Digital Commons Network^™

Recreational Boats As Potential Vectors Of Marine Organisms At An Invasion Hotspot, Ian C. Davidson, Chela J. Zabin, Andrew L. Chang, Christopher W. Brown, Mark Sytsma, Gregory M. Ruiz

Center for Lakes and Reservoirs Publications and Presentations

With more than 200 aquatic nonindigenous species (NIS), San Francisco Bay (California, USA) is among the world’s most invaded harbors. Hard-substratum benthic (biofouling) organisms, which dominate NIS richness, have arrived primarily as a result of shipping and aquaculture activity over past centuries. To date there has been no assessment of the leisure craft vector in the Bay. We aimed to characterize (1) biofouling on boats’ submerged surfaces and (2) boater behavior likely to affect the risk of NIS transfers. We used an underwater pole-cam, specimen collections, and a boater questionnaire to quantify the extent and composition of biofouling on recreational …

The Design And Synthesis Of Functionalized Porphyrins And Their Applications In Group Transfer Reactions, Medicine, And Materials, Kimberly Bliss Fields

USF Tampa Graduate Theses and Dissertations

Porphyrins and their analogs are a class of chemically and biologically important compounds that have found a variety of applications in different fields such as catalysis, medicine, and materials. The physical, chemical, and biological dependence of the peripheral substituents of porphyrins on their properties has prompted great effort towards the synthesis of new porphyrins with different electronic, steric, and conformational environments. To this end, porphyrins have been prepared using a modular approach from bromo- and triflate synthons. These synthons underwent palladium-catalyzed cross-coupling with chiral amines, amides, alcohols, and boronic esters to create products that were tested for biological activity.

Metalloporphyrins …

St. Stephen Fish Lift Inlet Hydraulic Barrier Investigation: A Field Survey And Hydraulic Model Study, Feleke Arega, Bud Badr

S.C. Water Resources Conference

2010 S.C. Water Resources Conference - Science and Policy Challenges for a Sustainable Future

Drug Off-Target Effects Predicted Using Structural Analysis In The Context Of A Metabolic Network Model, Roger L. Chang, Lei Xie, Philip E. Bourne, Bernhard O. Palsson

Publications and Research

Recent advances in structural bioinformatics have enabled the prediction of protein-drug off-targets based on their ligand binding sites. Concurrent developments in systems biology allow for prediction of the functional effects of system perturbations using large-scale network models. Integration of these two capabilities provides a framework for evaluating metabolic drug response phenotypes in silico. This combined approach was applied to investigate the hypertensive side effect of the cholesteryl ester transfer protein inhibitor torcetrapib in the context of human renal function. A metabolic kidney model was generated in which to simulate drug treatment. Causal drug off-targets were predicted that have previously been …

In Vitro Enabling Technologies For Use In The Aquatic Environment, Colm J. O'Dowd

Doctoral

O’Dowd, C., Mothersill, C.E., Cairns, M.T., Austin, B., Lyng, F.M., McClean, B. and Murphy, J.E.J. Assessing the mitochondrion as a biomarker of fish tissue damage using g radiation as a stress model in vitro.

There is an ever-increasing need for biomarkers to identify toxic stress in the aquatic environment. Such techniques need to be accurate, expeditious, ethical and economical. Typically, in vitro based platforms fit these criteria however many of these systems often undergo ‘assay drift’ and consequently do not fully represent the real-life situation.

In recent years, there has been growing interest in the mitochondrion and its (dys)function …

Integrated Fisheries Management Report. West Coast Demersal Scalefish Resource., Department Of Fisheries Western Australia.

Fisheries Management Papers

This report on the West Coast Demersal Scalefish fishery is the third in a series of Integrated Fisheries Management (IFM) resource reports required under the Government policy on IFM. Under this policy, the Chief Executive Officer of the Department of Fisheries is required to approve a sustainability report for each fishery, which includes a clear statement on the recommended harvest level.

Chemical Characterization Of Botanical Products: Comprehensive Speciation By Liquid Chromatography Particle Beam Mass Spectrometry, Joaudimir Castro Georgi

All Dissertations

The dietary supplement industry has expanded and many of these supplements have become an important aspect of people's everyday lives. In 1994, the U.S. Dietary Supplement Health and Education Act (DSHEA) classified numerous nutraceutical/botanical products as dietary supplements because of their beneficial medicinal properties and provided the necessary regulation to the supplement producers. Since then, the interest of the scientific community towards dietary supplements has grown intensively and numerous studies have been carried out in order to understand the chemical behavior of the active molecules in the human body. The development towards analytical methods for the quantification of the active …

Characterization Of Plutonium Particles Originating From The Bomarc Accident -1960, Richard Charles Gostic

UNLV Theses, Dissertations, Professional Papers, and Capstones

Within the U.S. arsenal, 32 accidents with nuclear weapons were reported between 1950 and 1980. One of these accidents occurred at McGuire AFB in 1960. A BOMARC missile armed with a nuclear warhead caught on fire and as a result the warhead was destroyed. Sub-millimeter particles consisting of weapons grade plutonium (WGPu) produced by this accident were distributed around the site and remained in the environment for 47 years. Soil cores known to contain WGPu particles produced by this accident were obtained. The particles were localized and removed from the soil with the aid of high resolution computed tomography. The …

Shark Bay Prawn And Scallop Fisheries. Final Review Report, Department Of Fisheries Western Australia

Fisheries Management Papers

In recent times, the Department of Fisheries has received representations from both sectors about the ongoing interaction of the fisheries and their respective management settings. As a result, a decision was made to comprehensively review the fisheries, taking into account matters of fishery sustainability and gear interactions, together with industry economics and market considerations.

The review has also addressed research requirements to ensure an appropriate scientific basis for decision-making into the future.

Shark Bay Prawn And Scallop Fisheries: Final Review Report, Western Australia. Department Of Fisheries

Fisheries Management Papers

The Shark Bay Prawn Fishery and Shark Bay Scallop Fishery operate in the same general areas of Shark Bay (although there are some differences in their areas of operation). The interrelationship between trawling activities for the two target species (prawns and scallops) has raised both management challenges and industry conflicts over time. Harvest level settings for each fishery (in the form of effort levels and the timing and/or location of fishing) are independently set, on the basis of recruitment and abundance surveys of each target species. However, each industry sector strongly believes that the interactions between the fisheries arise because …

A Test Of The Area Of Refuge Hypothesis In Indo-Pacific Marine Biogeography, Jonnell C. Sanciangco

Biological Sciences Theses & Dissertations

Many hypotheses have been proposed to explain the marine biogeographic patterns of species richness of the Indo-Pacific. One of these hypotheses suggests that available habitat area is the main predictor of species richness. This is the basis for the area of refuge hypothesis that attempts to explain the global maxima of species richness found in the Coral Triangle, the area encompassing mostly the Philippines, Indonesia, and Malaysia. This species-area effect also has habitat heterogeneity as a potential component. The purpose of this study is to test the effects of habitat availability predictors, such as shallow water area and coastline length …

The Development Of An Effective Water-Soluble Receptor For Pyrene Derivative Dyes, Ashley Longstreet

Undergraduate Theses and Capstone Projects

A receptor with enhanced water solubility was synthesized from an existing receptor to be used as a pyranine fluorescence quencher in endovesiculation detection assays. The existing receptor consisted of a cyclen core with four protruding arms containing an aryl nitro group at each end. Its poor water solubility limited the accuracy and precision of the endovesiculation assay because the low concentration of receptor did not match the concentration of pyranine. To increase the water solubility, ethoxy groups were attached to the ends of each arm by first selectively reducing the nitro group to an amine with NaBHU4, H2, and a …

Targeted Maximum Likelihood Method For Repeated Measures Semiparametric Regression: Discovery For Transcription Factor Activity, Catherine Tuglus, Mark J. Van Der Laan

U.C. Berkeley Division of Biostatistics Working Paper Series

In longitudinal and repeated measures data analysis, often the goal is to determine the effect of a treatment or aspect on a particular outcome (e.g. disease progression). We consider semiparametric repeated measures regression model, where the parametric component models effect of the variable of interest and any modification by other covariates. The expectation of this parametric component over the other covariates is a measure of variable importance. Here we present a targeted maximum likelihood estimator of the finite dimensional regression parameter, which is easily estimated using standard software for generalized estimating equations. The targeted maximum likelihood method provides double robust …

Fisheries Occasional Paper No. 77 - Economic Analysis: Fishing Industry Impact Study - Kimberley Lng Project, Econsearch Pty Ltd, Department Of Fisheries Western Australia

Fisheries Occasional Publications

This study, prepared as a part of a broader study for WA fisheries, is concerned with the regional economy of the West Kimberley region and involves an assessment of the impact on the region of a range of fishing industry scenarios associated with development of an LNG processing facility. Specific tasks involved in the study were to prepare the following:

• a standard input-output model for the West Kimberley regional economy for 2007/08 and extend it as a DECON model; and

• estimates of the regional economic and population impact for a range of fishing industry scenarios arising from the …

Characterization Of Phytochemicals Isolated From Plants Of The Pacific Northwest And Western United States For Combating Fungal Multidrug Resistance, John David Schreiber

Undergraduate Honors Theses

Fungal multidrug resistance is an emerging problem for those suffering from fungal infections, and for those seeking to discover or produce novel fungicidal drugs. Plants native to the Pacific Northwest as well as in the Olympic national rainforest were collected and screened for phytochemicals which exhibit direct antifungal activity toward Candida and Saccharomyces spp. as well as those that inhibit fungal ABC transporters that are, in large part, responsible for the development of multidrug resistance. Dalea formosa (Fabaceae), a plant native to the American Southwest, was also screened for phytochemicals of medicinal interest. The methanolic extract of aerial portions of …

The Effect Of Soil Regimes And Topography On Tree Community Composition In The Gordon Natural Area, Calen Daugherty, William Hochella, Kyle Houser, Sarah Johnson, Carolyn Keene

Gordon Natural Area Soils Studies Documents

No abstract provided.

Synthesis Of Functionalized Gpi Anchors And Related Glycoconjugates, Benjamin M. Swarts

Wayne State University Dissertations

This dissertation is divided into two chapters describing the background, significance, and synthesis of GPI anchors and GPI-anchored molecules. GPI anchors are a class of complex glycolipids with the primary purpose of attaching cell surface proteins/glycoproteins to the cell membrane. The first chapter is focused on the synthesis of functionalized GPI anchors, and begins with an introductory look at the discovery, structure, biosynthesis, and biological functions of GPIs. Then, after surveying progress and achievements in GPI synthesis, including discussion about current strategic shortcomings in the field that prevent the chemical synthesis of various GPI derivatives, our approach to accessing uniquely …

Elucidating The Structure Of Protein Aggregates By Raman Spectroscopy, Ludmila A. Popova

Legacy Theses & Dissertations (2009 - 2024)

The structures and properties of amyloid fibrils are of considerable interest due to their associations with numerous neurodegenerative diseases such as Alzheimer's disease, Parkinson's disease and transmissible spongiform encephalopaties (prion diseases). Understanding fibrillogenesis at a molecular level requires detailed structural characterization of amyloid fibrils. However amyloid fibrils are difficult objects to study due to their non-crystalline and insoluble nature. These properties make the application of classical tools of structural biology, such as X-Ray crystallography and solution Nuclear Magnetic Resonance spectroscopy, impractical for structural characterization of protein fibrils.

Some Bioactive Organotin(Iv) Derivatives With 3,4-Dichlorophenylacetic Acid: Synthesis, Spectroscopic Properties, And X-Ray Structure Of [Sn_4(C_4h_9)_8(Oocch_2c_6h_3cl_2)_4o_2], Muhammad Adeel Saeed, Muhammad Khawar Rauf, . Imtiaz-Ud-Din, Amin Badshah, Muhammad Zaeem Akhtar, Bushra Mirza

Turkish Journal of Chemistry

Some bioactive organotin(IV) derivatives of 3,4-dichlorophenylacetic acid (HL) were synthesized by reacting the ligand acid with various di- or tri-organotin compounds (in suitable mole ratios) in the presence of triethylamine. The structural investigation was carried out via multinuclear (^1H, ^{13}C, and ^{119}Sn) NMR, IR spectroscopy, and X-ray crystallography. The crystal structure of 4 comprises a central Sn_2O_2 core with O atoms bonded to 2 dibutylbis(3,4-dichlorophenylacetato)tin(IV) units. All the Sn atoms of 4 are essentially 5-coordinated in distorted trigonal-bipyramidal geometry. Some of the compounds exhibited significant antibacterial and antifungal activity.

Automated Isolation Of Translational Efficiency Bias That Resists The Confounding Effect Of Gc(At)-Content, Douglas W. Raiford, Dan E. Krane, Travis E. Doom, Michael L. Raymer

Kno.e.sis Publications

Genomic sequencing projects are an abundant source of information for biological studies ranging from the molecular to the ecological in scale; however, much of the information present may yet be hidden from casual analysis. One such information domain, trends in codon usage, can provide a wealth of information about an organism's genes and their expression. Degeneracy in the genetic code allows more than one triplet codon to code for the same amino acid, and usage of these codons is often biased such that one or more of these synonymous codons is preferred. Detection of this bias is an important tool …

Synthesis, Characterization And Biological Activity Of Copper (Ii) And Zinc (Ii) Complexes Of Thiosemicarbazones And Their N(4)-Substituted Derivatives Derived From 2,4-Dihydroxybenzaldehyde., Tan Kong Wai

Student Works (2010-2019)

Four thiosemicarbazones ligands (1-4) have been prepared with good yield by refluxing 2,4-dihydroxybenzaldehyde with thiosemicarbazide or N(4)-substituted thiosemicarbazide in ethanol or methanol. From these four ligands, 16 new ternary metal complexes (5-20) with the general formulation of M(B)L have been prepared from the reactions of metal acetates with 2,4-dihydroxybenzaldehyde N(4)-substituted thiosemicarbazone in the presence of N,N-heterocyclic base (M2+ = Zn2+ or Cu2+; B = 2,2'-bipyridine, (bpy); 1,10-phenanthroline, (phen); L2- = doubly deprotonated thiosemicarbazones = 2,4-dihydroxybenzaldehyde thiosemicarbazonato, (HT); 2,4-dihydroxybenzaldehyde 4-methylthiosemicarbazonato, (HM); 2,4-dihydroxybenzaldehyde 4-ethylthiosemicarbazonato, (HE) and 2,4-dihydroxybenzaldehyde 4-phenylthiosemicarbazonato, (HP)) These compounds have been characterized by elemental analyses, IR, UV-Vis, NMR and magnetic …

Skeletal Pathology Of Tibiotarsi In Chick Embryos Exposed To Platinum Group Metals By Micro-Raman Spectroscopy, Jennifer L. Monahan

Browse all Theses and Dissertations

Platinum group metals (PGMs) have been shown to accumulate in various tissues of organisms but their toxicity is not well-known. Raman spectroscopy is a powerful analytical technique that enables direct and non-destructive chemical characterization of bone tissues. PGMs were injected into chick embryos in the following concentrations: 0.1, 1.0, 5.0, or 10.0 ppm solutions of Pt^(IV), Rh^(III), Pd^(II) or PGMs mixtures (0.1 ppm or 1.0 ppm of each metal). The micro-Raman maps recorded on the paraffin embedded tibiotarsus cross-sections showed significant changes in the chemical composition and structure of the bone tissue as a result …

Chemistry Of Rhenium(I) Tricarbonyl Complexes Of Biomedical Relevance, Theshini Perera

LSU Doctoral Dissertations

fac-[Re^I(CO)₃L]ⁿ complexes serve as models for short-lived fac-[^99mTc^I(CO)₃L] imaging tracers. Dangling groups on L, needed to achieve desirable biodistribution, complicate the NMR spectra, which are not readily understood. In fac-[Re^I(CO)₃L]⁺ with less complicated L, NH groups (exo-NH) projecting toward the L face sometimes showed an upfield shift attributable to steric shielding of the exo-NH group from the solvent by the chelate rings. To investigate whether exo-NH groups in six-membered rings exhibit the same effect and whether the …

Local And Traditional Knowledge And The Historical Ecology Of Pacific Herring In Alaska, Thomas F. Thornton, Madonna L. Moss, Virginia L. Butler, Jamie Hebert, Fritz Funk

Anthropology Faculty Publications and Presentations

The article focuses on the historical ecology of the Pacific herring, a marine food web resource, in the Gulf of Alaska. It states the hearing conducted by the Alaska Legislature's House special committee on fisheries on the status and management of herring in Southeast Alaska during which Tlingit fisherman Clarence Jackson of Kake notes the disappearance of herring in his lifetime. Information on herring ecology based from Native and non-Native individuals from Southeast communities and archaeological site reports reveal that non-Natives in Southeast Alaska have exploited herring with the development of a herring reduction plant. It underscores the need for …

Automated Interpretation Of The Tandem Mass Spectra Of Peptides Using Artificial Neural Networks, Timothy Patrick Manning

Theses

The manual interpretation of mass spectra is a complex and time consuming task. The problem of manually interpreting this data is further exacerbated by the large numbers of mass spectra which can potentially be produced in a single proteoniics experiment. This shows the need for high throughput approaches to the interpretation of mass spectra. Existing automated approaches are however error prone due to the complexity of the task. Accordingly, this thesis discusses and evaluates the application of neural networks to improving the sensitivity, specificity and robustness of current approaches to the automated interpretation of such mass spectral data.

Several neural …

Synthesis And Conjugation Of Terminal Α-Galactose Containing, Roger Allan Ashmus

Open Access Theses & Dissertations

Over 16 million people in Latin America are infected with the protozoan parasite Trypanosoma cruzi (T. cruzi), the causative agent of Chagas disease, and up to 50,000 infected people die annually due to complications during the chronic stage of the disease. To date, there are no vaccines or effective drugs to treat chronic Chagas disease. It is known that T. cruzi contains cell surface mucin-like glycoproteins with terminal α-galactosyl residues, and it is well established that they are highly immunogenic. The exact structure of the immunogenic carbohydrate epitopes, however, remains unknown. To determine which epitopes have the ability to interact …

Development Of A Fluorescent Probe For Determination Of Water Transport In Subcellular Organelles, Adriana Chaurra-Arboleda

All Dissertations

Water transport has been widely studied in a variety of cells and isolated membranes. However, the intrinsic complexity related with the study of intracellular processes has delayed the development of an analytical technique for the study of water transport in subcellular compartments of living cells. This study represents the development and application of a ratiometric fluorescent probe to study water transport in endocytic organelles of intact living cells. The probe is based on the use of a D₂O-sensitive fluorophore, Lucifer yellow dextran (LY-dex), together with a D₂O-insensitive fluorophore, Alexa fluor 546 dextran (AF546-dex), used as an …

Enhancing Ais To Improve Whale-Ship Collision Avoidance And Maritime Security, Philip A. Mcgillivary, Kurt Schwehr, Kevin Fall

Center for Coastal and Ocean Mapping

Whale-ship strikes are of growing worldwide concern due to the steady growth of commercial shipping. Improving the current situation involves the creation of a communication capability allowing whale position information to be estimated and exchanged among vessels and other observation assets. An early example of such a system has been implemented for the shipping lane approaches to the harbor of Boston, Massachusetts where ship traffic transits areas of the Stellwagen Bank National Marine Sanctuary frequently used by whales. It uses the Automated Identification Systems (AIS) technology, currently required for larger vessels but becoming more common in all classes of vessels. …

Plasmonic Enhancement Of Forster Energy Transfer Between Two Molecules In The Vicinity Of A Metallic Nanoparticle: Nonlocal Optical Effects, P.T. Leung, H. Y. Xie, H. Y. Chung, D. P. Tsai

Physics Faculty Publications and Presentations

The problem of Forster resonance energy transfer (FRET) between two molecules in the vicinity of a metallic nanoparticle such as a nanoshell is studied within a phenomenological model which takes into account the nonlocal optical response of the metal. This model allows for arbitrary locations and orientations of the two molecular dipoles with respect to the metal particle which can be of ultrasmall sizes (nm) and for which nonlocal effects are of high significance. In particular, for the nanoshell case, the molecules can be located both outside, both inside, or one inside and one outside the shell. Also, the case …

Deterioration Of Carbonate Rocks Used For Archeological Monuments In Tauric Chersonesos (Crimea), Alexander V. Mosyagin, Irina V. Knauf, Marina S. Zelenskaya

Studia UBB Geologia

The paper presents the mineralogy and petrography of the Proconesian marble and Chersonesian limestone, used as building materials from Antiquity to the medieval times in the Tauric Chersonesos, Crimea. The deterioration process, due to the modern time’s pollution and the climatic factors, is represented by forming of mainly gypsum-rich patina. The ubiquitous presence of micromycetes favors the stone decay.