Aquaculture and Fisheries Commons^™

An Approach For Use Of Dual Frequency Identification Sonar (Didson) To Quantify Behavioral Aspects Of Piscivory At Ecologically Relevant Time And Space Scales, Victoria E. Price

Master's Theses

Predator-prey interactions of large vagile fishes are difficult to study in the ocean due to limitations in the space and time requirements for observations. Small-scale direct underwater observations by divers (<10m >radius) and large-scale hydroacoustic surveys (10s - 100s km2) are traditional approaches. However, large piscivorous predators identify and attack prey at the scale of meters to tens of meters. Dual- Frequency Identification Sonar, or DIDSON, is a high-resolution acoustic camera operating in the MHz range that provides detailed continuous video-like imaging of objects out to 30 m range. This technology can be used to observe predator-prey interactions at ecologically …

Terrestrial Habitat Requirements Of Nesting Freshwater Turtles, D. A. Steen, J. P. Gibbs, K. A. Buhlman, J. L. Carr, B. W. Compton, J. D. Congdon, J. S. Doody, J. C. Godwin, Kerry L. Holcomb, D. R. Jackson, F. J. Janzen, G. Johnson, M. T. Jones, J. T. Lamer, T. A. Langen, M. V. Plummer, J. W. Rowe, R. A. Saumure, J. K. Tucker, D. S. Wilson

All Faculty Scholarship for the College of the Sciences

Because particular life history traits affect species vulnerability to development pressures, cross-species summaries of life history traits are useful for generating management guidelines. Conservation of aquatic turtles, many members of which are regionally or globally imperiled, requires knowing the extent of upland habitat used for nesting. Therefore, we compiled distances that nests and gravid females had been observed from wetlands. Based on records of > 8000 nests and gravid female records compiled for 31 species in the United States and Canada, the distances that encompass 95% of nests vary dramatically among genera and populations, from just 8 m for Malaclemys to …

Big Blue And You: An Interdisciplinary Look At Science And The Ocean, A Students Teaching Students Course, Megan M. Nepshinsky, Alexa Kretsch, Benjamin Negrete

Senior Honors Projects

This class is the second project under the new Honors Program initiative, Students Teaching Students (STS). STS was brought to URI and implemented by Bridget Griffith as part of her Senior Honors Project in 2011. Students apply in their Junior year to design, research, and teach an honors course on a topic about which they are passionate. The STS program allows motivated honors students to have a unique opportunity to lead a class as student professors. This allows students a freedom of creativity on the topic, assignments, and teaching style. Drawing on our own experiences, we were able to create …

Genetic Variation In Potentially Virulent Vibrio Parahaemolyticus From The Northern Gulf Of Mexico, Nicholas Felix Noriea Iii

Dissertations

Vibrio parahaemolyticus (V_p) is a gram-negative bacterium found naturally in marine and estuarine environments. V_p is found in oysters including those which are later consumed by the public. Sub-populations of potentially virulent Vp contain specific virulence factors and are relevant human pathogens capable of causing gastroenteritis, wound infection, and death. The tdh and trh genes, both encoding hemolysins, have been correlated with the majority of clinical V_p isolates but have not been shown to be the definitive virulence factors.

A total of 146 V_p isolates from the northern Gulf of Mexico were collected and probed …

Effects Of Hypoxia And 4-Tert-Octylphenol On Gene Expression Profiles Of The Sheepshead Minnow (Cyprinodon Variegatus), Arthur Alan Karels

Dissertations

Hypoxia occurs in estuaries of northern Gulf of Mexico and world-wide, with increasing frequency/severity via eutrophication and anthropogenic influences. Hypoxia inducible factors (HIFs) form transcriptional complex and bind DNA at hypoxia responsive elements (HREs) in promoter regions of genes needed for systemic and cellular adaptation of fish to low dissolved oxygen (hypoxia, DO <2.0 mg/ml). Hypoxia-induced activation of HIF-αs can lead to a cascade of downstream activation, such as erythropoietin (EPO). Return to normal DO levels (normoxia), prolyl hydroxylases (PHDs) are activated to degrade HIF-αs back to baseline. Fish are affected by environmental estrogen mimics, like 4-tert-octylphenol (4tOP), binding estrogen receptor alpha (ERα) at estrogen responsive elements (EREs) and activating genes vitellogenin (VTG). Previous research showed overlap or crosstalk between these two mechanistic pathways. Hypoxia triggers unknown factors regulating ERE-mediated ERα signaling pathway, and stressor combinations could increase/decrease hypoxic or endocrine pathway. Research examined molecular/physiological effects of hypoxia (acute and chronic, moderate and severe) and 4tOP (~60μg/L)on adult male and/or female sheepshead minnow (Cyprinodon variegatus). Three genes identified, cloned, and sequenced (HIF-1α, HIF-2α, and PHD3), plus previously identified genes EPO and VTG, were examined in liver/testes exposed to hypoxia and/or 4tOP for cellular/physiological changes. Endpoints examined included mRNA expression from real-time PCR of HIF-1α, HIF-2α, PHD3, EPO, and VTG using cDNA from total RNA extracts, and microarray analyses of genes expressed during the transition from hypoxia back to normoxia. Phylogenetic analyses confirmed isolation of two HIF-α isofoms (HIF-1α and HIF-2α) and the PHD3 isoform. Significant up-regulation of PHD3 occurred within 10 hrs of chronic hypoxia, and persisted when severe (1.5 mg/L) and declined when moderate (~2.5mg/L). Significant up-regulation of HIF-1α and EPO occurred within 30 minutes to 2 hours of onset of acute severe and very severe (~1.08mg/L) hypoxia. Hypoxia acted similar to an estrogen mimic, with huge up-regulation of VTG gene expression in males, and increased VTG levels (additive effect) when hypoxia was combined with 4tOP. Microarray analyses showed 125 genes with significant transcriptional change, with up- or down-regulation from transitions of: (1) hypoxia (72 hrs) to normoxia (74 hrs) and (2) hypoxia+4tOP (72 hrs) to normoxia+4tOP (74 hrs).

Comparison Of Creel Survey Data To Traditional Sampling Techniques In Pit-Lake Fisheries Of Muhlenberg County, Kentucky, Derek L. Rupert

Masters Theses & Specialist Projects

Populations of largemouth bass, Micropterus salmoides, and bluegill, Lepomis macrochirus, were evaluated from five pit-lakes in Muhlenberg County, Kentucky, to determine if accurate proportional stock density (PSD) data can be obtained from a mandatory creel survey. It was hypothesized that the proportion of stock-to-quality (300-400mm) and quality (+400mm) largemouth bass from four years (2007-2010) of creel survey data would be statistically similar to those generated through on-site sampling in 2011. Fish were collected via a combination of gill netting, seining, hook-and-line fishing, and boat-mounted electro-fishing. In two of the pit-lakes, the sampling-generated length frequency data was not significantly …

Minimising Gear Conflict And Resource Sharing Issues In The Shark Bay Trawl Fisheries And Promotion Of Scallop Recruitment, Mervi I. Kangas, Arani Chandrapavan, Y L. Hetzel, Erroll C. Sporer

Fisheries Research Reports

Objectives 1. To determine size specific recapture mortality rates of Amusium balloti as a result of repeated capture and release experiments and gear impacts on newly recruited (juvenile) scallops. 2. To determine the impacts of various scallop mesh sizes for the capture of the target size of Amusium balloti and its impact on damage to and retention of prawns. 3. To investigate if small-scale spatial closures assist recruitment of Amusium balloti by reducing gear impacts and capture mortality but without affecting overall prawn catches. 4. To examine whether existing hydrodynamic models can guide the selection of spatial closures and to …

A Study Of The Spawning Ecology And Early Life History Survival Of Bonneville Cutthroat Trout, Phaedra E. Budy, Sarah Wood, Brett B. Roper

Watershed Sciences Faculty Publications

We completed a large-scale field experiment in four tributaries of the Logan River, Utah, where the largest metapopulation of imperiled Bonneville cutthroat trout Oncorhynchus clarkii utah persists. We documented the spatial and temporal distributions of spawners, quantified substrate use versus substrate availability, and evaluated differences in hatch and emergence fry success between and among sites in relation to habitat characteristics. We observed considerable variability in the timing, magnitude, and duration of spawning among study areas (streams), in part as a function of a variable, multipeaked hydrograph. Nevertheless, across study areas, >70% of redds were constructed on the final descending limb …

Clam (Corbicula Fluminea) As A Potential Sentinel Of Human Norovirus Contamination In Freshwater, Xunyan Ye

Dissertations

The purpose of this study was to evaluate and validate the use of the clam Corbicula fluminea as a sentinel of human noroviruses (HuNoV) contamination in freshwater. The first specific aim was to develop a new method to extract HuNoV RNA from contaminated bivalves (e.g. oysters, clams) that would be much faster than existing methods. The procedure developed includes an initial total RNA extraction using TRI Reagent, followed by HuNoV RNA concentration and purification using biotinylated probe-capture technology. HuNoV RNA is finally detected by real-time RT-PCR. Using bivalve homogenates spiked with HuNoV, 100 PCR detection units of the virus was …

Boat-Based Recreational Fishing Catch And Effort In Cockburn Sound And Owen Anchorage During 1996/97, 2001/02 And 2005/06, Neil Sumner, Eva Lai

Fisheries Research Contract Reports

This report presents catch and effort estimates from three surveys of boat-based fishers. Recreational anglers used lines with bait or lures to catch fish. Boat-based crabbers either use drop nets or catch crabs by hand whilst diving or snorkelling. Surveys of recreational fishing activities that included coverage of Cockburn Sound were conducted during 1996/1997 (Sumner and Williamson, 1999), in 2001/02 (Sumner and Malseed, 2004) and in 2005/06 (Sumner et al., 2008). The 1996/97 and 2005/06 surveys covered the entire West Coast Bioregion of Western Australia, which includes Cockburn Sound. There was a need to re-analyse data collected during the …

Additions To The Taiwan Marine Eel Fauna With First Records Of Three Rare Moray Eels (Anguilliformes: Muraenidae), Kar-Hoe Loh, Kwang-Tsao Shao, Hong-Ming Chen

Journal of Marine Science and Technology–Taiwan

The specimens of three new records of moray eels (Anguilliformes: Muraenidae) were identified for the first time off the eastern (Changbin) and southern (Kenting) coast of Taiwan. They were Enchelynassa canina (Quoy and Gaimard), Gymnothorax elegans Bliss and Gymnothorax fuscomaculatus (Schultz). The monotypic genus Enchelynassa which had only one species in the genus was also a newly recorded genus to Taiwan. In this paper, we reported the three rare moray species, included diagnostic characters and the fresh coloration on whole body, head, dorsal and ventral sides; as well as their dentitions; and the key to the relative species.

Fishermen, Politics, And Participation: An Ethnographic Examination Of Commercial Fisheries Management In St. Croix, U.S. Virgin Islands, Cynthia Grace-Mccaskey

USF Tampa Graduate Theses and Dissertations

Currently, there is widespread debate regarding the overall status of the world's fisheries, with some researchers projecting their total collapse in only a few decades, and others concluding the situation is not quite as bleak. Additional debates include what strategies should be used to manage fisheries at various scales, and further research is needed to determine which strategies are most appropriate for use in particular situations and locales, as context is critical.

Recently, prominent common pool resources scholars have expressed the need for ethnographic approaches to studying resource management institutions in order to move beyond the current focus of simply …

Response Of Channel × Blue Hybrid Catfish To Chronic Diurnal Hypoxia, Bartholomew W. Green, Steven D. Rawles, Benjamin H. Beck

United States Department of Agriculture-Agricultural Research Service / University of Nebraska-Lincoln: Faculty Publications

Performance traits and metabolic responses of the channel × blue hybrid catfish (Ictalurus punctatus female × I. furcatus male) in response to chronic diurnal hypoxia were evaluated in this 197-d study. Sixteen 0.1-ha earthen ponds were stocked with 15,169 hybrid catfish/ha (47 g/fish) and managed to maintain the minimum dissolved oxygen concentration greater than 12%, 24%, 36%, or 48% of saturation. Growth and yield of channel × blue hybrid catfish were significantly related to minimum nightly dissolved oxygen concentration. The cumulative effect of nocturnal dissolved oxygen concentration and the duration of exposure to hypoxia (termed dissolved oxygen minutes) …

Nantucket Shellfish Management Plan, Kristin Uiterwyk, Steve Bliven, Dan Leavitt, Jack Wiggin, Urban Harbors Institute, University Of Massachusetts Boston

Office of Community Partnerships Posters

Nantucket’s shellfish resources are an important part of the Island’s history, culture, and economy. Nantucket waters support one of the country’s last wild-caught bay scallop fisheries. Elsewhere along the Atlantic coast, fishing pressure, habitat loss, and disease have severely depleted bay scallop populations. Although Nantucketers continue to make a living harvesting shellfish from the Island’s waters, many do so with concern for the future of the resources and the habitats that support them. Urban Harbors Institute (UHI) provided technical assistance to the community to develop a Shellfish Management Plan (SMP) that addresses issues of water quality, habitat loss, climate change, …

Using Grizzly Bears To Assess Harvest-Ecosystem Tradeoffs In Salmon Fisheries, Taal Levi, Chris T. Darimont, Misty Macduffee, Marc Mangel, Paul C. Paquet, Christopher C. Wilmers

Aquaculture and Fisheries Collection

Implementation of ecosystem-based fisheries management (EBFM) requires a clear conceptual and quantitative framework for assessing how different harvest options can modify benefits to ecosystem and human beneficiaries. We address this social-ecological need for Pacific salmon fisheries, which are economically valuable but intercept much of the annual pulse of nutrient subsidies that salmon provide to terrestrial and aquatic food webs. We used grizzly bears, vectors of salmon nutrients and animals with densities strongly coupled to salmon abundance, as surrogates for ‘‘salmon ecosystem’’ function. Combining salmon biomass and stock-recruitment data with stable isotope analysis, we assess potential tradeoffs between fishery yields and …

Wetland Hydrodynamics And Long-Term Use Of Spring Migration Areas By Lesser Scaup In Eastern South Dakota, Sharon N. Kahara, Steven R. Chipps

Great Plains Research: A Journal of Natural and Social Sciences (through 2013)

Lesser scaup (Aythya affinis [Eyton]) populations remain below their long-term average despite improved habitat conditions along spring migration routes and at breeding grounds. Scaup are typically associated with large, semipermanent wetlands and exhibit regional preferences along migration routes. Identifying consistently used habitats for conservation and restoration is complicated by irregular wetland availability due to the dynamic climate. We modeled long-term wetland use by lesser scaup in eastern South Dakota based on surveys conducted during below-average (1987-1989) and above-average (1993-2002) water condition years. Wetland permanence, longitude, and physiographic region were all significant determinants of use (P < 0.01). Long-term use was best described by a quadratic equation including wetland surface area variability, an index of wetland hydrodynamics that is linked to productivity, biodiversity, and value to waterfowl. Contrary to previous findings, our study shows that over the long term, lesser scaup are more than twice as likely to use permanent wetlands as they are semipermanent wetlands. The northern region of South Dakota's Prairie Coteau, which holds the highest density of hydrologically dynamic permanent wetlands, should be considered an area of conservation concern for lesser scaup. The criteria we identified may be used to identify important lesser scaup habitats in other regions of the Prairie Pothole Region.

Fisheries Research Report No. 217 - Stock Assessment For The West Coast Rock Lobster Fishery, Simon De Lestang, Nick Caputi, Jason How, Roy Melville-Smith, Adrian Thomson, Peter Stephenson

Fisheries Research Reports

The recreational component of the western rock lobster fishery is managed under fisheries regulations that impose a mix of input and output controls on individual recreational fishers. These arrangements are designed to complement the management plan for the commercial fishery

Ministerial Policy Guideline No.21: Matters Related To The 2010 Funding Reform Decisions Of Government, Department Of Fisheries Wa

Fisheries Administrative Guidelines

This guideline forms a further part of a framework for the administration of the fishing and related industries in Western Australia.

It documents, for the assistance of the Chief Executive Officer (CEO) and other fisheries personnel, and for the information of the industry and the community, decisions taken by the Government in June 2010 in relation to access fees for commercial fishing and aquaculture activities authorised under the Fish Resources Management Act 1994 (FRMA) and pearling activities under the Pearling Act 1990, and associated Ministerial undertakings relating to access and lease fees prescribed under the FRMA and Pearling Act …

Research, Monitoring, Assessment And Development Plan 2011 – 2012, Department Of Fisheries

Fisheries Occasional Publications

No abstract provided.

Licensing And Allocation Under A New Management Plan For The West Coast Rock Lobster Managed Fishery. A Discussion Paper., Department Of Fisheries Western Australia.

Fisheries Management Papers

This paper was prepared to set out the proposed direction for licensing, entitlement allocation and related matters under a new management plan for the West Coast Rock Lobster Managed Fishery (the new Management Plan), which is expected to begin operation on 15 January 2013. It is one of two papers being released by the Department of Fisheries (the Department) for comment as part of consultation on the development of this legislation, and is designed to encourage public involvement in the changes to the management arrangements for the West Coast Rock Lobster Managed Fishery (the fishery).

In addition, a related paper …

A Resource-Based Management Approach For Recreational Fishing In Western Australia 2012-2017. State-Wide Management Proposals For Finfish, Crustaceans, Molluscs And Other Invertebrates., Department Of Fisheries Western Australia.

Fisheries Management Papers

This paper outlines a new, simplified framework of bag and possession limits that is based on state-wide management arrangements for various categories of finfish and invertebrate resources. This new approach will help simplify advisory material and make the recreational fishing experience more enjoyable.

West Coast Rock Lobster Managed Fishery. Harvest Strategy And Decision Rules Framework Proposals Under A Quota Management System. A Discussion Paper., Department Of Fisheries Western Australia

Fisheries Management Papers

This paper outlines a set of updated proposals for use in the Harvest Strategy and Decision Rules framework (referred to as the HSDR) for the West Coast Rock Lobster Managed Fishery (WCRLMF)2 , which have been developed to facilitate implementation of the new quota based management system. Where relevant, this current document utilises the information and outcomes presented in the previous discussion document on HSDR3 (Donohue et al., 2010) developed for use with the then input (effort) control management system that operated until 2009/10.

Operational And Compliance Elements Of A New Management Plan For The West Coast Rock Lobster Managed Fishery. A Discussion Paper., Department Of Fisheries Western Australia

Fisheries Management Papers

This paper was prepared to set out the proposed direction for compliance and other operational matters under a new management plan for the West Coast Rock Lobster Managed Fishery (the new Management Plan) which is expected to commence operation on 15 January 2013. It is one of two papers being released by the Department of Fisheries (Department) for comment as part of consultation on the development of this legislation, and is designed to encourage public involvement in the changes to the management arrangements for the West Coast Rock Lobster Managed Fishery (the fishery).

Hierarchy In Factors Affecting Fish Biodiversity In Floodplain Lakes Of The Mississippi Alluvial Valley, Daniel J. Dembkowski, L. E. Miranda

Natural Resource Management Faculty Publications

River-floodplain ecosystems offer some of the most diverse and dynamic environments in the world. Accordingly, floodplain habitats harbor diverse fish assemblages. Fish biodiversity in floodplain lakes may be influenced by multiple variables operating on disparate scales, and these variables may exhibit a hierarchical organization depending on whether one variable governs another. In this study, we examined the interaction between primary variables descriptive of floodplain lake large-scale features, suites of secondary variables descriptive of water quality and primary productivity, and a set of tertiary variables descriptive of fish biodiversity across a range of floodplain lakes in the Mississippi Alluvial Valley of …

Out Of Sight, But Not Out Of Mind: A Look At Nanoparticles In The Marine Environment, Evan Ward, John J. Doyle

Wrack Lines

Nanoparticles exist in many products used by humans, such as sunscreens. medications, cosmetics, paints and electronics. But what is the effect of these tiny particles on the ocean or estuarine environment when the sunscreen washes off? This article looks at that question and at shellfish in particular. Evan Ward and John Doyle are marine scientists at UConn.

Diversity Of The Ohio River Bacterial Communities Using Next-Generation Sequencing Techniques, Emily Michele Anneken

Theses, Dissertations and Capstones

The ability to sequence bacterial genetic material directly from environmental samples has unlocked the field of metagenomics. Next-generation sequencing techniques, such as pyrosequencing, have been instrumental in providing knowledge about bacterial communities. This study focused on identifying the bacterial diversity of the Ohio River via pyrosequencing and compared the diversity of cultivable bacteria versus the entire river community. To ensure the maximum number of cultivable bacteria was obtained, cultures were grown on nonselective media and incubated at river temperature. Bacterial DNA was extracted, sequenced, and classified. The dominant phyla for the Ohio River included Cyanobacteria (38-66% of the total), Actinobacteria …

The Effect Of Auditory Call Playback On Anuran Detection And Capture Rates, Derek Adam Bozzell

Theses, Dissertations and Capstones

Calls of male anurans during breeding seasons are species-specific identification tools. However, males cease calling after any nearby disturbance, including those of researchers. I proposed a variation on current methods that attempts to reduce this lag in calling after researcher-created disturbance by utilizing the propensity for competition in male frogs. I surveyed 14 breeding sites in Cabell and Wayne counties during the 2010 and 2011 breeding seasons. First, I used traditional visual encounter surveys (VESs). After using automated recording devices to gather site-specific recordings of calls of all species present, I conducted secondary VESs while playing these playlists over a …

Freshwater Mussel Populations Of The Monongahela River, Pa And Evaluation Of The Orsanco Copper Pole Substrate Sampling Technique Using G.I.S. Interpolation With Geometric Means, Jonathan Hart

Theses, Dissertations and Capstones

Large river studies for freshwater mussel populations and habitat in the Monongahela River within Pennsylvania have been almost non-existent over the past century. Aquatic diversity and water quality have been impaired in the Monongahela River since the Industrial Revolution and early impoundments were constructed to control the river. To date, there have been no thorough mussel population studies conducted on the Pennsylvanian Monongahela River proper since A.E. Ortmann in 1919. The mussel population accounts for this large river system are invaluable accounts of the aquatic condition of the Monongahela River. Mussel populations and habitat within the river have diminished drastically …

The Status And Distribution Of Invasive Crayfishes And Their Effects On Native Crayfish Communities In West Virginia, Casey David Swecker

Theses, Dissertations and Capstones

Introductions of non-native crayfish species have resulted in the global decline of native crayfish populations, including those in North America. The last large survey of crayfishes from West Virginia was in 1988 and 1989. In this thorough document Raymond Jezerinac, Whitney Stocker, and Donald Tarter identified three separate areas in West Virginia where non-native crayfish species have been introduced. One area is located in the Potomac River drainage in northeastern West Virginia commonly referred to as the eastern panhandle of the state. This is also the only drainage in West Virginia where the native spiny cheek crayfish (Orconectes limosus) occurs. …

A Reproductive And Trophic Transfer Study Associated With Selenium Concentrations In The Upper Mud River Watershed, Amanda Lee Wilson

Theses, Dissertations and Capstones

Selenium in mining-related discharges has created concern in the Appalachian Region where coal is a significant resource. In West Virginia, evaluation of streams receiving mining discharges focused attention on the Mud River watershed where bioaccumulation of selenium was highest in preliminary surveys. Chronic exposure (mainly dietary) of mature female fish to selenium has the potential to cause developmental abnormalities in developing embryos due to the maternal transfer of selenium into the eggs. Literature suggests that factors affecting the bioaccumulation rate of selenium, and the concentration of selenium associated with the aforementioned effects are site-specific. The purpose of this study was …