was designed to estimate dam passage survival at Bonneville Dam as stipulated by the 2008 Federal Columbia River Power System (FCRPS) Biological Opinion (BiOp) and to provide additional fish passage performance measures at that site as stipulated in the Columbia Basin Fish Accords.

  19. Improving fish survival through turbines

    International Nuclear Information System (INIS)

    Ferguson, J.W.

    1993-01-01

    Much of what is known about fish passage through hydroturbines has been developed by studying migratory species of fish passing through large Kaplan turbine units. A review of the literature on previous fish passage research presented in the accompanying story illustrates that studies have focused on determining mortality levels, rather than identifying the causal mechanism involved. There is a need for understanding how turbine designs could be altered to improve fish passage conditions, how to retrofit existing units, and how proposed hydro plant operational changes may affect fish survival. The US Army Corps of Engineers has developed a research program to define biologically based engineering criteria for improving fish passage conditions. Turbine designs incorporating these criteria can be evaluated for their effects on fish survival, engineering issues, costs, and power production. The research program has the following objectives: To gain a thorough knowledge of the mechanisms of fish mortality; To define the biological sensitivities of key fish species to these mechanisms of mortality; To develop new turbine design criteria to reduce fish mortality; To construct prototype turbine designs, and to test these designs for fish passage, hydro-mechanical operation, and power production; and To identify construction and power costs associated with new turbine designs

  20. Compliance Monitoring of Subyearling Chinook Salmon Smolt Survival and Passage at Bonneville Dam, Summer 2012

    Energy Technology Data Exchange (ETDEWEB)

    Skalski, J. R.; Townsend, Richard L.; Seaburg, Adam; Ploskey, Gene R.; Weiland, Mark A.; Hughes, James S.; Woodley, Christa M.; Deng, Zhiqun; Carlson, Thomas J.

    2013-05-01

    The purpose of this compliance study was to estimate dam passage survival of subyearling Chinook salmon at Bonneville Dam during summer 2012, as required by the 2008 Federal Columbia River Power System Biological Opinion. The study also estimated smolt passage survival from the forebay 2 km upstream of the dam to the tailrace 1 km below the dam, as well as forebay residence time, tailrace egress, and spill passage efficiency, as required in the 2008 Columbia Basin Fish Accords.

  1. Development of a mechanistic model to represent the dynamics of liquid flow out of the rumen and to predict the rate of passage of liquid in dairy cattle.

    Science.gov (United States)

    Seo, S; Lanzas, C; Tedeschi, L O; Fox, D G

    2007-02-01

    , the model accounted for 40, 70, and 90% of the variation, with root mean square prediction errors of 9.25 kg, 1.84 kg/h, and 0.013 h(-1) for liquid content in the rumen, liquid outflow rate, and fractional rate of liquid passage, respectively. A sensitivity analysis showed that dry matter intake, followed by body weight and time spent eating, were the most important input variables for predicting the dynamics of liquid flow from the rumen. We conclude that this model can be used to understand the factors that affect the dynamics of liquid flow out of the rumen and to predict the fractional rate of liquid passage from the RR in dairy cattle.

  2. Effect of Encapsulation on Viability of Pediococcus pentosaceus OZF During Its Passage Through the Gastrointestinal Tract Model.

    Science.gov (United States)

    Kiran, Fadime; Mokrani, Mohamed; Osmanagaoglu, Ozlem

    2015-07-01

    The main goal of this study was to develop an improved oral delivery system for Pediococcus pentosaceus OZF, a promising probiotic bacterium, and to assess its viability under simulated gastrointestinal (GI) tract model by comparing the efficiency of microbiological and molecular approaches. Encapsulation was carried out using extrusion method and as a result, encapsulation system including 0.75 % lactulose, 1.8 % sodium alginate, 0.1 M CaCl2, and 5 min gelling time was shown to have a significantly protective effect against pH 2.0 acid stress over 3 h. However, completely loss of viability was exhibited by free OZF cells under similar conditions. To provide an additional barrier for capsules, coating process was investigated using different biopolymers, and the survival rates of free and encapsulated OZF cells upon expose to simulated GI conditions were detected by conventional culture techniques and propidium monoazide-quantitative polymerase chain reaction (PMA-qPCR) method. No significant differences between the biopolymers were detected, except the chitosan which leads totally 85 % protection and extra 25 % improvement in the survival of OZF cells compared to uncoated capsules. In conclusion, our findings indicated that chitosan-coated capsules provided an important protective effect on the viability of OZF cells against the GI system conditions encountered during the transit of food. In addition, this study was found successful in monitoring the viable OZF cells in capsules using PMA-qPCR method.

  3. A MODEL OF OXYGEN CONDITIONS IN A SCHOOL OF FISH BASED ON EXPERIMENTAL RESPIROMETRY

    DEFF Research Database (Denmark)

    Steffensen, John Fleng

    2010-01-01

    . Based on measurements of oxygen consumption in Atlantic herring (C/llpea harengus) swimming at a variety of forced speeds in a swimming respirometer, a model describing the decline in oxygen conditions through a fish school was constructed. With the model the effects of swimming speed, environmental......John Fleng Steffensen. 1st International FitFish Workshop on the Swimming Physiology of Fish, Barcelona 2010. Oxygen consumption of swimming fish is well known to increase as a power function or exponentially as swimming speed increase. When a fi sh swim through the water they consume oxygen...... and hence less oxygen will be available behind the fish. Similarly oxygen concentration will decrease from front to rear in a school of swimming fish. McFarland and Moss (1967) showed that the oxygen saturation decreased about 30 % from front to rear in an approximately 150 m long school of swimming mullets...

  4. Exploring Spatiotemporal Trends in Commercial Fishing Effort of an Abalone Fishing Zone: A GIS-Based Hotspot Model.

    Directory of Open Access Journals (Sweden)

    M Ali Jalali

    Full Text Available Assessing patterns of fisheries activity at a scale related to resource exploitation has received particular attention in recent times. However, acquiring data about the distribution and spatiotemporal allocation of catch and fishing effort in small scale benthic fisheries remains challenging. Here, we used GIS-based spatio-statistical models to investigate the footprint of commercial diving events on blacklip abalone (Haliotis rubra stocks along the south-west coast of Victoria, Australia from 2008 to 2011. Using abalone catch data matched with GPS location we found catch per unit of fishing effort (CPUE was not uniformly spatially and temporally distributed across the study area. Spatial autocorrelation and hotspot analysis revealed significant spatiotemporal clusters of CPUE (with distance thresholds of 100's of meters among years, indicating the presence of CPUE hotspots focused on specific reefs. Cumulative hotspot maps indicated that certain reef complexes were consistently targeted across years but with varying intensity, however often a relatively small proportion of the full reef extent was targeted. Integrating CPUE with remotely-sensed light detection and ranging (LiDAR derived bathymetry data using generalized additive mixed model corroborated that fishing pressure primarily coincided with shallow, rugose and complex components of reef structures. This study demonstrates that a geospatial approach is efficient in detecting patterns and trends in commercial fishing effort and its association with seafloor characteristics.

  5. Modeling Statistics of Fish Patchiness and Predicting Associated Influence on Statistics of Acoustic Echoes

    Science.gov (United States)

    2015-09-30

    information on fish school distributions by monitoring the direction of birds returning to the colony or the behavior of other birds at sea through...active sonar. Toward this goal, fundamental advances in the understanding of fish behavior , especially in aggregations, will be made under conditions...relevant to the echo statistics problem. OBJECTIVES To develop new models of behavior of fish aggregations, including the fission/fusion process

  6. Review of avoidance reactions of tropical fish to a survey vessel = Revue des réactions d'évitement des poissons tropicaux au passage d'un navire de prospection

    OpenAIRE

    Gerlotto, François; Fréon, Pierre

    1990-01-01

    Les réactions des poissons pélagiques tropicaux au passage d'un navire de recherches sont décrites en fonction de l'impact qu'elles peuvent avoir sur les résultats des prospections acoustiques. Deux composantes principales sont décrites : déplacement du poisson latéralement ou en plongée, et situation dans les trois dimensions. Une description empirique des influences des divers stimuli d'un navire sur les poissons est proposée : les trois stimuli pris en compte sont le bruit, l'éclairement d...

  7. CH4 Emission Model from Bos Primigenius Waste in Fish-Water: Implications for Integrated Livestock-Fish Farming Systems

    Directory of Open Access Journals (Sweden)

    Joshua O. Okeniyi

    2013-07-01

    Full Text Available This paper studies a methane (CH4 emission model from the waste of cattle (B. primigenius based on trends in integrated livestock-fish farming adoption by farmers in Nigeria. Dung of B. primigenius was employed as substrate in fish-water, obtained from a fish-rearing farm, as a matrix medium for simulating a low-oxygen wastewater environment of an agriculture-aquaculture system. A substrate to fish-water mass ratio of 1:3 was used, developed in a laboratory-size digesting reactor system. Volumetric readings, at ambient temperature conditions and with a retention time of thirty-two days, were then subjected to the logistic probability density function, and tested against correlation coefficient and Nash-Sutcliffe coefficient of efficiency criteria. The readings show that a volume of CH4-containing gas as high as 65.3 x 10−3 dm3 was produced on the 13th day from the B. primigenius substrate. Also, production of 234.59 x 10−3 dm3/kg CH4-containing gas, totaling 703.76 x 10−3 dm3, was observed through the studied retention time. The 60% CH4 constituent model of the measured gas generation showed a potency of 2.0664 kg emission per animal, which is equivalent to 43.3944 CO2eq of global warming potential (GWP annually per animal. This bears environmental and climate change implications, and therefore alternative sustainable practices for integrated livestock-fish farming adoption are suggested.

  8. Proceedings of a workshop on American Eel passage technologies

    Science.gov (United States)

    Haro, Alexander J.

    2013-01-01

    Recent concerns regarding a decline in recruitment of American eels (Anguilla rostrata) have prompted efforts to restore this species to historic habitats by providing passage for both upstream migrant juveniles and downstream migrant adults at riverine barriers, including low-head and hydroelectric dams (Castonguay et al. 1994, Haro et al. 2000). These efforts include development of management plans and stock assessment reviews in both the US and Canada (COSEWIC 2006, Canadian Eel Working Group 2009, DFO 2010, MacGregor et al. 2010, ASMFC 2000, ASMFC 2006, ASMFC 2008, Williams and Threader 2007), which target improvement of upstream and downstream passage for eels, as well as identification and prioritization of research needs for development of new and more effective passage technologies for American eels. Traditional upstream fish passage structures, such as fishways and fish lifts, are often ineffective passing juvenile eels, and specialized passage structures for this species are needed. Although designs for such passage structures are available and diverse (Knights and White 1998, Porcher 2002, FAO/DVWK 2002, Solomon and Beach 2004a,b, Environment Agency UK 2011), many biologists, managers, and engineers are unfamiliar with eel pass design and operation, or unaware of the technical options available for upstream eel passage, Better coordination is needed to account for eel passage requirements during restoration efforts for other diadromous fish species. Also, appropriately siting eel passes at hydropower projects is critical, and siting can be difficult and complex due to physical restrictions in access to points of natural concentrations of eels, dynamic hydraulics of tailrace areas, and presence of significant competing flows from turbine outfalls or spill. As a result, some constructed eel passes are sited poorly and may pass only a fraction of the number of eels attempting to pass the barrier. When sited and constructed appropriately, however, eel passes

  9. MERGANSER: an empirical model to predict fish and loon mercury in New England lakes

    Science.gov (United States)

    Shanley, James B.; Moore, Richard; Smith, Richard A.; Miller, Eric K.; Simcox, Alison; Kamman, Neil; Nacci, Diane; Robinson, Keith; Johnston, John M.; Hughes, Melissa M.; Johnston, Craig; Evers, David; Williams, Kate; Graham, John; King, Susannah

    2012-01-01

    MERGANSER (MERcury Geo-spatial AssessmeNtS for the New England Region) is an empirical least-squares multiple regression model using mercury (Hg) deposition and readily obtainable lake and watershed features to predict fish (fillet) and common loon (blood) Hg in New England lakes. We modeled lakes larger than 8 ha (4404 lakes), using 3470 fish (12 species) and 253 loon Hg concentrations from 420 lakes. MERGANSER predictor variables included Hg deposition, watershed alkalinity, percent wetlands, percent forest canopy, percent agriculture, drainage area, population density, mean annual air temperature, and watershed slope. The model returns fish or loon Hg for user-entered species and fish length. MERGANSER explained 63% of the variance in fish and loon Hg concentrations. MERGANSER predicted that 32-cm smallmouth bass had a median Hg concentration of 0.53 μg g-1 (root-mean-square error 0.27 μg g-1) and exceeded EPA's recommended fish Hg criterion of 0.3 μg g-1 in 90% of New England lakes. Common loon had a median Hg concentration of 1.07 μg g-1 and was in the moderate or higher risk category of >1 μg g-1 Hg in 58% of New England lakes. MERGANSER can be applied to target fish advisories to specific unmonitored lakes, and for scenario evaluation, such as the effect of changes in Hg deposition, land use, or warmer climate on fish and loon mercury.

  10. Investigation of heat transfer and flow using ribs within gas turbine blade cooling passage: Experimental and hybrid LES/RANS modeling

    Science.gov (United States)

    Kumar, Sourabh

    Gas turbines are extensively used for aircraft propulsion, land based power generation and various industrial applications. Developments in innovative gas turbine cooling technology enhance the efficiency and power output, with an increase in turbine rotor inlet temperatures. These advancements of turbine cooling have allowed engine design to exceed normal material temperature limits. For internal cooling design, techniques for heat extraction from the surfaces exposed to hot stream are based on the increase of heat transfer areas and on promotion of turbulence of the cooling flow. In this study, it is obtained by casting repeated continuous V and broken V shaped ribs on one side of the two pass square channel into the core of blade. Despite extensive research on ribs, only few papers have validated the numerical data with experimental results in two pass channel. In the present study, detailed experimental investigation is carried out for two pass square channels with 180° turn. Detailed heat transfer distribution occurring in the ribbed passage is reported for steady state experiment. Four different combinations of 60° and Broken 60° V ribs in channel are considered. Thermocouples are used to obtain the temperature on the channel surface and local heat transfer coefficients are obtained for various Reynolds numbers, within the turbulent flow regime. Area averaged data are calculated in order to compare the overall performance of the tested ribbed surface and to evaluate the degree of heat transfer enhancement induced by the ribs with. Flow within the channels is characterized by heat transfer enhancing ribs, bends, rotation and buoyancy effects. Computational Fluid Dynamics (CFD) simulations were carried out for the same geometries using different turbulence models such as k-o Shear stress transport (SST) and Reynolds stress model (RSM). These CFD simulations were based on advanced computing in order to improve the accuracy of three dimensional metal

  11. Transport Modeling Analysis to Test the Efficiency of Fish Markets in Oman

    Directory of Open Access Journals (Sweden)

    Khamis S. Al-Abri

    2009-01-01

    Full Text Available Oman’s fish exports have shown an increasing trend while supplies to the domestic market have declined, despite increased domestic demand caused by population growth and income. This study hypothesized that declining fish supplies to domestic markets were due to inefficiency of the transport function of the fish marketing system in Oman. The hypothesis was tested by comparing the observed prices of several fish species at several markets with optimal prices. The optimal prices were estimated by the dual of a fish transport cost- minimizing linear programming model. Primary data on market prices and transportation costs and quantities transported were gathered through a survey of a sample of fish transporters. The quantity demanded at market sites was estimated using secondary data. The analysis indicated that the differences between the observed prices and the estimated optimal prices were not significantly different showing that the transport function of fish markets in Oman is efficient. This implies that the increasing trend of fish exports vis-à-vis the decreasing trend of supplies to domestic markets is rational and will continue. This may not be considered to be equitable but it is efficient and may have long-term implications for national food security and have an adverse impact on the nutritional and health status of the rural poor population. Policy makers may have to recognize the trade off between the efficiency and equity implications of the fish markets in Oman and make policy decisions accordingly in order to ensure national food security.

  12. Monitoring of Subyearling Chinook Salmon Survival and Passage at Bonneville Dam, Summer 2010

    Energy Technology Data Exchange (ETDEWEB)

    Ploskey, Gene R.; Weiland, Mark A.; Carlson, Thomas J.

    2012-09-01

    The purpose of this study was to estimate dam passage and route specific survival rates for subyearling Chinook salmon smolts to a primary survival-detection array located 81 km downstream of the dam, evaluate a BGS located in the B2 forebay, and evaluate effects of two spill treatments. The 2010 study also provided estimates of forebay residence time, tailrace egress time, spill passage efficiency (SPE), and spill + B2 Corner Collector (B2CC) efficiency, as required in the Columbia Basin Fish Accords. In addition, the study estimated forebay passage survival and survival of fish traveling from the forebay entrance array, through the dam and downstream through 81 km of tailwater.

  13. Development of a spatially distributed model of fish population density for habitat assessment of rivers

    Science.gov (United States)

    Sui, Pengzhe; Iwasaki, Akito; Ryo, Masahiro; Saavedra, Oliver; Yoshimura, Chihiro

    2013-04-01

    Flow conditions play an important role in sustaining biodiversity of river ecosystem. However, their relations to freshwater fishes, especially to fish population density, have not been clearly described. This study, therefore, aimed to propose a new methodology to quantitatively link habitat conditions, including flow conditions and other physical conditions, to population density of fish species. We developed a basin-scale fish distribution model by integrating the concept of habitat suitability assessment with a distributed hydrological model (DHM) in order to estimate fish population density with particular attention to flow conditions. Generalized linear model (GLM) was employed to evaluate the relationship between population density of fish species and major environmental factors. The target basin was Sagami River in central Japan, where the river reach was divided into 10 sections by estuary, confluences of tributaries, and river-crossing structures (dams, weirs). The DHM was employed to simulate river discharge from 1998 to 2005, which was used to calculate 10 flow indices including mean discharge, 25th and 75th percentile discharge, duration of low and high flows, number of floods. In addition, 5 water quality parameters and 13 other physical conditions (such as basin area, river width, mean diameter of riverbed material, and number of river-crossing structures upstream and downstream) of each river section were considered as environmental variables. In case of Sagami River, 10 habitat variables among them were then selected based on their correlations to avoid multicollinearity. Finally, the best GLM was developed for each species based on Akaike's information criterion. As results, population densities of 16 fish species in Sagami River were modelled, and correlation coefficients between observed and calculated population densities for 10 species were more than 0.70. The key habitat factors for population density varied among fish species. Minimum

  14. Facial Recognition in a Discus Fish (Cichlidae: Experimental Approach Using Digital Models.

    Directory of Open Access Journals (Sweden)

    Shun Satoh

    Full Text Available A number of mammals and birds are known to be capable of visually discriminating between familiar and unfamiliar individuals, depending on facial patterns in some species. Many fish also visually recognize other conspecifics individually, and previous studies report that facial color patterns can be an initial signal for individual recognition. For example, a cichlid fish and a damselfish will use individual-specific color patterns that develop only in the facial area. However, it remains to be determined whether the facial area is an especially favorable site for visual signals in fish, and if so why? The monogamous discus fish, Symphysopdon aequifasciatus (Cichlidae, is capable of visually distinguishing its pair-partner from other conspecifics. Discus fish have individual-specific coloration patterns on entire body including the facial area, frontal head, trunk and vertical fins. If the facial area is an inherently important site for the visual cues, this species will use facial patterns for individual recognition, but otherwise they will use patterns on other body parts as well. We used modified digital models to examine whether discus fish use only facial coloration for individual recognition. Digital models of four different combinations of familiar and unfamiliar fish faces and bodies were displayed in frontal and lateral views. Focal fish frequently performed partner-specific displays towards partner-face models, and did aggressive displays towards models of non-partner's faces. We conclude that to identify individuals this fish does not depend on frontal color patterns but does on lateral facial color patterns, although they have unique color patterns on the other parts of body. We discuss the significance of facial coloration for individual recognition in fish compared with birds and mammals.

  15. Facial Recognition in a Discus Fish (Cichlidae): Experimental Approach Using Digital Models.

    Science.gov (United States)

    Satoh, Shun; Tanaka, Hirokazu; Kohda, Masanori

    2016-01-01

    A number of mammals and birds are known to be capable of visually discriminating between familiar and unfamiliar individuals, depending on facial patterns in some species. Many fish also visually recognize other conspecifics individually, and previous studies report that facial color patterns can be an initial signal for individual recognition. For example, a cichlid fish and a damselfish will use individual-specific color patterns that develop only in the facial area. However, it remains to be determined whether the facial area is an especially favorable site for visual signals in fish, and if so why? The monogamous discus fish, Symphysopdon aequifasciatus (Cichlidae), is capable of visually distinguishing its pair-partner from other conspecifics. Discus fish have individual-specific coloration patterns on entire body including the facial area, frontal head, trunk and vertical fins. If the facial area is an inherently important site for the visual cues, this species will use facial patterns for individual recognition, but otherwise they will use patterns on other body parts as well. We used modified digital models to examine whether discus fish use only facial coloration for individual recognition. Digital models of four different combinations of familiar and unfamiliar fish faces and bodies were displayed in frontal and lateral views. Focal fish frequently performed partner-specific displays towards partner-face models, and did aggressive displays towards models of non-partner's faces. We conclude that to identify individuals this fish does not depend on frontal color patterns but does on lateral facial color patterns, although they have unique color patterns on the other parts of body. We discuss the significance of facial coloration for individual recognition in fish compared with birds and mammals.

  16. Facial Recognition in a Discus Fish (Cichlidae): Experimental Approach Using Digital Models

    Science.gov (United States)

    Satoh, Shun; Tanaka, Hirokazu; Kohda, Masanori

    2016-01-01

    A number of mammals and birds are known to be capable of visually discriminating between familiar and unfamiliar individuals, depending on facial patterns in some species. Many fish also visually recognize other conspecifics individually, and previous studies report that facial color patterns can be an initial signal for individual recognition. For example, a cichlid fish and a damselfish will use individual-specific color patterns that develop only in the facial area. However, it remains to be determined whether the facial area is an especially favorable site for visual signals in fish, and if so why? The monogamous discus fish, Symphysopdon aequifasciatus (Cichlidae), is capable of visually distinguishing its pair-partner from other conspecifics. Discus fish have individual-specific coloration patterns on entire body including the facial area, frontal head, trunk and vertical fins. If the facial area is an inherently important site for the visual cues, this species will use facial patterns for individual recognition, but otherwise they will use patterns on other body parts as well. We used modified digital models to examine whether discus fish use only facial coloration for individual recognition. Digital models of four different combinations of familiar and unfamiliar fish faces and bodies were displayed in frontal and lateral views. Focal fish frequently performed partner-specific displays towards partner-face models, and did aggressive displays towards models of non-partner’s faces. We conclude that to identify individuals this fish does not depend on frontal color patterns but does on lateral facial color patterns, although they have unique color patterns on the other parts of body. We discuss the significance of facial coloration for individual recognition in fish compared with birds and mammals. PMID:27191162

  17. A Passage into Critical Theory.

    Science.gov (United States)

    Lynn, Steven

    1990-01-01

    Shows how a single passage might be handled by New Criticism, structuralism, deconstructionism, psychological criticism, and feminist criticism. Concludes that a plurality of critical approaches is better than a unity of approach. (RS)

  18. Log-linear model based behavior selection method for artificial fish swarm algorithm.

    Science.gov (United States)

    Huang, Zhehuang; Chen, Yidong

    2015-01-01

    Artificial fish swarm algorithm (AFSA) is a population based optimization technique inspired by social behavior of fishes. In past several years, AFSA has been successfully applied in many research and application areas. The behavior of fishes has a crucial impact on the performance of AFSA, such as global exploration ability and convergence speed. How to construct and select behaviors of fishes are an important task. To solve these problems, an improved artificial fish swarm algorithm based on log-linear model is proposed and implemented in this paper. There are three main works. Firstly, we proposed a new behavior selection algorithm based on log-linear model which can enhance decision making ability of behavior selection. Secondly, adaptive movement behavior based on adaptive weight is presented, which can dynamically adjust according to the diversity of fishes. Finally, some new behaviors are defined and introduced into artificial fish swarm algorithm at the first time to improve global optimization capability. The experiments on high dimensional function optimization showed that the improved algorithm has more powerful global exploration ability and reasonable convergence speed compared with the standard artificial fish swarm algorithm.

  19. Knowledge Transposition from Tropical Fish Serum Proteins to Fundamental Education Students Through Biochemical Models

    Directory of Open Access Journals (Sweden)

    E.V.M. Maciel de Carvalho

    2010-05-01

    Full Text Available The subject was represented and discussed at The National Week of Science and Technology, UFPE, an initiative from The Ministry of Science and Technology to encourage children and people in science and technology activities. The work aimed to renew the importance to transmit knowledge from simple, imaginative, biochemical models and interactive teaching. The stand tool contained an aquarium with fishes, five scale models showing peptide bond, carbohydrate inhibited lectin molecule, hemagglutination reaction, lectin-bacterium surface interaction and enzyme-substract-inhibitor. Posters described tropical fish importance and methods applied to obtain fish serum and organs to purify lectins and protein inhibitors as well as to extract tissue DNA; notions were transmitted on fish immunology and diseases. The students were attracted and impressed with the exotic fishes most cultivated in Brazil; they asked if it is necessary to kill the fish to extract lectin and about lectin importance. Students were also interested to know if all fish enzyme/inhibitors are favorable to the own fish organism. The work succeeded to inform and stimulate future scientists in the field and to awake their scientific curiosity.

  20. A model of the lateral line of fish for vortex sensing

    International Nuclear Information System (INIS)

    Ren Zheng; Mohseni, Kamran

    2012-01-01

    In this paper, the lateral line trunk canal (LLTC) of a fish is modeled to investigate how it is affected by an external flow field. Potential flow theory is adopted to model the flow field around a fish's body in the presence of a Karman vortex street. Karman and reverse Karman streets represent the flow patterns behind a bluff body and a traveling fish, respectively. An analytical solution is obtained for a flat body, while a fish-like body is modeled using a Joukowski transformation and the corresponding equations are solved numerically. The pressure distribution on the body surface is then computed employing Bernoulli's equation. For a known external flow, the flow inside the LLTC is driven by the pressure gradient between a pair of consecutive pores, which can be solved analytically. Governing dimensionless parameters are obtained from this analytical solution, and the effects of these numbers on the amplitude or features of the velocity distribution inside the canal are studied. The results show that the main characteristics of a vortex street including the magnitude of vortices, their translational speed, their spacing, their distance from the fish's body and the angle of the vortex street axis can all be recovered by measuring the velocity distribution along the canal and its changes with time. To this end, the proposed LLTC model could explain how a fish identifies the characteristics of a Karman vortex street shed by a nearby object or a traveling fish. It is also demonstrated that while this model captures the ac (alternating current) component of the external velocity signal, the dc (direct current) component of the signal is filtered out. Based on the results of our model, the role of the LLTC in a fish's schooling and its evolutionary impact on fish sensing are discussed. (paper)

  1. Positive Almost Periodic Solutions for a Time-Varying Fishing Model with Delay

    Directory of Open Access Journals (Sweden)

    Xia Li

    2011-01-01

    Full Text Available This paper is concerned with a time-varying fishing model with delay. By means of the continuation theorem of coincidence degree theory, we prove that it has at least one positive almost periodic solution.

  2. AFSC/REFM: Isolation by distance (IBD) Alaskan fish stock structure modeling (NCEI Accession 0130929)

    Data.gov (United States)

    National Oceanic and Atmospheric Administration, Department of Commerce — This model study examines several management strategies for two marine fish species subject to isolation-by-distance (IBD): Pacific cod in the Aleutian Islands (AI)...

  3. Virulence phenotypes of low-passage clinical isolates of Nontypeable Haemophilus influenzae assessed using the chinchilla laniger model of otitis media

    Directory of Open Access Journals (Sweden)

    Hogg Justin

    2007-06-01

    Full Text Available Abstract Background The nontypeable Haemophilus influenzae (NTHi are associated with a spectrum of respiratory mucosal infections including: acute otitis media (AOM; chronic otitis media with effusion (COME; otorrhea; locally invasive diseases such as mastoiditis; as well as a range of systemic disease states, suggesting a wide range of virulence phenotypes. Genomic studies have demonstrated that each clinical strain contains a unique genic distribution from a population-based supragenome, the distributed genome hypothesis. These diverse clinical and genotypic findings suggest that each NTHi strain possesses a unique set of virulence factors that contributes to the course of the disease. Results The local and systemic virulence patterns of ten genomically characterized low-passage clinical NTHi strains (PittAA – PittJJ obtained from children with COME or otorrhea were stratified using the chinchilla model of otitis media (OM. Each isolate was used to bilaterally inoculate six animals and thereafter clinical assessments were carried out daily for 8 days by blinded observers. There was no statistical difference in the time it took for any of the 10 NTHi strains to induce otologic (local disease with respect to any or all of the other strains, however the differences in time to maximal local disease and the severity of local disease were both significant between the strains. Parameters of systemic disease indicated that the strains were not all equivalent: time to development of the systemic disease, maximal systemic scores and mortality were all statistically different among the strains. PittGG induced 100% mortality while PittBB, PittCC, and PittEE produced no mortality. Overall Pitt GG, PittII, and Pitt FF produced the most rapid and most severe local and systemic disease. A post hoc determination of the clinical origins of the 10 NTHi strains revealed that these three strains were of otorrheic origin, whereas the other 7 were from patients

  4. Individual-based modeling of fish: Linking to physical models and water quality.

    Energy Technology Data Exchange (ETDEWEB)

    Rose, K.A.

    1997-08-01

    The individual-based modeling approach for the simulating fish population and community dynamics is gaining popularity. Individual-based modeling has been used in many other fields, such as forest succession and astronomy. The popularity of the individual-based approach is partly a result of the lack of success of the more aggregate modeling approaches traditionally used for simulating fish population and community dynamics. Also, recent recognition that it is often the atypical individual that survives has fostered interest in the individual-based approach. Two general types of individual-based models are distribution and configuration. Distribution models follow the probability distributions of individual characteristics, such as length and age. Configuration models explicitly simulate each individual; the sum over individuals being the population. DeAngelis et al (1992) showed that, when distribution and configuration models were formulated from the same common pool of information, both approaches generated similar predictions. The distribution approach was more compact and general, while the configuration approach was more flexible. Simple biological changes, such as making growth rate dependent on previous days growth rates, were easy to implement in the configuration version but prevented simple analytical solution of the distribution version.

  5. Development of a foraging model framework to reliably estimate daily food consumption by young fishes

    Science.gov (United States)

    Deslauriers, David; Rosburg, Alex J.; Chipps, Steven R.

    2017-01-01

    We developed a foraging model for young fishes that incorporates handling and digestion rate to estimate daily food consumption. Feeding trials were used to quantify functional feeding response, satiation, and gut evacuation rate. Once parameterized, the foraging model was then applied to evaluate effects of prey type, prey density, water temperature, and fish size on daily feeding rate by age-0 (19–70 mm) pallid sturgeon (Scaphirhynchus albus). Prey consumption was positively related to prey density (for fish >30 mm) and water temperature, but negatively related to prey size and the presence of sand substrate. Model evaluation results revealed good agreement between observed estimates of daily consumption and those predicted by the model (r2 = 0.95). Model simulations showed that fish feeding on Chironomidae or Ephemeroptera larvae were able to gain mass, whereas fish feeding solely on zooplankton lost mass under most conditions. By accounting for satiation and digestive processes in addition to handling time and prey density, the model provides realistic estimates of daily food consumption that can prove useful for evaluating rearing conditions for age-0 fishes.

  6. Mathematical modeling of dissolved oxygen in fish ponds

    African Journals Online (AJOL)

    TUOYO

    dissolved carbon dioxide and chemical oxygen demand (COD) on Dissolved Oxygen (DO) in fish ponds. The effects of organic feeds, aeration ... with elevated levels of carbon dioxide (CO2) and unionized ammonia (NH3), both of ... in salt water, while 2 mg/L is the threshold concentration below which aquatic organisms ...

  7. Hydrodynamics of burst swimming fish larvae; a conceptual model approach

    NARCIS (Netherlands)

    Verhagen, J.H.G.

    2004-01-01

    Burst swimming of fish larvae is analysed from a hydrodynamic point of view. A picture of the expected flow pattern is presented based on information in literature on unsteady-flow patterns around obstacles in the intermediate Reynolds number region. It is shown that the acceleration stage of burst

  8. Mathematical modeling of dissolved oxygen in fish ponds

    African Journals Online (AJOL)

    TUOYO

    thesis process to produce oxygen. When light penetration is high in the fish pond, photosynthesis takes place over the whole depth of pond, but as time goes on the growth of phytoplankton and increasing turbidity decreases light penetration, making it a limiting factor for phytoplankton growth. The function of light can be ...

  9. Multicolor FISH mapping of the dioecious model plant, Silene latifolia

    Czech Academy of Sciences Publication Activity Database

    Lengerová, Martina; Kejnovský, Eduard; Hobza, Roman; Macas, Jiří; Grant, S. R.; Vyskot, Boris

    2004-01-01

    Roč. 108, č. 7 (2004), s. 1193-1199 ISSN 0040-5752 R&D Projects: GA ČR GA521/02/0427; GA ČR GA204/02/0417 Institutional research plan: CEZ:AV0Z5004920 Keywords : FISH * sex chromosomes * karyotype Subject RIV: BO - Biophysics Impact factor: 2.981, year: 2004

  10. Physiologically based modeling of hepatic and gastrointestinal biotransformation in fish

    Science.gov (United States)

    In fish, as in mammals, the liver generally viewed as the principal site of chemical biotransformation. For waterborne exposures, such as those conducted in support of standardized BCF testing, the effects of hepatic metabolism on chemical accumulation can be simulated using rela...

  11. Optimal pulse fishing policy in stage-structured models with birth pulses

    International Nuclear Information System (INIS)

    Gao Shujing; Chen Lansun; Sun Lihua

    2005-01-01

    In this paper, we propose exploited models with stage structure for the dynamics in a fish population for which periodic birth pulse and pulse fishing occur at different fixed time. Using the stroboscopic map, we obtain an exact cycle of system, and obtain the threshold conditions for its stability. Bifurcation diagrams are constructed with the birth rate (or pulse fishing time or harvesting effort) as the bifurcation parameter, and these are observed to display complex dynamic behaviors, including chaotic bands with period windows, period-doubling, multi-period-halving and incomplete period-doubling bifurcation, pitch-fork and tangent bifurcation, non-unique dynamics (meaning that several attractors or attractor and chaos coexist) and attractor crisis. This suggests that birth pulse and pulse fishing provide a natural period or cyclicity that make the dynamical behaviors more complex. Moreover, we show that the pulse fishing has a strong impact on the persistence of the fish population, on the volume of mature fish stock and on the maximum annual-sustainable yield. An interesting result is obtained that, after the birth pulse, the population can sustain much higher harvesting effort if the mature fish is removed as early as possible

  12. Modelling the response of size and diversity spectra of fish assemblages to changes in exploitation

    DEFF Research Database (Denmark)

    Gislason, Henrik; Rice, J.

    1998-01-01

    In this paper we investigate whether single and multispecies fisheries models call be used to predict the response of sire and diversity spectra of fish assemblages to changes in exploitation. Both types of models estimate that the slope of the size spectrum will steepen and the intercept...... will increase when fishing intensity increases, while the response of the slope and intercept of the diversity spectrum depend on the model used. The changes in the slope and intercept of the size spectrum are found to be proportional to the change in fishing intensity. The proportionality is insensitive...... to changes in natural mortality, but sensitive to changes in growth and to the relationship between stock and recruitment. The results agree will with results obtained from previous analysis of survey data from the North Sea and suggest that the slope of the size spectrum is a useful measure of fishing...

  13. Passage survival of juvenile steelhead, coho salmon, and Chinook salmon in Lake Scanewa and at Cowlitz Falls Dam, Cowlitz River, Washington, 2010–16

    Science.gov (United States)

    Liedtke, Theresa L.; Kock, Tobias J.; Hurst, William

    2018-04-03

    A multi-year evaluation was conducted during 2010–16 to evaluate passage survival of juvenile steelhead (Oncorhynchus mykiss), Chinook salmon (O. tshawytscha), and coho salmon (O. kisutch) in Lake Scanewa, and at Cowlitz Falls Dam in the upper Cowlitz River Basin, Washington. Reservoir passage survival was evaluated in 2010, 2011, and 2016, and included the tagging and release of 1,127 juvenile salmonids. Tagged fish were released directly into the Cowlitz and Cispus Rivers, 22.3 and 8.9 km, respectively, upstream of the reservoir, and were monitored as they moved downstream into, and through the reservoir. A single release-recapture survival model was used to analyze detection records and estimate reservoir passage survival, which was defined as successful passage from reservoir entry to arrival at Cowlitz Falls Dam. Tagged fish generally moved quickly downstream of the release sites and, on average, arrived in the dam forebay within 2 d of release. Median travel time from release to first detection at the dam ranged from 0.23 to 0.96 d for juvenile steelhead, from 0.15 to 1.11 d for juvenile coho salmon, and from 0.18 to 1.89 d for juvenile Chinook salmon. Minimum reservoir passage survival probabilities were 0.960 for steelhead, 0.855 for coho salmon and 0.900 for Chinook salmon.Dam passage survival was evaluated at the pilot-study level during 2013–16 and included the tagging and release of 2,512 juvenile salmonids. Juvenile Chinook salmon were evaluated during 2013–14, and juvenile steelhead and coho salmon were evaluated during 2015–16. A paired-release study design was used that included release sites located upstream and downstream of Cowlitz Falls Dam. The downstream release site was positioned at the downstream margin of the dam’s tailrace, which allowed dam passage survival to be measured in a manner that included mortality that occurred in the passage route and in the dam tailrace. More than one-half of the tagged Chinook salmon (52 percent

  14. Marine Biogeochemistry Under The Influence of Fish And Fisheries: An Ecosystem Modeling Study

    Science.gov (United States)

    Disa, Deniz; Akoglu, Ekin; Salihoglu, Baris

    2017-04-01

    The ocean and the marine ecosystems are important controllers of the global carbon cycle. They play a pivotal role in capturing atmospheric carbon into the ocean body, transforming it into organic carbon through photosynthesis and transporting it to the depths of the ocean. Fish, which has a significant role in the marine food webs, is thought to have a considerable impact on carbon export. More specifically, fish has a control on plankton dynamics as a predator, it provides nutrient to the ecosystem by its metabolic activities and it has the ability of moving actively and transporting materials. Fishing is also expected to impact carbon cycle because it directly changes the fish biomasses. However, how fish impacts the biogeochemistry of marine ecosystems is not studied extensively. The aim of this study is to analyze the impact of fish and fisheries on marine biogeochemical processes by setting up an end-to-end model, which simulates lower and higher tropic levels of marine ecosystems simultaneously. For this purpose, a one dimensional biogeochemical model simulating lower tropic level dynamics (e.g. carbon export, nutrient cycles) and an food web model simulating fisheries exploitation and higher tropic level dynamics were online and two-way coupled. Representing the marine ecosystem from one end to the other, the coupled model served as a tool for the analysis of fishing impacts on marine biogeochemical dynamics. Results obtained after incorporation of higher trophic level model changed the plankton compositions and enhanced detritus pools and increased carbon export. Additionally, our model showed that active movement of fish contributed to transport of carbon from surface to the deeper parts of the ocean. Moreover, results after applying different fishing intensities indicated that changes in fisheries exploitation levels directly influence the marine nutrient cycles and hence, the carbon export. Depending on the target and the intensity of fisheries

  15. It is the economy, stupid! Projecting the fate of fish populations using ecological-economic modeling.

    Science.gov (United States)

    Quaas, Martin F; Reusch, Thorsten B H; Schmidt, Jörn O; Tahvonen, Olli; Voss, Rudi

    2016-01-01

    Four marine fish species are among the most important on the world market: cod, salmon, tuna, and sea bass. While the supply of North American and European markets for two of these species - Atlantic salmon and European sea bass - mainly comes from fish farming, Atlantic cod and tunas are mainly caught from wild stocks. We address the question what will be the status of these wild stocks in the midterm future, in the year 2048, to be specific. Whereas the effects of climate change and ecological driving forces on fish stocks have already gained much attention, our prime interest is in studying the effects of changing economic drivers, as well as the impact of variable management effectiveness. Using a process-based ecological-economic multispecies optimization model, we assess the future stock status under different scenarios of change. We simulate (i) technological progress in fishing, (ii) increasing demand for fish, and (iii) increasing supply of farmed fish, as well as the interplay of these driving forces under different scenarios of (limited) fishery management effectiveness. We find that economic change has a substantial effect on fish populations. Increasing aquaculture production can dampen the fishing pressure on wild stocks, but this effect is likely to be overwhelmed by increasing demand and technological progress, both increasing fishing pressure. The only solution to avoid collapse of the majority of stocks is institutional change to improve management effectiveness significantly above the current state. We conclude that full recognition of economic drivers of change will be needed to successfully develop an integrated ecosystem management and to sustain the wild fish stocks until 2048 and beyond. © 2015 John Wiley & Sons Ltd.

  16. Process-based models of feeding and prey selection in larval fish

    DEFF Research Database (Denmark)

    Fiksen, O.; MacKenzie, Brian

    2002-01-01

    believed to be important to prey selectivity and environmental regulation of feeding in fish. We include the sensitivity of prey to the hydrodynamic signal generated by approaching larval fish and a simple model of the potential loss of prey due to turbulence whereby prey is lost if it leaves...... jig dry wt l(-1). The spatio-temporal fluctuation of turbulence (tidal cycle) and light (sun height) over the bank generates complex structure in the patterns of food intake of larval fish, with different patterns emerging for small and large larvae....

  17. Predictive models for fish assemblages in eastern USA streams: implications for assessing biodiversity

    Science.gov (United States)

    Meador, Michael R.; Carlisle, Daren M.

    2009-01-01

    Management and conservation of aquatic systems require the ability to assess biological conditions and identify changes in biodiversity. Predictive models for fish assemblages were constructed to assess biological condition and changes in biodiversity for streams sampled in the eastern United States as part of the U.S. Geological Survey's National Water Quality Assessment Program. Separate predictive models were developed for northern and southern regions. Reference sites were designated using land cover and local professional judgment. Taxonomic completeness was quantified based on the ratio of the number of observed native fish species expected to occur to the number of expected native fish species. Models for both regions accurately predicted fish species composition at reference sites with relatively high precision and low bias. In general, species that occurred less frequently than expected (decreasers) tended to prefer riffle areas and larger substrates, such as gravel and cobble, whereas increaser species (occurring more frequently than expected) tended to prefer pools, backwater areas, and vegetated and sand substrates. In the north, the percentage of species identified as increasers and the percentage identified as decreasers were equal, whereas in the south nearly two-thirds of the species examined were identified as decreasers. Predictive models of fish species can provide a standardized indicator for consistent assessments of biological condition at varying spatial scales and critical information for an improved understanding of fish species that are potentially at risk of loss with changing water quality conditions.

  18. Trapped Ion Quantum Computation by Adiabatic Passage

    International Nuclear Information System (INIS)

    Feng Xuni; Wu Chunfeng; Lai, C. H.; Oh, C. H.

    2008-01-01

    We propose a new universal quantum computation scheme for trapped ions in thermal motion via the technique of adiabatic passage, which incorporates the advantages of both the adiabatic passage and the model of trapped ions in thermal motion. Our scheme is immune from the decoherence due to spontaneous emission from excited states as the system in our scheme evolves along a dark state. In our scheme the vibrational degrees of freedom are not required to be cooled to their ground states because they are only virtually excited. It is shown that the fidelity of the resultant gate operation is still high even when the magnitude of the effective Rabi frequency moderately deviates from the desired value.

  19. Use Carum copticum essential oil for controlling the Listeria monocytogenes growth in fish model system

    Directory of Open Access Journals (Sweden)

    Soghra Rabiey

    2014-01-01

    Full Text Available This study was conducted to evaluate the antibacterial effect of Carum copticum essential oil (Ajowan EO against Listeria monocytogenes in fish model system. Ajowan EO chemical composition was determined by gas chromatography/mass spectral analysis and the highest concentration of Carum copticum essential oil without any significant changes on sensory properties of kutum fish (Rutilus frisii kutum was assigned. Then the inhibitory effect of Ajowan EO at different concentrations in presence of salt and smoke component was tested on L. monocytogenes growth in fish peptone broth (FPB, kutum broth and cold smoked kutum broth at 4 ºC for 12 days. Ajowan EO completely decreased the number of L. monocytogenes in FPB after 12 days of storage, however, antimicrobial effect of EO significantly reduced in kutum and cold smoked kutum broth. Addition of 4% NaCl and smoke component improved the anti-listerial activity of Ajowan EO in all fish model broths.

  20. Hydroacoustic Evaluation of Juvenile Salmonid Passage at The Dalles Dam in 2004

    International Nuclear Information System (INIS)

    Johnson, Gary E.; Hanks, Michael E.; Khan, Fenton; Cook, Chris B.; Hedgepeth, J.; Mueller, Robert P.; Rakowski, Cynthia L.; Richmond, Marshall C.; Sargeant, Susan L.; Serkowski, John A.; Skalski, John R.

    2005-01-01

    The U.S. Army Corps of Engineers Portland District engaged the Pacific Northwest National Laboratory to evaluate juvenile salmon passage at The Dalles Dam in 2004 to inform decisions about long-term measures and operations to enhance sluiceway and spill passage and reduce turbine passage to improve smolt survival at the dam. PNNL used fixed-location hydroacoustic sampling across the entire project, especially at the sluiceway and spillway, using multiple split-beam transducers at selected locations. At the sluiceway nearfield, we used an acoustic camera to track fish. The fish data were interpreted and integrated with hydraulic data from a CFD model and in-field ADCP measurements. Two sluiceway operations were compared: West only (SL 1) vs. West+East (SL 1 + SL 18). Based on our findings, we concluded that The Dalles Dam sluiceway has the potential to be highly efficient and effective at passing juvenile salmonids. This potential could be tapped with hydraulic and entrance enhancements to the sluiceway. We recommended the following: (1) six rather than three sluice gates should be opened to take advantage of the maximum hydraulic capacity of the sluiceway. (2) The turbine units below open sluice gates should be operated as a standard fish operations procedure. (3) In 2005, the Corps and fisheries agencies should consider operating sluice gates in one or more of the following combinations of six gates: (a) SL 1-1, 1-2, 1-3 and SL 18-1, 18-2, 18-3 (repeat 2004 operation), (b) SL 1-1, 1-2, 1-3 and SL 11-1, 11-2, 11-3, or (c) SL 1-1, 1-2, 1-3 and SL 2-1, 2-2, 2-3. The following elements for surface flow bypasses which should be considered during design of any sluiceway enhancements at The Dalles Dam: (1) form an extensive surface flow bypass flow net (surface bypass discharge greater than ∼7% of total project discharge), (2) create a gradual increase in water velocity approaching the surface flow bypass (ideally, acceleration 3 m/s) to entrain the subject juvenile

  1. Hydroacoustic Evaluation of Juvenile Salmonid Passage at The Dalles Dam in 2004

    Energy Technology Data Exchange (ETDEWEB)

    Johnson, Gary E.; Hanks, Michael E.; Khan, Fenton; Cook, Chris B.; Hedgepeth, J; Mueller, Robert P.; Rakowski, Cynthia L.; Richmond, Marshall C.; Sargeant, Susan L.; Serkowski, John A.; Skalski, John R.

    2005-06-01

    The U.S. Army Corps of Engineers Portland District engaged the Pacific Northwest National Laboratory to evaluate juvenile salmon passage at The Dalles Dam in 2004 to inform decisions about long-term measures and operations to enhance sluiceway and spill passage and reduce turbine passage to improve smolt survival at the dam. PNNL used fixed-location hydroacoustic sampling across the entire project, especially at the sluiceway and spillway, using multiple split-beam transducers at selected locations. At the sluiceway nearfield, we used an acoustic camera to track fish. The fish data were interpreted and integrated with hydraulic data from a CFD model and in-field ADCP measurements. Two sluiceway operations were compared: West only (SL 1) vs. West+East (SL 1 + SL 18). Based on our findings, we concluded that The Dalles Dam sluiceway has the potential to be highly efficient and effective at passing juvenile salmonids. This potential could be tapped with hydraulic and entrance enhancements to the sluiceway. We recommended the following: (1) six rather than three sluice gates should be opened to take advantage of the maximum hydraulic capacity of the sluiceway. (2) The turbine units below open sluice gates should be operated as a standard fish operations procedure. (3) In 2005, the Corps and fisheries agencies should consider operating sluice gates in one or more of the following combinations of six gates: (a) SL 1-1, 1-2, 1-3 and SL 18-1, 18-2, 18-3 (repeat 2004 operation), (b) SL 1-1, 1-2, 1-3 and SL 11-1, 11-2, 11-3, or (c) SL 1-1, 1-2, 1-3 and SL 2-1, 2-2, 2-3. The following elements for surface flow bypasses which should be considered during design of any sluiceway enhancements at The Dalles Dam: (1) form an extensive surface flow bypass flow net (surface bypass discharge greater than {approx}7% of total project discharge), (2) create a gradual increase in water velocity approaching the surface flow bypass (ideally, acceleration < 1 m/s/m), (3) make water

  2. Modeling seasonal dynamics of the small fish cohorts in fluctuating freshwater marsh landscapes

    Science.gov (United States)

    Jopp, Fred; DeAngelis, Donald L.; Trexler, Joel C.

    2010-01-01

    Small-bodied fishes constitute an important assemblage in many wetlands. In wetlands that dry periodically except for small permanent waterbodies, these fishes are quick to respond to change and can undergo large fluctuations in numbers and biomasses. An important aspect of landscapes that are mixtures of marsh and permanent waterbodies is that high rates of biomass production occur in the marshes during flooding phases, while the permanent waterbodies serve as refuges for many biotic components during the dry phases. The temporal and spatial dynamics of the small fishes are ecologically important, as these fishes provide a crucial food base for higher trophic levels, such as wading birds. We develop a simple model that is analytically tractable, describing the main processes of the spatio-temporal dynamics of a population of small-bodied fish in a seasonal wetland environment, consisting of marsh and permanent waterbodies. The population expands into newly flooded areas during the wet season and contracts during declining water levels in the dry season. If the marsh dries completely during these times (a drydown), the fish need refuge in permanent waterbodies. At least three new and general conclusions arise from the model: (1) there is an optimal rate at which fish should expand into a newly flooding area to maximize population production; (2) there is also a fluctuation amplitude of water level that maximizes fish production, and (3) there is an upper limit on the number of fish that can reach a permanent waterbody during a drydown, no matter how large the marsh surface area is that drains into the waterbody. Because water levels can be manipulated in many wetlands, it is useful to have an understanding of the role of these fluctuations.

  3. Biochemical Markers in Meconium Passage

    Directory of Open Access Journals (Sweden)

    Özlem Gün Eryýlmaz

    2013-03-01

    Full Text Available        The understanding of the mechanism and pathophysiology pertaining to intrauterine release of meconium is limited. An undesired condition of delivery, meconium passage can lead to respiratory difficulty and meconium aspiration syndrome. Since its mechanism has not been fully revealed, early prediction and prevention is not possible.In this review article, an effort is made to gather the most current information on the mechanism of meconium release. Also, based on the probable pathologic mechanisms, an explanation is provided on the potential markers that can aid in early detection of meconium passage.

  4. Capturing ecology in modeling approaches applied to environmental risk assessment of endocrine active chemicals in fish.

    Science.gov (United States)

    Mintram, Kate S; Brown, A Ross; Maynard, Samuel K; Thorbek, Pernille; Tyler, Charles R

    2018-02-01

    Endocrine active chemicals (EACs) are widespread in freshwater environments and both laboratory and field based studies have shown reproductive effects in fish at environmentally relevant exposures. Environmental risk assessment (ERA) seeks to protect wildlife populations and prospective assessments rely on extrapolation from individual-level effects established for laboratory fish species to populations of wild fish using arbitrary safety factors. Population susceptibility to chemical effects, however, depends on exposure risk, physiological susceptibility, and population resilience, each of which can differ widely between fish species. Population models have significant potential to address these shortfalls and to include individual variability relating to life-history traits, demographic and density-dependent vital rates, and behaviors which arise from inter-organism and organism-environment interactions. Confidence in population models has recently resulted in the EU Commission stating that results derived from reliable models may be considered when assessing the relevance of adverse effects of EACs at the population level. This review critically assesses the potential risks posed by EACs for fish populations, considers the ecological factors influencing these risks and explores the benefits and challenges of applying population modeling (including individual-based modeling) in ERA for EACs in fish. We conclude that population modeling offers a way forward for incorporating greater environmental relevance in assessing the risks of EACs for fishes and for identifying key risk factors through sensitivity analysis. Individual-based models (IBMs) allow for the incorporation of physiological and behavioral endpoints relevant to EAC exposure effects, thus capturing both direct and indirect population-level effects.

  5. Is motivation important to brook trout passage through culverts?

    Science.gov (United States)

    Goerig, Elsa; Castro-Santos, Theodore R.

    2017-01-01

    Culverts can restrict movement of stream-dwelling fish. Motivation to enter and ascend these structures is an essential precursor for successful passage. However, motivation is challenging to quantify. Here, we use attempt rate to assess motivation of 447 brook trout (Salvelinus fontinalis) entering three culverts under a range of hydraulic, environmental, and biological conditions. A passive integrated transponder system allowed for the identification of passage attempts and success of individual fish. Attempt rate was quantified using time-to-event analysis allowing for time-varying covariates and recurrent events. Attempt rate was greatest during the spawning period, at elevated discharge, at dusk, and for longer fish. It decreased during the day and with increasing number of conspecifics downstream of the culvert. Results also show a positive correlation between elevated motivation and successful passage. This study enhances understanding of factors influencing brook trout motivation to ascend culverts and shows that attempt rate is a dynamic phenomenon, variable over time and among individuals. It also presents methods that could be used to investigate other species’ motivation to pass natural or anthropogenic barriers.

  6. Transport, dam passage, and size selection of adult Atlantic Salmon in the Penobscot River, Maine

    Science.gov (United States)

    Sigourney, Douglas B.; Zydlewski, Joseph D.; Hughes, Edward; Cox, Oliver

    2015-01-01

    Prior to 2012, returning adult Atlantic Salmon Salmo salar had to pass through fishways at three dams in the lower section of the Penobscot River, Maine: Veazie Dam (river kilometer [rkm] 48; removed in 2013), Great Works Dam (rkm 60; removed in 2012), and Milford Dam (rkm 62). To facilitate better passage through the lower river, a fish transport program was implemented in 2010 and 2011. Fish were captured at Veazie Dam and were either transported by truck above Milford Dam (TRKD group) or released into the head pond above Veazie Dam (run-of-the-river [ROR] group). To assess the efficacy of transport, we used PIT telemetry to compare the performance and passage of TRKD and ROR fish based on their (1) success in reaching one of the three dams upstream of Milford Dam, (2) time taken to reach an upstream dam (transit time), and (3) success in passing that upstream dam. In both years, the percentage of fish detected at upstream dams was higher for the TRKD group (82.4% in 2010; 78.6% in 2011) than for the ROR group (41.3% in 2010; 22.4% in 2011). In addition, median transit time was faster for TRKD fish (7 d in 2010; 5 d in 2011) than for ROR fish (23 d in 2010; 25 d in 2011). However, passage success through the upstream dams did not differ between the two release groups. Our analysis also revealed a strong, negative size-selective force on dam passage: larger fish were consistently less likely to successfully pass dams than smaller fish. Finally, environmental conditions also influenced passage success. Our analysis shows that the transport of adult Atlantic Salmon can be an effective means by which to increase migration success in systems where upstream passage is poor.

  7. Optimization of the Kinematic Model for Biomimetic Robotic Fish with Rigid Headshaking Mitigation

    Directory of Open Access Journals (Sweden)

    Baodong Lou

    2017-10-01

    Full Text Available Biomimetic robotic fish is a new type of underwater robot with many superior characteristics such as high movement speed, high motion efficiency, high energy efficiency, and so on. However, the traditional kinematic model for biomimetic robotic fish has many shortcomings which limit their movement speed, such as the rigid shakes of the fish’s head when it swims, which is caused by neglecting the influences of manufacturing process on the model. In order to mitigate the rigid headshaking, a revised kinematic model is proposed by introducing an offset of the joints rotation center. The proposed kinematic equations are well simulated in a MATLAB environment, and the numerical results illustrate the advantage of the new kinematic model. Finally, experimental results generated from a three-joint biomimetic robotic fish with the proposed model show that the fish’s head shaking is effectively restrained, and therefore the swimming speed is significantly improved.

  8. Modeling possible cooling-water intake system impacts on Ohio River fish populations.

    Science.gov (United States)

    Perry, Elgin; Seegert, Greg; Vondruska, Joe; Lohner, Timothy; Lewis, Randy

    2002-04-26

    To assess the possible impacts caused by cooling-water intake system entrainment and impingement losses, populations of six target fish species near power plants on the Ohio River were modeled. A Leslie matrix model was constructed to allow an evaluation of bluegill, freshwater drum, emerald shiner, gizzard shad, sauger, and white bass populations within five river pools. Site-specific information on fish abundance and length-frequency distribution was obtained from long-term Ohio River Ecological Research Program and Ohio River Sanitation Commission (ORSANCO) electrofishing monitoring programs. Entrainment and impingement data were obtained from 316(b) demonstrations previously completed at eight Ohio River power plants. The model was first run under a scenario representative of current conditions, which included fish losses due to entrainment and impingement. The model was then rerun with these losses added back into the populations, representative of what would happen if all entrainment and impingement losses were eliminated. The model was run to represent a 50-year time period, which is a typical life span for an Ohio River coal-fired power plant. Percent changes between populations modeled with and without entrainment and impingement losses in each pool were compared to the mean interannual coefficient of variation (CV), a measure of normal fish population variability. In 6 of the 22 scenarios of fish species and river pools that were evaluated (6 species x 5 river pools, minus 8 species/river pool combinations that could not be evaluated due to insufficient fish data), the projected fish population change was greater than the expected variability of the existing fish population, indicating a possible adverse environmental impact. Given the number of other variables affecting fish populations and the conservative modeling approach, which assumed 100% mortality for all entrained fish and eggs, it was concluded that the likelihood of impact was by no means

  9. Modeling Possible Cooling-Water Intake System Impacts on Ohio River Fish Populations

    Directory of Open Access Journals (Sweden)

    Elgin Perry

    2002-01-01

    Full Text Available To assess the possible impacts caused by cooling-water intake system entrainment and impingement losses, populations of six target fish species near power plants on the Ohio River were modeled. A Leslie matrix model was constructed to allow an evaluation of bluegill, freshwater drum, emerald shiner, gizzard shad, sauger, and white bass populations within five river pools. Site-specific information on fish abundance and length-frequency distribution was obtained from long-term Ohio River Ecological Research Program and Ohio River Sanitation Commission (ORSANCO electrofishing monitoring programs. Entrainment and impingement data were obtained from 316(b demonstrations previously completed at eight Ohio River power plants. The model was first run under a scenario representative of current conditions, which included fish losses due to entrainment and impingement. The model was then rerun with these losses added back into the populations, representative of what would happen if all entrainment and impingement losses were eliminated. The model was run to represent a 50-year time period, which is a typical life span for an Ohio River coal-fired power plant. Percent changes between populations modeled with and without entrainment and impingement losses in each pool were compared to the mean interannual coefficient of variation (CV, a measure of normal fish population variability. In 6 of the 22 scenarios of fish species and river pools that were evaluated (6 species × 5 river pools, minus 8 species/river pool combinations that could not be evaluated due to insufficient fish data, the projected fish population change was greater than the expected variability of the existing fish population, indicating a possible adverse environmental impact. Given the number of other variables affecting fish populations and the conservative modeling approach, which assumed 100% mortality for all entrained fish and eggs, it was concluded that the likelihood of impact was

  10. Modeling Reef Fish Biomass, Recovery Potential, and Management Priorities in the Western Indian Ocean

    Science.gov (United States)

    McClanahan, Timothy R.; Maina, Joseph M.; Graham, Nicholas A. J.; Jones, Kendall R.

    2016-01-01

    Fish biomass is a primary driver of coral reef ecosystem services and has high sensitivity to human disturbances, particularly fishing. Estimates of fish biomass, their spatial distribution, and recovery potential are important for evaluating reef status and crucial for setting management targets. Here we modeled fish biomass estimates across all reefs of the western Indian Ocean using key variables that predicted the empirical data collected from 337 sites. These variables were used to create biomass and recovery time maps to prioritize spatially explicit conservation actions. The resultant fish biomass map showed high variability ranging from ~15 to 2900 kg/ha, primarily driven by human populations, distance to markets, and fisheries management restrictions. Lastly, we assembled data based on the age of fisheries closures and showed that biomass takes ~ 25 years to recover to typical equilibrium values of ~1200 kg/ha. The recovery times to biomass levels for sustainable fishing yields, maximum diversity, and ecosystem stability or conservation targets once fishing is suspended was modeled to estimate temporal costs of restrictions. The mean time to recovery for the whole region to the conservation target was 8.1(± 3SD) years, while recovery to sustainable fishing thresholds was between 0.5 and 4 years, but with high spatial variation. Recovery prioritization scenario models included one where local governance prioritized recovery of degraded reefs and two that prioritized minimizing recovery time, where countries either operated independently or collaborated. The regional collaboration scenario selected remote areas for conservation with uneven national responsibilities and spatial coverage, which could undermine collaboration. There is the potential to achieve sustainable fisheries within a decade by promoting these pathways according to their social-ecological suitability. PMID:27149673

  11. Modeling Reef Fish Biomass, Recovery Potential, and Management Priorities in the Western Indian Ocean.

    Science.gov (United States)

    McClanahan, Timothy R; Maina, Joseph M; Graham, Nicholas A J; Jones, Kendall R

    2016-01-01

    Fish biomass is a primary driver of coral reef ecosystem services and has high sensitivity to human disturbances, particularly fishing. Estimates of fish biomass, their spatial distribution, and recovery potential are important for evaluating reef status and crucial for setting management targets. Here we modeled fish biomass estimates across all reefs of the western Indian Ocean using key variables that predicted the empirical data collected from 337 sites. These variables were used to create biomass and recovery time maps to prioritize spatially explicit conservation actions. The resultant fish biomass map showed high variability ranging from ~15 to 2900 kg/ha, primarily driven by human populations, distance to markets, and fisheries management restrictions. Lastly, we assembled data based on the age of fisheries closures and showed that biomass takes ~ 25 years to recover to typical equilibrium values of ~1200 kg/ha. The recovery times to biomass levels for sustainable fishing yields, maximum diversity, and ecosystem stability or conservation targets once fishing is suspended was modeled to estimate temporal costs of restrictions. The mean time to recovery for the whole region to the conservation target was 8.1(± 3SD) years, while recovery to sustainable fishing thresholds was between 0.5 and 4 years, but with high spatial variation. Recovery prioritization scenario models included one where local governance prioritized recovery of degraded reefs and two that prioritized minimizing recovery time, where countries either operated independently or collaborated. The regional collaboration scenario selected remote areas for conservation with uneven national responsibilities and spatial coverage, which could undermine collaboration. There is the potential to achieve sustainable fisheries within a decade by promoting these pathways according to their social-ecological suitability.

  12. Longitudinal structure in temperate stream fish communities: evaluating conceptual models with temporal data

    Science.gov (United States)

    Roberts, James H.; Hitt, Nathaniel P.

    2010-01-01

    Five conceptual models of longitudinal fish community organization in streams were examined: (1) niche diversity model (NDM), (2) stream continuum model (SCM), (3) immigrant accessibility model (IAM), (4) environmental stability model (ESM), and (5) adventitious stream model (ASM). We used differences among models in their predictions about temporal species turnover, along with five spatiotemporal fish community data sets, to evaluate model applicability. Models were similar in predicting a positive species richness–stream size relationship and longitudinal species nestedness, but differed in predicting either similar temporal species turnover throughout the stream continuum (NDM, SCM), higher turnover upstream (IAM, ESM), or higher turnover downstream (ASM). We calculated measures of spatial and temporal variation from spatiotemporal fish data in five wadeable streams in central and eastern North America spanning 34–68 years (French Creek [New York], Piasa Creek [Illinois], Spruce Run [Virginia], Little Stony Creek [Virginia], and Sinking Creek [Virginia]). All streams exhibited substantial species turnover (i.e., at least 27% turnover in stream-scale species pools), in contrast to the predictions of the SCM. Furthermore, community change was greater in downstream than upstream reaches in four of five streams. This result is most consistent with the ASM and suggests that downstream communities are strongly influenced by migrants to and from species pools outside the focal stream. In Sinking Creek, which is isolated from external species pools, temporal species turnover (via increased richness) was higher upstream than downstream, which is a pattern most consistent with the IAM or ESM. These results corroborate the hypothesis that temperate stream habitats and fish communities are temporally dynamic and that fish migration and environmental disturbances play fundamental roles in stream fish community organization.

  13. The design, hysteresis modeling and control of a novel SMA-fishing-line actuator

    Science.gov (United States)

    Xiang, Chaoqun; Yang, Hui; Sun, Zhiyong; Xue, Bangcan; Hao, Lina; Asadur Rahoman, M. D.; Davis, Steve

    2017-03-01

    Fishing line can be combined with shape memory alloy (SMA) to form novel artificial muscle actuators which have low cost, are lightweight and soft. They can be applied in bionic, wearable and rehabilitation robots, and can reduce system weight and cost, increase power-to-weight ratio and offer safer physical human-robot interaction. However, these actuators possess several disadvantages, for example fishing line based actuators possess low strength and are complex to drive, and SMA possesses a low percentage contraction and has high hysteresis. This paper presents a novel artificial actuator (known as an SMA-fishing-line) made of fishing line and SMA twisted then coiled together, which can be driven directly by an electrical voltage. Its output force can reach 2.65 N at 7.4 V drive voltage, and the percentage contraction at 4 V driven voltage with a 3 N load is 7.53%. An antagonistic bionic joint driven by the novel SMA-fishing-line actuators is presented, and based on an extended unparallel Prandtl-Ishlinskii (EUPI) model, its hysteresis behavior is established, and the error ratio of the EUPI model is determined to be 6.3%. A Joule heat model of the SMA-fishing-line is also presented, and the maximum error of the established model is 0.510 mm. Based on this accurate hysteresis model, a composite PID controller consisting of PID and an integral inverse (I-I) compensator is proposed and its performance is compared with a traditional PID controller through simulations and experimentation. These results show that the composite PID controller possesses higher control precision than basic PID, and is feasible for implementation in an SMA-fishing-line driven antagonistic bionic joint.

  14. Flow-structure Interaction Modeling of a Fish Caudal Fin during Steady Swimming

    Science.gov (United States)

    Liu, Geng; Geng, Biao; Zheng, Xudong; Xue, Qian; Dong, Haibo

    2017-11-01

    It's widely thought that the flexibilities of fish fins play critical roles in propulsive performance enhancement (such as thrust augment and efficiency improvement) in nature. In order to explore the formation mechanisms of the fish fin's flexible morphing and its hydrodynamic benefits as well, a high-fidelity flow-structure/membrane interaction modeling of the fish caudal fin is conducted in this work. Following the realistic configuration of the fish caudal fin, a thin membrane supported by a series of beams is constructed. The material properties of the membrane and the beams are reversely determined by the realistic fin morphing obtained from the high-speed videos and the high fidelity flow-structure interaction simulations. With the accurate material property, we investigate the interplay between structure, kinematics and fluid flow in caudal fin propulsion. Detailed analyses on the relationship between the flexural stiffness, fin morphing patterns, hydrodynamic forces and vortex dynamics are then conducted.

  15. Predictive modeling of deep-sea fish distribution in the Azores

    Science.gov (United States)

    Parra, Hugo E.; Pham, Christopher K.; Menezes, Gui M.; Rosa, Alexandra; Tempera, Fernando; Morato, Telmo

    2017-11-01

    Understanding the link between fish and their habitat is essential for an ecosystem approach to fisheries management. However, determining such relationship is challenging, especially for deep-sea species. In this study, we applied generalized additive models (GAMs) to relate presence-absence and relative abundance data of eight economically-important fish species to environmental variables (depth, slope, aspect, substrate type, bottom temperature, salinity and oxygen saturation). We combined 13 years of catch data collected from systematic longline surveys performed across the region. Overall, presence-absence GAMs performed better than abundance models and predictions made for the observed data successfully predicted the occurrence of the eight deep-sea fish species. Depth was the most influential predictor of all fish species occurrence and abundance distributions, whereas other factors were found to be significant for some species but did not show such a clear influence. Our results predicted that despite the extensive Azores EEZ, the habitats available for the studied deep-sea fish species are highly limited and patchy, restricted to seamounts slopes and summits, offshore banks and island slopes. Despite some identified limitations, our GAMs provide an improved knowledge of the spatial distribution of these commercially important fish species in the region.

  16. Application of the target fish community model to an urban river system.

    Science.gov (United States)

    Meixler, Marcia S

    2011-04-01

    Several models have been developed to assess the biological integrity of aquatic systems using fish community data. One of these, the target fish community (TFC) model, has been used primarily to assess the biological integrity of larger, mainstem rivers in southern New England with basins characterized by dispersed human activities. We tested the efficacy of the TFC approach to specify the fish community in the highly urbanized Charles River watershed in eastern Massachusetts. To create a TFC for the Charles River we assembled a list of fish species that historically inhabited the Charles River watershed, identified geomorphically and zoogeographically similar reference rivers regarded as being in high quality condition, amassed fish survey data for the reference rivers, and extracted from the collections the information needed to define a TFC. We used a similarity measurement method to assess the extent to which the study river community complies with the TFC and an inference approach to summarize the manner in which the existing fish community differed from target conditions. The five most abundant species in the TFC were common shiners (34%), fallfish (17%) redbreast sunfish (11%), white suckers (8%), and American eel (7%). Three of the five species predicted to be most abundant in the TFC were scarce or absent in the existing river community. Further, the river was dominated by macrohabitat generalists (99%) while the TFC was predicted to contain 19% fluvial specialist species, 43% fluvial dependent species, and 38% macrohabitat generalist species. In addition, while the target community was dominated by fish intolerant (37%) and moderately tolerant (39%) of water quality degradation, the existing community was dominated by tolerant individuals (59%) and lacked intolerant species expected in the TFC. Similarity scores for species, habitat use specialization, and water quality degradation tolerance categories were 28%, 35% and 66%, respectively. The clear

  17. Mathematical modeling of the drying of extruded fish feed and its experimental demonstration

    DEFF Research Database (Denmark)

    Haubjerg, Anders Fjeldbo; Simonsen, B.; Løvgreen, S.

    This paper present a mathematical model for the drying of extruded fish feed pellets. The model relies on conservation balances for moisture and energy. Sorption isotherms from literature are used together with diffusion and transfer coefficients obtained from dual parameter regression analysis...

  18. Models that predict standing crop of stream fish from habitat variables: 1950-85.

    Science.gov (United States)

    K.D. Fausch; C.L. Hawkes; M.G. Parsons

    1988-01-01

    We reviewed mathematical models that predict standing crop of stream fish (number or biomass per unit area or length of stream) from measurable habitat variables and classified them by the types of independent habitat variables found significant, by mathematical structure, and by model quality. Habitat variables were of three types and were measured on different scales...

  19. anyFish 2.0: An open-source software platform to generate and share animated fish models to study behavior

    Science.gov (United States)

    Ingley, Spencer J.; Rahmani Asl, Mohammad; Wu, Chengde; Cui, Rongfeng; Gadelhak, Mahmoud; Li, Wen; Zhang, Ji; Simpson, Jon; Hash, Chelsea; Butkowski, Trisha; Veen, Thor; Johnson, Jerald B.; Yan, Wei; Rosenthal, Gil G.

    2015-12-01

    Experimental approaches to studying behaviors based on visual signals are ubiquitous, yet these studies are limited by the difficulty of combining realistic models with the manipulation of signals in isolation. Computer animations are a promising way to break this trade-off. However, animations are often prohibitively expensive and difficult to program, thus limiting their utility in behavioral research. We present anyFish 2.0, a user-friendly platform for creating realistic animated 3D fish. anyFish 2.0 dramatically expands anyFish's utility by allowing users to create animations of members of several groups of fish from model systems in ecology and evolution (e.g., sticklebacks, Poeciliids, and zebrafish). The visual appearance and behaviors of the model can easily be modified. We have added several features that facilitate more rapid creation of realistic behavioral sequences. anyFish 2.0 provides a powerful tool that will be of broad use in animal behavior and evolution and serves as a model for transparency, repeatability, and collaboration.

  20. Using Historical Atlas Data to Develop High-Resolution Distribution Models of Freshwater Fishes.

    Directory of Open Access Journals (Sweden)

    Jian Huang

    Full Text Available Understanding the spatial pattern of species distributions is fundamental in biogeography, and conservation and resource management applications. Most species distribution models (SDMs require or prefer species presence and absence data for adequate estimation of model parameters. However, observations with unreliable or unreported species absences dominate and limit the implementation of SDMs. Presence-only models generally yield less accurate predictions of species distribution, and make it difficult to incorporate spatial autocorrelation. The availability of large amounts of historical presence records for freshwater fishes of the United States provides an opportunity for deriving reliable absences from data reported as presence-only, when sampling was predominantly community-based. In this study, we used boosted regression trees (BRT, logistic regression, and MaxEnt models to assess the performance of a historical metacommunity database with inferred absences, for modeling fish distributions, investigating the effect of model choice and data properties thereby. With models of the distribution of 76 native, non-game fish species of varied traits and rarity attributes in four river basins across the United States, we show that model accuracy depends on data quality (e.g., sample size, location precision, species' rarity, statistical modeling technique, and consideration of spatial autocorrelation. The cross-validation area under the receiver-operating-characteristic curve (AUC tended to be high in the spatial presence-absence models at the highest level of resolution for species with large geographic ranges and small local populations. Prevalence affected training but not validation AUC. The key habitat predictors identified and the fish-habitat relationships evaluated through partial dependence plots corroborated most previous studies. The community-based SDM framework broadens our capability to model species distributions by innovatively

  1. Assessing three fish species ecological status in Colorado River, Grand Canyon based on physical habitat and population models.

    Science.gov (United States)

    Yao, Weiwei; Chen, Yuansheng

    2018-04-01

    Colorado River is a unique ecosystem and provides important ecological services such as habitat for fish species as well as water power energy supplies. River management for this ecosystem requires assessment and decision support tools for fish which involves protecting, restoring as well as forecasting of future conditions. In this paper, a habitat and population model was developed and used to determine the levels of fish habitat suitability and population density in Colorado River between Lees Ferry and Lake Mead. The short term target fish populations are also predicted based on native fish recovery strategy. This model has been developed by combining hydrodynamics, heat transfer and sediment transport models with a habitat suitability index model and then coupling with habitat model into life stage population model. The fish were divided into four life stages according to the fish length. Three most abundant and typical native and non-native fish were selected as target species, which are rainbow trout (Oncorhynchus mykiss), brown trout (Salmo trutta) and flannelmouth sucker (Catostomus latipinnis). Flow velocity, water depth, water temperature and substrates were used as the suitability indicators in habitat model and overall suitability index (OSI) as well as weight usable area (WUA) was used as an indicator in population model. A comparison was made between simulated fish population alteration and surveyed fish number fluctuation during 2000 to 2009. The application of this habitat and population model indicates that this model can be accurate present habitat situation and targets fish population dynamics of in the study areas. The analysis also indicates the flannelmouth sucker population will steadily increase while the rainbow trout will decrease based on the native fish recovery scheme. Copyright © 2018. Published by Elsevier Inc.

  2. Predicting the Effects of Man-Made Fishing Canals on Floodplain Inundation - A Modelling Study

    Science.gov (United States)

    Shastry, A. R.; Durand, M. T.; Neal, J. C.; Fernandez, A.; Hamilton, I.; Kari, S.; Laborde, S.; Mark, B. G.; Arabi, M.; Moritz, M.; Phang, S. C.

    2016-12-01

    The Logone floodplain in northern Cameroon is an excellent example of coupled human-natural systems because of strong couplings between the social, ecological and hydrologic systems. Overbank flow from the Logone River in September and October is essential for agriculture and fishing livelihoods. Fishers dig canals to catch fish during the flood's recession to the river in November and December by installing nets at the intersection of canals and the river. Fishing canals connect the river to natural depressions in the terrain and may serve as a man-made extension of the river drainage network. In the last four decades, there has been an exponential increase in the number of canals which may affect flood hydraulics and the fishery. The goal of this study is to characterize the relationship between the fishing canals and flood dynamics in the Logone floodplain, specifically, parameters of flooding and recession timings and the duration of inundation. To do so, we model the Bara region ( 30 km2) of the floodplain using LISFLOOD-FP, a two-dimensional hydrodynamic model with sub-grid parameterizations of canals. We use a simplified version of the hydraulic system at a grid-cell size of 30-m, using synthetic topography, parameterized fishing canals, and representing fishnets as a combination of weir and mesh screens. The inflow at Bara is obtained from a separate, lower resolution (1-km grid-cell) model forced by daily discharge records obtained from Katoa, located 25-km upstream of Bara. Preliminary results show more canals lead to early recession of flood and a shorter duration of flood inundation. A shorter duration of flood inundation reduces the period of fish growth and will affect fisher catch returns. Understanding the couplings within the system is important for predicting long-term dynamics and the impact of building more fishing canals.

  3. Differential responses to natural and recombinant allergens in a murine model of fish allergy.

    Science.gov (United States)

    van der Ventel, Michelle L; Nieuwenhuizen, Natalie E; Kirstein, Frank; Hikuam, Christoph; Jeebhay, Mohamed F; Swoboda, Ines; Brombacher, Frank; Lopata, Andreas L

    2011-01-01

    Aerosolized fish proteins are an important cause of allergic airway reactions in both the domestic and the occupational environment. The aim of this study was to investigate inhalant fish-induced allergy in a mouse model and compare immune responses generated by raw and heat-treated fish extracts as well as natural and recombinant forms of the major fish allergen parvalbumin. Mice were sensitized with raw or cooked pilchard extract and challenged intranasally with cooked pilchard extract, purified natural pilchard parvalbumin or recombinant carp parvalbumin (rCyp c1.01). Cooked pilchard extract predominantly sensitized mice to parvalbumin and induced specific IgG1 and IgE antibodies against both pilchard parvalbumin and rCyp c1.01, whereas additional allergens were recognized by mice sensitized with raw extract, including a 36 kDa allergen that was also recognized by fish processing workers and was identified as glyceraldehyde-3-phosphate dehydrogenase. Mice challenged with cooked extract and purified pilchard parvalbumin had increased Th2 cytokine production in mediastinal lymph node cells and splenocytes, whereas mice challenged with rCyp c1.01 did not. This study identifies a new IgE-binding protein that may be important in occupational allergy to fish and demonstrates the feasibility of testing recombinant allergens for immunotherapeutic potential in vivo. Copyright © 2010 Elsevier Ltd. All rights reserved.

  4. Conservation physiology of marine fishes: advancing the predictive capacity of models.

    Science.gov (United States)

    Jørgensen, Christian; Peck, Myron A; Antognarelli, Fabio; Azzurro, Ernesto; Burrows, Michael T; Cheung, William W L; Cucco, Andrea; Holt, Rebecca E; Huebert, Klaus B; Marras, Stefano; McKenzie, David; Metcalfe, Julian; Perez-Ruzafa, Angel; Sinerchia, Matteo; Fleng Steffensen, John; Teal, Lorna R; Domenici, Paolo

    2012-12-23

    At the end of May, 17 scientists involved in an EU COST Action on Conservation Physiology of Marine Fishes met in Oristano, Sardinia, to discuss how physiology can be better used in modelling tools to aid in management of marine ecosystems. Current modelling approaches incorporate physiology to different extents, ranging from no explicit consideration to detailed physiological mechanisms, and across scales from a single fish to global fishery resources. Biologists from different sub-disciplines are collaborating to rise to the challenge of projecting future changes in distribution and productivity, assessing risks for local populations, or predicting and mitigating the spread of invasive species.

  5. Behavior and dam passage of juvenile Chinook salmon at Cougar Reservoir and Dam, Oregon, March 2011 - February 2012

    Science.gov (United States)

    Beeman, John W.; Hansel, Hal C.; Hansen, Amy C.; Haner, Philip V.; Sprando, Jamie M.; Smith, Collin D.; Evans, Scott D.; Hatton, Tyson W.

    2013-01-01

    The movements and dam passage of juvenile Chinook salmon implanted with acoustic transmitters and passive integrated transponder tags were studied at Cougar Reservoir and Dam, near Springfield, Oregon. The purpose of the study was to provide information to aid with decisions about potential alternatives for improving downstream passage conditions for juvenile salmonids in this flood-control reservoir. In 2011, a total of 411 hatchery fish and 26 wild fish were tagged and released during a 3-month period in the spring, and another 356 hatchery fish and 117 wild fish were released during a 3-month period in the fall. A series of 16 autonomous hydrophones throughout the reservoir and 12 hydrophones in a collective system near the dam outlet were used to determine general movements and dam passage of the fish over the life of the acoustic transmitter, which was expected to be about 3 months. Movements within the reservoir were directional, and it was common for fish to migrate repeatedly from the head of the reservoir downstream to the dam outlet and back to the head of the reservoir. Most fish were detected near the temperature control tower at least once. The median time from release near the head of the reservoir to detection within about 100 meters of the dam outlet at the temperature control tower was between 5.7 and 10.8 days, depending on season and fish origin. Dam passage events occurred over a wider range of dates in the spring and summer than in the fall and winter, but dam passage numbers were greatest during the fall and winter. A total of 10.5 percent (43 of 411) of the hatchery fish and 15.4 percent (4 of 26) of the wild fish released in the spring are assumed to have passed the dam, whereas a total of 25.3 percent (90 of 356) of the hatchery fish and 16.9 percent (30 of 117) of the wild fish released in the fall are assumed to have passed the dam. A small number of fish passed the dam after their transmitters had stopped working and were detected at

  6. Importance of the habitat choice behavior assumed when modeling the effects of food and temperature on fish populations

    Science.gov (United States)

    Wildhaber, Mark L.; Lamberson, Peter J.

    2004-01-01

    Various mechanisms of habitat choice in fishes based on food and/or temperature have been proposed: optimal foraging for food alone; behavioral thermoregulation for temperature alone; and behavioral energetics and discounted matching for food and temperature combined. Along with development of habitat choice mechanisms, there has been a major push to develop and apply to fish populations individual-based models that incorporate various forms of these mechanisms. However, it is not known how the wide variation in observed and hypothesized mechanisms of fish habitat choice could alter fish population predictions (e.g. growth, size distributions, etc.). We used spatially explicit, individual-based modeling to compare predicted fish populations using different submodels of patch choice behavior under various food and temperature distributions. We compared predicted growth, temperature experience, food consumption, and final spatial distribution using the different models. Our results demonstrated that the habitat choice mechanism assumed in fish population modeling simulations was critical to predictions of fish distribution and growth rates. Hence, resource managers who use modeling results to predict fish population trends should be very aware of and understand the underlying patch choice mechanisms used in their models to assure that those mechanisms correctly represent the fish populations being modeled.

  7. Joint Ecosystem Modeling (JEM) ecological model documentation volume 1: Estuarine prey fish biomass availability v1.0.0

    Science.gov (United States)

    Romañach, Stephanie S.; Conzelmann, Craig; Daugherty, Adam; Lorenz, Jerome L.; Hunnicutt, Christina; Mazzotti, Frank J.

    2011-01-01

    Estuarine fish serve as an important prey base in the Greater Everglades ecosystem for key fauna such as wading birds, crocodiles, alligators, and piscivorous fishes. Human-made changes to freshwater flow across the Greater Everglades have resulted in less freshwater flow into the fringing estuaries and coasts. These changes in freshwater input have altered salinity patterns and negatively affected primary production of the estuarine fish prey base. Planned restoration projects should affect salinity and water depth both spatially and temporally and result in an increase in appropriate water conditions in areas occupied by estuarine fish. To assist in restoration planning, an ecological model of estuarine prey fish biomass availability was developed as an evaluation tool to aid in the determination of acceptable ranges of salinity and water depth. Comparisons of model output to field data indicate that the model accurately predicts prey biomass in the estuarine regions of the model domain. This model can be used to compare alternative restoration plans and select those that provide suitable conditions.

  8. Effect of electric barrier on passage and physical condition of juvenile and adult rainbow trout

    Science.gov (United States)

    Layhee, Megan J.; Sepulveda, Adam; Shaw, Amy; Smuckall, Matthew; Kapperman, Kevin; Reyes, Alejandro

    2016-01-01

    Electric barriers can inhibit passage and injure fish. Few data exist on electric barrier parameters that minimize these impacts and on how body size affects susceptibility, especially to nontarget fish species. The goal of this study was to determine electric barrier voltage and pulse-width settings that inhibit passage of larger bodied rainbow trout Oncorhynchus mykiss (215–410 mm fork length) while allowing passage of smaller bodied juvenile rainbow trout (52–126 mm) in a static laboratory setting. We exposed rainbow trout to 30-Hz pulsed-direct current voltage gradients (0.00–0.45 V cm−1) and pulse widths (0.0–0.7 ms) and recorded their movement, injury incidence, and mortality. No settings tested allowed all juveniles to pass while impeding all adult passage. Juvenile and adult rainbow trout avoided the barrier at higher pulse widths, and fewer rainbow trout passed the barrier at 0.7-ms pulse width compared to 0.1 ms and when the barrier was turned off. We found no effect of voltage gradient on fish passage. No mortality occurred, and we observed external bruising in 5 (7%) juvenile rainbow trout and 15 (21%) adult rainbow trout. This study may aid managers in selecting barrier settings that allow for increased juvenile passage.

  9. Bioenergetics modeling of the annual consumption of zooplankton by pelagic fish feeding in the Northeast Atlantic

    DEFF Research Database (Denmark)

    Bachiller, Eneko; Utne, Kjell Rong; Jansen, Teunis

    2018-01-01

    The present study uses bioenergetics modeling to estimate the annual consumption of the main zooplankton groups by some of the most commercially important planktivorous fish stocks in the Northeast Atlantic, namely Norwegian spring-spawning (NSS) herring (Clupea harengus), blue whiting (Micromesi......The present study uses bioenergetics modeling to estimate the annual consumption of the main zooplankton groups by some of the most commercially important planktivorous fish stocks in the Northeast Atlantic, namely Norwegian spring-spawning (NSS) herring (Clupea harengus), blue whiting......, annual consumption of the different zooplankton groups by pelagic fish is estimated. The present study estimates higher consumption estimates than previous studies for the three species and suggests that fish might have a greater impact on the zooplankton community as foragers. This way, NEA mackerel...... of 53–85 M tonnes of copepods, 20–32 M tonnes of krill, 8–42 M tonnes of appendicularians and 0.2–1.2 M tonnes of fish, depending on the year. For NSS herring and NEA mackerel the main prey groups are calanoids and appendicularians, showing a peak in consumption during June and June–July, respectively...

  10. Research on marine and freshwater fish identification model based on hyper-spectral imaging technology

    Science.gov (United States)

    Fu, Yan; Guo, Pei-yuan; Xiang, Ling-zi; Bao, Man; Chen, Xing-hai

    2013-08-01

    With the gradually mature of hyper spectral image technology, the application of the meat nondestructive detection and recognition has become one of the current research focuses. This paper for the study of marine and freshwater fish by the pre-processing and feature extraction of the collected spectral curve data, combined with BP network structure and LVQ network structure, a predictive model of hyper spectral image data of marine and freshwater fish has been initially established and finally realized the qualitative analysis and identification of marine and freshwater fish quality. The results of this study show that hyper spectral imaging technology combined with the BP and LVQ Artificial Neural Network Model can be used for the identification of marine and freshwater fish detection. Hyper-spectral data acquisition can be carried out without any pretreatment of the samples, thus hyper-spectral imaging technique is the lossless, high- accuracy and rapid detection method for quality of fish. In this study, only 30 samples are used for the exploratory qualitative identification of research, although the ideal study results are achieved, we will further increase the sample capacity to take the analysis of quantitative identification and verify the feasibility of this theory.

  11. Modeling and Simulation of Fish-Like Swimming in a Straight-Line Swimming State Using Immersed Boundary Method

    Directory of Open Access Journals (Sweden)

    Wenquan Wang

    2014-05-01

    Full Text Available A self-propelled swimming fish model is established, which can reflect the interaction between fish movement, internal force generated by muscle contraction, and the external force provided by fluid. Using finite element immersed boundary method combined with traditional feedback force method, the self-propelled swimming fish is numerically simulated. Firstly, a self-induced vibration of a cantilever beam immersed in a fluid is one of the benchmarks of fluid-structure interaction, which is used to verify the validity of the numerical method. Secondly, start and cruise process of a single swimming fish in a straight-line swimming state is simulated and analysis of the flow characteristics and fish body movement features is done. The results reveal that the fish gain energy from flow field by the conversion of “C” type and “S” type of fish body.

  12. The theoretical foundations for size spectrum models of fish communities

    DEFF Research Database (Denmark)

    Andersen, Ken Haste; Jacobsen, Nis Sand; Farnsworth, K.D.

    2016-01-01

    assessment of fisheries. We describe the fundamental concepts in size-based models about food encounter and the bioenergetics budget of individuals. Within the general framework three model types have emerged that differs in their degree of complexity: the food-web, the trait-based and the community model...

  13. Assessing historical fish community composition using surveys, historical collection data, and species distribution models.

    Directory of Open Access Journals (Sweden)

    Ben Labay

    Full Text Available Accurate establishment of baseline conditions is critical to successful management and habitat restoration. We demonstrate the ability to robustly estimate historical fish community composition and assess the current status of the urbanized Barton Creek watershed in central Texas, U.S.A. Fish species were surveyed in 2008 and the resulting data compared to three sources of fish occurrence information: (i historical records from a museum specimen database and literature searches; (ii a nearly identical survey conducted 15 years earlier; and (iii a modeled historical community constructed with species distribution models (SDMs. This holistic approach, and especially the application of SDMs, allowed us to discover that the fish community in Barton Creek was more diverse than the historical data and survey methods alone indicated. Sixteen native species with high modeled probability of occurrence within the watershed were not found in the 2008 survey, seven of these were not found in either survey or in any of the historical collection records. Our approach allowed us to more rigorously establish the true baseline for the pre-development fish fauna and then to more accurately assess trends and develop hypotheses regarding factors driving current fish community composition to better inform management decisions and future restoration efforts. Smaller, urbanized freshwater systems, like Barton Creek, typically have a relatively poor historical biodiversity inventory coupled with long histories of alteration, and thus there is a propensity for land managers and researchers to apply inaccurate baseline standards. Our methods provide a way around that limitation by using SDMs derived from larger and richer biodiversity databases of a broader geographic scope. Broadly applied, we propose that this technique has potential to overcome limitations of popular bioassessment metrics (e.g., IBI to become a versatile and robust management tool for determining

  14. Fluid dynamics of moving fish in a two-dimensional multiparticle collision dynamics model

    NARCIS (Netherlands)

    Reid, Daniel A. P.; Hildenbrandt, H.; Hemelrijk, C. K.; Padding, J.T.

    2012-01-01

    The fluid dynamics of animal locomotion, such as that of an undulating fish, are of great interest to both biologists and engineers. However, experimentally studying these fluid dynamics is difficult and time consuming. Model studies can be of great help because of their simpler and more detailed

  15. The expanding role of fish models in understanding non-alcoholic fatty liver disease

    Directory of Open Access Journals (Sweden)

    Yoichi Asaoka

    2013-07-01

    Full Text Available Non-alcoholic fatty liver disease (NAFLD is a condition in which excessive fat accumulates in the liver of an individual who has not consumed excessive alcohol. Non-alcoholic steatohepatitis (NASH, a severe form of NAFLD, can progress to hepatic cirrhosis and/or hepatocellular carcinoma (HCC. NAFLD is considered to be a hepatic manifestation of metabolic syndrome, and its incidence has risen worldwide in lockstep with the increased global prevalence of obesity. Over the last decade, rodent studies have yielded an impressive list of molecules associated with NAFLD and NASH pathogenesis. However, the identification of currently unknown metabolic factors using mammalian model organisms is inefficient and expensive compared with studies using fish models such as zebrafish (Danio rerio and medaka (Oryzias latipes. Substantial advances in unraveling the molecular pathogenesis of NAFLD have recently been achieved through unbiased forward genetic screens using small fish models. Furthermore, these easily manipulated organisms have been used to great advantage to evaluate the therapeutic effectiveness of various chemical compounds for the treatment of NAFLD. In this Review, we summarize aspects of NAFLD (specifically focusing on NASH pathogenesis that have been previously revealed by rodent models, and discuss how small fish are increasingly being used to uncover factors that contribute to normal hepatic lipid metabolism. We describe the various types of fish models in use for this purpose, including those generated by mutation, transgenesis, or dietary or chemical treatment, and contrast them with rodent models. The use of small fish in identifying novel potential therapeutic agents for the treatment of NAFLD and NASH is also addressed.

  16. Spatial quantitation of FISH signals in diploid versus aneuploid nuclei.

    Science.gov (United States)

    Shete, Amol; Rao, Pulivarthi; Pati, Debananda; Merchant, Fatima

    2014-04-01

    Fluorescence in situ hybridization (FISH) is the most widely used molecular technique to visualize chromosomal abnormalities. Here, we describe a novel 3D modeling approach to allow precise shape estimation and localization of FISH signals in the nucleus of human embryonic stem cells (hES) undergoing progressive but defined aneuploidy. The hES cell line WA09 acquires an extra copy of chromosome 12 in culture with increasing passages. Both diploid and aneuploid nuclei were analyzed to quantitate the differences in the localization of centromeric FISH signals for chromosome 12 as it transitions from euploidy to aneuploidy. We employed superquadric modeling primitives coupled with principal component analysis to determine the 3D position of FISH signals within the nucleus. A novel aspect of our modeling approach is that it allows comparison of FISH signals across multiple cells by normalizing the position of the centromeric signals relative to a reference landmark in oriented nuclei. Using this model we present evidence of changes in the relative positioning of centromeres in trisomy-12 cells when compared with diploid cells from the same population. Our analysis also suggests a significant change in the spatial distribution of at least one of the FISH signals in the aneuploid chromosome complements implicating that an overall change in centromere position may occur in trisomy-12 due to the addition of an extra chromosome. These studies underscore the unique utility of our modeling algorithms in quantifying FISH signals in three dimensions. © 2013 International Society for Advancement of Cytometry.

  17. Evaluation of Application Space Expansion for the Sensor Fish

    Energy Technology Data Exchange (ETDEWEB)

    DeRolph, Christopher R. [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Bevelhimer, Mark S. [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States)

    2014-02-01

    The Pacific Northwest National Laboratory has developed an instrument known as the sensor fish that can be released into downstream passage routes at hydropower facilities to collect data on the physical conditions that a fish might be exposed to during passage through a turbine. The US Department of Energy Wind and Water Power Program sees value in expanding the sensor fish application space beyond large Kaplan turbines in the northwest United States to evaluate conditions to which a greater variety of fish species are exposed. Development of fish-friendly turbines requires an understanding of both physical passage conditions and biological responses to those conditions. Expanding the use of sensor fish into other application spaces will add to the knowledge base of physical passage conditions and could also enhance the use of sensor fish as a site-specific tool in mitigating potential impacts to fish populations from hydropower. The Oak Ridge National Laboratory (ORNL) National Hydropower Assessment Program (NHAAP) database contains hydropower facility characteristics that, along with national fish distribution data, were used to evaluate potential interactions between fish species and project characteristics related to downstream passage issues. ORNL developed rankings for the turbine types in the NHAAP database in terms of their potential to impact fish through injury or mortality during downstream turbine passage. National-scale fish distributions for 31 key migratory species were spatially intersected with hydropower plant locations to identify facilities where turbines with a high threat to fish injury or mortality overlap with the potential range of a sensitive fish species. A dataset was produced that identifies hydropower facilities where deployment of the sensor fish technology might be beneficial in addressing issues related to downstream fish passage. The dataset can be queried to target specific geographic regions, fish species, license expiration

  18. The physiology of fish at low pH: the zebrafish as a model system.

    Science.gov (United States)

    Kwong, Raymond W M; Kumai, Yusuke; Perry, Steve F

    2014-03-01

    Ionic regulation and acid-base balance are fundamental to the physiology of vertebrates including fish. Acidification of freshwater ecosystems is recognized as a global environmental problem, and the physiological responses to acid exposure in a few fish species are well characterized. However, the underlying mechanisms promoting ionic and acid-base balance for most fish species that have been investigated remain unclear. Zebrafish (Danio rerio) has emerged as a powerful model system to elucidate the molecular basis of ionic and acid-base regulation. The utility of zebrafish is related to the ease with which it can be genetically manipulated, its suitability for state-of-the-art molecular and cellular approaches, and its tolerance to diverse environmental conditions. Recent studies have identified several key regulatory mechanisms enabling acclimation of zebrafish to acidic environments, including activation of the sodium/hydrogen exchanger (NHE) and H(+)-ATPase for acid secretion and Na(+) uptake, cortisol-mediated regulation of transcellular and paracellular Na(+) movements, and ionocyte proliferation controlled by specific cell-fate transcription factors. These integrated physiological responses ultimately contribute to ionic and acid-base homeostasis in zebrafish exposed to acidic water. In the present review, we provide an overview of the general effects of acid exposure on freshwater fish, the adaptive mechanisms promoting extreme acid tolerance in fishes native to acidic environments, and the mechanisms regulating ionic and acid-base balance during acid exposure in zebrafish.

  19. Pathogenic potential of Salmonella Typhimurium DT104 following sequential passage through soil, packaged fresh-cut lettuce and a model gastrointestinal tract.

    Science.gov (United States)

    Oliveira, Marcia; Wijnands, Lucas; Abadias, Maribel; Aarts, Henk; Franz, Eelco

    2011-08-15

    From a quantitative microbial risk assessment perspective it is important to know whether certain food environments influence the pathogenic potential of pathogens and to what extent. The purpose of the present study was to examine the pathogenic potential of S. Typhimurium DT104, measured as the capability to survive a simulated gastrointestinal tract system and the capability of adhering to and invading differentiated Caco-2 cells, after sequential incubation (without intermediate culturing) into soil, lettuce and cut lettuce stored under modified atmosphere (MAP) conditions. Two S. Typhimurium DT104 strains were used, one isolated from a pig carcass and one isolated from lettuce. The most important result of the present study is that the sequential incubation of S. Typhimurium in soil and lettuce slightly increased the capability of surviving the simulated gastric fluid, increased the capability to grow in the simulated intestinal fluid but decreased the capability of epithelial attachment and invasion and decreased the overall survival probability of the gastrointestinal tract system. Some variation in responses between the strains was observed, with the lettuce strain maintaining higher epithelial attachment capability and the carcass strains maintaining higher epithelial invasion capability. This study provided quantitative data on the effect of environmental and food matrices on the pathogenic potential of S. Typhimurium DT104 using a realistic system of sequential incubations in environmental and food matrices, followed by simulated gastrointestinal tract passage without intermediate culturing. These results could aid the development of more realistic quantitative microbial risk assessments. Copyright © 2011 Elsevier B.V. All rights reserved.

  20. Occupancy models for monitoring marine fish: a bayesian hierarchical approach to model imperfect detection with a novel gear combination.

    Science.gov (United States)

    Coggins, Lewis G; Bacheler, Nathan M; Gwinn, Daniel C

    2014-01-01

    Occupancy models using incidence data collected repeatedly at sites across the range of a population are increasingly employed to infer patterns and processes influencing population distribution and dynamics. While such work is common in terrestrial systems, fewer examples exist in marine applications. This disparity likely exists because the replicate samples required by these models to account for imperfect detection are often impractical to obtain when surveying aquatic organisms, particularly fishes. We employ simultaneous sampling using fish traps and novel underwater camera observations to generate the requisite replicate samples for occupancy models of red snapper, a reef fish species. Since the replicate samples are collected simultaneously by multiple sampling devices, many typical problems encountered when obtaining replicate observations are avoided. Our results suggest that augmenting traditional fish trap sampling with camera observations not only doubled the probability of detecting red snapper in reef habitats off the Southeast coast of the United States, but supplied the necessary observations to infer factors influencing population distribution and abundance while accounting for imperfect detection. We found that detection probabilities tended to be higher for camera traps than traditional fish traps. Furthermore, camera trap detections were influenced by the current direction and turbidity of the water, indicating that collecting data on these variables is important for future monitoring. These models indicate that the distribution and abundance of this species is more heavily influenced by latitude and depth than by micro-scale reef characteristics lending credence to previous characterizations of red snapper as a reef habitat generalist. This study demonstrates the utility of simultaneous sampling devices, including camera traps, in aquatic environments to inform occupancy models and account for imperfect detection when describing factors

  1. Occupancy models for monitoring marine fish: a bayesian hierarchical approach to model imperfect detection with a novel gear combination.

    Directory of Open Access Journals (Sweden)

    Lewis G Coggins

    Full Text Available Occupancy models using incidence data collected repeatedly at sites across the range of a population are increasingly employed to infer patterns and processes influencing population distribution and dynamics. While such work is common in terrestrial systems, fewer examples exist in marine applications. This disparity likely exists because the replicate samples required by these models to account for imperfect detection are often impractical to obtain when surveying aquatic organisms, particularly fishes. We employ simultaneous sampling using fish traps and novel underwater camera observations to generate the requisite replicate samples for occupancy models of red snapper, a reef fish species. Since the replicate samples are collected simultaneously by multiple sampling devices, many typical problems encountered when obtaining replicate observations are avoided. Our results suggest that augmenting traditional fish trap sampling with camera observations not only doubled the probability of detecting red snapper in reef habitats off the Southeast coast of the United States, but supplied the necessary observations to infer factors influencing population distribution and abundance while accounting for imperfect detection. We found that detection probabilities tended to be higher for camera traps than traditional fish traps. Furthermore, camera trap detections were influenced by the current direction and turbidity of the water, indicating that collecting data on these variables is important for future monitoring. These models indicate that the distribution and abundance of this species is more heavily influenced by latitude and depth than by micro-scale reef characteristics lending credence to previous characterizations of red snapper as a reef habitat generalist. This study demonstrates the utility of simultaneous sampling devices, including camera traps, in aquatic environments to inform occupancy models and account for imperfect detection when

  2. MicroRNA Expression during Viral Infection or PolyI:C Stimulation in a Fish Model

    DEFF Research Database (Denmark)

    Kristensen, Lasse Bøgelund Juel; Schyth, Brian Dall; Lorenzen, Niels

    Fish are important as small vertebrate models for studying various aspects of development and disease. MicroRNA regulation in fish has so far received attention especially in studies of their expression and function during embryonic development. In the studies carried out at the National Veterinary...... Institute in Århus we aim at using fish models for studying microRNA regulation during viral infection. In the studies presented here we make use of a qPCR method to detect miRNAs in fish cells. We present results regarding the expression of the immunologically relevant microRNAs, miR-155, miR-146a and mi......R-146b in fish cells during infection with the fish pathogenic virus viral hemorrhagic septicemia virus (VHSV) and during immune stimulation with double stranded RNA (polyI:C). We highlight the need of finding stable normalization genes for microRNA detection....

  3. An Individual-based Probabilistic Model for Fish Stock Simulation

    Directory of Open Access Journals (Sweden)

    Federico Buti

    2010-08-01

    Full Text Available We define an individual-based probabilistic model of a sole (Solea solea behaviour. The individual model is given in terms of an Extended Probabilistic Discrete Timed Automaton (EPDTA, a new formalism that is introduced in the paper and that is shown to be interpretable as a Markov decision process. A given EPDTA model can be probabilistically model-checked by giving a suitable translation into syntax accepted by existing model-checkers. In order to simulate the dynamics of a given population of soles in different environmental scenarios, an agent-based simulation environment is defined in which each agent implements the behaviour of the given EPDTA model. By varying the probabilities and the characteristic functions embedded in the EPDTA model it is possible to represent different scenarios and to tune the model itself by comparing the results of the simulations with real data about the sole stock in the North Adriatic sea, available from the recent project SoleMon. The simulator is presented and made available for its adaptation to other species.

  4. Visual Basic, Excel-based fish population modeling tool - The pallid sturgeon example

    Science.gov (United States)

    Moran, Edward H.; Wildhaber, Mark L.; Green, Nicholas S.; Albers, Janice L.

    2016-02-10

    The model presented in this report is a spreadsheet-based model using Visual Basic for Applications within Microsoft Excel (http://dx.doi.org/10.5066/F7057D0Z) prepared in cooperation with the U.S. Army Corps of Engineers and U.S. Fish and Wildlife Service. It uses the same model structure and, initially, parameters as used by Wildhaber and others (2015) for pallid sturgeon. The difference between the model structure used for this report and that used by Wildhaber and others (2015) is that variance is not partitioned. For the model of this report, all variance is applied at the iteration and time-step levels of the model. Wildhaber and others (2015) partition variance into parameter variance (uncertainty about the value of a parameter itself) applied at the iteration level and temporal variance (uncertainty caused by random environmental fluctuations with time) applied at the time-step level. They included implicit individual variance (uncertainty caused by differences between individuals) within the time-step level.The interface developed for the model of this report is designed to allow the user the flexibility to change population model structure and parameter values and uncertainty separately for every component of the model. This flexibility makes the modeling tool potentially applicable to any fish species; however, the flexibility inherent in this modeling tool makes it possible for the user to obtain spurious outputs. The value and reliability of the model outputs are only as good as the model inputs. Using this modeling tool with improper or inaccurate parameter values, or for species for which the structure of the model is inappropriate, could lead to untenable management decisions. By facilitating fish population modeling, this modeling tool allows the user to evaluate a range of management options and implications. The goal of this modeling tool is to be a user-friendly modeling tool for developing fish population models useful to natural resource

  5. Prediction of melting temperatures in fluorescence in situ hybridization (FISH) procedures using thermodynamic models.

    Science.gov (United States)

    Fontenete, Sílvia; Guimarães, Nuno; Wengel, Jesper; Azevedo, Nuno Filipe

    2016-01-01

    The thermodynamics and kinetics of DNA hybridization, i.e. the process of self-assembly of one, two or more complementary nucleic acid strands, has been studied for many years. The appearance of the nearest-neighbor model led to several theoretical and experimental papers on DNA thermodynamics that provide reasonably accurate thermodynamic information on nucleic acid duplexes and allow estimation of the melting temperature. Because there are no thermodynamic models specifically developed to predict the hybridization temperature of a probe used in a fluorescence in situ hybridization (FISH) procedure, the melting temperature is used as a reference, together with corrections for certain compounds that are used during FISH. However, the quantitative relation between melting and experimental FISH temperatures is poorly described. In this review, various models used to predict the melting temperature for rRNA targets, for DNA oligonucleotides and for nucleic acid mimics (chemically modified oligonucleotides), will be addressed in detail, together with a critical assessment of how this information should be used in FISH.

  6. Master Middle Ware: A Tool to Integrate Water Resources and Fish Population Dynamics Models

    Science.gov (United States)

    Yi, S.; Sandoval Solis, S.; Thompson, L. C.; Kilduff, D. P.

    2017-12-01

    Linking models that investigate separate components of ecosystem processes has the potential to unify messages regarding management decisions by evaluating potential trade-offs in a cohesive framework. This project aimed to improve the ability of riparian resource managers to forecast future water availability conditions and resultant fish habitat suitability, in order to better inform their management decisions. To accomplish this goal, we developed a middleware tool that is capable of linking and overseeing the operations of two existing models, a water resource planning tool Water Evaluation and Planning (WEAP) model and a habitat-based fish population dynamics model (WEAPhish). First, we designed the Master Middle Ware (MMW) software in Visual Basic for Application® in one Excel® file that provided a familiar framework for both data input and output Second, MMW was used to link and jointly operate WEAP and WEAPhish, using Visual Basic Application (VBA) macros to implement system level calls to run the models. To demonstrate the utility of this approach, hydrological, biological, and middleware model components were developed for the Butte Creek basin. This tributary of the Sacramento River, California is managed for both hydropower and the persistence of a threatened population of spring-run Chinook salmon (Oncorhynchus tschawytscha). While we have demonstrated the use of MMW for a particular watershed and fish population, MMW can be customized for use with different rivers and fish populations, assuming basic data requirements are met. This model integration improves on ad hoc linkages for managing data transfer between software programs by providing a consistent, user-friendly, and familiar interface across different model implementations. Furthermore, the data-viewing capabilities of MMW facilitate the rapid interpretation of model results by hydrologists, fisheries biologists, and resource managers, in order to accelerate learning and management decision

  7. Blocking antibodies induced by immunization with a hypoallergenic parvalbumin mutant reduce allergic symptoms in a mouse model of fish allergy

    OpenAIRE

    Freidl, Raphaela; Gstoettner, Antonia; Baranyi, Ulrike; Swoboda, Ines; Stolz, Frank; Focke-Tejkl, Margarete; Wekerle, Thomas; van Ree, Ronald; Valenta, Rudolf; Linhart, Birgit

    2016-01-01

    Background Fish is a frequent elicitor of severe IgE-mediated allergic reactions. Beside avoidance, there is currently no allergen-specific therapy available. Hypoallergenic variants of the major fish allergen, parvalbumin, for specific immunotherapy based on mutation of the 2 calcium-binding sites have been developed. Objectives This study sought to establish a mouse model of fish allergy resembling human disease and to investigate whether mouse and rabbit IgG antibodies induced by immunizat...

  8. Integrated Age-based Krill Model Fish Res 2015

    Data.gov (United States)

    National Oceanic and Atmospheric Administration, Department of Commerce — An integrated, age-structured model was fitted to different combinations of survey data using two forms of selectivity (logistic or double-logistic) with...

  9. Oceanographic and behavioural assumptions in models of the fate of coral and coral reef fish larvae.

    Science.gov (United States)

    Wolanski, Eric; Kingsford, Michael J

    2014-09-06

    A predictive model of the fate of coral reef fish larvae in a reef system is proposed that combines the oceanographic processes of advection and turbulent diffusion with the biological process of horizontal swimming controlled by olfactory and auditory cues within the timescales of larval development. In the model, auditory cues resulted in swimming towards the reefs when within hearing distance of the reef, whereas olfactory cues resulted in the larvae swimming towards the natal reef in open waters by swimming against the concentration gradients in the smell plume emanating from the natal reef. The model suggested that the self-seeding rate may be quite large, at least 20% for the larvae of rapidly developing reef fish species, which contrasted with a self-seeding rate less than 2% for non-swimming coral larvae. The predicted self-recruitment rate of reefs was sensitive to a number of parameters, such as the time at which the fish larvae reach post-flexion, the pelagic larval duration of the larvae, the horizontal turbulent diffusion coefficient in reefal waters and the horizontal swimming behaviour of the fish larvae in response to auditory and olfactory cues, for which better field data are needed. Thus, the model suggested that high self-seeding rates for reef fish are possible, even in areas where the 'sticky water' effect is minimal and in the absence of long-term trapping in oceanic fronts and/or large-scale oceanic eddies or filaments that are often argued to facilitate the return of the larvae after long periods of drifting at sea. © 2014 The Author(s) Published by the Royal Society. All rights reserved.

  10. Quantifying effects of hydrological and water quality disturbances on fish with food-web modeling

    Science.gov (United States)

    Zhao, Changsen; Zhang, Yuan; Yang, Shengtian; Xiang, Hua; Sun, Ying; Yang, Zengyuan; Yu, Qiang; Lim, Richard P.

    2018-05-01

    Accurately delineating the effects of hydrological and water quality habitat factors on the aquatic biota will significantly assist the management of water resources and restoration of river ecosystems. However, current models fail to comprehensively consider the effects of multiple habitat factors on the development of fish species. In this study, a dynamic framework for river ecosystems was set up to explore the effects of multiple habitat factors in terms of hydrology and water quality on the fish community in rivers. To achieve this the biomechanical forms of the relationships between hydrology, water quality, and aquatic organisms were determined. The developing processes of the food web without external disturbance were simulated by 208 models, constructed using Ecopath With Ecosim (EWE). These models were then used to analyze changes in biomass (ΔB) of two representative fish species, Opsariichthys bidens and Carassius auratus, which are widely distributed in Asia, and thus have attracted the attention of scholars and stakeholders, due to the consequence of habitat alteration. Results showed that the relationship between the changes in fish biomass and key habitat factors can be expressed in a unified form. T-tests for the unified form revealed that the means of the two data sets of simulated and observed ΔB for these two fish species (O. bidens and C. auratus) were equal at the significance level of 5%. Compared with other ecological dynamic models, our framework includes theories that are easy to understand and has modest requirements for assembly and scientific expertise. Moreover, this framework can objectively assess the influence of hydrological and water quality variance on aquatic biota with simpler theory and little expertise. Therefore, it is easy to be put into practice and can provide a scientific support for decisions in ecological restoration made by river administrators and stakeholders across the world.

  11. Models of Marine Fish Biodiversity: Assessing Predictors from Three Habitat Classification Schemes.

    Science.gov (United States)

    Yates, Katherine L; Mellin, Camille; Caley, M Julian; Radford, Ben T; Meeuwig, Jessica J

    2016-01-01

    Prioritising biodiversity conservation requires knowledge of where biodiversity occurs. Such knowledge, however, is often lacking. New technologies for collecting biological and physical data coupled with advances in modelling techniques could help address these gaps and facilitate improved management outcomes. Here we examined the utility of environmental data, obtained using different methods, for developing models of both uni- and multivariate biodiversity metrics. We tested which biodiversity metrics could be predicted best and evaluated the performance of predictor variables generated from three types of habitat data: acoustic multibeam sonar imagery, predicted habitat classification, and direct observer habitat classification. We used boosted regression trees (BRT) to model metrics of fish species richness, abundance and biomass, and multivariate regression trees (MRT) to model biomass and abundance of fish functional groups. We compared model performance using different sets of predictors and estimated the relative influence of individual predictors. Models of total species richness and total abundance performed best; those developed for endemic species performed worst. Abundance models performed substantially better than corresponding biomass models. In general, BRT and MRTs developed using predicted habitat classifications performed less well than those using multibeam data. The most influential individual predictor was the abiotic categorical variable from direct observer habitat classification and models that incorporated predictors from direct observer habitat classification consistently outperformed those that did not. Our results show that while remotely sensed data can offer considerable utility for predictive modelling, the addition of direct observer habitat classification data can substantially improve model performance. Thus it appears that there are aspects of marine habitats that are important for modelling metrics of fish biodiversity that are

  12. Hidden Markov modelling of movement data from fish

    DEFF Research Database (Denmark)

    Pedersen, Martin Wæver

    Movement data from marine animals tagged with electronic tags are becoming increasingly diverse and plentiful. This trend entails a need for statistical methods that are able to filter the observations to extract the ecologically relevant content. This dissertation focuses on the development...... and application of hidden Markov models (HMMs) for analysis of movement data from sh. The main contributions are represented by six scientific publications. Estimation of animal location from uncertain and possibly indirect observations is the starting point of most movement data analyses. In this work a discrete...... the behaviour of the animal. With the extended model can migratory and resident movement behaviour be related to geographical regions. For population inference multiple individual state-space analyses can be interconnected using mixed effects modelling. This framework provides parameter estimates...

  13. ECONOMETRIC MODELLING OD THE INFLUENCE OF LAKE WATER QUALITY CHANGES ON FISHING ECONOMY

    Directory of Open Access Journals (Sweden)

    Marek Antoni Ramczyk

    2017-06-01

    Full Text Available The econometric model can be a precise instrument for the analysis of the impact of the natural environment's degradation on fishing economy. This paper aims at analysing the influence of the water quality changes in lake Charzykowskie on the fishing economy. This dissertation present the results of a research on the lake water pollution's impact on fishing economy. The economic-ecological models have been constructed, explaining the changes of economic effects of the lake fishery in the conditions of an increasing water pollution in the epilimnion on the example of the catch of Rutilus rutilus, Abramis brama, Blicca bjoerkna, Coregonus albula, Coregonus lavaretus, Anguilla anguilla and Esox lucius in Lake Charzykowskie. Performed empirical research looked into the influence of the environmental factors on the size of fish catch. Calculations and analysis show clearly that though the habitat factors do influence the catch size of each studied fish species, they do it with different intensity and in various combinations. Both lake water quality and climate factors changes cause measurable effects on fishing industry of lake Charzykowskie. Among all the examined Rutilus rutilus, Abramis brama and Blicca bjoerkna the highest environmental requirements concerning water quality has Blicca bjoerkna. Whereas Abramis brama has slightly higher environmental requirements than Rutilus rutilus. Empirical calculations showed as well that Coregonus albula and Coregonus lavaretus have considerably higher water cleanness requirements than Rutilus rutilus, Abramis brama and Blicca bjoerkna. While when talking about Rutilus rutilus, Abramis brama and Blicca bjoerkna, most water characteristics still rather stimulated these species' development, when it comes to Coregonus albula and Coregonus lavaretus, in general they suppressed their development. The model has also proved quite high habitat requierements of Anquilla anquilla and correctness of the thesis that

  14. Optimal energy-utilization ratio for long-distance cruising of a model fish

    Science.gov (United States)

    Liu, Geng; Yu, Yong-Liang; Tong, Bing-Gang

    2012-07-01

    The efficiency of total energy utilization and its optimization for long-distance migration of fish have attracted much attention in the past. This paper presents theoretical and computational research, clarifying the above well-known classic questions. Here, we specify the energy-utilization ratio (fη) as a scale of cruising efficiency, which consists of the swimming speed over the sum of the standard metabolic rate and the energy consumption rate of muscle activities per unit mass. Theoretical formulation of the function fη is made and it is shown that based on a basic dimensional analysis, the main dimensionless parameters for our simplified model are the Reynolds number (Re) and the dimensionless quantity of the standard metabolic rate per unit mass (Rpm). The swimming speed and the hydrodynamic power output in various conditions can be computed by solving the coupled Navier-Stokes equations and the fish locomotion dynamic equations. Again, the energy consumption rate of muscle activities can be estimated by the quotient of dividing the hydrodynamic power by the muscle efficiency studied by previous researchers. The present results show the following: (1) When the value of fη attains a maximum, the dimensionless parameter Rpm keeps almost constant for the same fish species in different sizes. (2) In the above cases, the tail beat period is an exponential function of the fish body length when cruising is optimal, e.g., the optimal tail beat period of Sockeye salmon is approximately proportional to the body length to the power of 0.78. Again, the larger fish's ability of long-distance cruising is more excellent than that of smaller fish. (3) The optimal swimming speed we obtained is consistent with previous researchers’ estimations.

  15. An epidemiological model of virus transmission in salmonid fishes of the Columbia River Basin

    Science.gov (United States)

    Ferguson, Paige F. B.; Breyta, Rachel; Brito, Ilana L.; Kurath, Gael; LaDeau, Shannon L.

    2018-01-01

    We have developed a dynamic epidemiological model informed by records of viral presence and genotypes to evaluate potential transmission routes maintaining a viral pathogen in economically and culturally important anadromous fish populations. In the Columbia River Basin, infectious hematopoietic necrosis virus (IHNV) causes severe disease, predominantly in juvenile steelhead trout (Oncorhynchus mykiss) and less frequently in Chinook salmon (O. tshawytscha). Mortality events following IHNV infection can be devastating for individual hatchery programs. Despite reports of high local mortality and extensive surveillance efforts, there are questions about how viral transmission is maintained. Modeling this system offers important insights into disease transmission in natural aquatic systems, as well as about the data requirements for generating accurate estimates about transmission routes and infection probabilities. We simulated six scenarios in which testing rates and the relative importance of different transmission routes varied. The simulations demonstrated that the model accurately identified routes of transmission and inferred infection probabilities accurately when there was testing of all cohort-sites. When testing records were incomplete, the model accurately inferred which transmission routes exposed particular cohort-sites but generated biased infection probabilities given exposure. After validating the model and generating guidelines for result interpretation, we applied the model to data from 14 annual cohorts (2000–2013) at 24 focal sites in a sub-region of the Columbia River Basin, the lower Columbia River (LCR), to quantify the relative importance of potential transmission routes in this focal sub-region. We demonstrate that exposure to IHNV via the return migration of adult fish is an important route for maintaining IHNV in the LCR sub-region, and the probability of infection following this exposure was relatively high at 0.16. Although only 1% of

  16. A stochastic differential equation model for the foraging behavior of fish schools.

    Science.gov (United States)

    Tạ, Tôn Việt; Nguyen, Linh Thi Hoai

    2018-03-15

    Constructing models of living organisms locating food sources has important implications for understanding animal behavior and for the development of distribution technologies. This paper presents a novel simple model of stochastic differential equations for the foraging behavior of fish schools in a space including obstacles. The model is studied numerically. Three configurations of space with various food locations are considered. In the first configuration, fish swim in free but limited space. All individuals can find food with large probability while keeping their school structure. In the second and third configurations, they move in limited space with one and two obstacles, respectively. Our results reveal that the probability of foraging success is highest in the first configuration, and smallest in the third one. Furthermore, when school size increases up to an optimal value, the probability of foraging success tends to increase. When it exceeds an optimal value, the probability tends to decrease. The results agree with experimental observations.

  17. A stochastic differential equation model for the foraging behavior of fish schools

    Science.gov (United States)

    Tạ, Tôn ệt, Vi; Hoai Nguyen, Linh Thi

    2018-05-01

    Constructing models of living organisms locating food sources has important implications for understanding animal behavior and for the development of distribution technologies. This paper presents a novel simple model of stochastic differential equations for the foraging behavior of fish schools in a space including obstacles. The model is studied numerically. Three configurations of space with various food locations are considered. In the first configuration, fish swim in free but limited space. All individuals can find food with large probability while keeping their school structure. In the second and third configurations, they move in limited space with one and two obstacles, respectively. Our results reveal that the probability of foraging success is highest in the first configuration, and smallest in the third one. Furthermore, when school size increases up to an optimal value, the probability of foraging success tends to increase. When it exceeds an optimal value, the probability tends to decrease. The results agree with experimental observations.

  18. Regression models for explaining and predicting concentrations of organochlorine pesticides in fish from streams in the United States

    Science.gov (United States)

    Nowell, Lisa H.; Crawford, Charles G.; Gilliom, Robert J.; Nakagaki, Naomi; Stone, Wesley W.; Thelin, Gail; Wolock, David M.

    2009-01-01

    Empirical regression models were developed for estimating concentrations of dieldrin, total chlordane, and total DDT in whole fish from U.S. streams. Models were based on pesticide concentrations measured in whole fish at 648 stream sites nationwide (1992-2001) as part of the U.S. Geological Survey's National Water Quality Assessment Program. Explanatory variables included fish lipid content, estimates (or surrogates) representing historical agricultural and urban sources, watershed characteristics, and geographic location. Models were developed using Tobit regression methods appropriate for data with censoring. Typically, the models explain approximately 50 to 70% of the variability in pesticide concentrations measured in whole fish. The models were used to predict pesticide concentrations in whole fish for streams nationwide using the U.S. Environmental Protection Agency's River Reach File 1 and to estimate the probability that whole-fish concentrations exceed benchmarks for protection of fish-eating wildlife. Predicted concentrations were highest for dieldrin in the Corn Belt, Texas, and scattered urban areas; for total chlordane in the Corn Belt, Texas, the Southeast, and urbanized Northeast; and for total DDT in the Southeast, Texas, California, and urban areas nationwide. The probability of exceeding wildlife benchmarks for dieldrin and chlordane was predicted to be low for most U.S. streams. The probability of exceeding wildlife benchmarks for total DDT is higher but varies depending on the fish taxon and on the benchmark used. Because the models in the present study are based on fish data collected during the 1990s and organochlorine pesticide residues in the environment continue to decline decades after their uses were discontinued, these models may overestimate present-day pesticide concentrations in fish. ?? 2009 SETAC.

  19. Evaluation of fish models of soluble epoxide hydrolase inhibition.

    OpenAIRE

    Newman, J W; Denton, D L; Morisseau, C; Koger, C S; Wheelock, C E; Hinton, D E; Hammock, B D

    2001-01-01

    Substituted ureas and carbamates are mechanistic inhibitors of the soluble epoxide hydrolase (sEH). We screened a set of chemicals containing these functionalities in larval fathead minnow (Pimphales promelas) and embryo/larval golden medaka (Oryzias latipes) models to evaluate the utility of these systems for investigating sEH inhibition in vivo. Both fathead minnow and medaka sEHs were functionally similar to the tested mammalian orthologs (murine and human) with respect to substrate hydrol...

  20. Three-Dimensional Modeling of a Robotic Fish Based on Real Carp Locomotion

    Directory of Open Access Journals (Sweden)

    Gonca Ozmen Koca

    2018-01-01

    Full Text Available This work focuses on developing a complete non-linear dynamic model comprising entirely kinematic and hydrodynamic effects of Carangiform locomotion based on the Lagrange approach by adapting the parameters and behaviors of a real carp. In order to imitate biological features, swimming patterns of a real carp for forward, turning and up-down motions are analyzed by using the Kineova 8.20 software. The proportional optimum link lengths according to actual size, swimming speed, flapping frequency, proportional physical parameters and different swimming motions of the real carp are investigated with the designed robotic fish model. Three-dimensional (3D locomotion is evaluated by tracking two trajectories in a MATLAB environment. A Reaching Law Control (RLC approach for inner loop (Euler angles-speed control and a guidance system for the outer loop (orientation control are proposed to provide an effective closed-loop control performance. In order to illustrate the 3D performance of the proposed closed loop control system in a virtual reality platform, the designed robotic fish model is also implemented using the Virtual Reality Modeling Language (VRML. Simulation and experimental analysis show that the proposed model gives us significant key solutions to design a fish-like robotic prototype.

  1. Scalable population estimates using spatial-stream-network (SSN) models, fish density surveys, and national geospatial database frameworks for streams

    Science.gov (United States)

    Daniel J. Isaak; Jay M. Ver Hoef; Erin E. Peterson; Dona L. Horan; David E. Nagel

    2017-01-01

    Population size estimates for stream fishes are important for conservation and management, but sampling costs limit the extent of most estimates to small portions of river networks that encompass 100s–10 000s of linear kilometres. However, the advent of large fish density data sets, spatial-stream-network (SSN) models that benefit from nonindependence among samples,...

  2. Frankenmuth Dam Fish Passage, Cass River, Saginaw County, Michigan

    Science.gov (United States)

    2012-11-01

    part of a flood management and protection project. A concrete floodwall along the northern bank of the Cass River and riprap scour protection along...It was later converted to a wooden structure, and then to a concrete structure. There has been periodic maintenance and patch work done in past...geotechnical coring at the dam). If needed, the temporary cofferdam would likely be constructed of inert material (e.g., stone with an impermeable

  3. Fish species of greatest conservation need in wadeable Iowa streams: current status and effectiveness of Aquatic Gap Program distribution models

    Science.gov (United States)

    Sindt, Anthony R.; Pierce, Clay; Quist, Michael C.

    2012-01-01

    Effective conservation of fish species of greatest conservation need (SGCN) requires an understanding of species–habitat relationships and distributional trends. Thus, modeling the distribution of fish species across large spatial scales may be a valuable tool for conservation planning. Our goals were to evaluate the status of 10 fish SGCN in wadeable Iowa streams and to test the effectiveness of Iowa Aquatic Gap Analysis Project (IAGAP) species distribution models. We sampled fish assemblages from 86 wadeable stream segments in the Mississippi River drainage of Iowa during 2009 and 2010 to provide contemporary, independent fish species presence–absence data. The frequencies of occurrence in stream segments where species were historically documented varied from 0.0% for redfin shiner Lythrurus umbratilis to 100.0% for American brook lampreyLampetra appendix, with a mean of 53.0%, suggesting that the status of Iowa fish SGCN is highly variable. Cohen's kappa values and other model performance measures were calculated by comparing field-collected presence–absence data with IAGAP model–predicted presences and absences for 12 fish SGCN. Kappa values varied from 0.00 to 0.50, with a mean of 0.15. The models only predicted the occurrences of banded darterEtheostoma zonale, southern redbelly dace Phoxinus erythrogaster, and longnose daceRhinichthys cataractae more accurately than would be expected by chance. Overall, the accuracy of the twelve models was low, with a mean correct classification rate of 58.3%. Poor model performance probably reflects the difficulties associated with modeling the distribution of rare species and the inability of the large-scale habitat variables used in IAGAP models to explain the variation in fish species occurrences. Our results highlight the importance of quantifying the confidence in species distribution model predictions with an independent data set and the need for long-term monitoring to better understand the

  4. Different phylogenomic approaches to resolve the evolutionary relationships among model fish species.

    Science.gov (United States)

    Negrisolo, Enrico; Kuhl, Heiner; Forcato, Claudio; Vitulo, Nicola; Reinhardt, Richard; Patarnello, Tomaso; Bargelloni, Luca

    2010-12-01

    Comparative genomics holds the promise to magnify the information obtained from individual genome sequencing projects, revealing common features conserved across genomes and identifying lineage-specific characteristics. To implement such a comparative approach, a robust phylogenetic framework is required to accurately reconstruct evolution at the genome level. Among vertebrate taxa, teleosts represent the second best characterized group, with high-quality draft genome sequences for five model species (Danio rerio, Gasterosteus aculeatus, Oryzias latipes, Takifugu rubripes, and Tetraodon nigroviridis), and several others are in the finishing lane. However, the relationships among the acanthomorph teleost model fishes remain an unresolved taxonomic issue. Here, a genomic region spanning over 1.2 million base pairs was sequenced in the teleost fish Dicentrarchus labrax. Together with genomic data available for the above fish models, the new sequence was used to identify unique orthologous genomic regions shared across all target taxa. Different strategies were applied to produce robust multiple gene and genomic alignments spanning from 11,802 to 186,474 amino acid/nucleotide positions. Ten data sets were analyzed according to Bayesian inference, maximum likelihood, maximum parsimony, and neighbor joining methods. Extensive analyses were performed to explore the influence of several factors (e.g., alignment methodology, substitution model, data set partitions, and long-branch attraction) on the tree topology. Although a general consensus was observed for a closer relationship between G. aculeatus (Gasterosteidae) and Di. labrax (Moronidae) with the atherinomorph O. latipes (Beloniformes) sister taxon of this clade, with the tetraodontiform group Ta. rubripes and Te. nigroviridis (Tetraodontiformes) representing a more distantly related taxon among acanthomorph model fish species, conflicting results were obtained between data sets and methods, especially with respect

  5. Rites of passage in Italy.

    Science.gov (United States)

    Field, Carol

    2010-01-01

    Unlike the vast number of public celebrations in Italy that are almost always associated with specific foods, rites of passage in that country are focused on pivotal private moments after the ceremonial crossing of a threshold; and food may or may not be a primary focus of the event. Recognition of birth, marriage, and death—the three major turning points in the intimate life of a family—may still be observed with dishes or ingredients traceable to the Renaissance, but many older traditions have been modified or forgotten entirely in the last thirty years. Financial constraints once preserved many customs, especially in the south, but regional borders have become porous, and new food trends may no longer reflect the authentic tradition. Can new movements, such as Slow Food, promote ancient values as the form and food of traditional events continue to change?

  6. "Pills" and the air passages.

    Science.gov (United States)

    Küpeli, Elif; Khemasuwan, Danai; Lee, Pyng; Mehta, Atul C

    2013-08-01

    Aspiration of a medication in the airways in any form produces a variety of adverse effects, both local and systemic. Furthermore, specific reaction of the airways to each type of pill strongly affects the outcome. It is crucial for pulmonologists and emergency medicine specialists to acknowledge this clinical entity. In addition, airways have been increasingly used to deliver medications such as insulin and prostacycline. These aerosolized medications can also cause local as well as systemic side effects. We review the local and systemic reactions of these "pills" accessing the airways either by incidental aspiration or iatrogenic administration. We address clinical presentation, mechanism of injury, diagnosis, and management of complications of these pills in the air passages.

  7. Development of biotic ligand models for chronic manganese toxicity to fish, invertebrates, and algae.

    Science.gov (United States)

    Peters, Adam; Lofts, Stephen; Merrington, Graham; Brown, Bruce; Stubblefield, William; Harlow, Keven

    2011-11-01

    Ecotoxicity tests were performed with fish, invertebrates, and algae to investigate the effect of water quality parameters on Mn toxicity. Models were developed to describe the effects of Mn as a function of water quality. Calcium (Ca) has a protective effect on Mn toxicity for both fish and invertebrates, and magnesium (Mg) also provides a protective effect for invertebrates. Protons have a protective effect on Mn toxicity to algae. The models derived are consistent with models of the toxicity of other metals to aquatic organisms in that divalent cations can act as competitors to Mn toxicity in fish and invertebrates, and protons act as competitors to Mn toxicity in algae. The selected models are able to predict Mn toxicity to the test organisms to within a factor of 2 in most cases. Under low-pH conditions invertebrates are the most sensitive taxa, and under high-pH conditions algae are most sensitive. The point at which algae become more sensitive than invertebrates depends on the Ca concentration and occurs at higher pH when Ca concentrations are low, because of the sensitivity of invertebrates under these conditions. Dissolved organic carbon concentrations have very little effect on the toxicity of Mn to aquatic organisms. Copyright © 2011 SETAC.

  8. Variability in connectivity patterns of fish with ontogenetic migrations: Modelling effects of abiotic and biotic factors

    Directory of Open Access Journals (Sweden)

    Susanne Eva Tanner

    2015-10-01

    Full Text Available Connectivity is a critical property of marine fish populations as it drives population replenishment, determines colonization patterns and the resilience of populations to harvest. Understanding connectivity patterns is particularly important in species that present ontogenetic migrations and segregated habitat use during their life history, such as marine species with estuarine nursery areas. Albeit challenging, fish movement can be estimated and quantified using different methodologies depending on the life history stages of interest (e.g. biophysical modelling, otolith chemistry, genetic markers. Relative contributions from estuarine nursery areas to the adult coastal populations were determined using otolith elemental composition and maximum likelihood estimation for four commercially important species (Dicentrarchus labrax, Plathichtys flesus, Solea senegalensis and Solea solea and showed high interannual variability. Here, the effects of abiotic and biotic factors on the observed variability in connectivity rates and extent between estuarine juvenile and coastal adult subpopulations are investigated using generalized linear models (GLM and generalized mixed models (GMM. Abiotic factors impacting both larval and juvenile life history stages are included in the models (e.g. wind force and direction, NAO, water temperature while biotic factors relative to the estuarine residency of juvenile fish are evaluated (e.g. juvenile density, food availability. Factors contributing most to the observed variability in connectivity rates are singled out and compared among species. General trends are identified and results area discussed in the general context of identifying potential management frameworks applicable to different life stages and which may prove useful for ontogenetically migrating species.

  9. Toward understanding Malaysian fishermen's decision making on the use of fishing technology: a mental model approach.

    Science.gov (United States)

    Hamzah, Azimi; Krauss, Steven E; Shaffril, Hayrol A M; Suandi, Turiman; Ismail, Ismi A; Abu Samah, Bahaman

    2014-10-01

    The vast majority of Malaysia's fishermen are located in rural areas, specifically in the Western and Eastern coastal regions of Peninsular Malaysia and the Sabah and Sarawak central zones. In these areas, the fishing industry is relied upon as a major economic contributor to the region's residents. Despite the widespread application of various modern technologies into the fishing industry (i.e., GPS, sonar, echo sounder, remote sensing), and the Malaysian government's efforts to encourage their adoption, many small-scale fishermen in the country's rural areas continue to rely on traditional fishing methods. This refusal to embrace new technologies has resulted in significant losses in fish yields and needed income, and has raised many questions regarding the inputs to decision making of the fishermen. Drawing on multiple literatures, in this article we argue for the use of a mental model approach to gain an in-depth understanding of rural Malaysian fishermen's choices of technology adoption according to four main constructs--prior experience, knowledge, expertise and beliefs or values. To provide needed inputs to agricultural specialists and related policy makers for the development of relevant plans of action, this article aims to provide a way forward for others to understand dispositional barriers to technology adoption among fishermen who use traditional methods in non-Western contexts. © 2013 International Union of Psychological Science.

  10. Long-term prediction of fish growth under varying ambient temperature using a multiscale dynamic model

    Directory of Open Access Journals (Sweden)

    Radde Nicole

    2009-11-01

    Full Text Available Abstract Background Feed composition has a large impact on the growth of animals, particularly marine fish. We have developed a quantitative dynamic model that can predict the growth and body composition of marine fish for a given feed composition over a timespan of several months. The model takes into consideration the effects of environmental factors, particularly temperature, on growth, and it incorporates detailed kinetics describing the main metabolic processes (protein, lipid, and central metabolism known to play major roles in growth and body composition. Results For validation, we compared our model's predictions with the results of several experimental studies. We showed that the model gives reliable predictions of growth, nutrient utilization (including amino acid retention, and body composition over a timespan of several months, longer than most of the previously developed predictive models. Conclusion We demonstrate that, despite the difficulties involved, multiscale models in biology can yield reasonable and useful results. The model predictions are reliable over several timescales and in the presence of strong temperature fluctuations, which are crucial factors for modeling marine organism growth. The model provides important improvements over existing models.

  11. First passage Brownian functional properties of snowmelt dynamics

    Science.gov (United States)

    Dubey, Ashutosh; Bandyopadhyay, Malay

    2018-04-01

    In this paper, we model snow-melt dynamics in terms of a Brownian motion (BM) with purely time dependent drift and difusion and examine its first passage properties by suggesting and examining several Brownian functionals which characterize the lifetime and reactivity of such stochastic processes. We introduce several probability distribution functions (PDFs) associated with such time dependent BMs. For instance, for a BM with initial starting point x0, we derive analytical expressions for : (i) the PDF P(tf|x0) of the first passage time tf which specify the lifetime of such stochastic process, (ii) the PDF P(A|x0) of the area A till the first passage time and it provides us numerous valuable information about the total fresh water availability during melting, (iii) the PDF P(M) associated with the maximum size M of the BM process before the first passage time, and (iv) the joint PDF P(M; tm) of the maximum size M and its occurrence time tm before the first passage time. These P(M) and P(M; tm) are useful in determining the time of maximum fresh water availability and in calculating the total maximum amount of available fresh water. These PDFs are examined for the power law time dependent drift and diffusion which matches quite well with the available data of snowmelt dynamics.

  12. Calculation of search volume on cruise-searching planktivorous fish in foraging model.

    Science.gov (United States)

    Park, Bae Kyung; Lee, Yong Seok; Park, Seok Soon

    2007-07-01

    Search volume of cruising planktivorous fish was calculated based on its detailed behavior Th examine the factors influencing search volume, a series of experiments were conducted by varying ambient conditions, such as structural complexity light intensity and turbidity Pseudorasbora parva were used in experiment as predator and Daphnia pulex was selected as prey The shape of scanning area of P parva showed elliptic and the search volume changed drastically depending on ambient conditions. Compared with the results of previous foraging model, the search volumes of the fish under previous study were larger (1.2 to 2.4 times) than those from our study These results on the changes in feeding rate can be useful in determining microhabitat requirement of P parva and othercyprinids with a similar foraging behavior The calculated search volume is compared with other foraging model andthe effect of zooplankton-planktivore interactions on aquatic ecosystem is discussed.

  13. The Zebra Fish IBD Model Assessed By Novel Probe Based TagMan Assays

    DEFF Research Database (Denmark)

    Kania, Per Walter; Buchmann, Kurt; Haarder, Simon

    2015-01-01

    or oxazolone. Samples (intestine) were taken for realtime quantitative PCR. An array of TagMan assays was designed using Primer3Plus. All assays were checked by melting curve analysis in SYBR Green and by 3% agarose gel electrophoresis in order to ensure specificity. The assays include transcription factors....... The etiology is complex and not fully understood. The zebra fish (Danio rerio) may serve as a model for elucidation of these inadequately understood mechanisms. Two hapten-mediated IBD-like models in zebra fish have been generated by using the chemicals oxazolone and TNBS dissolved in ethanol. From mammalian...... and cytokines of different subsets of T-cell populations, cell markers etc. The 2-Ct method was used to estimate the fold change of gene expression relative to the H2O instilled group. Only results with p>0.05 and regulations >2 are discussed. The solvent ethanol, necessary for dissolving oxazolone and TNBS...

  14. Effects of passage barriers on demographics and stability properties of a virtual trout populations

    Science.gov (United States)

    Bret Harvey; Steven Railsback

    2011-01-01

    Habitat fragmentation is widely assumed to have negative effects on populations and communities, but some effects of fragmentation are subtle, difficult to measure and not always negative. For stream fish, barriers to upstream passage, such as waterfalls or culverts with perched outlets, are a common cause of fragmentation. We explored the effects of barriers on a...

  15. The zebrafish model system in cardiovascular research: A tiny fish with mighty prospects

    OpenAIRE

    Poon, Kar Lai; Brand, Thomas

    2013-01-01

    The zebrafish Danio rerio, a tropical freshwater fish, belongs to the family of cyprinidae, which in the last 30 years has developed into a very popular model organism for studies of embryonic development and human diseases. Initially the zebrafish species has been selected on the basis of its small size of approximately 3-5 cm, its transparency during development and its high fertility, qualities first identified by George Stresinger, the founding father of zebrafish research [1]. The abilit...

  16. Family of fish-eye-related models and their supersymmetric partners

    International Nuclear Information System (INIS)

    Makowski, Adam J.

    2010-01-01

    A large family of potentials related to the Maxwell fish-eye model is derived with the help of conformal mappings. It is shown that the whole family admits square-integrable E=0 solutions of the Schroedinger equation for discrete values of the coupling constant. A corresponding supersymmetric family of partner potentials to the preceding ones is derived as well. Some applications of the considered potentials are also discussed.

  17. Modelling of a biologically inspired robotic fish driven by compliant parts

    International Nuclear Information System (INIS)

    Daou, Hadi El; Salumäe, Taavi; Kruusmaa, Maarja; Chambers, Lily D; Megill, William M

    2014-01-01

    Inspired by biological swimmers such as fish, a robot composed of a rigid head, a compliant body and a rigid caudal fin was built. It has the geometrical properties of a subcarangiform swimmer of the same size. The head houses a servo-motor which actuates the compliant body and the caudal fin. It achieves this by applying a concentrated moment on a point near the compliant body base. In this paper, the dynamics of the compliant body driving the robotic fish is modelled and experimentally validated. Lighthill’s elongated body theory is used to define the hydrodynamic forces on the compliant part and Rayleigh proportional damping is used to model damping. Based on the assumed modes method, an energetic approach is used to write the equations of motion of the compliant body and to compute the relationship between the applied moment and the resulting lateral deflections. Experiments on the compliant body were carried out to validate the model predictions. The results showed that a good match was achieved between the measured and predicted deformations. A discussion of the swimming motions between the real fish and the robot is presented. (paper)

  18. Fish biological effect monitoring of chemical stressors using a generalized linear model in South Sea, Korea.

    Science.gov (United States)

    Jung, Jee-Hyun; Choi, Seung Bae; Hong, Sang Hee; Chae, Young Sun; Kim, Ha Na; Yim, Un Hyuk; Ha, Sung Yong; Han, Gi Myung; Kim, Dae Jung; Shim, Won Joon

    2014-01-15

    To evaluate the health status at six different study areas, we used the generalized linear model approach with selected biochemical markers in resident fish from uncontaminated and contaminated sites. We also confirmed the independence between the biochemical indices and the morphometric indices including the hepato-somatic index (HSI), gonado-somatic index (GSI), and condition factor (CF) in fish from the sampling areas. The effect of area on the presence of biotransformation markers (ethoxyresorufin-O-deethylase activity; EROD) was significantly high in Masan Bay. The area with the greatest effect on acetylcholinesterase (AChE) activity was Jindong Bay, while there was no significant effect of GSI, HSI, CF, and sex in the EROD model and HSI, CF and sex in the AChE model. These results clarify that fish from Masan, Gwangyang and Jindong Bay were affected by pollutant stress, and the analysis of sensitive biochemical responses allowed for an improved interpretation of the results. Copyright © 2013 Elsevier Ltd. All rights reserved.

  19. Zebrafish erythropoiesis and the utility of fish as models of anemia.

    Science.gov (United States)

    Kulkeaw, Kasem; Sugiyama, Daisuke

    2012-12-20

    Erythrocytes contain oxygen-carrying hemoglobin to all body cells. Impairments in the generation of erythrocytes, a process known as erythropoiesis, or in hemoglobin synthesis alter cell function because of decreased oxygen supply and lead to anemic diseases. Thus, understanding how erythropoiesis is regulated during embryogenesis and adulthood is important to develop novel therapies for anemia. The zebrafish, Danio rerio, provides a powerful model for such study. Their small size and the ability to generate a large number of embryos enable large-scale analysis, and their transparency facilitates the visualization of erythroid cell migration. Importantly, the high conservation of hematopoietic genes among vertebrates and the ability to successfully transplant hematopoietic cells into fish have enabled the establishment of models of human anemic diseases in fish. In this review, we summarize the current progress in our understanding of erythropoiesis on the basis of zebrafish studies and highlight fish models of human anemias. These analyses could enable the discovery of novel drugs as future therapies.

  20. Undulatory locomotion of flexible foils as biomimetic models for understanding fish propulsion.

    Science.gov (United States)

    Shelton, Ryan M; Thornycroft, Patrick J M; Lauder, George V

    2014-06-15

    An undulatory pattern of body bending in which waves pass along the body from head to tail is a major mechanism of creating thrust in many fish species during steady locomotion. Analyses of live fish swimming have provided the foundation of our current understanding of undulatory locomotion, but our inability to experimentally manipulate key variables such as body length, flexural stiffness and tailbeat frequency in freely swimming fish has limited our ability to investigate a number of important features of undulatory propulsion. In this paper we use a mechanical flapping apparatus to create an undulatory wave in swimming flexible foils driven with a heave motion at their leading edge, and compare this motion with body bending patterns of bluegill sunfish (Lepomis macrochirus) and clown knifefish (Notopterus chitala). We found similar swimming speeds, Reynolds and Strouhal numbers, and patterns of curvature and shape between these fish and foils, suggesting that flexible foils provide a useful model for understanding fish undulatory locomotion. We swam foils with different lengths, stiffnesses and heave frequencies while measuring forces, torques and hydrodynamics. From measured forces and torques we calculated thrust and power coefficients, work and cost of transport for each foil. We found that increasing frequency and stiffness produced faster swimming speeds and more thrust. Increasing length had minimal impact on swimming speed, but had a large impact on Strouhal number, thrust coefficient and cost of transport. Foils that were both stiff and long had the lowest cost of transport (in mJ m(-1) g(-1)) at low cycle frequencies, and the ability to reach the highest speed at high cycle frequencies. © 2014. Published by The Company of Biologists Ltd.

  1. Temporary Restoration of Bull Trout Passage at Albeni Falls Dam

    Energy Technology Data Exchange (ETDEWEB)

    Paluch, Mark; Scholz, Allan; McLellan, Holly [Eastern Washington University Department of Biology; Olson, Jason [Kalispel Tribe of Indians Natural Resources Department

    2009-07-13

    This study was designed to monitor movements of bull trout that were provided passage above Albeni Falls Dam, Pend Oreille River. Electrofishing and angling were used to collect bull trout below the dam. Tissue samples were collected from each bull trout and sent to the U. S. Fish and Wildlife Service Abernathy Fish Technology Center Conservation Genetics Lab, Washington. The DNA extracted from tissue samples were compared to a catalog of bull trout population DNA from the Priest River drainage, Lake Pend Oreille tributaries, and the Clark Fork drainage to determine the most probable tributary of origin. A combined acoustic radio or radio tag was implanted in each fish prior to being transported and released above the dam. Bull trout relocated above the dam were able to volitionally migrate into their natal tributary, drop back downstream, or migrate upstream to the next dam. A combination of stationary radio receiving stations and tracking via aircraft, boat, and vehicle were used to monitor the movement of tagged fish to determine if the spawning tributary it selected matched the tributary assigned from the genetic analysis. Seven bull trout were captured during electrofishing surveys in 2008. Of these seven, four were tagged and relocated above the dam. Two were tagged and left below the dam as part of a study monitoring movements below the dam. One was immature and too small at the time of capture to implant a tracking tag. All four fish released above the dam passed by stationary receivers stations leading into Lake Pend Oreille and no fish dropped back below the dam. One of the radio tags was recovered in the tributary corresponding with the results of the genetic test. Another fish was located in the vicinity of its assigned tributary, which was impassable due to low water discharge at its mouth. Two fish have not been located since entering the lake. Of these fish, one was immature and not expected to enter its natal tributary in the fall of 2008. The other

  2. Proposed best modeling practices for assessing the effects of ecosystem restoration on fish

    Science.gov (United States)

    Rose, Kenneth A; Sable, Shaye; DeAngelis, Donald L.; Yurek, Simeon; Trexler, Joel C.; Graf, William L.; Reed, Denise J.

    2015-01-01

    Large-scale aquatic ecosystem restoration is increasing and is often controversial because of the economic costs involved, with the focus of the controversies gravitating to the modeling of fish responses. We present a scheme for best practices in selecting, implementing, interpreting, and reporting of fish modeling designed to assess the effects of restoration actions on fish populations and aquatic food webs. Previous best practice schemes that tended to be more general are summarized, and they form the foundation for our scheme that is specifically tailored for fish and restoration. We then present a 31-step scheme, with supporting text and narrative for each step, which goes from understanding how the results will be used through post-auditing to ensure the approach is used effectively in subsequent applications. We also describe 13 concepts that need to be considered in parallel to these best practice steps. Examples of these concepts include: life cycles and strategies; variability and uncertainty; nonequilibrium theory; biological, temporal, and spatial scaling; explicit versus implicit representation of processes; and model validation. These concepts are often not considered or not explicitly stated and casual treatment of them leads to mis-communication and mis-understandings, which in turn, often underlie the resulting controversies. We illustrate a subset of these steps, and their associated concepts, using the three case studies of Glen Canyon Dam on the Colorado River, the wetlands of coastal Louisiana, and the Everglades. Use of our proposed scheme will require investment of additional time and effort (and dollars) to be done effectively. We argue that such an investment is well worth it and will more than pay back in the long run in effective and efficient restoration actions and likely avoided controversies and legal proceedings.

  3. Fish-eye Camera Calibration Model Based on Vector Observations and Its Application

    Directory of Open Access Journals (Sweden)

    ZHAN Yinhu

    2016-03-01

    Full Text Available A fish-eye camera calibration model is presented, basic observations of which consist of both half angle of view and azimuth. Rodrigues matrix is introduced into the model, and three Rodrigues parameters instead of Euler angles are used to represent elements of exterior orientation in order to simplify the expressions and calculations of observation equations.The new model is compared with the existing models based on half angle of view constraint by actual star-map data processing, and the results indicate that the model is superior to control the azimuth error, while slightly inferior to constrain the error of half angle of view. It is advised that radial distortion parameters should be determined by the model based on half angle of view constraint at first, and other camera parameters should be calculated by the new model.

  4. Modelling stream-fish functional traits in reference conditions: regional and local environmental correlates.

    Directory of Open Access Journals (Sweden)

    João M Oliveira

    Full Text Available Identifying the environmental gradients that control the functional structure of biological assemblages in reference conditions is fundamental to help river management and predict the consequences of anthropogenic stressors. Fish metrics (density of ecological guilds, and species richness from 117 least disturbed stream reaches in several western Iberia river basins were modelled with generalized linear models in order to investigate the importance of regional- and local-scale abiotic gradients to variation in functional structure of fish assemblages. Functional patterns were primarily associated with regional features, such as catchment elevation and slope, rainfall, and drainage area. Spatial variations of fish guilds were thus associated with broad geographic gradients, showing (1 pronounced latitudinal patterns, affected mainly by climatic factors and topography, or (2 at the basin level, strong upstream-downstream patterns related to stream position in the longitudinal gradient. Maximum native species richness was observed in midsize streams in accordance with the river continuum concept. The findings of our study emphasized the need to use a multi-scale approach in order to fully assess the factors that govern the functional organization of biotic assemblages in 'natural' streams, as well as to improve biomonitoring and restoration of fluvial ecosystems.

  5. An integrated model supporting histological and biometric responses as predictive biomarkers of fish health status

    Energy Technology Data Exchange (ETDEWEB)

    Torres Junior, Audalio Rebelo [Department of Oceanography and Limnology, Federal University of Maranhão (Brazil); Sousa, Débora Batista Pinheiro [Postgraduate Program of Aquatic Resources and Fishery (PPGRAP/UEMA), State University of Maranhão (Brazil); Neta, Raimunda Nonata Fortes Carvalho [Department of Chemistry and Biology, State University of Maranhão (Brazil)

    2014-10-06

    In this work, an experimental system of histological (branchial lesions) biomarkers and biometric data in catfish (Sciades herzbergii) was modeled. The fish were sampled along known pollution areas (S1) and from environmental protect areas (S2) in São Marcos' Bay, Brazil. Gills were fixed in 10% formalin and usual histological techniques were used in the first gill arch right. The lesions were observed by light microscopy. There were no histopathological changes in animals captured at reference site (S1). However, in the catfish collected in the potentially contaminated area (S2) was observed several branchial lesions, such as lifting of the lamellar epithelium, fusion of some secondary lamellae, hypertrophy of epithelial cells and lamellar aneurysm. The analysis using the biometric data showed significant differences, being highest in fish analyzed in the reference area. This approach revealed spatial differences related with biometric patterns and morphological modifications of catfish.

  6. An integrated model supporting histological and biometric responses as predictive biomarkers of fish health status

    International Nuclear Information System (INIS)

    Torres Junior, Audalio Rebelo; Sousa, Débora Batista Pinheiro; Neta, Raimunda Nonata Fortes Carvalho

    2014-01-01

    In this work, an experimental system of histological (branchial lesions) biomarkers and biometric data in catfish (Sciades herzbergii) was modeled. The fish were sampled along known pollution areas (S1) and from environmental protect areas (S2) in São Marcos' Bay, Brazil. Gills were fixed in 10% formalin and usual histological techniques were used in the first gill arch right. The lesions were observed by light microscopy. There were no histopathological changes in animals captured at reference site (S1). However, in the catfish collected in the potentially contaminated area (S2) was observed several branchial lesions, such as lifting of the lamellar epithelium, fusion of some secondary lamellae, hypertrophy of epithelial cells and lamellar aneurysm. The analysis using the biometric data showed significant differences, being highest in fish analyzed in the reference area. This approach revealed spatial differences related with biometric patterns and morphological modifications of catfish

  7. Passage of American shad: paradigms and realities

    Science.gov (United States)

    Haro, Alex; Castro-Santos, Theodore

    2012-01-01

    Despite more than 250 years of development, the passage of American shad Alosa sapidissima at dams and other barriers frequently remains problematic. Few improvements in design based on knowledge of the swimming, schooling, and migratory behaviors of American shad have been incorporated into passage structures. Large-scale technical fishways designed for the passage of adult salmonids on the Columbia River have been presumed to have good performance for American shad but have never been rigorously evaluated for this species. Similar but smaller fishway designs on the East Coast frequently have poor performance. Provision of effective downstream passage for both juvenile and postspawning adult American shad has been given little consideration in most passage projects. Ways to attract and guide American shad to both fishway entrances and downstream bypasses remain marginally understood. The historical development of passage structures for American shad has resulted in assumptions and paradigms about American shad behavior and passage that are frequently unsubstantiated by supporting data or appropriate experimentation. We propose that many of these assumptions and paradigms are either unfounded or invalid and that significant improvements to American shad upstream and downstream passage can be made via a sequential program of behavioral experimentation, application of experimental results to the physical and hydraulic design of new structures, and controlled tests of large-scale prototype structures in the laboratory and field.

  8. 76 FR 34692 - Inside Passage Electric Cooperative

    Science.gov (United States)

    2011-06-14

    ... containing a single 600-kilowatt turbine/generator unit; (7) a small switchyard located adjacent to the... Energy Regulatory Commission Inside Passage Electric Cooperative Notice of Preliminary Permit Application..., 2011, and supplemented on May 18, 2011, the Inside Passage Electric Cooperative filed an application...

  9. Importance of fish behaviour in modelling conservation problems: food limitation as an example.

    Science.gov (United States)

    Railsback, S F; Harvey, B C

    2011-12-01

    Simulation experiments using the inSTREAM individual-based brown trout Salmo trutta population model explored the role of individual adaptive behaviour in food limitation, as an example of how behaviour can affect managers' understanding of conservation problems. The model includes many natural complexities in habitat (spatial and temporal variation in characteristics such as depth and velocity, temperature, hiding and feeding cover, drift-food supply and predation risk), fish physiology (especially, how food intake and growth vary with hydrodynamics, cover, fish size and temperature) and behaviour. When drift-food concentration was increased over a wide range in 7 year simulations, the simulated population was always food limited. In fact, as food supply increased, the population increased at an increasing rate and consumed a higher percentage of the food supply, apparently because higher food concentrations make more stream area energetically profitable for drift feeders. The behaviour most responsible for this response was activity selection: when food was abundant, fish chose to feed less frequently and more nocturnally, thereby reducing predation mortality so more fish survived longer. These results indicate that the traditional concept of food limitation, that food availability stops limiting population size when it exceeds some threshold level, may not be useful and can be misleading. Results also strongly contradict the concept that a salmonid population is not food limited if the total food supply is greater than the population's consumption. Explicit consideration of adaptive behaviour produced a novel but believable understanding of food effects on salmonid populations. Published 2011. This article is a U.S. Government work and is in the public domain in the USA. Published 2011. This article is a U.S. Government work and is in the public domain in the USA.

  10. First-Passage-Time Distribution for Variable-Diffusion Processes

    Science.gov (United States)

    Barney, Liberty; Gunaratne, Gemunu H.

    2017-05-01

    First-passage-time distribution, which presents the likelihood of a stock reaching a pre-specified price at a given time, is useful in establishing the value of financial instruments and in designing trading strategies. First-passage-time distribution for Wiener processes has a single peak, while that for stocks exhibits a notable second peak within a trading day. This feature has only been discussed sporadically—often dismissed as due to insufficient/incorrect data or circumvented by conversion to tick time—and to the best of our knowledge has not been explained in terms of the underlying stochastic process. It was shown previously that intra-day variations in the market can be modeled by a stochastic process containing two variable-diffusion processes (Hua et al. in, Physica A 419:221-233, 2015). We show here that the first-passage-time distribution of this two-stage variable-diffusion model does exhibit a behavior similar to the empirical observation. In addition, we find that an extended model incorporating overnight price fluctuations exhibits intra- and inter-day behavior similar to those of empirical first-passage-time distributions.

  11. Application of linear and non-linear low-Re k-ε models in two-dimensional predictions of convective heat transfer in passages with sudden contractions

    International Nuclear Information System (INIS)

    Raisee, M.; Hejazi, S.H.

    2007-01-01

    This paper presents comparisons between heat transfer predictions and measurements for developing turbulent flow through straight rectangular channels with sudden contractions at the mid-channel section. The present numerical results were obtained using a two-dimensional finite-volume code which solves the governing equations in a vertical plane located at the lateral mid-point of the channel. The pressure field is obtained with the well-known SIMPLE algorithm. The hybrid scheme was employed for the discretization of convection in all transport equations. For modeling of the turbulence, a zonal low-Reynolds number k-ε model and the linear and non-linear low-Reynolds number k-ε models with the 'Yap' and 'NYP' length-scale correction terms have been employed. The main objective of present study is to examine the ability of the above turbulence models in the prediction of convective heat transfer in channels with sudden contraction at a mid-channel section. The results of this study show that a sudden contraction creates a relatively small recirculation bubble immediately downstream of the channel contraction. This separation bubble influences the distribution of local heat transfer coefficient and increases the heat transfer levels by a factor of three. Computational results indicate that all the turbulence models employed produce similar flow fields. The zonal k-ε model produces the wrong Nusselt number distribution by underpredicting heat transfer levels in the recirculation bubble and overpredicting them in the developing region. The linear low-Re k-ε model, on the other hand, returns the correct Nusselt number distribution in the recirculation region, although it somewhat overpredicts heat transfer levels in the developing region downstream of the separation bubble. The replacement of the 'Yap' term with the 'NYP' term in the linear low-Re k-ε model results in a more accurate local Nusselt number distribution. Moreover, the application of the non-linear k

  12. Determining potential adverse effects in marine fish exposed to pharmaceuticals and personal care products with the fish plasma model and whole-body tissue concentrations.

    Science.gov (United States)

    Meador, James P; Yeh, Andrew; Gallagher, Evan P

    2017-11-01

    The Fish Plasma Model (FPM) was applied to water exposure and tissue concentrations in fish collected from two wastewater treatment plant impacted estuarine sites. In this study we compared predicted fish plasma concentrations to Cmax values for humans, which represents the maximum plasma concentration for the minimum therapeutic dose. The results of this study show that predictions of plasma concentrations for a variety of pharmaceutical and personal care products (PPCPs) from effluent concentrations resulted in 37 compounds (54%) exceeding the response ratio (RR = Fish [Plasma]/1%Cmax total ) of 1 compared to 3 compounds (14%) detected with values generated with estuarine receiving water concentrations. When plasma concentrations were modeled from observed whole-body tissue residues, 16 compounds out of 24 detected for Chinook (67%) and 7 of 14 (50%) for sculpin resulted in an RR tissue value greater than 1, which highlights the importance of this dose metric over that using estuarine water. Because the tissue residue approach resulted in a high percentage of compounds with calculated response ratios exceeding a value of unity, we believe this is a more accurate representation for exposure in the field. Predicting plasma concentrations from tissue residues improves our ability to assess the potential for adverse effects in fish because exposure from all sources is captured. Tissue residues are also more likely to represent steady-state conditions compared to those from water exposure because of the inherent reduction in variability usually observed for field data and the time course for bioaccumulation. We also examined the RR in a toxic unit approach to highlight the importance of considering multiple compounds exhibiting a similar mechanism of action. Published by Elsevier Ltd.

  13. Uncertainty in Various Habitat Suitability Models and Its Impact on Habitat Suitability Estimates for Fish

    Directory of Open Access Journals (Sweden)

    Yu-Pin Lin

    2015-07-01

    Full Text Available Species distribution models (SDMs are extensively used to project habitat suitability of species in stream ecological studies. Owing to complex sources of uncertainty, such models may yield projections with varying degrees of uncertainty. To better understand projected spatial distributions and the variability between habitat suitability projections, this study uses five SDMs that are based on the outputs of a two-dimensional hydraulic model to project the suitability of habitats and to evaluate the degree of variability originating from both differing model types and the split-sample procedure. The habitat suitability index (HSI of each species is based on two stream flow variables, including current velocity (V, water depth (D, as well as the heterogeneity of these flow conditions as quantified by the information entropy of V and D. The six SDM approaches used to project fish abundance, as represented by HSI, included two stochastic models: the generalized linear model (GLM and the generalized additive model (GAM; as well as three machine learning models: the support vector machine (SVM, random forest (RF and the artificial neural network (ANN, and an ensemble model (where the latter is the average of the preceding five models. The target species Sicyopterus japonicas was found to prefer habitats with high current velocities. The relationship between mesohabitat diversity and fish abundance was indicated by the trends in information entropy and weighted usable area (WUA over the study area. This study proposes a method for quantifying habitat suitability, and for assessing the uncertainties in HSI and WUA that are introduced by the various SDMs and samples. This study also demonstrated both the merits of the ensemble modeling approach and the necessity of addressing model uncertainty.

  14. Fishing activities

    Science.gov (United States)

    Oberle, Ferdinand; Puig, Pere; Martin, Jacobo; Micallef, Aaron; Krastel, Sebastian; Savini, Alessandra

    2018-01-01

    Unlike the major anthropogenic changes that terrestrial and coastal habitats underwent during the last centuries such as deforestation, river engineering, agricultural practices or urbanism, those occurring underwater are veiled from our eyes and have continued nearly unnoticed. Only recent advances in remote sensing and deep marine sampling technologies have revealed the extent and magnitude of the anthropogenic impacts to the seafloor. In particular, bottom trawling, a fishing technique consisting of dragging a net and fishing gear over the seafloor to capture bottom-dwelling living resources has gained attention among the scientific community, policy makers and the general public due to its destructive effects on the seabed. Trawling gear produces acute impacts on biota and the physical substratum of the seafloor by disrupting the sediment column structure, overturning boulders, resuspending sediments and imprinting deep scars on muddy bottoms. Also, the repetitive passage of trawling gear over the same areas creates long-lasting, cumulative impacts that modify the cohesiveness and texture of sediments. It can be asserted nowadays that due to its recurrence, mobility and wide geographical extent, industrial trawling has become a major force driving seafloor change and affecting not only its physical integrity on short spatial scales but also imprinting measurable modifications to the geomorphology of entire continental margins.

  15. Extended passaging increases the efficiency of neural differentiation from induced pluripotent stem cells

    Directory of Open Access Journals (Sweden)

    Koehler Karl R

    2011-08-01

    Full Text Available Abstract Background The use of induced pluripotent stem cells (iPSCs for the functional replacement of damaged neurons and in vitro disease modeling is of great clinical relevance. Unfortunately, the capacity of iPSC lines to differentiate into neurons is highly variable, prompting the need for a reliable means of assessing the differentiation capacity of newly derived iPSC cell lines. Extended passaging is emerging as a method of ensuring faithful reprogramming. We adapted an established and efficient embryonic stem cell (ESC neural induction protocol to test whether iPSCs (1 have the competence to give rise to functional neurons with similar efficiency as ESCs and (2 whether the extent of neural differentiation could be altered or enhanced by increased passaging. Results Our gene expression and morphological analyses revealed that neural conversion was temporally delayed in iPSC lines and some iPSC lines did not properly form embryoid bodies during the first stage of differentiation. Notably, these deficits were corrected by continual passaging in an iPSC clone. iPSCs with greater than 20 passages (late-passage iPSCs expressed higher expression levels of pluripotency markers and formed larger embryoid bodies than iPSCs with fewer than 10 passages (early-passage iPSCs. Moreover, late-passage iPSCs started to express neural marker genes sooner than early-passage iPSCs after the initiation of neural induction. Furthermore, late-passage iPSC-derived neurons exhibited notably greater excitability and larger voltage-gated currents than early-passage iPSC-derived neurons, although these cells were morphologically indistinguishable. Conclusions These findings strongly suggest that the efficiency neuronal conversion depends on the complete reprogramming of iPSCs via extensive passaging.

  16. Modeling the relations between flow regime components, species traits, and spawning success of fishes in warmwater streams

    Science.gov (United States)

    Craven, S.W.; Peterson, J.T.; Freeman, Mary C.; Kwak, T.J.; Irwin, E.

    2010-01-01

    Modifications to stream hydrologic regimes can have a profound influence on the dynamics of their fish populations. Using hierarchical linear models, we examined the relations between flow regime and young-of-year fish density using fish sampling and discharge data from three different warmwater streams in Illinois, Alabama, and Georgia. We used an information theoretic approach to evaluate the relative support for models describing hypothesized influences of five flow regime components representing: short-term high and low flows; short-term flow stability; and long-term mean flows and flow stability on fish reproductive success during fish spawning and rearing periods. We also evaluated the influence of ten fish species traits on fish reproductive success. Species traits included spawning duration, reproductive strategy, egg incubation rate, swimming locomotion morphology, general habitat preference, and food habits. Model selection results indicated that young-of-year fish density was positively related to short-term high flows during the spawning period and negatively related to flow variability during the rearing period. However, the effect of the flow regime components varied substantially among species, but was related to species traits. The effect of short-term high flows on the reproductive success was lower for species that broadcast their eggs during spawning. Species with cruiser swimming locomotion morphologies (e.g., Micropterus) also were more vulnerable to variable flows during the rearing period. Our models provide insight into the conditions and timing of flows that influence the reproductive success of warmwater stream fishes and may guide decisions related to stream regulation and management. ?? 2010 US Government.

  17. Comparison of textbook passages, nonfiction trade book passages and fiction trade book passages as instructional tools for learning science

    Science.gov (United States)

    Kelly, Cynthia

    This study examined the impact of different types of text on student achievement in elementary school science. Gender was also examined to see if the type of text passage read had any differential effect on boys' and girls' achievement. This study was a pretest/posttest/retention test design. Eighty-four fourth grade students from a public charter elementary school in South Florida were randomly assigned a passage from a physical science textbook, a physical science nonfiction trade book, a physical science fiction trade book, a biological science textbook or a biological science nonfiction trade book. Results in the physical science content area revealed that students in the textbook passage group had higher posttest and retention test results than students in the nonfiction and fiction trade book passage groups. There was no difference on the posttest results of students in the biological science textbook and nonfiction trade book passage groups. Students in the biological science textbook passage group had higher retention results than students in the biological science nonfiction passage group. Gender results in the physical science content area revealed that boys had a higher retention score than girls in the fiction trade book passage group. There were no gender achievement differences as a result of the text passage read in the biological science content area. It was concluded that no definitive answer as to the efficacy of textbooks versus trade books was possible based upon results of the study. Recommendations for future research include examining the effects of different types of texts in conjunction with other authentic teaching methods.

  18. Fish-friendly future

    International Nuclear Information System (INIS)

    Brookshier, P.; Newman, Gemma

    2001-01-01

    The latest US research into ways of reducing the harm to fish from hydroelectric turbines is outlined. Laboratory studies, field studies and advanced computational studies are being carried out to improve the understanding of and reduce the effects of stress and injury to fish from turbines. The Advanced Hydro Turbine System programme is part of the Department of Energy's Hydropower Programme. Turbine passage injuries are caused by a number of mechanisms, leaving the fish either dead or stunned. Advanced turbine technology can help to minimise fish injury and can add dissolved oxygen to the discharged water, thus improving water quality. Turbine modifications are aimed at all species, but studies have focussed on salmon, trout and eels. The new minimum gap runner (MGR) appear as efficient as standard Kaplan turbines

  19. A system simulation model applied to the production schedule of a fish processing facility

    Directory of Open Access Journals (Sweden)

    Carla Roberta Pereira

    2012-11-01

    Full Text Available The simulation seeks to import the reality to a controlled environment, where it is possible to study it behavior, under several conditions, without involving physical risks and/or high costs. Thus, the system simulation becomes a useful and powerful technique in emergence markets, as the tilapiculture sector that needs to expand its business. The main purpose of this study was the development of a simulation model to assist the decisions making of the production scheduling of a fish processing facility. It was applied, as research method, the case study and the modeling/simulation, including in this set the SimuCAD methodology and the development phases of a simulation model. The model works with several alternative scenarios, testing different working shifts, types of flows and production capacity, besides variations of the ending inventory and sales. The result of this research was a useful and differentiated model simulation to assist the decision making of the production scheduling of fish processing facility studied.

  20. Sluiceway Operations for Adult Steelhead Downstream Passage at The Dalles Dam, Columbia River, USA

    Energy Technology Data Exchange (ETDEWEB)

    Khan, Fenton; Royer, Ida M.; Johnson, Gary E.; Tackley, Sean C.

    2013-10-01

    This study evaluated adult steelhead (Oncorhynchus mykiss; fallbacks and kelts) downstream passage at The Dalles Dam in the Columbia River, USA, during the late fall, winter, and early spring months between 2008 and 2011. The purpose of the study was to determine the efficacy of operating the dam’s ice-and-trash sluiceway during non-spill months to provide a relatively safe, non-turbine, surface outlet for overwintering steelhead fallbacks and downstream migrating steelhead kelts. We applied the fixed-location hydroacoustic technique to estimate fish passage rates at the sluiceway and turbines of the dam. The spillway was closed during our sampling periods, which generally occurred in late fall, winter, and early spring. The sluiceway was highly used by adult steelhead (91–99% of total fish sampled passing the dam) during all sampling periods. Turbine passage was low when the sluiceway was not operated. This implies that lack of a sluiceway route did not result in increased turbine passage. However, when the sluiceway was open, adult steelhead used it to pass through the dam. The sluiceway may be operated during late fall, winter, and early spring to provide an optimal, non-turbine route for adult steelhead (fallbacks and kelts) downstream passage at The Dalles Dam.

  1. A semi-automated method of monitoring dam passage of American Eels Anguilla rostrata

    Science.gov (United States)

    Welsh, Stuart A.; Aldinger, Joni L.

    2014-01-01

    Fish passage facilities at dams have become an important focus of fishery management in riverine systems. Given the personnel and travel costs associated with physical monitoring programs, automated or semi-automated systems are an attractive alternative for monitoring fish passage facilities. We designed and tested a semi-automated system for eel ladder monitoring at Millville Dam on the lower Shenandoah River, West Virginia. A motion-activated eel ladder camera (ELC) photographed each yellow-phase American Eel Anguilla rostrata that passed through the ladder. Digital images (with date and time stamps) of American Eels allowed for total daily counts and measurements of eel TL using photogrammetric methods with digital imaging software. We compared physical counts of American Eels with camera-based counts; TLs obtained with a measuring board were compared with TLs derived from photogrammetric methods. Data from the ELC were consistent with data obtained by physical methods, thus supporting the semi-automated camera system as a viable option for monitoring American Eel passage. Time stamps on digital images allowed for the documentation of eel passage time—data that were not obtainable from physical monitoring efforts. The ELC has application to eel ladder facilities but can also be used to monitor dam passage of other taxa, such as crayfishes, lampreys, and water snakes.

  2. Yellowfin Tuna (Thunnusalbacares Fishing Ground Forecasting Model Based On Bayes Classifier In The South China Sea

    Directory of Open Access Journals (Sweden)

    Zhou Wei-feng

    2017-08-01

    Full Text Available Using the yellowfin tuna (Thunnusalbacares,YFTlongline fishing catch data in the open South China Sea (SCS provided by WCPFC, the optimum interpolation sea surface temperature (OISST from CPC/NOAA and multi-satellites altimetric monthly averaged product sea surface height (SSH released by CNES, eight alternative options based on Bayes classifier were made in this paper according to different strategies on the choice of environment factors and the levels of fishing zones to classify the YFT fishing ground in the open SCS. The classification results were compared with the actual ones for validation and analyzed to know how different plans impact on classification results and precision. The results of validation showed that the precision of the eight options were 71.4%, 75%, 70.8%, 74.4%, 66.7%, 68.5%, 57.7% and 63.7% in sequence, the first to sixth among them above 65% would meet the practical application needs basically. The alternatives which use SST and SSH simultaneously as the environmental factors have higher precision than which only use single SST environmental factor, and the consideration of adding SSH can improve the model precision to a certain extent. The options which use CPUE’s mean ± standard deviation as threshold have higher precision than which use CPUE’s 33.3%-quantile and 66.7%-quantile as the threshold

  3. Modelling of a strong dust event in the complex terrain of the Dead Sea valley during the passage of a gust front

    Directory of Open Access Journals (Sweden)

    Pavel Kishcha

    2016-02-01

    Full Text Available The area of the Dead Sea valley and the adjacent regions are often affected by mineral dust. This study focuses on an extreme dust episode occurring on 22 March 2013, where near-surface dust concentrations of up to 7000 µg m−3 were encountered in the Dead Sea region. This episode is of great interest as it was accompanied by high wind speeds and a gust front that rapidly passed the Judean Mountains. Wind was even accelerated on the lee side of the Judean Mountains leading to a severe downslope wind. We simulated this situation with the comprehensive online-coupled weather forecast model COSMO-ART. Fair agreement was found between the simulated meteorological variables and the observations. The model was capable of producing a reasonable spatiotemporal distribution of near-surface dust concentration, consistent with available measurements in this area. With respect to the time of the maximum near-surface dust concentration in the Dead Sea valley, the model captured it almost perfectly compared to the observed total suspended particle (TSP concentrations. COSMO-ART showed that the high near-surface dust concentration in the Dead Sea valley was mainly determined by local emissions. These emissions were caused by strong winds on the lee side of the Judean Mts. The model showed that an ascending airflow in the Dead Sea valley lifted dust particles, originating mainly from the upwind side of the Judean Mts., up to approximately 7 km. These dust particles contributed to the pronounced maximum in modelled dust aerosol optical depth (AOD over the valley. Here we highlight the important point that the simulated maximum dust AOD was reached in the eastern part of the Dead Sea valley, while the maximum near-surface dust concentration was reached in the western part of the valley.

  4. Hydraulic modelling of fish habitat in urban rivers during high flows

    Science.gov (United States)

    Booker, D. J.

    2003-02-01

    In urban rivers, flow regime and channel morphology are the drivers of physical habitat quality for aquatic species. Peak discharges are increased at high flows as a result of impermeable catchments and channel engineering for flood protection schemes. Hazardous conditions and flashy hydrographs mean that measurement of velocities at high flows is a difficult task. This research uses a three-dimensional computational fluid dynamics (3D-CFD) model to simulate hydraulic patterns in two urban river channels. A 3D-CFD code, called SSIIM, was used to simulate hydraulic conditions in two engineered river reaches of the River Tame, Birmingham, UK. These two sites represent channels with different levels of engineering. Models were calibrated and tested using field measurements. Results show that modelled water surface levels and velocity profiles are well simulated. Calibrated roughness heights are compared with those derived from field measurement of sediment size. Numerical experiments are used to assess the relationship between grid resolution in the vertical dimension and the form of the modelled velocity profiles. Biologists have used laboratory experiments to determine maximum sustainable swimming speeds (MSSS) of fish, often in order to assess what level of a particular pollutant may be tolerable. In this work, simulations of high-flow hydraulic patterns are used to compare velocity patterns with fish MSSS. Results show that when the water levels rise to fill the first channel of the two-stage channels at the sites, which occurred 16 times in 2000, MSSS are surpassed in the majority of available habitat, suggesting that excessive velocities at high flows are one factor that limits fish habitat. A comparison between the two reaches shows that there is less available habitat in the more modified reach. Conclusions suggest that an approach that integrates water quality issues and physical channel characteristics must be taken in river rehabilitation schemes, as

  5. Fish model for assessing the in vivo estrogenic potency of the mycotoxin zearalenone and its metabolites.

    Science.gov (United States)

    Arukwe, A; Grotmol, T; Haugen, T B; Knudsen, F R; Goksøyr, A

    1999-09-15

    The in vivo estrogenic potency of zearalenone (ZEA), a mycotoxin produced by different strains of Fusarium fungi, and its metabolites (alpha- and beta-zearalenol), have been studied in fish. Estrogenicity was evaluated using an in vitro competitive receptor binding assay and in vivo induction of vitellogenesis and zonagenesis, two estrogen receptor (ER)-mediated responses that are integral aspects of fish oogenesis. The ER binding affinities of alpha-zearalenol and ZEA in rainbow trout (Oncorhynchus mykiss) were approximately 1/150 and 1/300 to that of estradiol, respectively. Juvenile salmon (Salmo salar) were exposed to a single intraperitoneal injection of ZEA, alpha-zearalenol and beta-zearalenol (each at 1 and 10 mg/kg) and compared to fish injected with estradiol-17 beta (E2; 5 mg/kg) and controls. Using indirect enzyme-linked immunosorbent assay (ELISA) with homologous antibodies, a dose-dependent induction of vitellogenin (Vtg) and eggshell zona radiata proteins (Zr-proteins) were observed 7 days after exposure to ZEA and alpha-zearalenol. beta-Zearalenol did not elevate plasma Vtg levels, but a non-significant elevation of plasma Zr-proteins levels was observed at the highest dose (10 mg/kg). Generally, alpha-zearalenol and ZEA possess estrogenic potencies that are approximately 50% compared to that of E2, and their order of estrogenic potency (in both in vitro receptor competitive binding and in vivo induction of Vtg and Zr-proteins levels) is: alpha-zearalenol > ZEA > beta-zearalenol. Our results show that blood plasma analysis of Vtg and Zr-proteins levels provides a suitable in vivo fish model for assessing the estrogenic potencies of ZEA and its metabolites.

  6. A fugacity-based toxicokinetic model for narcotic organic chemicals in fish.

    Science.gov (United States)

    Celsie, Alena; Mackay, Donald; Parnis, J Mark; Arnot, Jon A

    2016-05-01

    A novel dynamic fugacity-based model is described, developed, and tested that simulates the uptake of narcotic organic chemicals in fish from water as occurs in aquatic bioconcentration and toxicity tests. The physiologically based toxicokinetic model treats the time course of chemical distribution in 4 compartments (tissue groups) in the fish, including the liver, in which biotransformation may occur. In addition to calculating bioconcentration and toxicokinetics, 5 possible toxic endpoints are defined corresponding to chemical concentration, fugacity, or activity reaching a critical value that causes 50% mortality. The mathematical description of multicompartment uptake is simplified by expressing the equations in the fugacity format. The model is parameterized and tested against reported empirical data for the bioconcentration of pentachloroethane in rainbow trout and for uptake and mortality from aquatic exposures to naphthalene and 1,2,4-trichlorobenzene in fathead minnows. Model performance is evaluated, and it is concluded that with suitable parameterization it has potential for application for assessment of both bioconcentration and toxicity expressed as median lethal concentrations, critical body residues, and chemical activity as a function of time to death. © 2015 SETAC.

  7. N-mix for fish: estimating riverine salmonid habitat selection via N-mixture models

    Science.gov (United States)

    Som, Nicholas A.; Perry, Russell W.; Jones, Edward C.; De Juilio, Kyle; Petros, Paul; Pinnix, William D.; Rupert, Derek L.

    2018-01-01

    Models that formulate mathematical linkages between fish use and habitat characteristics are applied for many purposes. For riverine fish, these linkages are often cast as resource selection functions with variables including depth and velocity of water and distance to nearest cover. Ecologists are now recognizing the role that detection plays in observing organisms, and failure to account for imperfect detection can lead to spurious inference. Herein, we present a flexible N-mixture model to associate habitat characteristics with the abundance of riverine salmonids that simultaneously estimates detection probability. Our formulation has the added benefits of accounting for demographics variation and can generate probabilistic statements regarding intensity of habitat use. In addition to the conceptual benefits, model application to data from the Trinity River, California, yields interesting results. Detection was estimated to vary among surveyors, but there was little spatial or temporal variation. Additionally, a weaker effect of water depth on resource selection is estimated than that reported by previous studies not accounting for detection probability. N-mixture models show great promise for applications to riverine resource selection.

  8. Comparing distribution models for small samples of overdispersed counts of freshwater fish

    Science.gov (United States)

    Vaudor, Lise; Lamouroux, Nicolas; Olivier, Jean-Michel

    2011-05-01

    The study of species abundance often relies on repeated abundance counts whose number is limited by logistic or financial constraints. The distribution of abundance counts is generally right-skewed (i.e. with many zeros and few high values) and needs to be modelled for statistical inference. We used an extensive dataset involving about 100,000 fish individuals of 12 freshwater fish species collected in electrofishing points (7 m 2) during 350 field surveys made in 25 stream sites, in order to compare the performance and the generality of four distribution models of counts (Poisson, negative binomial and their zero-inflated counterparts). The negative binomial distribution was the best model (Bayesian Information Criterion) for 58% of the samples (species-survey combinations) and was suitable for a variety of life histories, habitat, and sample characteristics. The performance of the models was closely related to samples' statistics such as total abundance and variance. Finally, we illustrated the consequences of a distribution assumption by calculating confidence intervals around the mean abundance, either based on the most suitable distribution assumption or on an asymptotical, distribution-free (Student's) method. Student's method generally corresponded to narrower confidence intervals, especially when there were few (≤3) non-null counts in the samples.

  9. Zooplankton mortality in 3D ecosystem modelling considering variable spatial–temporal fish consumptions in the North Sea

    DEFF Research Database (Denmark)

    Maar, Marie; Rindorf, Anna; Møller, Eva Friis

    2014-01-01

    ), Atlantic mackerel (Scomber scombrus), sandeel (Ammodytidae) and European sprat (Sprattus sprattus) was derived from quarterly scientific trawl surveys and Danish commercial catches. Spatio-temporal indices of mortality were created based on the estimated biomasses and ingestion rates from the literature...... fish spawning distribution information and iii) physics (ocean currents and temperatures) for the region and situation of interest. The fish index seems promising as a realistic mortality term for lower trophic levels in 3D ecosystem models in areas with available data on fish stocks to improve...

  10. Biotransformation model of neutral and weakly polar organic compounds in fish incorporating internal partitioning.

    Science.gov (United States)

    Kuo, Dave T F; Di Toro, Dominic M

    2013-08-01

    A model for whole-body in vivo biotransformation of neutral and weakly polar organic chemicals in fish is presented. It considers internal chemical partitioning and uses Abraham solvation parameters as reactivity descriptors. It assumes that only chemicals freely dissolved in the body fluid may bind with enzymes and subsequently undergo biotransformation reactions. Consequently, the whole-body biotransformation rate of a chemical is retarded by the extent of its distribution in different biological compartments. Using a randomly generated training set (n = 64), the biotransformation model is found to be: log (HLφfish ) = 2.2 (±0.3)B - 2.1 (±0.2)V - 0.6 (±0.3) (root mean square error of prediction [RMSE] = 0.71), where HL is the whole-body biotransformation half-life in days, φfish is the freely dissolved fraction in body fluid, and B and V are the chemical's H-bond acceptance capacity and molecular volume. Abraham-type linear free energy equations were also developed for lipid-water (Klipidw ) and protein-water (Kprotw ) partition coefficients needed for the computation of φfish from independent determinations. These were found to be 1) log Klipidw  = 0.77E - 1.10S - 0.47A - 3.52B + 3.37V + 0.84 (in Lwat /kglipid ; n = 248, RMSE = 0.57) and 2) log Kprotw  = 0.74E - 0.37S - 0.13A - 1.37B + 1.06V - 0.88 (in Lwat /kgprot ; n = 69, RMSE = 0.38), where E, S, and A quantify dispersive/polarization, dipolar, and H-bond-donating interactions, respectively. The biotransformation model performs well in the validation of HL (n = 424, RMSE = 0.71). The predicted rate constants do not exceed the transport limit due to circulatory flow. Furthermore, the model adequately captures variation in biotransformation rate between chemicals with varying log octanol-water partitioning coefficient, B, and V and exhibits high degree of independence from the choice of training chemicals. The

  11. Effects of non-uniform stiffness on the swimming performance of a passively-flexing, fish-like foil model.

    Science.gov (United States)

    Lucas, Kelsey N; Thornycroft, Patrick J M; Gemmell, Brad J; Colin, Sean P; Costello, John H; Lauder, George V

    2015-10-08

    Simple mechanical models emulating fish have been used recently to enable targeted study of individual factors contributing to swimming locomotion without the confounding complexity of the whole fish body. Yet, unlike these uniform models, the fish body is notable for its non-uniform material properties. In particular, flexural stiffness decreases along the fish's anterior-posterior axis. To identify the role of non-uniform bending stiffness during fish-like propulsion, we studied four foil model configurations made by adhering layers of plastic sheets to produce discrete regions of high (5.5 × 10(-5) Nm(2)) and low (1.9 × 10(-5) Nm(2)) flexural stiffness of biologically-relevant magnitudes. This resulted in two uniform control foils and two foils with anterior regions of high stiffness and posterior regions of low stiffness. With a mechanical flapping foil controller, we measured forces and torques in three directions and quantified swimming performance under both heaving (no pitch) and constant 0° angle of attack programs. Foils self-propelled at Reynolds number 21 000-115 000 and Strouhal number ∼0.20-0.25, values characteristic of fish locomotion. Although previous models have emphasized uniform distributions and heaving motions, the combination of non-uniform stiffness distributions and 0° angle of attack pitching program was better able to reproduce the kinematics of freely-swimming fish. This combination was likewise crucial in maximizing swimming performance and resulted in high self-propelled speeds at low costs of transport and large thrust coefficients at relatively high efficiency. Because these metrics were not all maximized together, selection of the 'best' stiffness distribution will depend on actuation constraints and performance goals. These improved models enable more detailed, accurate analyses of fish-like swimming.

  12. A comparison of the embryonic stem cell test and whole embryo culture assay combined with the BeWo placental passage model for predicting the embryotoxicity of azoles.

    Science.gov (United States)

    Dimopoulou, Myrto; Verhoef, Aart; Gomes, Caroline A; van Dongen, Catharina W; Rietjens, Ivonne M C M; Piersma, Aldert H; van Ravenzwaay, Bennard

    2018-04-01

    In the present study, we show the value of combining toxico-dynamic and -kinetic in vitro approaches for embryotoxicity testing of azoles. Both the whole embryo culture (WEC) and the embryonic stem cells test (EST) predicted the in vivo potency ranking of twelve tested azoles with moderate accuracy. Combining these results with relative placental transfer rates (Papp values) as determined in the BeWo cell culture model, increased the predictability of both WEC and EST, with R 2 values increasing from 0.51 to 0.87 and from 0.35 to 0.60, respectively. The comparison of these in vitro systems correlated well (R 2  = 0.67), correctly identifying the in vivo strong and weak embryotoxicants. Evaluating also specific gene responses related with the retinoic acid and sterol biosynthesis pathways, which represent the toxicological and fungicidal mode of action of azoles respectively in the WEC and EST, we observed that the differential regulation of Dhrs3 and Msmo1 reached higher magnitudes in both systems compared to Cyp26a1 and Cyp51. Establishing sensitive biomarkers across the in vitro systems for studying the underlying mechanism of action of chemicals, such as azoles, is valuable for comparing alternative in vitro models and for improving insight in the mechanism of developmental toxicity of chemicals. Copyright © 2018 The Author(s). Published by Elsevier B.V. All rights reserved.

  13. Acoustic Telemetry Evaluation of Juvenile Salmonid Passage and Survival Proportions at John Day Dam, 2009

    Energy Technology Data Exchange (ETDEWEB)

    Weiland, Mark A.; Ploskey, Gene R.; Hughes, James S.; Deng, Zhiqun; Fu, Tao; Kim, Jin A.; Johnson, Gary E.; Fischer, Eric S.; Khan, Fenton; Zimmerman, Shon A.; Faber, Derrek M.; Carter, Kathleen M.; Boyd, James W.; Townsend, Richard L.; Skalski, J. R.; Monter, Tyrell J.; Cushing, Aaron W.; Wilberding, Matthew C.; Meyer, Matthew M.

    2011-09-28

    The overall purpose of the acoustic telemetry study at JDA during 2009 was to determine the best configuration and operation for JDA prior to conducting BiOp performance standard tests. The primary objective was to determine the best operation between 30% and 40% spill treatments. Route-specific and JDA to TDA forebay survival estimates, passage distribution, and timing/behavior metrics were used for comparison of 30% to a 40% spill treatments. A secondary objective was to evaluate the performance of TSWs installed in spill bays 15 and 16 and to estimate fish survival rates and passage efficiencies under 30% and 40% spill-discharge treatments each season.

  14. Modelling the fate of pesticides in paddy rice-fish pond farming system in Northern Vietnam

    Science.gov (United States)

    Lamers, M.; Nguyen, N.; Streck, T.

    2012-04-01

    During the last decade rice production in Vietnam has tremendously increased due to the introduction of new high yield, short duration rice varieties and an increased application of pesticides. Since pesticides are toxic by design, there is a natural concern on the possible impacts of their presence in the environment on human health and environment quality. In North Vietnam, lowland and upland rice fields were identified to be a major non-point source of agrochemical pollution to surface and ground water, which are often directly used for domestic purposes. Field measurements, however, are time consuming, costly and logistical demanding. Hence, quantification, forecast and risk assessment studies are hampered by a limited amount of field data. One potential way to cope with this shortcoming is the use of process-based models. In the present study we developed a model for simulating short-term pesticide dynamics in combined paddy rice field - fish pond farming systems under the specific environmental conditions of south-east Asia. Basic approaches and algorithms to describe the key underlying biogeochemical processes were mainly adopted from the literature to assure that the model reflects the current standard of scientific knowledge and commonly accepted theoretical background. The model was calibrated by means of the Gauss-Marquardt-Levenberg algorithm and validated against measured pesticide concentrations (dimethoate and fenitrothion) during spring and summer rice crop season 2008, respectively, of a paddy field - fish pond system typical for northern Vietnam. First simulation results indicate that our model is capable to simulate the fate of pesticides in such paddy - fish pond farming systems. The model efficiency for the period of calibration, for example, was 0.97 and 0.95 for dimethoate and fenitrothion, respectively. For the period of validation, however, the modeling efficiency slightly decreased to 0.96 and 0.81 for dimethoate and fenitrothion

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

    Science.gov (United States)

    Wente, Stephen P.

    2004-01-01

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

  16. Using ergonomics digital human modeling in evaluation of workplaces design and prevention of occupational hazards onboard fishing vessel

    OpenAIRE

    Zhang, Bing; Álvarez Casado, Enrique; Tello Sandoval, Sonia; Rodríguez Mondelo, Pedro Manuel

    2010-01-01

    This paper seeks to present methods for improving the occupational health and safety of Spanish fishermen, and for redesigning the workplace onboard small fishing vessels. To achieve its objective, the research project was designed in four steps: First, the equipment and procedures for catching, handling, and storing fish was studied. Second, the work postures of all the fishermen were simulated and assessed by using an ergonomic digital human modeling system (ManneQuin Pro). Third, the wo...

  17. Development and application of a low volume, increased throughput in vitro model simulating the passage through small intestine

    DEFF Research Database (Denmark)

    Cieplak, Tomasz Maciej

    The gastrointestinal tract (GIT) is an organ system responsible for food digestion, absorption of nutrients and the expelling of waste. Due to a high demand for testing the intestinal faith of pharmaceutical and bioactive food formulations, there is great interest from food, bioscience...... in vitro model of the small intestine (duodenum, jejunum, ileum) as a screening platform for the study of food digestibility, intestinal survival of probiotics and absorption of drugs and small nutrients. The GIT harbours a vast number of microorganisms called the gut microbiota. These bacteria...... are unevenly distributed along the GIT, ranging from 101-103 cells/g in the stomach, through 103-108 cells/g in the small intestine and up to 1012 cells/g in the colon. In the last decade, numerous studies have been conducted focussing on the faecal microbiota composition and its impact on the host health...

  18. Fire passage on geomorphic fractures in Cerrado: effect on vegetation

    Directory of Open Access Journals (Sweden)

    Otacílio Antunes Santana

    2017-01-01

    Full Text Available Geomorphic fracture is a natural geologic formation that sometimes forms a deep fissure in the rock with the establishment of soil and vegetation. The objective of this work was to analyze vegetation within geomorphic fractures under the effect of wildfire passage. The biometric variables evaluated before and after fire passage were: diameter, height, leaf area index, timber volume, grass biomass, number of trees and shrubs and of species. Results (in fractures were compared to adjacent areas (control. The effect of wildfire passage on vegetation within geomorphic fractures was not significant because fire followed plant biomass bed and when it met the fracture (wetter, it changed from soil surface to canopy surface (jump fire effect, affecting without significance the number of plants or species; so, fracture could be plants refuge against fire passage. We could infer in our experimental model that quality of plant biomass bed could be more significant than quantity, and microclimate variability recruits plants to the refuge (geomorphic fracture.

  19. Development of a more fish tolerant turbine runner advanced hydropower turbine project. Final report

    Energy Technology Data Exchange (ETDEWEB)

    Cook, T.C.; Hecker, G.E. [Worcester Polytechnic Inst., Holden, MA (United States). Alden Research Lab.; Faulkner, H.B.; Jansen, W. [Northern Research and Engineering Corp., Cambridge, MA (United States)

    1997-01-01

    The Hidrostal pump is a single bladed combined screw/centrifugal pump which has been proven to transport fish with minimal injury. The focus of the ARL/NREC research project was to develop a new runner geometry which is effective in downstream fish passage and hydroelectric power generation. A flow of 1,000 cfs and a head in the range of 75 ft to 100 ft were selected for conceptual design of the new runner. Criteria relative to hydraulic characteristics which are favorable for fish passage were prepared based on a reassessment of the available information. Important criteria used to develop the new runner design included low pressure change rates, minimum absolute pressures, and minimum shear. Other criteria which are reflected in the runner design are a minimum number of blades (only two), minimum total length of leading edges, and large flow passages. Flow characteristics of the new runner were analyzed using two- dimensional and three-dimensional Computational Fluid Dynamic (CFD) models. The basic runner geometry was initially selected using the two-dimensional model. The three-dimensional model was used to investigate the flow characteristics in detail through the entire runner and to refine the design by eliminating potential problem areas at the leading and trailing edges. Results of the analyses indicated that the runner has characteristics which should provide safe fish passage with an overall power efficiency of approximately 90%. The size of the new runner, which is larger than conventional turbine runners with the same design flow and head, will provide engineering, fabrication, and installation.challenges related to the turbine components and the civil works. A small reduction in the overall efficiency would reduce the size of the runner considerably, would simplify the turbine manufacturing operations, and would allow installation of the new turbine at more hydroelectric sites.

  20. Metabolic biotransformation half-lives in fish: QSAR modeling and consensus analysis.

    Science.gov (United States)

    Papa, Ester; van der Wal, Leon; Arnot, Jon A; Gramatica, Paola

    2014-02-01

    Bioaccumulation in fish is a function of competing rates of chemical uptake and elimination. For hydrophobic organic chemicals bioconcentration, bioaccumulation and biomagnification potential are high and the biotransformation rate constant is a key parameter. Few measured biotransformation rate constant data are available compared to the number of chemicals that are being evaluated for bioaccumulation hazard and for exposure and risk assessment. Three new Quantitative Structure-Activity Relationships (QSARs) for predicting whole body biotransformation half-lives (HLN) in fish were developed and validated using theoretical molecular descriptors that seek to capture structural characteristics of the whole molecule and three data set splitting schemes. The new QSARs were developed using a minimal number of theoretical descriptors (n=9) and compared to existing QSARs developed using fragment contribution methods that include up to 59 descriptors. The predictive statistics of the models are similar thus further corroborating the predictive performance of the different QSARs; Q(2)ext ranges from 0.75 to 0.77, CCCext ranges from 0.86 to 0.87, RMSE in prediction ranges from 0.56 to 0.58. The new QSARs provide additional mechanistic insights into the biotransformation capacity of organic chemicals in fish by including whole molecule descriptors and they also include information on the domain of applicability for the chemical of interest. Advantages of consensus modeling for improving overall prediction and minimizing false negative errors in chemical screening assessments, for identifying potential sources of residual error in the empirical HLN database, and for identifying structural features that are not well represented in the HLN dataset to prioritize future testing needs are illustrated. © 2013.

  1. Skeptical notes on a physics of passage.

    Science.gov (United States)

    Huggett, Nick

    2014-10-01

    This paper investigates the mathematical representation of time in physics. In existing theories, time is represented by the real numbers, hence their formal properties represent properties of time: these are surveyed. The central question of the paper is whether the existing representation of time is adequate, or whether it can or should be supplemented: especially, do we need a physics incorporating some kind of "dynamical passage" of time? The paper argues that the existing mathematical framework is resistant to such changes, and might have to be rejected by anyone seeking a physics of passage. Then it rebuts two common arguments for incorporating passage into physics, especially the claim that it is an element of experience. Finally, the paper investigates whether, as has been claimed, causal set theory provides a physics of passage. © 2014 New York Academy of Sciences.

  2. Three-dimensional location of target fish by monocular infrared imaging sensor based on a L-z correlation model

    Science.gov (United States)

    Lin, Kai; Zhou, Chao; Xu, Daming; Guo, Qiang; Yang, Xinting; Sun, Chuanheng

    2018-01-01

    Monitoring of fish behavior has drawn extensive attention in pharmacological research, water environmental assessment, bio-inspired robot design and aquaculture. Given that an infrared sensor is low cost, no illumination limitation and electromagnetic interference, interest in its use in behavior monitoring has grown considerably, especially in 3D trajectory monitoring to quantify fish behavior on the basis of near infrared absorption of water. However, precise position of vertical dimension (z) remains a challenge, which greatly impacts on infrared tracking system accuracy. Hence, an intensity (L) and coordinate (z) correlation model was proposed to overcome the limitation. In the modelling process, two cameras (top view and side view) were employed synchronously to identify the 3D coordinate of each fish (x-y and z, respectively), and the major challenges were the distortion caused by the perspective effect and the refraction at water boundaries. Therefore, a coordinate correction formulation was designed firstly for the calibration. Then the L-z correlation model was established based on Lambert's absorption law and statistical data analysis, and the model was estimated through monitoring 3D trajectories of four fishes during the day and night. Finally, variations of individuals and limits of the depth detection of the model were discussed. Compared with previous studies, the favorable prediction performance of the model is achieved for 3D trajectory monitoring, which could provide some inspirations for fish behavior monitoring, especially for nocturnal behavior study.

  3. 50 years of first-passage percolation

    CERN Document Server

    Auffinger, Antonio; Hanson, Jack

    2017-01-01

    First-passage percolation (FPP) is a fundamental model in probability theory that has a wide range of applications to other scientific areas (growth and infection in biology, optimization in computer science, disordered media in physics), as well as other areas of mathematics, including analysis and geometry. FPP was introduced in the 1960s as a random metric space. Although it is simple to define, and despite years of work by leading researchers, many of its central problems remain unsolved. In this book, the authors describe the main results of FPP, with two purposes in mind. First, they give self-contained proofs of seminal results obtained until the 1990s on limit shapes and geodesics. Second, they discuss recent perspectives and directions including (1) tools from metric geometry, (2) applications of concentration of measure, and (3) related growth and competition models. The authors also provide a collection of old and new open questions. This book is intended as a textbook for a graduate course or as a...

  4. Migration depth and residence time of juvenile salmonids in the forebays of hydropower dams prior to passage through turbines or juvenile bypass systems: implications for turbine-passage survival.

    Science.gov (United States)

    Li, Xinya; Deng, Zhiqun D; Brown, Richard S; Fu, Tao; Martinez, Jayson J; McMichael, Geoffrey A; Skalski, John R; Townsend, Richard L; Trumbo, Bradly A; Ahmann, Martin L; Renholds, Jon F

    2015-01-01

    Little is known about the three-dimensional depth distributions in rivers of individually marked fish that are in close proximity to hydropower facilities. Knowledge of the depth distributions of fish approaching dams can be used to understand how vulnerable fish are to injuries such as barotrauma as they pass through dams. To predict the possibility of barotrauma injury caused by pressure changes during turbine passage, it is necessary to understand fish behaviour relative to acclimation depth in dam forebays as they approach turbines. A guiding study was conducted using high-resolution three-dimensional tracking results of salmonids implanted with Juvenile Salmon Acoustic Telemetry System transmitters to investigate the depth distributions of subyearling and yearling Chinook salmon (Oncorhynchus tshawytscha) and juvenile steelhead (Oncorhynchus mykiss) passing two dams on the Snake River in Washington State. Multiple approaches were evaluated to describe the depth at which fish were acclimated, and statistical analyses were performed on large data sets extracted from ∼28 000 individually tagged fish during 2012 and 2013. Our study identified patterns of depth distributions of juvenile salmonids in forebays prior to passage through turbines or juvenile bypass systems. This research indicates that the median depth at which juvenile salmonids approached turbines ranged from 2.8 to 12.2 m, with the depths varying by species/life history, year, location (which dam) and diel period (between day and night). One of the most enlightening findings was the difference in dam passage associated with the diel period. The amount of time that turbine-passed fish spent in the immediate forebay prior to entering the powerhouse was much lower during the night than during the day. This research will allow scientists to understand turbine-passage survival better and enable them to assess more accurately the effects of dam passage on juvenile salmon survival.

  5. Accounting for detectability in fish distribution models: an approach based on time-to-first-detection

    Directory of Open Access Journals (Sweden)

    Mário Ferreira

    2015-12-01

    Full Text Available Imperfect detection (i.e., failure to detect a species when the species is present is increasingly recognized as an important source of uncertainty and bias in species distribution modeling. Although methods have been developed to solve this problem by explicitly incorporating variation in detectability in the modeling procedure, their use in freshwater systems remains limited. This is probably because most methods imply repeated sampling (≥ 2 of each location within a short time frame, which may be impractical or too expensive in most studies. Here we explore a novel approach to control for detectability based on the time-to-first-detection, which requires only a single sampling occasion and so may find more general applicability in freshwaters. The approach uses a Bayesian framework to combine conventional occupancy modeling with techniques borrowed from parametric survival analysis, jointly modeling factors affecting the probability of occupancy and the time required to detect a species. To illustrate the method, we modeled large scale factors (elevation, stream order and precipitation affecting the distribution of six fish species in a catchment located in north-eastern Portugal, while accounting for factors potentially affecting detectability at sampling points (stream depth and width. Species detectability was most influenced by depth and to lesser extent by stream width and tended to increase over time for most species. Occupancy was consistently affected by stream order, elevation and annual precipitation. These species presented a widespread distribution with higher uncertainty in tributaries and upper stream reaches. This approach can be used to estimate sampling efficiency and provide a practical framework to incorporate variations in the detection rate in fish distribution models.

  6. The zebrafish model system in cardiovascular research: A tiny fish with mighty prospects

    Directory of Open Access Journals (Sweden)

    Kar Lai Poon

    2012-03-01

    Full Text Available The zebrafish Danio rerio, a tropical freshwater fish, belongs to the family of cyprinidae, which in the last 30 years has developed into a very popular model organism for studies of embryonic development and human diseases. Initially the zebrafish species has been selected on the basis of its small size of approximately 3-5 cm, its transparency during development and its high fertility, qualities first identified by George Stresinger, the founding father of zebrafish research [1]. The ability to house thousands of small fishes and the ease of screening mutations in the translucent embryos made it feasible to perform large-scale forward genetic screens in a vertebrate model organism. The abundance of eggs obtained, approximately 200 eggs per female per week, is ideal for genetic and statistical analysis. The mutagenesis screens performed in the early 1990s have led to the identification of genes important in vertebrate organogenesis in an unbiased fashion [2-3]. Many of the isolated mutants have now been fully characterized and the mutated genes mapped, as the zebrafish genome sequencing completes. The knowledge derived has led to a better understanding of the underlying genetic networks governing vertebrate development. More sophisticated phenotype-based screens have since been developed to screen for mutations in defined biological processes [4].

  7. Population persistence of stream fish in response to environmental change: integrating data and models across space

    Science.gov (United States)

    Letcher, B. H.; Schueller, P.; Bassar, R.; Coombs, J.; Rosner, A.; Sakrejda, K.; Kanno, Y.; Whiteley, A.; Nislow, K. H.

    2013-12-01

    For stream fishes, environmental variation is a key driver of individual body growth/movement/survival and, by extension, population dynamics. Identifying how stream fish respond to environmental variation can help clarify mechanisms responsible for population dynamics and can help provide tools to forecast relative resilience of populations across space. Forecasting dynamics across space is challenging, however, because it can be difficult to conduct enough studies with enough intensity to fully characterize broad-scale population response to environmental change. We have adopted a multi-scale approach, using detailed individual-based studies and analyses (integral projection matrix) to determine sensitivities of population growth to environmental variation combined with broad spatial data and analyses (occupancy and abundance models) to estimate patterns of population response across space. Population growth of brook trout was most sensitive to stream flow in the spring and winter, most sensitive to stream temperature in the fall and sensitive to both flow and temperature in the summer. High flow in the spring and winter had negative effects on population growth while high temperature had a negative effect in the fall. Flow had no effect when it was cold, but a positive effect when it was warm in the summer. Combined with occupancy and abundance models, these data give insight into the spatial structure of resilient populations and can help guide prioritization of management actions.

  8. Using Hidden Markov Models to characterise intermittent social behaviour in fish shoals

    Science.gov (United States)

    Bode, Nikolai W. F.; Seitz, Michael J.

    2018-02-01

    The movement of animals in groups is widespread in nature. Understanding this phenomenon presents an important problem in ecology with many applications that range from conservation to robotics. Underlying all group movements are interactions between individual animals and it is therefore crucial to understand the mechanisms of this social behaviour. To date, despite promising methodological developments, there are few applications to data of practical statistical techniques that inferentially investigate the extent and nature of social interactions in group movement. We address this gap by demonstrating the usefulness of a Hidden Markov Model approach to characterise individual-level social movement in published trajectory data on three-spined stickleback shoals ( Gasterosteus aculeatus) and novel data on guppy shoals ( Poecilia reticulata). With these models, we formally test for speed-mediated social interactions and verify that they are present. We further characterise this inferred social behaviour and find that despite the substantial shoal-level differences in movement dynamics between species, it is qualitatively similar in guppies and sticklebacks. It is intermittent, occurring in varying numbers of individuals at different time points. The speeds of interacting fish follow a bimodal distribution, indicating that they are either stationary or move at a preferred mean speed, and social fish with more social neighbours move at higher speeds, on average. Our findings and methodology present steps towards characterising social behaviour in animal groups.

  9. Design and dynamic modeling of electrorheological fluid-based variable-stiffness fin for robotic fish

    Science.gov (United States)

    Bazaz Behbahani, Sanaz; Tan, Xiaobo

    2017-08-01

    Fish actively control their stiffness in different swimming conditions. Inspired by such an adaptive behavior, in this paper we study the design, prototyping, and dynamic modeling of compact, tunable-stiffness fins for robotic fish, where electrorheological (ER) fluid serves as the enabling element. A multi-layer composite fin with an ER fluid core is prototyped and utilized to investigate the influence of electrical field on its performance. Hamilton's principle is used to derive the dynamic equations of motion of the flexible fin, and Lighthill's large-amplitude elongated-body theory is adopted to estimate the hydrodynamic force when the fin undergoes base-actuated rotation. The dynamic equations are then discretized using the finite element method, to obtain an approximate numerical solution. Experiments are conducted on the prototyped flexible ER fluid-filled beam for parameter identification and validation of the proposed model, and for examining the effectiveness of electrically controlled stiffness tuning. In particular, it is found that the natural frequency is increased by almost 40% when the applied electric field changes from 0 to 1.5× {10}6 {{V}} {{{m}}}-1.

  10. Thermal modeling and parametric studies of a greenhouse fish pond in the Central Himalayan Region

    International Nuclear Information System (INIS)

    Sarkar, Bikash; Tiwari, G.N.

    2006-01-01

    This study describes the thermal modeling and its validation of greenhouse fish pond systems. Numerical computations have been performed for a typical day in the month of June, 2005, for the climatic condition of Champawat in the Central Himalayan Region. The energy balance equations have been written considering the effects of conduction, convection, radiation, evaporation and ventilation. The governing equations are numerically solved with Matlab 7.0 software to predict the water temperature. A parametric study has also been performed to find the effects of various parameters, namely the number of air changes per hour, the transmissivity (τ) and the isothermal mass and height of the greenhouse. It is observed that there is no significant effect in the parametric studies on water temperature due to the larger isothermal mass. The model has been validated with experimental data. On an average, the even span passive greenhouse fish pond can increase the inside temperature 4.14 deg. C higher than the temperature of an outdoor pond. Statistical analysis shows that the predicted and experimental values of water temperature exhibited fair agreement with a coefficient of correlation r = 0.90 and root mean square percent deviation e = 1.67%

  11. Snakehead-fish cell line, SSN-1 (Ophicephalus striatus) as a model for cadmium genotoxicity testing.

    Science.gov (United States)

    Aramphongphan, A; Laovitthayanggoon, S; Himakoun, L

    2009-08-01

    The purpose of this study is to evaluate the potential of snakehead-fish cell line (SSN-1 cells) derived from a striped snakehead (Ophicephalus striatus) as a model in the genotoxic assessment of cadmium (Cd). The first approach employed was to determine the contaminated Cd levels in commercial snakehead fish by the Graphite Atomic Absorption Spectrophotometer. In the second approach, the sensitivity of SSN-1 cells to cytotoxicity and genotoxicity of Cd was assessed by Trypan blue and micronucleus assays following 24, 48, and 72 h of incubation period. Exposure of SSN-1 cells to four increasing Cd concentrations ranging from 0.005 to 5 ppm for 72 h did not affect their survival as compared to the control cells. The Cd uptake by SSN-1 cells showed a concentration-dependent increase in intracellular Cd levels. Three non-cytotoxic Cd concentrations (0.05, 0.5, and 5 ppm) showed a concentration-dependent genotoxic effect, compared to relevant control cells. Both micronucleus frequencies and cadmium uptake levels by SSN-1 cells depended on exposure concentrations. These results showed that the SSN-1 cells are suitable for use as a model for in vitro Cd genotoxicity testing.

  12. The Specifics and Non-Specifics of using Small Interfering RNAs for Targeting of Viral Genes in a Fish Model

    DEFF Research Database (Denmark)

    Schyth, Brian Dall

    2007-01-01

    , and to a lesser degree naked siRNAs, primarily entered free intraperitoneal cells including macrophage-like cells. Furthermore uptake correlated with antiviral activity seen as reduced mortality of fish challenged with VHSV. Protection at the disease level was not dependent upon which one of three tested si......RNAs was used and protection correlated with up-regulation of an interferon-related gene in the liver indicating a systemic interferon response. The results show the validity of the fish model for testing delivery and non-specific effects of siRNAs in a high throughput vertebrate model. The purchase......A novel in vivo-model composed of small juvenile rainbow trout and a fish-pathogenic virus is suggested to analyze delivery and antiviral effect of formulated siRNAs. This model was used for testing delivery of intraperitoneally injected siRNAs formulated in polycationic liposomes. These...

  13. Potential for Combined Biocontrol Activity against Fungal Fish and Plant Pathogens by Bacterial Isolates from a Model Aquaponic System

    Directory of Open Access Journals (Sweden)

    Ivaylo Sirakov

    2016-11-01

    Full Text Available One of the main challenges in aquaponics is disease control. One possible solution for this is biological control with organisms exerting inhibitory effects on fish and plant pathogens. The aim of this study was to examine the potential of isolating microorganisms that exert an inhibitory effect on both plant and fish pathogens from an established aquaponic system. We obtained 924 isolates on selective King’s B agar and 101 isolates on MRS agar from different compartments of a model aquaponic system and tested them for antagonism against the plant pathogen Pythium ultimum and fish pathogen Saprolegnia parasitica. Overall, 42 isolates were able to inhibit both fungi. Although not yet tested in vivo, these findings open new options for the implementation of biological control of diseases in aquaponics, where plants and fish are cultivated in the same water recirculating system.

  14. Effects of docosahexaenoic acid and methylmercury on child's brain development due to consumption of fish by Finnish mother during pregnancy: a probabilistic modeling approach.

    Science.gov (United States)

    Leino, O; Karjalainen, A K; Tuomisto, J T

    2013-04-01

    Fish contains both beneficial substances e.g. docosahexaenoic acids but also harmful compounds e.g. methylmercury. Importantly, the health effects caused by these two substances can be evaluated in one common end point, intelligence quotient (IQ), providing a more transparent analysis. We estimated health effects of maternal fish consumption on child's central nervous system by creating a model with three alternative maternal fish consumption scenarios (lean fish, fatty fish, and current fish consumption). Additionally, we analyzed impacts of both regular fish consumption and extreme fish consumption habits. At the individual level, the simulated net effects were small, encompassing a range of one IQ point in all scenarios. Fatty fish consumption, however, clearly generated a beneficial net IQ effect, and lean fish consumption evoked an adverse net IQ effect. In view of the current fish consumption pattern of Finnish mothers the benefits and risks seem to more or less compensate each other. This study clearly shows the significance of which fish species are consumed during pregnancy and lactation, and the results can be generalized to apply to typical western population fish consumption habits. Copyright © 2011 Elsevier Ltd. All rights reserved.

  15. Understanding Fish Linear Acceleration Using an Undulatory Biorobotic Model with Soft Fluidic Elastomer Actuated Morphing Median Fins.

    Science.gov (United States)

    Wen, Li; Ren, Ziyu; Di Santo, Valentina; Hu, Kainan; Yuan, Tao; Wang, Tianmiao; Lauder, George V

    2018-04-10

    Although linear accelerations are an important common component of the diversity of fish locomotor behaviors, acceleration is one of the least-understood aspects of propulsion. Analysis of acceleration behavior in fishes with both spiny and soft-rayed median fins demonstrates that fin area is actively modulated when fish accelerate. We implemented an undulatory biomimetic robotic fish model with median fins manufactured using multimaterial three-dimensional printing-a spiny-rayed dorsal fin, soft-rayed dorsal/anal fins, and a caudal fin-whose stiffnesses span three orders of magnitude. We used an array of fluidic elastomeric soft actuators to mimic the dorsal/anal inclinator and erector/depressor muscles of fish, which allowed the soft fins to be erected or folded within 0.3 s. We experimentally show that the biomimetic soft dorsal/anal fin can withstand external loading. We found that erecting the soft dorsal/anal fins significantly enhanced the linear acceleration rate, up to 32.5% over the folded fin state. Surprisingly, even though the projected area of the body (in the lateral plane) increased 16.9% when the median fins were erected, the magnitude of the side force oscillation decreased by 24.8%, which may have led to significantly less side-to-side sway in the robotic swimmer. Visualization of fluid flow in the wake of median fins reveals that during linear acceleration, the soft dorsal fin generates a wake flow opposite in direction to that of the caudal fin, which creates propulsive jets with time-variant circulations and jet angles. Erectable/foldable fins provide a new design space for bioinspired underwater robots with structures that morph to adapt to different locomotor behaviors. This biorobotic fish model is also a potentially promising system for studying the dynamics of complex multifin fish swimming behaviors, including linear acceleration, steady swimming, and burst and coast, which are difficult to analyze in freely swimming fishes.

  16. Transgenic medaka fish as models to analyze bone homeostasis under micro-gravity conditions in vivo

    Science.gov (United States)

    Winkler, C.; Wagner, T.; Renn, J.; Goerlich, R.; Schartl, M.

    Long-term space flight and microgravity results in bone loss that can be explained by reduced activity of bone-forming osteoblast cells and/or an increase in activity of bone resorbing osteoclast cells. Osteoprotegerin (OPG), a secreted protein of 401 amino acids, has been shown to regulate the balance between osteoblast and osteoclast formation and thereby warrants constant bone mass under normal gravitational conditions. Consistent with this, earlier reports using transgenic mice have shown that increased activation of OPG leads to exc essive bone formation (osteopetrosis), while inactivation of OPG leads to bone loss (osteoporosis). Importantly, it has recently been reported that expression of murine OPG is regulated by vector averaged gravity (Kanematsu et al., 2002, Bone 30, p553). The small bony fish medaka (Oryzias latipes ) has attracted increasing attention as genetic model system to study developmental and pathological processes. To analyze the molecular mechanisms of bone formation in this small vertebrate, we have isolated two related genes, opr-1 and opr -2, from medaka. Our phylogenetic analysis revealed that both genes originated from a common ancestor by fish-specific gene duplication and represent the orthologs of the mammalian OPG gene. Both opr genes are differentially expressed during embryonic and larval development, in adult tissues and in cultured primary osteoblast cells. We have characterized their promoter regions and identified consensus binding sites for transcription factors of the bone-morphogenetic-protein (BMP) p thway and for core-binding-factor-1Aa (cbfa1). Cbfa1 has been shown to be the key regulator of OPG expression during several steps of osteoblast differentiation in mammals. This opens the possibility that the mechanisms controlling bone formation in teleost fish and higher vertebrates are regulated by related mechanisms. We are currently generating transgenic medakafish expressing a GFP reporter gene under control of the

  17. Environmental niche models for riverine desert fishes and their similarity according to phylogeny and functionality

    Science.gov (United States)

    Whitney, James E.; Whittier, Joanna B.; Paukert, Craig

    2017-01-01

    Environmental filtering and competitive exclusion are hypotheses frequently invoked in explaining species' environmental niches (i.e., geographic distributions). A key assumption in both hypotheses is that the functional niche (i.e., species traits) governs the environmental niche, but few studies have rigorously evaluated this assumption. Furthermore, phylogeny could be associated with these hypotheses if it is predictive of functional niche similarity via phylogenetic signal or convergent evolution, or of environmental niche similarity through phylogenetic attraction or repulsion. The objectives of this study were to investigate relationships between environmental niches, functional niches, and phylogenies of fishes of the Upper (UCRB) and Lower (LCRB) Colorado River Basins of southwestern North America. We predicted that functionally similar species would have similar environmental niches (i.e., environmental filtering) and that closely related species would be functionally similar (i.e., phylogenetic signal) and possess similar environmental niches (i.e., phylogenetic attraction). Environmental niches were quantified using environmental niche modeling, and functional similarity was determined using functional trait data. Nonnatives in the UCRB provided the only support for environmental filtering, which resulted from several warmwater nonnatives having dam number as a common predictor of their distributions, whereas several cool- and coldwater nonnatives shared mean annual air temperature as an important distributional predictor. Phylogenetic signal was supported for both natives and nonnatives in both basins. Lastly, phylogenetic attraction was only supported for native fishes in the LCRB and for nonnative fishes in the UCRB. Our results indicated that functional similarity was heavily influenced by evolutionary history, but that phylogenetic relationships and functional traits may not always predict the environmental distribution of species. However, the

  18. Chronic granulomatous inflammation in teleost fish Piaractus mesopotamicus: histopathology model study

    Directory of Open Access Journals (Sweden)

    Wilson G Manrique

    2017-01-01

    Full Text Available Objective. This study evaluated the cell kinetic and formation of granuloma during chronic inflammation induced by Bacillus Calmette-Guérin (BCG in the skeletal muscle of Piaractus mesopotamicus, as a histopathology model to study innate immunity. Materials and methods. Sixty fish were divided in two groups: BCG-inoculated and non-inoculated fish and the inflammatory response analyzed 3, 7, 14, 21 and 33 days post-inoculation (DPI by histopathology after hematoxylin-eosin and Ziehl-Neelsen staining. Results. 3 DPI of BCG showed a diffuse inflammatory reaction mostly composed by mononuclear cells. The inflammation continued diffuse 7 DPI initiating the cellular organization surrounding the inoculum and have continued at 14 DPI with discrete presence of epithelioid-like type cells with acidophilic cytoplasm and floppy chromatin. Higher cellular organization (21 DPI surrounding the granuloma with intense peripheral mononuclear inflammatory infiltrate and nevertheless, an increase in the number of fibroblasts and macrophage-like cells was observed. The inflammatory process became less diffuse 33 DPI with formation of small amount of granuloma surrounded by the same type of reaction found in bigger granuloma. Both the young and old granuloma presented typical characteristic around the inoculum composed by a layer of epithelioid-like type cells, besides macrophages, some lymphocytes and abundant fibroblasts. Conclusions. This study showed the feasibility in the use of pacus to study chronic granulomatous inflammatory response induced by BCG, characterized by changes in the kinetics of inflammatory cells in skeletal muscle classifying as immune-epithelioid type, similar to granulomatous inflammation caused by M. marinum in teleost fish.

  19. TREX13: Mid-Frequency Measurements and Modeling of Scattering by Fish

    Science.gov (United States)

    2015-09-30

    Scattering by Fish Timothy K. Stanton Applied Ocean Physics and Engineering Department Woods Hole Oceanographic Institution Bigelow 201, MS #11...TREX13 program concerns characterizing the contributions of acoustic scattering by fish to the reverberation. The clutter characteristics of the fish ...Panama City, Florida. The program is led by APL:UW (Tang/Heffner) and details of the experiment are in their report. A key element of the fish

  20. Physiology-based modelling approaches to characterize fish habitat suitability: Their usefulness and limitations

    Science.gov (United States)

    Teal, Lorna R.; Marras, Stefano; Peck, Myron A.; Domenici, Paolo

    2018-02-01

    Models are useful tools for predicting the impact of global change on species distribution and abundance. As ectotherms, fish are being challenged to adapt or track changes in their environment, either in time through a phenological shift or in space by a biogeographic shift. Past modelling efforts have largely been based on correlative Species Distribution Models, which use known occurrences of species across landscapes of interest to define sets of conditions under which species are likely to maintain populations. The practical advantages of this correlative approach are its simplicity and the flexibility in terms of data requirements. However, effective conservation management requires models that make projections beyond the range of available data. One way to deal with such an extrapolation is to use a mechanistic approach based on physiological processes underlying climate change effects on organisms. Here we illustrate two approaches for developing physiology-based models to characterize fish habitat suitability. (i) Aerobic Scope Models (ASM) are based on the relationship between environmental factors and aerobic scope (defined as the difference between maximum and standard (basal) metabolism). This approach is based on experimental data collected by using a number of treatments that allow a function to be derived to predict aerobic metabolic scope from the stressor/environmental factor(s). This function is then integrated with environmental (oceanographic) data of current and future scenarios. For any given species, this approach allows habitat suitability maps to be generated at various spatiotemporal scales. The strength of the ASM approach relies on the estimate of relative performance when comparing, for example, different locations or different species. (ii) Dynamic Energy Budget (DEB) models are based on first principles including the idea that metabolism is organised in the same way within all animals. The (standard) DEB model aims to describe

  1. Modeling energy flow in a large Neotropical reservoir: a tool do evaluate fishing and stability

    Directory of Open Access Journals (Sweden)

    Ronaldo Angelini

    Full Text Available Recently, there is an increasing perception that the ecosystem approach gives important insights to support fisheries stock assessment and management. This paper aims to quantify energy flows in the Itaipu Reservoir (Brazil and to simulate increase of the fishing effort of some species, using Ecopath with Ecosim software, which could allow inferences on stability. Therefore, two steady-state Itaipu models were built (1983-87 and 1988-92. Results showed that: a there are no differences between models, and results on aging trends do not vary over time indicating that fishery does not alter the ecosystem as a whole; b results of fisheries simulations are approximate to mono-specific stock assessment for the same species and periods; c many authors believe that tropical ecosystems are environments where biotic and abiotic oscillations are annual and sometimes unexpected, but the results found for the Itaipu Reservoir indicate that stability was met after 16 years.

  2. Development and Validation of a Biodynamic Model for Mechanistically Predicting Metal Accumulation in Fish-Parasite Systems.

    Directory of Open Access Journals (Sweden)

    T T Yen Le

    Full Text Available Because of different reported effects of parasitism on the accumulation of metals in fish, it is important to consider parasites while interpreting bioaccumulation data from biomonitoring programmes. Accordingly, the first step is to take parasitism into consideration when simulating metal bioaccumulation in the fish host under laboratory conditions. In the present study, the accumulation of metals in fish-parasite systems was simulated by a one-compartment toxicokinetic model and compared to uninfected conspecifics. As such, metal accumulation in fish was assumed to result from a balance of different uptake and loss processes depending on the infection status. The uptake by parasites was considered an efflux from the fish host, similar to elimination. Physiological rate constants for the uninfected fish were parameterised based on the covalent index and the species weight while the parameterisation for the infected fish was carried out based on the reported effects of parasites on the uptake kinetics of the fish host. The model was then validated for the system of the chub Squalius cephalus and the acanthocephalan Pomphorhynchus tereticollis following 36-day exposure to waterborne Pb. The dissolved concentration of Pb in the exposure tank water fluctuated during the exposure, ranging from 40 to 120 μg/L. Generally, the present study shows that the one-compartment model can be an effective method for simulating the accumulation of metals in fish, taking into account effects of parasitism. In particular, the predicted concentrations of Cu, Fe, Zn, and Pb in the uninfected chub as well as in the infected chub and the acanthocephalans were within one order of magnitude of the measurements. The variation in the absorption efficiency and the elimination rate constant of the uninfected chub resulted in variations of about one order of magnitude in the predicted concentrations of Pb. Inclusion of further assumptions for simulating metal accumulation

  3. Comparison of three fish bioaccumulation models for ecological and human risk assessment and validation with field data

    NARCIS (Netherlands)

    Smitkova, H.; Huijbregts, M.A.J.; Hendriks, A.J.

    2005-01-01

    This article compares two bioconcentration Quantitative Structure Activity Relationships ( QSARs) for fish applied in human risk assessments with the mechanistic bioaccumulation model OMEGA and field data. It was found that all models are virtually similar up to a Kow of 10(6). For substances with a

  4. Global Exponential Stability of Positive Almost Periodic Solutions for a Fishing Model with a Time-Varying Delay

    Directory of Open Access Journals (Sweden)

    Hong Zhang

    2014-01-01

    Full Text Available This paper is concerned with a nonautonomous fishing model with a time-varying delay. Under proper conditions, we employ a novel argument to establish a criterion on the global exponential stability of positive almost periodic solutions of the model with almost periodic coefficients and delays. Moreover, an example and its numerical simulation are given to illustrate the main results.

  5. Acoustically Induced Streaming Flows near a Model Cod Otolith and their Potential Implications for Fish Hearing

    Energy Technology Data Exchange (ETDEWEB)

    Kotas, Charlotte W [ORNL; Rogers, Peter [Georgia Institute of Technology; Yoda, Minami [Georgia Institute of Technology

    2011-01-01

    The ears of fishes are remarkable sensors for the small acoustic disturbances associated with underwater sound. For example, each ear of the Atlantic cod (Gadus morhua) has three dense bony bodies (otoliths) surrounded by fluid and tissue, and detects sounds at frequencies from 30 to 500 Hz. Atlantic cod have also been shown to localize sounds. However, how their ears perform these functions is not fully understood. Steady streaming, or time-independent, flows near a 350% scale model Atlantic cod otolith immersed in a viscous fluid were studied to determine if these fluid flows contain acoustically relevant information that could be detected by the ear s sensory hair cells. The otolith was oscillated sinusoidally at various orientations at frequencies of 8 24 Hz, corresponding to an actual frequency range of 280 830 Hz. Phaselocked particle pathline visualizations of the resulting flows give velocity, vorticity, and rate of strain fields over a single plane of this mainly two-dimensional flow. Although the streaming flows contain acoustically relevant information, the displacements due to these flows are likely too small to explain Atlantic cod hearing abilities near threshold. The results, however, may suggest a possible mechanism for detection of ultrasound in some fish species.

  6. The effects of turbine passage on C-start behavior of salmon at the Wanapum Dam, Washington

    Energy Technology Data Exchange (ETDEWEB)

    Cada, Glenn F. [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Ryon, Michael G. [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Smith, John G. [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Luckett, Cloe A. [Oak Ridge Inst. for Science and Education (ORISE), Oak Ridge, TN (United States)

    2006-06-01

    In 2005, Grant County Public Utility District No. 2 (GCPUD) replaced one of the 10 Kaplan turbines at Wanapum Dam with an advanced turbine that was developed with support from the U.S. Department of Energy’s Advanced Hydropower Turbine System Program. Compared to a conventional Kaplan turbine, the advanced minimum gap runner (MGR) turbine is predicted to have lower values for several potential fish injury mechanisms, and therefore was expected to improve turbine-passage fish survival. Fish survival tests of the new turbine were carried out by GCPUD between February and April 2005. A total of 8,960 tagged juvenile summer Chinook salmon were used to quantify the differences in direct mortality associated with turbine passage for the new and old turbines. There were few test conditions in which the study was noted a distinct difference between the old Kaplan turbine and the new MGR turbine on the basis of changes in the escape behavior of uninjured fish.

  7. The Transtheoretical model for fruit, vegetable and fish consumption: associations between intakes, stages of change and stage transition determinants

    Directory of Open Access Journals (Sweden)

    de Vries Nanne K

    2006-06-01

    Full Text Available Abstract Background Cardiovascular diseases are caused by multiple behavioral factors, including different dietary factors. We examined to what extent fruit, vegetable and fish consumption are related, and whether behavioral determinants vary across these dietary behaviors from a Transtheoretical model perspective. Methods Data were collected among 1142 participants (T0; response rate 46% selected from an Internet panel, who were followed-up one-week later (T1; N = 1055, response rate 92%. Mean age was 35.4 (SD = 11.9 years, 35% was male, and most respondents were of Dutch origin (90%. Of the respondents, 13%, 44% and 43% had a low, medium or high level of education, respectively. Electronic questionnaires assessed fruit, vegetable and fish intake (food frequency questionnaires, stages of change, decisional balance and self-efficacy, for each of these three behaviors. Results Stages of change and (changes in fruit, vegetable and fish intake were only weakly associated; decisional balance and self-efficacy were more strongly associated. Some presumed predictors of stage transitions were similar for fruit, vegetable, and fish intake, i.e., strong pros predicted progress out of precontemplators and low self-efficacy predicted relapse from action/maintenance for all behaviors. However, progress out of contemplation and out of preparation showed different patterns for fruit, vegetable and fish intake. Conclusion The weak associations between intakes and potential determinants for fruit, vegetable, and fish consumption do not warrant an integrated dietary change approach targeting the same determinants for each behavior.

  8. Evidence for behavioral preference toward environmental concentrations of urban-use herbicides in a model adult fish.

    Science.gov (United States)

    Tierney, Keith B; Sekela, Mark A; Cobbler, Christine E; Xhabija, Besa; Gledhill, Melissa; Ananvoranich, Sirinart; Zielinski, Barbara S

    2011-09-01

    Fish live in waters of contaminant flux. In three urban, fish-bearing waterways of British Columbia, Canada, we found the active ingredients of WeedEx, KillEx, and Roundup herbicide formulations (2,4-D, dicamba, glyphosate, and mecoprop) at low to high ng/L concentrations (0.26 to 309 ng/L) in routine conditions, i.e., no rain for at least one week. Following rain, these concentrations increased by an average of eightfold, suggesting runoff as a major route of herbicide introduction in these waterways. To determine whether fish might be able to limit point-source exposures through sensory-driven behaviors, we introduced pulses of representative herbicide mixtures to individual adult zebrafish (a model species) in flow-through tanks. Fish did the opposite of limit exposure; they chose to spend more time in pulses of herbicide mixtures representative of those that may occur with rain events. This attraction response was not altered by a previous 4-d exposure to lower concentrations of the mixtures, suggesting fish will not learn from previous exposures. However, previous exposures did alter an attraction response to an amino acid prevalent in food (L-alanine). The present study demonstrates that fish living within urban waterways may elect to place themselves in herbicide-contaminated environments and that these exposures may alter their behavioral responses to cues necessary for survival. Copyright © 2011 SETAC.

  9. Measurements of Heat Transfer, Flow, and Pressures in a Simulated Turbine Blade Internal Cooling Passage

    National Research Council Canada - National Science Library

    Russell, Louis

    1997-01-01

    ... cooling passage of a turbine blade. The objective of this study was to generate a set of experimental data that could be used for validation of computer codes that would be used to model internal cooling...

  10. Controlling temperature on pipes with current passage tubes; Maintenir en temperature tuyauteries grace au tube a passage de courant (TPC)

    Energy Technology Data Exchange (ETDEWEB)

    Mauras, Ph.

    1995-12-31

    Electrical solutions for controlling (or tracing) temperature in pipes such as in chemical and food industries, induce very low maintenance costs; the current passage technique consists in charging the pipes: the tube is heated by Joule effect and the fluid is heated by convection. Impedance calculations must include electromagnetic effects between conductors and other close systems. Electricite de France (EDF) has developed a theoretical model, which has been numerically validated; simple sizing rules have been derived

  11. Compliance Monitoring of Juvenile Yearling Chinook Salmon and Steelhead Survival and Passage at the Dalles Dam, Spring 2010

    Science.gov (United States)

    2010-10-01

    if applicable): Not applicable; this is a compliance study Fish: Implant Procedure: Species-race: yearling Chinook salmon (CH1), steelhead ( STH ...Surgical: Yes Injected: No Source: John Day Dam fish collection facility Size (median): CH1 STH Sample Size: CH1 STH Weight: 31.4 g 78.1 g...conditions and survival for downstream migrants. Survival and Passage Estimates (value & SE): CH1 STH Dam survival 0.9641 (SE = 0.0096) 0.9534

  12. Aquatic organism passage at road-stream crossings—synthesis and guidelines for effectiveness monitoring

    Science.gov (United States)

    Hoffman, Robert L.; Dunham, Jason B.; Hansen, Bruce P.

    2012-01-01

    involving aquatic organism passage as a useful context for the issues covered herein. 2. Importance of connectivity for aquatic organisms: In this section, we provide background information regarding the movement characteristics of aquatic organisms and their vulnerability to passage impairment, and the importance of connectivity for a broad diversity of aquatic vertebrates and invertebrates. This section should be useful for practitioners in selecting what species to monitor in relation to aquatic organism passage. 3. Methods for evaluating aquatic organism passage: In this section, we present a range of perspectives on alternatives for assessing and monitoring aquatic organism passage impairment and the effectiveness of passage restoration actions, including the following methods: Individual Movement, Occupancy Models, Abundance (Demography), and Molecular Genetic Markers. 4. Relevance, strengths, and limitations of the four methods: In this section, we discuss the utility of each of the methods as a tool for assessing and quantifying passage impairment and restoration effectiveness. 5. Guidelines for selecting a method: In this section, we review some fundamental criteria and guidelines to consider when selecting a method for monitoring in the context of answering three important questions that should be addressed when developing a plan for evaluating aquatic organism passage. 6. Study and monitoring design considerations: In this section, we discuss four key design elements that need to be considered when developing a monitoring design for assessing passage impairment and restoration. The basic objectives of the report are to: 1. Review the movement characteristics of five groups of aquatic organisms that inhabit streams and to assess their general vulnerability to passage impairment at road-stream crossings; 2. Review four methods for monitoring aquatic organism passage impairment and the effectiveness of actions to restore passage at road-stream crossing structures; 3

  13. Comparison of simulation models used in assessing the effects of power-plant-induced mortality on fish populations

    International Nuclear Information System (INIS)

    Swartzman, G.; Deriso, R.; Cowan, C.

    1977-01-01

    This paper compares eight models predicting the impact of power plant operation upon economically important fish species. The review compares the biological rationale behind model equations; parameter values are tabulated and compared. This paper focuses on differences between the models and the effect of these differences on model predictions. In order to expedite the evaluation of the models, generalized model simulators were developed for the young-of-the-year and life-cycle submodels. Criteria used to evaluate model predictions are percent reduction in young-of-the-year and annual loss in yield to the fishery due to plant operation. Major differences affecting model predictions of these impact criteria include the definition of life stages within age class 0, density-dependent or density-independent mortality for larvae and juveniles, density-dependent or density-independent fishing mortality, and the method for computing recruitment of young-of-the-year fish to age class 1. Major differences in parameter values include entrainment factors, total egg production, equilibrium population size, and survival probabilities for the life cycle models. Recommendations are made regarding our preference between model approaches or parameter values when these differ markedly. A suggestion is made for improved model documentation in the future and for increased cross fertilization of modeling ideas and background data and information

  14. An ecological model of the artificial ecosystem (northern Hangzhou Bay, China): analysis of ecosystem structure and fishing impacts

    Science.gov (United States)

    Chen, Zuozhi; Xu, Shannan; He, Peimin

    2011-06-01

    The artificial ecosystem is a large-scale enclosure in northern Hangzhou Bay, China. Using the Ecopath with Ecosim software, a trophic structure model is constructed for 2006-2007 to characterize the food web structure, functioning, and describing the ecosystem impacts of fishing. Input information for the model were gathered from published and unpublished reports and from our own estimates during the period 2006-2007. Pedigree work and simple sensitivity analysis were carried out to evaluate the quality and the uncertainty of the model. Results show that the food web in the enclosed sea area was dominated by a detritus pathway. The trophic levels of the groups varied from 1.00 for primary producers and detritus to 3.90 for piscivorous fish in the artificial system. Using network analysis, the system network was mapped into a linear food chain, and five discrete trophic levels were found with a mean transfer efficiency of 9.8% from detritus, 9.4% from primary producer within the ecosystem. The geometric mean of the trophic transfer efficiencies was 9.5%. Detritus contributed 57% of the total energy flux, and the other 43% came from primary producers. The ecosystem maturity indices-TPP/TR (total primary production/total respiration), FCI (Finn cycling index), A (ascendancy) and TB/TDET were 2.672, 25%, 31.5%, and 0.013, respectively, showing that the artificial system is at developmental stage according to Odum's theory of ecosystem development. The `Keystoneness' result indicates that herbivorous zooplankton was identified as keystone species in this system. Furthermore, a simple dynamical simulation was preformed for varying fishing mortality over 10 years. The biomass of most fish groups has a small increase when the fishing mortality at current level. Increasing fishing mortality by twofold resulted in a marked decrease in biomass of piscivorous fish accompanied by an increase in that of other fish groups, notable zooplanktivorous fish. Generally, this study

  15. Mean Antarctic Circumpolar Current transport measured in Drake Passage

    Science.gov (United States)

    Donohue, K. A.; Tracey, K. L.; Watts, D. R.; Chidichimo, M. P.; Chereskin, T. K.

    2016-11-01

    The Antarctic Circumpolar Current is an important component of the global climate system connecting the major ocean basins as it flows eastward around Antarctica, yet due to the paucity of data, it remains unclear how much water is transported by the current. Between 2007 and 2011 flow through Drake Passage was continuously monitored with a line of moored instrumentation with unprecedented horizontal and temporal resolution. Annual mean near-bottom currents are remarkably stable from year to year. The mean depth-independent or barotropic transport, determined from the near-bottom current meter records, was 45.6 sverdrup (Sv) with an uncertainty of 8.9 Sv. Summing the mean barotropic transport with the mean baroclinic transport relative to zero at the seafloor of 127.7 Sv gives a total transport through Drake Passage of 173.3 Sv. This new measurement is 30% larger than the canonical value often used as the benchmark for global circulation and climate models.

  16. Anchoring effect on first passage process in Taiwan financial market

    Science.gov (United States)

    Liu, Hsing; Liao, Chi-Yo; Ko, Jing-Yuan; Lih, Jiann-Shing

    2017-07-01

    Empirical analysis of the price fluctuations of financial markets has received extensive attention because a substantial amount of financial market data has been collected and because of advances in data-mining techniques. Price fluctuation trends can help investors to make informed trading decisions, but such decisions may also be affected by a psychological factors-the anchoring effect. This study explores the intraday price time series of Taiwan futures, and applies diffusion model and quantitative methods to analyze the relationship between the anchoring effect and price fluctuations during first passage process. Our results indicate that power-law scaling and anomalous diffusion for stock price fluctuations are related to the anchoring effect. Moreover, microscopic price fluctuations before switching point in first passage process correspond with long-term price fluctuations of Taiwan's stock market. We find that microscopic trends could provide useful information for understanding macroscopic trends in stock markets.

  17. Experimental demonstration of composite adiabatic passage

    Science.gov (United States)

    Schraft, Daniel; Halfmann, Thomas; Genov, Genko T.; Vitanov, Nikolay V.

    2013-12-01

    We report an experimental demonstration of composite adiabatic passage (CAP) for robust and efficient manipulation of two-level systems. The technique represents a altered version of rapid adiabatic passage (RAP), driven by composite sequences of radiation pulses with appropriately chosen phases. We implement CAP with radio-frequency pulses to invert (i.e., to rephase) optically prepared spin coherences in a Pr3+:Y2SiO5 crystal. We perform systematic investigations of the efficiency of CAP and compare the results with conventional π pulses and RAP. The data clearly demonstrate the superior features of CAP with regard to robustness and efficiency, even under conditions of weakly fulfilled adiabaticity. The experimental demonstration of composite sequences to support adiabatic passage is of significant relevance whenever a high efficiency or robustness of coherent excitation processes need to be maintained, e.g., as required in quantum information technology.

  18. Modelling the distribution of fish accounting for spatial correlation and overdispersion

    DEFF Research Database (Denmark)

    Lewy, Peter; Kristensen, Kasper

    2009-01-01

    The spatial distribution of cod (Gadus morhua) in the North Sea and the Skagerrak was analysed over a 24-year period using the Log Gaussian Cox Process (LGCP). In contrast to other spatial models of the distribution of fish, LGCP avoids problems with zero observations and includes the spatial...... correlation between observations. It is therefore possible to predict and interpolate unobserved densities at any location in the area. This is important for obtaining unbiased estimates of stock concentration and other measures depending on the distribution in the entire area. Results show that the spatial...... correlation and dispersion of cod catches remained unchanged during winter throughout the period, in spite of a drastic decline in stock abundance and a movement of the centre of gravity of the distribution towards the northeast in the same period. For the age groups considered, the concentration of the stock...

  19. Undulatory Swimming Performance and Body Stiffness Modulation in a Soft Robotic Fish-Inspired Physical Model.

    Science.gov (United States)

    Jusufi, Ardian; Vogt, Daniel M; Wood, Robert J; Lauder, George V

    2017-09-01

    Undulatory motion of the body is the dominant mode of locomotion in fishes, and numerous studies of body kinematics and muscle activity patterns have provided insights into the mechanics of swimming. However, it has not been possible to investigate how key parameters such as the extent of bilateral muscle activation affect propulsive performance due to the inability to manipulate muscle activation in live, freely swimming fishes. In this article we extend previous work on passive flexible mechanical models of undulatory propulsion by using actively controlled pneumatic actuators attached to a flexible foil to gain insight into undulatory locomotion and mechanisms for body stiffness control. Two soft actuators were attached on each side of a flexible panel with stiffness comparable to that of a fish body. To study how bilateral contraction can be used to modify axial body stiffness during swimming, we ran a parameter sweep of actuator contraction phasing and frequency. Thrust production by the soft pneumatic actuators was tested at cyclic undulation frequencies ranging from 0.3 to 1.2 Hz in a recirculating flow tank at flow speeds up to 28 cm/s. Overall, this system generated more thrust at higher tail beat frequencies, with a plateau in thrust above 0.8 Hz. Self-propelled speed was found to be 0.8 foil lengths per second or ∼13 cm/s when actuated at 0.55 Hz. This active pneumatic model is capable of producing substantial trailing edge amplitudes with a maximum excursion equivalent to 1.4 foil lengths, and of generating considerable thrust. Altering the extent of bilateral co-contraction in a range from -22% to 17% of the cycle period showed that thrust was maximized with some amount of simultaneous left-right actuation of ∼3% to 6% of the cycle period. When the system is exposed to water flow, thrust was substantially reduced for conditions of greatest antagonistic overlap in left-right actuation, and also for the largest latencies introduced. This

  20. Stochastic Model of the n-Stage Reversible First-Order Reaction: Relation between the Time of First Passage to the Most Probable Microstate and the Mean Equilibrium Fluctuations Lifetime

    Czech Academy of Sciences Publication Activity Database

    Šolc, Milan

    2002-01-01

    Roč. 216, 07 (2002), s. 869-893 ISSN 0942-9352 R&D Projects: GA AV ČR IAA4032101 Institutional research plan: CEZ:AV0Z4032918 Keywords : stochastic kinetics * fluctuation * first-passage time Subject RIV: CF - Physical ; Theoretical Chemistry Impact factor: 0.854, year: 2002

  1. Coupled ecosystem/supply chain modelling of fish products from sea to shelf: the Peruvian anchoveta case.

    Science.gov (United States)

    Avadí, Angel; Fréon, Pierre; Tam, Jorge

    2014-01-01

    Sustainability assessment of food supply chains is relevant for global sustainable development. A framework is proposed for analysing fishfood (fish products for direct human consumption) supply chains with local or international scopes. It combines a material flow model (including an ecosystem dimension) of the supply chains, calculation of sustainability indicators (environmental, socio-economic, nutritional), and finally multi-criteria comparison of alternative supply chains (e.g. fates of landed fish) and future exploitation scenarios. The Peruvian anchoveta fishery is the starting point for various local and global supply chains, especially via reduction of anchoveta into fishmeal and oil, used worldwide as a key input in livestock and fish feeds. The Peruvian anchoveta supply chains are described, and the proposed methodology is used to model them. Three scenarios were explored: status quo of fish exploitation (Scenario 1), increase in anchoveta landings for food (Scenario 2), and radical decrease in total anchoveta landings to allow other fish stocks to prosper (Scenario 3). It was found that Scenario 2 provided the best balance of sustainability improvements among the three scenarios, but further refinement of the assessment is recommended. In the long term, the best opportunities for improving the environmental and socio-economic performance of Peruvian fisheries are related to sustainability-improving management and policy changes affecting the reduction industry. Our approach provides the tools and quantitative results to identify these best improvement opportunities.

  2. Coupled Ecosystem/Supply Chain Modelling of Fish Products from Sea to Shelf: The Peruvian Anchoveta Case

    Science.gov (United States)

    Avadí, Angel; Fréon, Pierre; Tam, Jorge

    2014-01-01

    Sustainability assessment of food supply chains is relevant for global sustainable development. A framework is proposed for analysing fishfood (fish products for direct human consumption) supply chains with local or international scopes. It combines a material flow model (including an ecosystem dimension) of the supply chains, calculation of sustainability indicators (environmental, socio-economic, nutritional), and finally multi-criteria comparison of alternative supply chains (e.g. fates of landed fish) and future exploitation scenarios. The Peruvian anchoveta fishery is the starting point for various local and global supply chains, especially via reduction of anchoveta into fishmeal and oil, used worldwide as a key input in livestock and fish feeds. The Peruvian anchoveta supply chains are described, and the proposed methodology is used to model them. Three scenarios were explored: status quo of fish exploitation (Scenario 1), increase in anchoveta landings for food (Scenario 2), and radical decrease in total anchoveta landings to allow other fish stocks to prosper (Scenario 3). It was found that Scenario 2 provided the best balance of sustainability improvements among the three scenarios, but further refinement of the assessment is recommended. In the long term, the best opportunities for improving the environmental and socio-economic performance of Peruvian fisheries are related to sustainability-improving management and policy changes affecting the reduction industry. Our approach provides the tools and quantitative results to identify these best improvement opportunities. PMID:25003196

  3. Coupled ecosystem/supply chain modelling of fish products from sea to shelf: the Peruvian anchoveta case.

    Directory of Open Access Journals (Sweden)

    Angel Avadí

    Full Text Available Sustainability assessment of food supply chains is relevant for global sustainable development. A framework is proposed for analysing fishfood (fish products for direct human consumption supply chains with local or international scopes. It combines a material flow model (including an ecosystem dimension of the supply chains, calculation of sustainability indicators (environmental, socio-economic, nutritional, and finally multi-criteria comparison of alternative supply chains (e.g. fates of landed fish and future exploitation scenarios. The Peruvian anchoveta fishery is the starting point for various local and global supply chains, especially via reduction of anchoveta into fishmeal and oil, used worldwide as a key input in livestock and fish feeds. The Peruvian anchoveta supply chains are described, and the proposed methodology is used to model them. Three scenarios were explored: status quo of fish exploitation (Scenario 1, increase in anchoveta landings for food (Scenario 2, and radical decrease in total anchoveta landings to allow other fish stocks to prosper (Scenario 3. It was found that Scenario 2 provided the best balance of sustainability improvements among the three scenarios, but further refinement of the assessment is recommended. In the long term, the best opportunities for improving the environmental and socio-economic performance of Peruvian fisheries are related to sustainability-improving management and policy changes affecting the reduction industry. Our approach provides the tools and quantitative results to identify these best improvement opportunities.

  4. Monitoring of Juvenile Yearling Chinook Salmon and Steelhead Survival and Passage at John Day Dam, Spring 2010

    Energy Technology Data Exchange (ETDEWEB)

    Weiland, Mark A.; Ploskey, Gene R.; Hughes, James S.; Woodley, Christa M.; Deng, Zhiqun; Carlson, Thomas J.; Skalski, J. R.; Townsend, Richard L.

    2012-11-15

    The purpose of this study was to compare dam passage survival, at two spill treatment levels, of yearling Chinook salmon and steelhead smolts at John Day Dam during spring 2010. The two treatments were 30% and 40% spill out of total project discharge. Under the 2008 Federal Columbia River Power System (FCRPS) Biological Opinion (BiOp), dam passage survival should be greater than or equal to 0.96 and estimated with a standard error (SE) less than or equal 0.015. The study also estimated forebay residence time, tailrace egress time, and spill passage efficiency (SPE), as required in the Columbia Basin Fish Accords. However, by agreement among the stakeholders, this study was not an official BiOp compliance test because the long-term passage measures at John Day Dam have yet to be finalized and another year of spill-treatment testing was desired.

  5. Evaluation of Behavioral Guidance Structure on Juvenile Salmonid Passage and Survival at Bonneville Dam in 2009

    Energy Technology Data Exchange (ETDEWEB)

    Faber, Derrek M.; Ploskey, Gene R.; Weiland, Mark A.; Deng, Zhiqun; Hughes, James S.; Kim, Jin A.; Fu, Tao; Fischer, Eric S.; Monter, Tyrell J.; Skalski, J. R.

    2011-03-01

    Pacific Northwest National Laboratory (PNNL) conducted an acoustic-telemetry study at Bonneville Dam in 2009 to evaluate the effects of a behavioral guidance structure (BGS) in the Bonneville Dam second powerhouse forebay on fish passage and survival through the second powerhouse (B2), the dam as a whole, and through the first powerhouse and spillway combined. The BGS was deployed to increase the survival of fish passing through B2 by increasing the percentage of outmigrating smolts entering the B2 Corner Collector (B2CC)—a surface flow outlet known to be a relatively benign route for downstream passage at this dam. The study relied on releases of live Juvenile Salmon Acoustic Telemetry System tagged smolts in the Columbia River and used acoustic telemetry to evaluate the approach, passage, and survival of passing juvenile salmon. Study results indicated that having turbine 11 in service is important for providing flow conditions that are comparable to those observed in pre-BGS years (2004 and 2005) and in 2008. This study supports the U.S. Army Corps of Engineers continual effort to improve conditions for juvenile anadromous fish passing through Columbia River dams.

  6. Compliance Monitoring of Juvenile Yearling Chinook Salmon and Steelhead Survival and Passage at The Dales Dam, Spring 2011

    Energy Technology Data Exchange (ETDEWEB)

    Skalski, John R.; Townsend, Richard L.; Seaburg, Adam; Johnson, Gary E.; Ploskey, Gene R.; Carlson, Thomas J.

    2012-02-01

    The study estimated dam passage survival at The Dalles Dam as stipulated by the 2008 Federal Columbia River Power System (FCRPS) Biological Opinion (BiOp) and provided additional performance measures as stipulated in the Columbia Basin Fish Accords. This summary report focuses on spring run stocks, yearling Chinook salmon and steelhead.

  7. Compliance Monitoring of Juvenile Yearling Chinook Salmon and Steelhead Survival and Passage at The Dalles Dam, Spring 2011

    Energy Technology Data Exchange (ETDEWEB)

    Skalski, John R.; Townsend, Richard L.; Seaburg, Adam; Johnson, Gary E.; Ploskey, Gene R.; Carlson, Thomas J.

    2012-06-12

    The study estimated dam passage survival at The Dalles Dam as stipulated by the 2008 Federal Columbia River Power System (FCRPS) Biological Opinion (BiOp) and provided additional performance measures as stipulated in the Columbia Basin Fish Accords. This summary report focuses on spring run stocks, yearling Chinook salmon and steelhead.

  8. Evaluation of Boundary Dam spillway using an Autonomous Sensor Fish Device

    Energy Technology Data Exchange (ETDEWEB)

    Deng, Z. D.; Duncan, J. P.; Arnold, J. L.; Fu, T.; Martinez, J.; Lu, J.; Titzler, P. S.; Zhou, D.; Mueller, R. P.

    2017-03-01

    Fish passage conditions over spillways are important for the operations of hydroelectric dams because spillways are usually considered as a common alternative passage route to divert fish from the turbines. The objectives of this study were to determine the relative potential of fish injury during spillway passage both before and after the installation of baffle blocks at Boundary Dam, and to provide validation data for a model being used to predict total dissolved gas levels. Sensor Fish were deployed through a release system mounted on the face of the dam in the forebay. Three treatments, based on the lateral position on the spillway, were evaluated for both the baseline and post-modification evaluations: Left Middle, Right Middle, and Right. No significant acceleration events were detected in the forebay, gate, or transition regions for any release location; events were only observed on the chute and in the tailrace. Baseline acceleration events observed in the chute region were all classified as strikes, whereas post-modification events included strike and shear on the chute. While the addition of baffle blocks increased the number of significant events observed on the spillway chute, overall fewer events were observed in the tailrace post-modification. Analysis of lateral positioning of passage indicated that the Right Middle treatment was potentially less injurious to fish based on relative frequency of significant events at each location. The construction of baffle blocks on the spillway visibly changed the flow regime. Prior to installation the flow jet was relatively thin, impacting the tailrace as a coherent stream that plunged deeply, possibly contributing to total dissolved gas production. Following baffle block construction, the discharge jet was more fragmented, potentially disrupting the plunge depth and decreasing the time that bubbles would be at depth in the plunge pool. The results in this study support the expected performance of the modified

  9. A MODEL OF OXYGEN CONDITIONS IN A SCHOOL OF FISH BASED ON EXPERIMENTAL RESPIROMETRY

    DEFF Research Database (Denmark)

    Steffensen, John Fleng

    2010-01-01

    John Fleng Steffensen. 1st International FitFish Workshop on the Swimming Physiology of Fish, Barcelona 2010. Oxygen consumption of swimming fish is well known to increase as a power function or exponentially as swimming speed increase. When a fi sh swim through the water they consume oxygen and ...... of Atlantic herring with a ROV instrumented with cameras and a logging YSJ CTD as well as an acoustic Oxyguard oxygen transmitter....

  10. Modeling migratory energetics of Connecticut River American shad (Alosa sapidissima): implications for the conservation of an iteroparous anadromous fish

    Science.gov (United States)

    Castro-Santos, Theodore; Letcher, Benjamin H.

    2010-01-01

    We present a simulation model in which individual adult migrant American shad (Alosa sapidissima) ascend the Connecticut River and spawn, and survivors return to the marine environment. Our approach synthesizes bioenergetics, reproductive biology, and behavior to estimate the effects of migratory distance and delays incurred at dams on spawning success and survival. We quantified both the magnitude of effects and the consequences of uncertainty in the estimates of input variables. Behavior, physiology, and energetics strongly affected both the distribution of spawning effort and survival to the marine environment. Delays to both upstream and downstream movements had dramatic effects on spawning success, determining total fecundity and spatial extent of spawning. Delays, combined with cues for migratory reversal, also determined the likelihood of survival. Spawning was concentrated in the immediate vicinity of dams and increased with greater migratory distance and delays to downstream migration. More research is needed on reproductive biology, behavior, energetics, and barrier effects to adequately understand the interplay of the various components of this model; it does provide a framework, however, that suggests that provision of upstream passage at dams in the absence of expeditious downstream passage may increase spawning success — but at the expense of reduced iteroparity. 

  11. A protocol for the intercomparison of marine fishery and ecosystem models: Fish-MIP v1.0

    Science.gov (United States)

    Tittensor, Derek P.; Eddy, Tyler D.; Lotze, Heike K.; Galbraith, Eric D.; Cheung, William; Barange, Manuel; Blanchard, Julia L.; Bopp, Laurent; Bryndum-Buchholz, Andrea; Büchner, Matthias; Bulman, Catherine; Carozza, David A.; Christensen, Villy; Coll, Marta; Dunne, John P.; Fernandes, Jose A.; Fulton, Elizabeth A.; Hobday, Alistair J.; Huber, Veronika; Jennings, Simon; Jones, Miranda; Lehodey, Patrick; Link, Jason S.; Mackinson, Steve; Maury, Olivier; Niiranen, Susa; Oliveros-Ramos, Ricardo; Roy, Tilla; Schewe, Jacob; Shin, Yunne-Jai; Silva, Tiago; Stock, Charles A.; Steenbeek, Jeroen; Underwood, Philip J.; Volkholz, Jan; Watson, James R.; Walker, Nicola D.

    2018-04-01

    Model intercomparison studies in the climate and Earth sciences communities have been crucial to building credibility and coherence for future projections. They have quantified variability among models, spurred model development, contrasted within- and among-model uncertainty, assessed model fits to historical data, and provided ensemble projections of future change under specified scenarios. Given the speed and magnitude of anthropogenic change in the marine environment and the consequent effects on food security, biodiversity, marine industries, and society, the time is ripe for similar comparisons among models of fisheries and marine ecosystems. Here, we describe the Fisheries and Marine Ecosystem Model Intercomparison Project protocol version 1.0 (Fish-MIP v1.0), part of the Inter-Sectoral Impact Model Intercomparison Project (ISIMIP), which is a cross-sectoral network of climate impact modellers. Given the complexity of the marine ecosystem, this class of models has substantial heterogeneity of purpose, scope, theoretical underpinning, processes considered, parameterizations, resolution (grain size), and spatial extent. This heterogeneity reflects the lack of a unified understanding of the marine ecosystem and implies that the assemblage of all models is more likely to include a greater number of relevant processes than any single model. The current Fish-MIP protocol is designed to allow these heterogeneous models to be forced with common Earth System Model (ESM) Coupled Model Intercomparison Project Phase 5 (CMIP5) outputs under prescribed scenarios for historic (from the 1950s) and future (to 2100) time periods; it will be adapted to CMIP phase 6 (CMIP6) in future iterations. It also describes a standardized set of outputs for each participating Fish-MIP model to produce. This enables the broad characterization of differences between and uncertainties within models and projections when assessing climate and fisheries impacts on marine ecosystems and the

  12. A protocol for the intercomparison of marine fishery and ecosystem models: Fish-MIP v1.0

    Directory of Open Access Journals (Sweden)

    D. P. Tittensor

    2018-04-01

    Full Text Available Model intercomparison studies in the climate and Earth sciences communities have been crucial to building credibility and coherence for future projections. They have quantified variability among models, spurred model development, contrasted within- and among-model uncertainty, assessed model fits to historical data, and provided ensemble projections of future change under specified scenarios. Given the speed and magnitude of anthropogenic change in the marine environment and the consequent effects on food security, biodiversity, marine industries, and society, the time is ripe for similar comparisons among models of fisheries and marine ecosystems. Here, we describe the Fisheries and Marine Ecosystem Model Intercomparison Project protocol version 1.0 (Fish-MIP v1.0, part of the Inter-Sectoral Impact Model Intercomparison Project (ISIMIP, which is a cross-sectoral network of climate impact modellers. Given the complexity of the marine ecosystem, this class of models has substantial heterogeneity of purpose, scope, theoretical underpinning, processes considered, parameterizations, resolution (grain size, and spatial extent. This heterogeneity reflects the lack of a unified understanding of the marine ecosystem and implies that the assemblage of all models is more likely to include a greater number of relevant processes than any single model. The current Fish-MIP protocol is designed to allow these heterogeneous models to be forced with common Earth System Model (ESM Coupled Model Intercomparison Project Phase 5 (CMIP5 outputs under prescribed scenarios for historic (from the 1950s and future (to 2100 time periods; it will be adapted to CMIP phase 6 (CMIP6 in future iterations. It also describes a standardized set of outputs for each participating Fish-MIP model to produce. This enables the broad characterization of differences between and uncertainties within models and projections when assessing climate and fisheries impacts on marine ecosystems

  13. A statistical model for estimation of fish density including correlation in size, space, time and between species from research survey data

    DEFF Research Database (Denmark)

    Nielsen, J. Rasmus; Kristensen, Kasper; Lewy, Peter

    2014-01-01

    Trawl survey data with high spatial and seasonal coverage were analysed using a variant of the Log Gaussian Cox Process (LGCP) statistical model to estimate unbiased relative fish densities. The model estimates correlations between observations according to time, space, and fish size and includes...

  14. From the bush to the bench: the annual Nothobranchius fishes as a new model system in biology

    Czech Academy of Sciences Publication Activity Database

    Cellerino, A.; Valenzano, D. R.; Reichard, Martin

    2016-01-01

    Roč. 91, č. 2 (2016), s. 511-533 ISSN 1464-7931 R&D Projects: GA ČR(CZ) GAP506/11/0112 Institutional support: RVO:68081766 Keywords : ageing * longevity * killifish * annual fish * diapause * inbred lines * life -history traits * quantitative genetics * model species * senescence Subject RIV: EG - Zoology Impact factor: 11.615, year: 2016

  15. Passage Variation of PC12 Cells Results in Inconsistent Susceptibility to Externally Induced Apoptosis.

    Science.gov (United States)

    Kinarivala, Nihar; Shah, Kaushik; Abbruscato, Thomas J; Trippier, Paul C

    2017-01-18

    The PC12 cell line is a widely used in vitro model for screening the neuroprotective activity of small molecule libraries. External insult due to serum deprivation or addition of etoposide induces cell death by apoptosis. While this screening method is commonly used in early stage drug discovery no protocol accounting for cell passage number effect on neuroprotective activity has been disclosed. We herein report that passage variation results in false-positive/false-negative identification of neuroprotective compounds; undifferentiated PC12 cells with high passage number are less sensitive to injury induced by serum-deprivation or etoposide treatment. In contrast, NGF differentiated PC12 cells of later passage number are more sensitive to injury induced by etoposide than lower passage number but only after 72 h. Passage number also affects the adherence phenotype of the PC12 cells, complicating screening assays. We report an optimized protocol for screening the neuroprotective activity of small molecules in PC12 cells, which accounts for passage number variations.

  16. PARAFAC modeling of fluorescence excitation-emission spectra of fish bile for rapid en route screening of PAC exposure

    DEFF Research Database (Denmark)

    Christensen, Jan H.; Tomasi, Giorgio; Strand, Jakob

    2009-01-01

    . The EEMs were decomposed into a four-factor PARAFAC model. The comparison of the PARAFAC factors with the EEMs of PAC metabolites and amino acids suggests that two factors are related to PAC metabolites and two correspond to fluorescent residues of tryptophan and tyrosine in bile proteins. A new......Polycyclic aromatic compound (PAC) metabolites in fish bile can be used as biomarkers for recent environmental exposure to PACs. Here, a novel method for rapid screening of nonhydrolyzed fish bile is presented. The method is based on excitation-emission fluorescence spectroscopy combined...

  17. An updated conceptual model of Delta Smelt biology: Our evolving understanding of an estuarine fish

    Science.gov (United States)

    Baxter, Randy; Brown, Larry R.; Castillo, Gonzalo; Conrad, Louise; Culberson, Steven D.; Dekar, Matthew P.; Dekar, Melissa; Feyrer, Frederick; Hunt, Thaddeus; Jones, Kristopher; Kirsch, Joseph; Mueller-Solger, Anke; Nobriga, Matthew; Slater, Steven B.; Sommer, Ted; Souza, Kelly; Erickson, Gregg; Fong, Stephanie; Gehrts, Karen; Grimaldo, Lenny; Herbold, Bruce

    2015-01-01

    The main purpose of this report is to provide an up-to-date assessment and conceptual model of factors affecting Delta Smelt (Hypomesus transpacificus) throughout its primarily annual life cycle and to demonstrate how this conceptual model can be used for scientific and management purposes. The Delta Smelt is a small estuarine fish that only occurs in the San Francisco Estuary. Once abundant, it is now rare and has been protected under the federal and California Endangered Species Acts since 1993. The Delta Smelt listing was related to a step decline in the early 1980s; however, population abundance decreased even further with the onset of the “pelagic organism decline” (POD) around 2002. A substantial, albeit short-lived, increase in abundance of all life stages in 2011 showed that the Delta Smelt population can still rebound when conditions are favorable for spawning, growth, and survival. In this report, we update previous conceptual models for Delta Smelt to reflect new data and information since the release of the last synthesis report about the POD by the Interagency Ecological Program for the San Francisco Estuary (IEP) in 2010. Specific objectives include:

  18. Navigable windows of the Northwest Passage

    Science.gov (United States)

    Liu, Xing-he; Ma, Long; Wang, Jia-yue; Wang, Ye; Wang, Li-na

    2017-09-01

    Artic sea ice loss trends support a greater potential for Arctic shipping. The information of sea ice conditions is important for utilizing Arctic passages. Based on the shipping routes given by ;Arctic Marine Shipping Assessment 2009 Report;, the navigable windows of these routes and the constituent legs were calculated by using sea ice concentration product data from 2006 to 2015, by which a comprehensive knowledge of the sea ice condition of the Northwest Passage was achieved. The results showed that Route 4 (Lancaster Sound - Barrow Strait - Prince Regent Inlet and Bellot Strait - Franklin Strait - Larsen Sound - Victoria Strait - Queen Maud Gulf - Dease Strait - Coronation Gulf - Dolphin and Union Strait - Amundsen Gulf) had the best navigable expectation, Route 2 (Parry Channel - M'Clure Strait) had the worst, and the critical legs affecting the navigation of Northwest Passage were Viscount Melville Sound, Franklin Strait, Victoria Strait, Bellot Strait, M'Clure Strait and Prince of Wales Strait. The shortest navigable period of the routes of Northwest Passage was up to 69 days. The methods used and the results of the study can help the selection and evaluation of Arctic commercial routes.

  19. Bird of Passage at Four Universities

    Indian Academy of Sciences (India)

    IAS Admin

    RESONANCE │ May 2010. GENERAL │ ARTICLE. Bird of Passage at Four Universities. Student Days of Rudolph Peierls. G Baskaran. Keywords. Peierls, Sommerfeld, Heisen- berg, Pauli, theoretical physics, electron theory of solids. G Baskaran is a theoretical physicist. This article is his first contribution to. Resonance.

  20. Population parameters and dynamic pool models of commercial fishes in the Beibu Gulf, northern South China Sea

    Science.gov (United States)

    Wang, Xuehui; Qiu, Yongsong; Du, Feiyan; Lin, Zhaojin; Sun, Dianrong; Huang, Shuolin

    2012-01-01

    Length-frequency data of eight commercial fish species in the Beibu Gulf (Golf of Tonkin), northern South China Sea, were collected during 2006-2007. Length-weight relationships and growth and mortality parameters were analyzed using FiSAT II software. Five species had isometric growth, two species had negative allometric growth, and one species had positive allometric growth. Overall, the exploitation rates of the eight species were lower in 2006-2007 than in 1997-1999: for four species ( Saurida tumbil, Saurida undosquamis, Argyrosomus macrocephalus, and Nemipterus virgatus) it was lower in 2006-2007 than in 1997-1999, for two species ( Parargyrops edita and Trichiurus haumela) it remained the same, and for the other two species ( Trachurus japonicus and Decapterus maruadsi) it was higher in 2006-2007 than in 1997-1999. The exploitation rates might have declined because of the decline in fishing intensity caused by high crude oil prices. The optimum exploitation rate, estimated using Beverton-Holt dynamic pool models, indicated that although fishes in the Beibu Gulf could sustain high exploitation rates, the under-size fishes at first capture resulted in low yields. To increase the yield per recruitment, it is more effective to increase the size at first capture than to control fishing effort.

  1. Incorporating fragmentation and non-native species into distribution models to inform fluvial fish conservation.

    Science.gov (United States)

    Taylor, Andrew T; Papeş, Monica; Long, James M

    2018-02-01

    Fluvial fishes face increased imperilment from anthropogenic activities, but the specific factors contributing most to range declines are often poorly understood. For example, the range of the fluvial-specialist shoal bass (Micropterus cataractae) continues to decrease, yet how perceived threats have contributed to range loss is largely unknown. We used species distribution models to determine which factors contributed most to shoal bass range loss. We estimated a potential distribution based on natural abiotic factors and a series of currently occupied distributions that incorporated variables characterizing land cover, non-native species, and river fragmentation intensity (no fragmentation, dams only, and dams and large impoundments). We allowed interspecific relationships between non-native congeners and shoal bass to vary across fragmentation intensities. Results from the potential distribution model estimated shoal bass presence throughout much of their native basin, whereas models of currently occupied distribution showed that range loss increased as fragmentation intensified. Response curves from models of currently occupied distribution indicated a potential interaction between fragmentation intensity and the relationship between shoal bass and non-native congeners, wherein non-natives may be favored at the highest fragmentation intensity. Response curves also suggested that >100 km of interconnected, free-flowing stream fragments were necessary to support shoal bass presence. Model evaluation, including an independent validation, suggested that models had favorable predictive and discriminative abilities. Similar approaches that use readily available, diverse, geospatial data sets may deliver insights into the biology and conservation needs of other fluvial species facing similar threats. © 2017 Society for Conservation Biology.

  2. Predicting interactions among fishing, ocean warming, and ocean acidification in a marine system with whole-ecosystem models.

    Science.gov (United States)

    Griffith, Gary P; Fulton, Elizabeth A; Gorton, Rebecca; Richardson, Anthony J

    2012-12-01

    An important challenge for conservation is a quantitative understanding of how multiple human stressors will interact to mitigate or exacerbate global environmental change at a community or ecosystem level. We explored the interaction effects of fishing, ocean warming, and ocean acidification over time on 60 functional groups of species in the southeastern Australian marine ecosystem. We tracked changes in relative biomass within a coupled dynamic whole-ecosystem modeling framework that included the biophysical system, human effects, socioeconomics, and management evaluation. We estimated the individual, additive, and interactive effects on the ecosystem and for five community groups (top predators, fishes, benthic invertebrates, plankton, and primary producers). We calculated the size and direction of interaction effects with an additive null model and interpreted results as synergistic (amplified stress), additive (no additional stress), or antagonistic (reduced stress). Individually, only ocean acidification had a negative effect on total biomass. Fishing and ocean warming and ocean warming with ocean acidification had an additive effect on biomass. Adding fishing to ocean warming and ocean acidification significantly changed the direction and magnitude of the interaction effect to a synergistic response on biomass. The interaction effect depended on the response level examined (ecosystem vs. community). For communities, the size, direction, and type of interaction effect varied depending on the combination of stressors. Top predator and fish biomass had a synergistic response to the interaction of all three stressors, whereas biomass of benthic invertebrates responded antagonistically. With our approach, we were able to identify the regional effects of fishing on the size and direction of the interacting effects of ocean warming and ocean acidification. ©2012 Society for Conservation Biology.

  3. Modeling management scenarios and the effects of an introduced apex predator on a coastal riverine fish community

    Science.gov (United States)

    Pine, William E.; Kwak, T.J.; Rice, J.A.

    2007-01-01

    The flathead catfish Pylodictis olivaris, a carnivorous fish species native to most of the central interior basin of North America, has been introduced into at least 13 U.S. states and 1 Canadian province. Concurrent declines in abundance of native fishes have been reported in aquatic systems where flathead catfish have been introduced. To evaluate the potential impact of this invasive species on the native fish community we developed an ecosystem simulation model (including flathead catfish) based on empirical data collected from a North Carolina coastal river. The model results suggest that flathead catfish suppress native fish community biomass by 5-50% through both predatory and competitive interactions. However, our model suggests these reductions could be mitigated through sustained exploitation of flathead catfish by recreational or commercial fishers at rates equivalent to those for native flathead catfish populations (annual exploitation = 6-25%). These findings demonstrate the potential for using directed harvest of an invasive species to assist in restoring native communities. ?? Copyright by the American Fisheries Society 2007.

  4. Qualitative modelling of gold mine impacts on Lihir Island's socioeconomic system and reef-edge fish community.

    Science.gov (United States)

    Dambacher, Jeffrey M; Brewer, David T; Dennis, Darren M; Macintyre, Martha; Foale, Simon

    2007-01-15

    Inhabitants of Lihir Island, Papua New Guinea, have traditionally relied on reef fishing and rotational farming of slash-burn forest plots for a subsistence diet. However, a new gold mine has introduced a cash economy to the island's socioeconomic system and impacted the fringing coral reef through sedimentation from the near-shore dumping of mine wastes. Studies of the Lihirian people have documented changes in population size, local customs, health, education, and land use; studies of the reef have documented impacts to fish populations in mine affected sites. Indirect effects from these impacts are complex and indecipherable when viewed only from isolated studies. Here, we use qualitative modelling to synthesize the social and biological research programs in order to understand the interaction of the human and ecological systems. Initial modelling results appear to be consistent with differences in fish and macroalgae populations in sites with and without coral degradation due to sedimentation. A greater cash flow from mine expansion is predicted to increase the human population, the intensity of the artisanal fishery, and the rate of sewage production and land clearing. Modelling results are being used to guide ongoing research projects, such as monitoring fish populations and artisanal catch and patterns and intensity of land clearing.

  5. mathFISH, a web tool that uses thermodynamics-based mathematical models for in silico evaluation of oligonucleotide probes for fluorescence in situ hybridization.

    Science.gov (United States)

    Yilmaz, L Safak; Parnerkar, Shreyas; Noguera, Daniel R

    2011-02-01

    Mathematical models of RNA-targeted fluorescence in situ hybridization (FISH) for perfectly matched and mismatched probe/target pairs are organized and automated in web-based mathFISH (http://mathfish.cee.wisc.edu). Offering the users up-to-date knowledge of hybridization thermodynamics within a theoretical framework, mathFISH is expected to maximize the probability of success during oligonucleotide probe design.

  6. Spatiotemporal Dispersal and Deposition of Fish Farm Wastes: A Model Study from Central Norway

    Directory of Open Access Journals (Sweden)

    Ole J. Broch

    2017-06-01

    Full Text Available A spatially explicit coupled hydrodynamic-mass transport model system was used to simulate dispersal of particulate organic matter from Atlantic salmon (Salmo salar farming in central Norway. Model setups of 32 m horizontal resolution were run for periods of up to 650 days for 3 sites of different oceanographic characteristics: one fjord location, one medium-exposed location influenced by fjord water, and one coastal location. Records on feed used for each cage at each location were converted to feces released based on a published mass balance model. The results from the simulations were compared with scores from corresponding mandatory benthic surveys (MOM-B of the sediment layer beneath the farms. The correspondence between simulated and measured thickness of the sediment layer was good, and improved with the inclusion of resuspension processes. At all sites the distribution of organic matter in the bottom layer was non-homogeneous, with significant temporal variation and transport and settling of matter up to at least 0.5 km away from one of the farms. Our results indicate that the monitoring practice used in Norway until now, with a few sediment grab samples taken mainly within the fish farm, may not adequately determine the areal impacts of all salmon farming operations. The patchy distribution of organic matter and the correspondence between simulation and survey results is attributed to the use of full 3D current fields of a high spatiotemporal resolution and a good model for resuspension processes that some previous model studies have failed to properly account for.

  7. A day in the life of fish larvae: modeling foraging and growth using quirks.

    Directory of Open Access Journals (Sweden)

    Klaus B Huebert

    Full Text Available This article introduces "Quirks," a generic, individual-based model synthesizing over 40 years of empirical and theoretical insights into the foraging behavior and growth physiology of marine fish larvae. In Quirks, different types of larvae are defined by a short list of their biological traits, and all foraging and growth processes (including the effects of key environmental factors are modeled following one unified set of mechanistic rules. This approach facilitates ecologically meaningful comparisons between different species and environments. We applied Quirks to model young exogenously feeding larvae of four species: 5.5-mm European anchovy (Engraulis encrasicolus, 7-mm Atlantic cod (Gadus morhua, 13-mm Atlantic herring (Clupea harengus, and 7-mm European sprat (Sprattus sprattus. Modeled growth estimates explained the majority of variability among 53 published empirical growth estimates, and displayed very little bias: 0.65% ± 1.2% d(-1 (mean ± standard error. Prey organisms of ∼ 67% the maximum ingestible prey length were optimal for all larval types, in terms of the expected ingestion per encounter. Nevertheless, the foraging rate integrated over all favorable prey sizes was highest when smaller organisms made up >95% of the prey biomass under the assumption of constant normalized size spectrum slopes. The overall effect of turbulence was consistently negative, because its detrimental influence on prey pursuit success exceeded its beneficial influence on prey encounter rate. Model sensitivity to endogenous traits and exogenous environmental factors was measured and is discussed in depth. Quirks is free software and open source code is provided.

  8. Use of a fish bioenergetics model to evaluate effects of dissolved oxygen mitigation at Norris Dam

    International Nuclear Information System (INIS)

    Chang, L.H.; Christensen, S.W.

    1991-01-01

    The management of tailwater fisheries, aquatic ecosystems, and hydropower can have conflicting objectives. For example, the installation and operation of hydroelectric facilities affect downstream biological resources by changing flow regimes, temperatures, and water quality. Special interest groups vigorously support and promote each of these resources: tailwater sport fisheries, which enhance the economic and cultural life of a region; natural aquatic ecosystems, which contribute to biological diversity; and hydroelectric power, which can boost economic growth. Conflicts among these interests may multiply in the next 3 years as the licenses of hundreds of hydroprojects in the nation expire and applications for relicense are evaluated for renewal. When the physical costs to each resource can be presented in quantitative terms and the basis on which these costs are determined is available to review, all parties can benefit because many different solutions can be examined and their consequences quantified. This paper shows how a fish growth model influenced by environmental conditions such as water temperature and dissolved oxygen concentrations can be used to generate information about the costs and benefits of different hydropower development and mitigation scenarios. Models can provide defensible, objective, and accessible insight into outcomes of different development, mitigation, or non-development decision

  9. Blocking antibodies induced by immunization with a hypoallergenic parvalbumin mutant reduce allergic symptoms in a mouse model of fish allergy.

    Science.gov (United States)

    Freidl, Raphaela; Gstoettner, Antonia; Baranyi, Ulrike; Swoboda, Ines; Stolz, Frank; Focke-Tejkl, Margarete; Wekerle, Thomas; van Ree, Ronald; Valenta, Rudolf; Linhart, Birgit

    2017-06-01

    Fish is a frequent elicitor of severe IgE-mediated allergic reactions. Beside avoidance, there is currently no allergen-specific therapy available. Hypoallergenic variants of the major fish allergen, parvalbumin, for specific immunotherapy based on mutation of the 2 calcium-binding sites have been developed. This study sought to establish a mouse model of fish allergy resembling human disease and to investigate whether mouse and rabbit IgG antibodies induced by immunization with a hypoallergenic mutant of the major carp allergen protect against allergic symptoms in sensitized mice. C3H/HeJ mice were sensitized with recombinant wildtype Cyp c 1 or carp extract by intragastric gavage. Antibody, cellular immune responses, and epitope specificity in sensitized mice were investigated by ELISA, rat basophil leukemia assay, T-cell proliferation experiments using recombinant wildtype Cyp c 1, and overlapping peptides spanning the Cyp c 1 sequence. Anti-hypoallergenic Cyp c 1 mutant mouse and rabbit sera were tested for their ability to inhibit IgE recognition of Cyp c 1, Cyp c 1-specific basophil degranulation, and Cyp c 1-induced allergic symptoms in the mouse model. A mouse model of fish allergy mimicking human disease regarding IgE epitope recognition and symptoms as close as possible was established. Administration of antisera generated in mice and rabbits by immunization with a hypoallergenic Cyp c 1 mutant inhibited IgE binding to Cyp c 1, Cyp c 1-induced basophil degranulation, and allergic symptoms caused by allergen challenge in sensitized mice. Antibodies induced by immunization with a hypoallergenic Cyp c 1 mutant protect against allergic reactions in a murine model of fish allergy. Copyright © 2016 The Authors. Published by Elsevier Inc. All rights reserved.

  10. Modelling the dynamics of fish contamination by Chernobyl radiocaesium: an analytical solution based on potassium mass balance

    International Nuclear Information System (INIS)

    Koulikov, Alexei O.; Meili, Markus

    2003-01-01

    After the sudden fallout from the Chernobyl nuclear accident in 1986, activities and bioaccumulation factors of radiocaesium ( 137 Cs, 134 Cs) fluctuated strongly over several years before reaching quasi-equilibrium, with patterns significantly differing among organisms. To model these dynamic relaxation processes based on ecological mechanisms we developed mass balance equations for 137 Cs in an aquatic food chain on the following basis: (a) potassium acts as a biogeochemical analogue ('carrier') of caesium; (b) the concentration of potassium in fish and other animals is effectively constant; (c) the main source of potassium in freshwater fish is the dietary uptake. The model is applicable to linear food chains of any number of trophic levels, while solutions evaluated here include the following food chain compartments: water, invertebrates (fish food), non-piscivorous fish, and piscivorous fish. The activity concentration in the water, which is considered as the secondary source of 137 Cs, is described by multi-component first-order decay function, although two components (fast and slow) are often sufficient to provide agreement with empirical data. In every compartment the turnover rate of caesium is considered as a constant over time. The analytical solution of the model equations describes the 137 Cs activity concentration in every compartment as a series of exponential functions, of which some are derived from the source pattern, and the others determined by the 137 Cs turnover rate in each food chain compartment. The model was tested with post-Chernobyl data from several long-term studies in lakes and provided a reasonable description of important radioecological aspects

  11. Analysis of brook trout spatial behavior during passage attempts in corrugated culverts using near-infrared illumination video imagery

    Science.gov (United States)

    Bergeron, Normand E.; Constantin, Pierre-Marc; Goerig, Elsa; Castro-Santos, Theodore R.

    2016-01-01

    We used video recording and near-infrared illumination to document the spatial behavior of brook trout of various sizes attempting to pass corrugated culverts under different hydraulic conditions. Semi-automated image analysis was used to digitize fish position at high temporal resolution inside the culvert, which allowed calculation of various spatial behavior metrics, including instantaneous ground and swimming speed, path complexity, distance from side walls, velocity preference ratio (mean velocity at fish lateral position/mean crosssectional velocity) as well as number and duration of stops in forward progression. The presentation summarizes the main results and discusses how they could be used to improve fish passage performance in culverts.

  12. Monitoring of Juvenile Yearling Chinook Salmon and Steelhead Survival and Passage at Bonneville Dam, Spring 2010

    Energy Technology Data Exchange (ETDEWEB)

    Ploskey, Gene R.; Faber, Derrek M.; Weiland, Mark A.; Carlson, Thomas J.

    2012-09-01

    The purpose of this study was to estimate the survival for yearling Chinook salmon and steelhead smolts during spring 2010 in a portion of the Columbia River that includes Bonneville Dam. The study estimated smolt survival from a virtual release at Bonneville Dam to a survival array 81 km downstream of Bonneville Dam. We also estimated median forebay residence time, median tailrace egress time, and spill passage efficiency (SPE), as required in the Columbia Basin Fish Accords. A single release design was used to estimate survival from Bonneville Dam to a primary array located 81 km downstream of Bonneville. The approach did not include a reference tailrace release. Releases of acoustic-tagged smolts above John Day Dam to Hood River contributed to the formation of virtual releases at a Bonneville Dam forebay entrance array and at the face of the dam. A total of 3,880 yearling Chinook salmon and 3,885 steelhead smolts were tagged and released in the investigation. The Juvenile Salmon Acoustic Telemetry System (JSATS) tag model number ATS-156dB, weighing 0.438 g in air, was used in this investigation.

  13. Development of chicken and fish muscle protein - Water partition coefficients predictive models for ionogenic and neutral organic chemicals.

    Science.gov (United States)

    Ou, Wang; Liu, Huihui; He, Junyi; Yang, Xianhai

    2018-04-01

    Muscle protein was one of critical accumulation protein for anthropogenic chemicals. However, few predictive models were constructed for muscle protein up to now. In addition, some ionizable chemicals classes e.g. sulfonates were not successfully modeled in previously models, indicating considerable work would be needed. The major objective of this study was to develop quantitative structure-activity relationship (QSAR) models for predicting the muscle protein-water partition coefficient (logK MP/w ) of chicken and fish. In the modeling, the n-octanol/water distribution coefficient (logD), functional groups, atom-centred fragments and chemical form adjusted descriptors were used to construct the models. The application domain of the derived models was defined by the Euclidean distance-based method and Williams plot. The modeling results indicated that the determination coefficient (R 2 ), leave-one out cross validation Q 2 (Q 2 LOO ) and bootstrapping coefficient (Q 2 BOOT ) of the QSAR models for chicken and fish were 0.882 and 0.929, 0.844 and 0.906, 0.779 and 0.792, respectively, implying the models had good goodness-of-fit and robustness. The coefficient determination (R 2 EXT ) and external validation coefficient (Q 2 EXT ) of the validation set for the two models were 0.874 and 0.937, 0.869 and 0.915, respectively, indicating the models had good predictive ability. The predictor variables selected to construct the logK MP/w models of chicken and fish included logD, the function groups, and the fraction of the ionized species (δ I ). Considering the molecular descriptors used here can be calculated from their molecular structures directly, the developed models could be easily used to fill the logK MP/w data gap for other chemicals within the applicability domain. Copyright © 2018 Elsevier Inc. All rights reserved.

  14. A fish intestinal epithelial barrier model established from the rainbow trout (Oncorhynchus mykiss) cell line, RTgutGC.

    Science.gov (United States)

    Minghetti, Matteo; Drieschner, Carolin; Bramaz, Nadine; Schug, Hannah; Schirmer, Kristin

    2017-12-01

    The intestine of fish is a multifunctional organ: lined by only a single layer of specialized epithelial cells, it has various physiological roles including nutrient absorption and ion regulation. It moreover comprises an important barrier for environmental toxicants, including metals. Thus far, knowledge of the fish intestine is limited largely to in vivo or ex vivo investigations. Recently, however, the first fish intestinal cell line, RTgutGC, was established, originating from a rainbow trout (Oncorhynchus mykiss). In order to exploit the opportunities arising from RTgutGC cells for exploring fish intestinal physiology and toxicology, we present here the establishment of cells on commercially available permeable membrane supports and evaluate its suitability as a model of polarized intestinal epithelia. Within 3 weeks of culture, RTgutGC cells show epithelial features by forming tight junctions and desmosomes between adjacent cells. Cells develop a transepithelial electrical resistance comparable to in vivo measured values, reflecting the leaky nature of the fish intestine. Immunocytochemistry reveals evidence of polarization, such as basolateral localization of Na + /K + -ATPase (NKA) and apical localization of the tight junction protein ZO-1. NKA mRNA abundance was induced as physiological response toward a saltwater buffer, mimicking the migration of rainbow trout from fresh to seawater. Permeation of fluorescent molecules proved the barrier function of the cells, with permeation coefficients being comparable to those reported in fish. Finally, we demonstrate that cells on permeable supports are more resistant to the toxicity elicited by silver ions than cells grown the conventional way, likely due to improved cellular silver excretion.

  15. Predicting what helminth parasites a fish species should have using Parasite Co-occurrence Modeler (PaCo).

    Science.gov (United States)

    Strona, Giovanni; Lafferty, Kevin D

    2013-02-01

    Fish pathologists are often interested in which parasites would likely be present in a particular host. Parasite Co-occurrence Modeler (PaCo) is a tool for identifying a list of parasites known from fish species that are similar ecologically, phylogenetically, and geographically to the host of interest. PaCo uses data from FishBase (maximum length, growth rate, life span, age at maturity, trophic level, phylogeny, and biogeography) to estimate compatibility between a target host and parasite species-genera from the major helminth groups (Acanthocephala, Cestoda, Monogenea, Nematoda, and Trematoda). Users can include any combination of host attributes in a model. These unique features make PaCo an innovative tool for addressing both theoretical and applied questions in parasitology. In addition to predicting the occurrence of parasites, PaCo can be used to investigate how host characteristics shape parasite communities. To test the performance of the PaCo algorithm, we created 12,400 parasite lists by applying any possible combination of model parameters (248) to 50 fish hosts. We then measured the relative importance of each parameter by assessing their frequency in the best models for each host. Host phylogeny and host geography were identified as the most important factors, with both present in 88% of the best models. Habitat (64%) was identified in more than half of the best models. Among ecological parameters, trophic level (41%) was the most relevant while life span (34%), growth rate (32%), maximum length (28%), and age at maturity (20%) were less commonly linked to best models. PaCo is free to use at www.purl.oclc.org/fishpest.

  16. Immunotoxicology of titanium dioxide and hydroxylated fullerenes engineered nanoparticles in fish models

    Science.gov (United States)

    Jovanovic, Boris

    2011-12-01

    Nanoparticles have the potential to cause adverse effects on the fish health, but the understanding of the underlying mechanisms is limited. Major task of this dissertation was to connect gaps in current knowledge with a comprehensive sequence of molecular, cellular and organismal responses toward environmentally relevant concentrations of engineered nanoparticles (titanium dioxide -- TiO2 and hydroxylated fullerenes), outlining the interaction with the innate immune system of fish. The research was divided into following steps: 1) create cDNA libraries for the species of fathead minnow (Pimephales promelas); 2) evaluate whether, and how can nanoparticles modulate neutrophil function in P. promelas; 3) determine the changes in expression of standard biomarker genes as a result of nanoparticle treatment; 4) expose the P. promelas to nanoparticles and appraise their survival rate in a bacterial challenge study; 5) assess the impact of nanoparticles on neuro-immunological interface during the early embryogenesis of zebrafish (Danio rerio). It was hypothesized that engineered nanoparticles can cause measurable changes in fish transcriptome, immune response, and disease resistance. The results of this dissertation are: 1) application of environmentally relevant concentration of nanoparticles changed function of fish neutrophils; 2) fish exposed to nano-TiO2 had significantly increased expression of interleukin 11, macrophage stimulating factor 1, and neutrophil cytosolic factor 2, while expression of interleukin 11 and myeloperoxidase was significantly increased and expression of elastase 2 was significantly decreased in fish exposed to hydroxylated fullerenes; 3) exposure to environmental estimated concentration of nano-TiO2 significantly increased fish mortality during Aeromonas hydrophila challenge. Analysis of nano-TiO 2 distribution in fish organism outlined that the nano-TiO2 is concentrating in the fish kidney and spleen; 4) during the early embryogenesis of D

  17. Daphnia and fish toxicity of (benzo)triazoles: validated QSAR models, and interspecies quantitative activity-activity modelling.

    Science.gov (United States)

    Cassani, Stefano; Kovarich, Simona; Papa, Ester; Roy, Partha Pratim; van der Wal, Leon; Gramatica, Paola

    2013-08-15

    Due to their chemical properties synthetic triazoles and benzo-triazoles ((B)TAZs) are mainly distributed to the water compartments in the environment, and because of their wide use the potential effects on aquatic organisms are cause of concern. Non testing approaches like those based on quantitative structure-activity relationships (QSARs) are valuable tools to maximize the information contained in existing experimental data and predict missing information while minimizing animal testing. In the present study, externally validated QSAR models for the prediction of acute (B)TAZs toxicity in Daphnia magna and Oncorhynchus mykiss have been developed according to the principles for the validation of QSARs and their acceptability for regulatory purposes, proposed by the Organization for Economic Co-operation and Development (OECD). These models are based on theoretical molecular descriptors, and are statistically robust, externally predictive and characterized by a verifiable structural applicability domain. They have been applied to predict acute toxicity for over 300 (B)TAZs without experimental data, many of which are in the pre-registration list of the REACH regulation. Additionally, a model based on quantitative activity-activity relationships (QAAR) has been developed, which allows for interspecies extrapolation from daphnids to fish. The importance of QSAR/QAAR, especially when dealing with specific chemical classes like (B)TAZs, for screening and prioritization of pollutants under REACH, has been highlighted. Copyright © 2013 Elsevier B.V. All rights reserved.

  18. Multiple regression models of δ13C and δ15N for fish populations in the eastern Gulf of Mexico

    Science.gov (United States)

    Radabaugh, Kara R.; Peebles, Ernst B.

    2014-08-01

    Multiple regression models were created to explain spatial and temporal variation in the δ13C and δ15N values of fish populations on the West Florida Shelf (eastern Gulf of Mexico, USA). Extensive trawl surveys from three time periods were used to acquire muscle samples from seven groundfish species. Isotopic variation (δ13Cvar and δ15Nvar) was calculated as the deviation from the isotopic mean of each fish species. Static spatial data and dynamic water quality parameters were used to create models predicting δ13Cvar and δ15Nvar in three fish species that were caught in the summers of 2009 and 2010. Additional data sets were then used to determine the accuracy of the models for predicting isotopic variation (1) in a different time period (fall 2010) and (2) among four entirely different fish species that were collected during summer 2009. The δ15Nvar model was relatively stable and could be applied to different time periods and species with similar accuracy (mean absolute errors 0.31-0.33‰). The δ13Cvar model had a lower predictive capability and mean absolute errors ranged from 0.42 to 0.48‰. δ15N trends are likely linked to gradients in nitrogen fixation and Mississippi River influence on the West Florida Shelf, while δ13C trends may be linked to changes in algal species, photosynthetic fractionation, and abundance of benthic vs. planktonic basal resources. These models of isotopic variability may be useful for future stable isotope investigations of trophic level, basal resource use, and animal migration on the West Florida Shelf.

  19. Landscape and flow metrics affecting the distribution of a federally-threatened fish: Improving management, model fit, and model transferability

    Science.gov (United States)

    Worthington, Thomas A.; Zhang, T.; Logue, Daniel R.; Mittelstet, Aaron R.; Brewer, Shannon K.

    2016-01-01

    Truncated distributions of pelagophilic fishes have been observed across the Great Plains of North America, with water use and landscape fragmentation implicated as contributing factors. Developing conservation strategies for these species is hindered by the existence of multiple competing flow regime hypotheses related to species persistence. Our primary study objective was to compare the predicted distributions of one pelagophil, the Arkansas River Shiner Notropis girardi, constructed using different flow regime metrics. Further, we investigated different approaches for improving temporal transferability of the species distribution model (SDM). We compared four hypotheses: mean annual flow (a baseline), the 75th percentile of daily flow, the number of zero-flow days, and the number of days above 55th percentile flows, to examine the relative importance of flows during the spawning period. Building on an earlier SDM, we added covariates that quantified wells in each catchment, point source discharges, and non-native species presence to a structured variable framework. We assessed the effects on model transferability and fit by reducing multicollinearity using Spearman’s rank correlations, variance inflation factors, and principal component analysis, as well as altering the regularization coefficient (β) within MaxEnt. The 75th percentile of daily flow was the most important flow metric related to structuring the species distribution. The number of wells and point source discharges were also highly ranked. At the default level of β, model transferability was improved using all methods to reduce collinearity; however, at higher levels of β, the correlation method performed best. Using β = 5 provided the best model transferability, while retaining the majority of variables that contributed 95% to the model. This study provides a workflow for improving model transferability and also presents water-management options that may be considered to improve the

  20. Transparent Tiger barb Puntius tetrazona, a fish model for in vivo analysis of nocardial infection.

    Science.gov (United States)

    Wang, F; Wang, X G; Liu, C; Chang, O Q; Feng, Y Y; Jiang, L; Li, K B

    2017-11-01

    Nocardiosis afflicts multiple species of cultured fish, resulting in substantial economic losses to the aquaculture industry, however, lack of detailed knowledge on disease pathogenesis has hampered the development of effective prevention and control strategies. In this study, we injected a green fluorescent protein (GFP)-labeled Nocardia seriolae strain into a transparent mutant strain of Tiger barb (Puntius tetrazona) to monitor tissue pathogen accumulation and tissue damage in vivo, and to clarify the relationship between pathogenic processes and overt symptoms. GFP-labeled bacteria were phagocytized by leukocytes and could proliferate within these cells, which in turn led to leukocyte aggregation, leukocyte death, and granuloma formation. In addition, intracellular bacteria could permanently colonize various tissues via leukocyte circulation, causing multi-organ infection as revealed by changes of tissue transparency. Histology revealed granulomatous lesions in organs such as muscle, kidney, and spleen that was corresponded to the tissue opacities in vivo. Confocal microscopy confirmed massive accumulations of GFP-labeled bacteria within these granulomas, which often contained a necrotic core. Tiger barb transparency allows for real-time observation of in vivo pathological changes within the same animal, and the pathogenic process can be evaluated based on the shape and size of body opacities. Thus, transparent Tiger barb is a promising model to study the pathogenesis of nocardiosis. Copyright © 2017. Published by Elsevier B.V.

  1. Mind the fish: zebrafish as a model in cognitive social neuroscience

    Directory of Open Access Journals (Sweden)

    Rui F Oliveira

    2013-08-01

    Full Text Available Understanding how the brain implements social behavior on one hand, and how social processes feedback on the brain to promote fine-tuning of behavioural output according to changes in the social environment is a major challenge in contemporary neuroscience. A critical step to take this challenge successfully is finding the appropriate level of analysis when relating social to biological phenomena. Given the enormous complexity of both the neural networks of the brain and social systems, the use of a cognitive level of analysis (in an information processing perspective is proposed here as an explanatory interface between brain and behavior. A conceptual framework for a cognitive approach to comparative social neuroscience is proposed, consisting of the following steps to be taken across different species with varying social systems: (1 identification of the functional building blocks of social skills; (2 identification of the cognitive mechanisms underlying the previously identified social skills; and (3 mapping these information processing mechanisms onto the brain. Teleost fish are presented here as a group of choice to develop this approach, given the diversity of social systems present in closely related species that allows for planned phylogenetic comparisons, and the availability of neurogenetic tools that allows the visualization and manipulation of selected neural circuits in model species such as the zebrafish. Finally, the state-of-the art of zebrafish social cognition and of the tools available to map social cognitive abilities to neural circuits in zebrafish are reviewed.

  2. Assessment of Dissolved Oxygen Mitigation at Hydropower Dams Using an Integrated Hydrodynamic/Water Quality/Fish Growth Model

    Energy Technology Data Exchange (ETDEWEB)

    Bevelhimer, Mark S [ORNL; Coutant, Charles C [ORNL

    2006-07-01

    Dissolved oxygen (DO) in rivers is a common environmental problem associated with hydropower projects. Approximately 40% of all FERC-licensed projects have requirements to monitor and/or mitigate downstream DO conditions. Most forms of mitigation for increasing DO in dam tailwaters are fairly expensive. One area of research of the Department of Energy's Hydropower Program is the development of advanced turbines that improve downstream water quality and have other environmental benefits. There is great interest in being able to predict the benefits of these modifications prior to committing to the cost of new equipment. In the case of turbine replacement or modification, there is a need for methods that allow us to accurately extrapolate the benefits derived from one or two turbines with better design to the replacement or modification of all turbines at a site. The main objective of our study was to demonstrate a modeling approach that integrates the effects of flow and water quality dynamics with fish bioenergetics to predict DO mitigation effectiveness over long river segments downstream of hydropower dams. We were particularly interested in demonstrating the incremental value of including a fish growth model as a measure of biological response. The models applied are a suite of tools (RMS4 modeling system) originally developed by the Tennessee Valley Authority for simulating hydrodynamics (ADYN model), water quality (RQUAL model), and fish growth (FISH model) as influenced by DO, temperature, and available food base. We parameterized a model for a 26-mile reach of the Caney Fork River (Tennessee) below Center Hill Dam to assess how improvements in DO at the dam discharge would affect water quality and fish growth throughout the river. We simulated different types of mitigation (i.e., at the turbine and in the reservoir forebay) and different levels of improvement. The model application successfully demonstrates how a modeling approach like this one can be

  3. Fish Allergy

    Science.gov (United States)

    ... people often mistakenly eat fish. This happens in kitchens when fish gets into a food product because the staff use the same surfaces, utensils (like knives, cutting boards, or pans), or oil to prepare both fish and other foods. This ...

  4. Fish Individual-based Numerical Simulator (FINS): A particle-based model of juvenile salmonid movement and dissolved gas exposure history in the Columbia River Basin

    International Nuclear Information System (INIS)

    Scheibe, Timothy D.; Richmond, Marshall C.

    2002-01-01

    This paper describes a numerical model of juvenile salmonid migration in the Columbia and Snake Rivers. The model, called the Fish Individual-based Numerical Simulator or FINS, employs a discrete, particle-based approach to simulate the migration and history of exposure to dissolved gases of individual fish. FINS is linked to a two-dimensional (vertically-averaged) hydrodynamic simulator that quantifies local water velocity, temperature, and dissolved gas levels as a function of river flow rates and dam operations. Simulated gas exposure histories can be input to biological mortality models to predict the effects of various river configurations on fish injury and mortality due to dissolved gas supersaturation. Therefore, FINS serves as a critical linkage between hydrodynamic models of the river system and models of biological impacts. FINS was parameterized and validated based on observations of individual fish movements collected using radiotelemetry methods during 1997 and 1998 . A quasi-inverse approach was used to decouple fish swimming movements from advection with the local water velocity, allowing inference of time series of non-advective displacements of individual fish from the radiotelemetry data. Statistical analyses of these displacements are presented, and confirm that strong temporal correlation of fish swimming behavior persists in some cases over several hours. A correlated random-walk model was employed to simulate the observed migration behavior, and parameters of the model were estimated that lead to close correspondence between predictions and observations

  5. Complete tooth loss as status passage.

    Science.gov (United States)

    Gibson, Barry John; Sussex, Philip V; Fitzgerald, Ruth P; Thomson, William Murray

    2017-03-01

    The aim of this article is to add to the literature on the sociology of oral health and dentistry by presenting the relevance of status passage to the study of complete tooth loss. The article reports on an analysis of data taken from participants residing in the Nelson region of New Zealand. In total the data include interviews from 20 participants, all of whom had their remaining natural teeth removed before 1960. In total, 12 women and eight men were interviewed. All were from a European background with an age range of 71 to 101 years. Following a narrative approach, participants were interviewed on the nature of the social factors that resulted in complete tooth loss by starting with their family history and then focusing on the factors and events leading up to their total tooth loss. Data were analysed using the methods and techniques of grounded theory. This article provides an outline of the importance of scheduling, prescribing, social factors, 'compound awareness contexts' and reversibility to the status passage into complete tooth loss. We conclude by arguing that the theory of status passage may enable a detailed analysis of the 'time-space extensionality' of trajectories into complete tooth loss. © 2016 Foundation for the Sociology of Health & Illness.

  6. Fish entrainment and mortality at the French Landing Hydroelectric Powerhouse

    International Nuclear Information System (INIS)

    Sundquist, M.J.

    1991-01-01

    This paper is a case study which explains the fish mortality study performed and results obtained at an existing hydroelectric powerhouse in Michigan. Undertaken in 1989 and 1990, this study provides data for determining effects of turbine passage on area fish

  7. Modelling population effects of juvenile offshore fish displacement towards adult habitat

    DEFF Research Database (Denmark)

    van de Wolfshaar, K.E.; Tulp, I.; Wennhage, H.

    2015-01-01

    Recent studies of fish distribution patterns highlight shifts in the spatial distributions of particular life-stages. Focus has thus far been on changes in habitat use and possible drivers for these changes. Yet, small-scale shifts in habitat use of certain life stages may have profound......, the biomass of small juveniles and adults is barely affected. Between the 2 states there is a profoundly different population response to increased fishing mortality. In the adult biomass dominated state, adult biomass is hardly affected while juvenile biomass increases until population collapse......, with increased fishing. In the small juvenile dominated state, adult and small juvenile biomass decrease, and large juvenile biomass increases. This state persists at much higher fishing mortality than the adult biomass dominated state. This study highlights that safeguarding nursery functions in a changing...

  8. An adult osteopetrosis model in medaka reveals the importance of osteoclast function for bone remodeling in teleost fish.

    Science.gov (United States)

    To, Thuy Thanh; Witten, Paul Eckhard; Huysseune, Ann; Winkler, Christoph

    2015-12-01

    Osteoclasts play important roles during bone growth and in maintaining bone health and bone homeostasis. Dysfunction or lack of osteoclasts leads to increased bone mass and osteopetrosis phenotypes in mouse and human. Here we report a severe osteopetrosis-like phenotype in transgenic medaka fish, in which membrane bound EGFP (mEGFP) was expressed in osteoclasts under control of the cathepsin K promoter (ctsk:mEGFP). In contrast to reporter lines with GFP expression in the cytoplasm of osteoclasts, adult fish of the mEGFP line developed bone defects indicative for an osteoclast dysfunction. Activity of tartrate-resistant acid phosphatase (TRAP) was down-regulated and excess bone was observed in most parts of the skeleton. The osteopetrotic phenotype was particularly obvious at the neural and haemal arches that failed to increase their volume in growing fish. Excess bone caused severe constriction of the spinal cord and the ventral aorta. The continuation of tooth development and the failure to shed teeth resulted in severe hyperdontia. Interestingly, at the vertebral column vertebral body arches displayed a severe osteopetrosis, while vertebral centra had no or only a mild osteopetrotic phenotype. This confirms previous reports from cichlids that, different from the arches, allometric growth of fish vertebral centra initially does not depend on the action of osteoclasts. Independent developmental mechanism that shapes arches and vertebral centra can also lend support to the hypothesis that vertebral centra and arches function as independent developmental modules. Together, this medaka osteopetrosis model confirms the importance of proper osteoclast function during normal skeletal development in teleost fish that requires bone modeling and remodeling. Copyright © 2015 Elsevier Inc. All rights reserved.

  9. Discrete Element Modeling of Blade–Strike Frequency and Survival of Fish Passing Through Hydrokinetic Turbines

    OpenAIRE

    Richmond, Marshall C.; Romero-Gomez, Pedro

    2014-01-01

    Evaluating the consequences to fish from blade-strike on marine hydrokinetic (MHK) turbine blades is important for incorporating environmental objectives into the integral optimization of machine performance. For instance, experience with conventional hydroelectric turbines has shown that innovative shaping of the blade and other machine components can improve hydraulic performance while reducing negative impacts to fish and other aquatic life. In this work, we used unsteady computational flu...

  10. Coping with flow: behavior, neurophysiology and modeling of the fish lateral line system.

    Science.gov (United States)

    Mogdans, Joachim; Bleckmann, Horst

    2012-12-01

    With the mechanosensory lateral line fish perceive water motions relative to their body surface and local pressure gradients. The lateral line plays an important role in many fish behaviors including the detection and localization of dipole sources and the tracking of prey fish. The sensory units of the lateral line are the neuromasts which are distributed across the surface of the animal. Water motions are received and transduced into neuronal signals by the neuromasts. These signals are conveyed by afferent nerve fibers to the fish brain and processed by lateral line neurons in parts of the brainstem, cerebellum, midbrain, and forebrain. In the cerebellum, midbrain, and forebrain, lateral line information is integrated with sensory information from other modalities. The present review introduces the peripheral morphology of the lateral line, and describes our understanding of lateral line physiology and behavior. It focuses on recent studies that have investigated: how fish behave in unsteady flow; what kind of sensory information is provided by flow; and how fish use and process this information. Finally, it reports new theoretical and biomimetic approaches to understand lateral line function.

  11. Recombinant expression and purification of the RNA-binding LARP6 proteins from fish genetic model organisms.

    Science.gov (United States)

    Castro, José M; Horn, Daniel A; Pu, Xinzhu; Lewis, Karen A

    2017-06-01

    The RNA-binding proteins that comprise the La-related protein (LARP) superfamily have been implicated in a wide range of cellular functions, from tRNA maturation to regulation of protein synthesis. To more expansively characterize the biological function of the LARP6 subfamily, we have recombinantly expressed the full-length LARP6 proteins from two teleost fish, platyfish (Xiphophorus maculatus) and zebrafish (Danio rerio). The yields of the recombinant proteins were enhanced to >2 mg/L using a tandem approach of an N-terminal His 6 -SUMO tag and an iterative solubility screening assay to identify structurally stabilizing buffer components. The domain topologies of the purified fish proteins were probed with limited proteolysis. The fish proteins contain an internal, protease-resistant 40 kDa domain, which is considerably more stable than the comparable domain from the human LARP6 protein. The fish proteins are therefore a lucrative model system in which to study both the evolutionary divergence of this family of La-related proteins and the structure and conformational dynamics of the domains that comprise the LARP6 protein. Copyright © 2017 Elsevier Inc. All rights reserved.

  12. Methods for determination of passage rates of, fibre in tropical ...

    African Journals Online (AJOL)

    Passage rates were estimated in vivo using five rumen fistulated non-pregnant dairy heifers. Rumen evacuation technique (RET), and chromium mordanted fibre (CR-MF) method were used to estimate passage rates in 5 x 5 Latin Square experiment. Passage rates measured using CR-MF and RET showed high variabiltiy ...

  13. Expression of luxS gene involved in quorum sensing in Lactobacillus acidophilus NCFM after passage through an in vitro digestion model

    DEFF Research Database (Denmark)

    Moslehi Jenabian, Saloomeh; Jespersen, Lene

    sensing is cellto- cell signalling through the production, secretion and detection of small signal molecules called autoinducers. The aim of the present study was to investigate the transcription of the luxS gene involved in quorum sensing in probiotic strain Lactobacillus acidophilus NCFM after passage......Within recent years, there has been an increasing interest in discovering the beneficial effects of probiotics and the mechanisms by which probiotics interact with the host and the gut microbiota. One of the mechanisms that bacteria interact or communicate with each other is quorum sensing. Quorum...

  14. Time Perspective and Emotion Regulation as Predictors of Age-Related Subjective Passage of Time

    Science.gov (United States)

    Wittmann, Marc; Rudolph, Tina; Linares Gutierrez, Damisela; Winkler, Isabell

    2015-01-01

    Hardly any empirical work exists concerning the relationship between the intra-individually stable time perspective relating to the past, present, and future and the subjective speed of time passing in everyday life. Moreover, studies consistently show that the subjective passage of time over the period of the last ten years speeds up as we get older. Modulating variables influencing this phenomenon are still unknown. To investigate these two unresolved issues, we conducted an online survey with n = 423 participants ranging in age between 17 and 81 assessing trait time perspective of the past, present, and future, and relating these subscales with a battery of measures pertaining to the subjective passage of time. Moreover, the subjective passage of time as an age-dependent variable was probed in relationship to emotion awareness, appraisal and regulation. Results show how present hedonism is linked with having fewer routines in life and a faster passage of the last week; the past negative perspective is related to time pressure, time expansion and more routine; a pronounced future perspective is related to a general faster passage of time. Importantly, increased emotion regulation and a balanced time perspective are related to a slower passage of the last ten years. These novel findings are discussed within models of time perception and the time perspective. PMID:26694439

  15. Spatial Scaling of Environmental Variables Improves Species-Habitat Models of Fishes in a Small, Sand-Bed Lowland River.

    Directory of Open Access Journals (Sweden)

    Johannes Radinger

    Full Text Available Habitat suitability and the distinct mobility of species depict fundamental keys for explaining and understanding the distribution of river fishes. In recent years, comprehensive data on river hydromorphology has been mapped at spatial scales down to 100 m, potentially serving high resolution species-habitat models, e.g., for fish. However, the relative importance of specific hydromorphological and in-stream habitat variables and their spatial scales of influence is poorly understood. Applying boosted regression trees, we developed species-habitat models for 13 fish species in a sand-bed lowland river based on river morphological and in-stream habitat data. First, we calculated mean values for the predictor variables in five distance classes (from the sampling site up to 4000 m up- and downstream to identify the spatial scale that best predicts the presence of fish species. Second, we compared the suitability of measured variables and assessment scores related to natural reference conditions. Third, we identified variables which best explained the presence of fish species. The mean model quality (AUC = 0.78, area under the receiver operating characteristic curve significantly increased when information on the habitat conditions up- and downstream of a sampling site (maximum AUC at 2500 m distance class, +0.049 and topological variables (e.g., stream order were included (AUC = +0.014. Both measured and assessed variables were similarly well suited to predict species' presence. Stream order variables and measured cross section features (e.g., width, depth, velocity were best-suited predictors. In addition, measured channel-bed characteristics (e.g., substrate types and assessed longitudinal channel features (e.g., naturalness of river planform were also good predictors. These findings demonstrate (i the applicability of high resolution river morphological and instream-habitat data (measured and assessed variables to predict fish presence, (ii the

  16. Spatial Scaling of Environmental Variables Improves Species-Habitat Models of Fishes in a Small, Sand-Bed Lowland River.

    Science.gov (United States)

    Radinger, Johannes; Wolter, Christian; Kail, Jochem

    2015-01-01

    Habitat suitability and the distinct mobility of species depict fundamental keys for explaining and understanding the distribution of river fishes. In recent years, comprehensive data on river hydromorphology has been mapped at spatial scales down to 100 m, potentially serving high resolution species-habitat models, e.g., for fish. However, the relative importance of specific hydromorphological and in-stream habitat variables and their spatial scales of influence is poorly understood. Applying boosted regression trees, we developed species-habitat models for 13 fish species in a sand-bed lowland river based on river morphological and in-stream habitat data. First, we calculated mean values for the predictor variables in five distance classes (from the sampling site up to 4000 m up- and downstream) to identify the spatial scale that best predicts the presence of fish species. Second, we compared the suitability of measured variables and assessment scores related to natural reference conditions. Third, we identified variables which best explained the presence of fish species. The mean model quality (AUC = 0.78, area under the receiver operating characteristic curve) significantly increased when information on the habitat conditions up- and downstream of a sampling site (maximum AUC at 2500 m distance class, +0.049) and topological variables (e.g., stream order) were included (AUC = +0.014). Both measured and assessed variables were similarly well suited to predict species' presence. Stream order variables and measured cross section features (e.g., width, depth, velocity) were best-suited predictors. In addition, measured channel-bed characteristics (e.g., substrate types) and assessed longitudinal channel features (e.g., naturalness of river planform) were also good predictors. These findings demonstrate (i) the applicability of high resolution river morphological and instream-habitat data (measured and assessed variables) to predict fish presence, (ii) the

  17. Spatial Scaling of Environmental Variables Improves Species-Habitat Models of Fishes in a Small, Sand-Bed Lowland River

    Science.gov (United States)

    Radinger, Johannes; Wolter, Christian; Kail, Jochem

    2015-01-01

    Habitat suitability and the distinct mobility of species depict fundamental keys for explaining and understanding the distribution of river fishes. In recent years, comprehensive data on river hydromorphology has been mapped at spatial scales down to 100 m, potentially serving high resolution species-habitat models, e.g., for fish. However, the relative importance of specific hydromorphological and in-stream habitat variables and their spatial scales of influence is poorly understood. Applying boosted regression trees, we developed species-habitat models for 13 fish species in a sand-bed lowland river based on river morphological and in-stream habitat data. First, we calculated mean values for the predictor variables in five distance classes (from the sampling site up to 4000 m up- and downstream) to identify the spatial scale that best predicts the presence of fish species. Second, we compared the suitability of measured variables and assessment scores related to natural reference conditions. Third, we identified variables which best explained the presence of fish species. The mean model quality (AUC = 0.78, area under the receiver operating characteristic curve) significantly increased when information on the habitat conditions up- and downstream of a sampling site (maximum AUC at 2500 m distance class, +0.049) and topological variables (e.g., stream order) were included (AUC = +0.014). Both measured and assessed variables were similarly well suited to predict species’ presence. Stream order variables and measured cross section features (e.g., width, depth, velocity) were best-suited predictors. In addition, measured channel-bed characteristics (e.g., substrate types) and assessed longitudinal channel features (e.g., naturalness of river planform) were also good predictors. These findings demonstrate (i) the applicability of high resolution river morphological and instream-habitat data (measured and assessed variables) to predict fish presence, (ii) the

  18. Modelling native fish richness to evaluate the effects of hydromorphological changes and river restoration (Júcar River Basin, Spain).

    Science.gov (United States)

    Olaya-Marín, Esther Julia; Martínez-Capel, Francisco; Costa, Rui Manuel Soares; Alcaraz-Hernández, Juan Diego

    2012-12-01

    The richness of native fish is considered to be an indicator of aquatic ecosystem health, and improving richness is a key goal in the management of river ecosystems. An artificial neural network (ANN) model based on field data from 90 sample sites distributed throughout the Júcar River Basin District was developed to predict the native fish species richness (NFSR). The Levenberg-Marquardt learning algorithm was used for model training. When constructing the model, we tried different numbers of neurons (hidden layers), compared different transfer functions, and tried different k values (from 3 to 10) in the k-fold cross-validation method. This process and the final selection of key variables with relevant ecological meaning support the reliability and robustness of the final ANN model. The partial derivatives method was applied to determine the relative importance of input environmental variables. The final ANN model combined variables describing riparian quality, water quality, and physical habitat and helped identify the primary drivers of the NFSR patterns in Mediterranean rivers. In the second part of the study, the model was used to evaluate the effectiveness of two restoration actions in the Júcar River: the removal of two abandoned weirs and the progressive increase in the proportion of riffles. The model indicated that the combination of these actions produced a rise in NFSR, which ultimately reached the maximum values observed in the reference site of that river ecotype (sensu the European Water Framework Directive). The results demonstrate the importance of longitudinal connectivity and riffle proportion for improving NFSR and the power of ANNs to help decisions in the management and ecological restoration of Mediterranean rivers. Furthermore, this model at the basin scale is the first step for further research on the effects of water scarcity and global change on Mediterranean fish communities. Copyright © 2012 Elsevier B.V. All rights reserved.

  19. Assessment of whether upstream passage for Lake Sturgeon is needed at the Pointe du Bois Generating Station (Winnipeg River)

    International Nuclear Information System (INIS)

    Pratt, T.

    2010-01-01