Chemistry Commons^™

Two-Dimensional Interlocked Pentagonal Bilayer Ice: How Do Water Molecules Form A Hydrogen Bonding Network?, Weiduo Zhu, Wen- Hui Zhao, Lu Wang, Di Yin, Min Jia, Jinlong Yang, Xiao Cheng Zeng, Lan-Feng Yuan

Xiao Cheng Zeng Publications

The plethora of ice structures observed both in bulk and under nanoscale confinement reflects the extraordinary ability of water molecules to form diverse forms of hydrogen bonding networks. An ideal hydrogen bonding network of water should satisfy three requirements: (1) four hydrogen bonds connected with every water molecule, (2) nearly linear hydrogen bonds, and (3) tetrahedral configuration for the four hydrogen bonds around an O atom. However, under nanoscale confinement, some of the three requirements have to be unmet, and the selection of the specific requirement(s) leads to different types of hydrogen bonding structures. According to molecular dynamics (MD) simulations …

Issues In Laser Induced Breakdown Spectroscopy For Measurements In The Deep Ocean And Other High-Pressure Environments, Joseph C. Bonvallet

Theses and Dissertations

This dissertation describes fundamental and applied studies that have advanced the understanding and application laser induced breakdown spectroscopy (LIBS) to the deep-ocean environment and to operation on a deep-ocean submersible. Chapter one is an overview of LIBS including a brief history, LIBS theory, the instrumentation typically used, and a specific application. Chapter two analyzes the effect that monodisperse suspended particles have on LIBS emission intensity and on the formation of a LIBS plasma. This chapter demonstrates that for particle concentrations similar to those found in the neutrally buoyant regions around hydrothermal vents there is little effect on the LIBS emission …

Development Of Protein-Polymer Core-Shell Nanoparticles (Ppcs-Nps) As Efficient Vehicles To Deliver Therapeutic Agents Across Blood Brain Barrier (Bbb), Napat Tandikul

Theses and Dissertations

Blood Brain Barrier (BBB) plays a main role as selective barrier which controls and limits access of chemicals, molecules and therapeutic agents from blood to brain. The BBB endothelial cells are connected by Tight Junctions (TJs) which close intracellular spaces between the endothelial cells and block the free diffusion of substances, therefore many potential drugs for treating human brain diseases cannot reach the brain in sufficient concentration. Recently, many studies have thrown an interest in development of nanoparticles for delivering drugs and imaging agents across BBB. Our research group has developed protein-polymer core-shell nanoparticles (PPCS-NPs) which demonstrate great potential for …

The Development Of Bicyclic Peptide Library Scaffolds And The Discovery Of Biostable Ligands Using Mrna Display, David E. Hacker

Theses and Dissertations

Peptides are a promising class of therapeutic candidates due to their high specificity and affinity for cellular protein targets. However, peptides are susceptible to protease degradation and are typically not cell-permeable. In efforts to design more effective peptide drug discovery systems, investigators have discovered that incorporation of non-canonical amino acids (ncAAs) and macrocyclization overcome these limitations, making peptides more drug-like.

In this work, we exploit the promiscuity of wild-type aminoacyl-tRNA synthetases (aaRSs) to ‘mischarge’ ncAAs onto tRNA and ribosomally incorporate them into peptides using a cell-free translation system. We have demonstrated the ability to incorporate five ncAAs into a single …

Laser Vaporization Controlled Condensation And Laser Irradiation In Solution For The Synthesis Of Supported Nanoparticle Catalysts, Vitaly Kisurin Mr.

Theses and Dissertations

Solid catalyst supports of SiOx-RGO (Reduced Graphene Oxide) and UiO-67 (Universitet i Oslo) have been successfully synthesized and were loaded with palladium nanoparticles to test for a series of heterogeneous reactions. The SiOx/RGO catalysts were synthesized through laser ablation of silicon and graphite oxide micron powder and UiO-67 metal-organic framework (MOF) was synthesized through mixing of precursors with DMF/HCl solution and washing the resultant powder from impurities. The SiOx/RGO supports were later impregnated with palladium precursors which were then subject to Microwave Irradiation (MWI). The UiO-67 framework was impregnated with palladium precursors and was irradiated with pulsed Nd:YAG 532 nm …

Chemometric Curve Resolution For Quantitative Liquid Chromatographic Analysis, Daniel W. Cook

Theses and Dissertations

In chemical analyses, it is crucial to distinguish between chemical species. This is often accomplished via chromatographic separations. These separations are often pushed to their limits in terms of the number of analytes that can be sufficiently resolved from one another, particularly when a quantitative analysis of these compounds is needed. Very often, complicated methods or new technology is required to provide adequate separation of samples arising from a variety of fields such as metabolomics, environmental science, food analysis, etc.

An often overlooked means for improving analysis is the use of chemometric data analysis techniques. Particularly, the use of chemometric …

Versatile Synthesis Of Transition Metal Phosphides: Emerging Front-Runners For Affordable Catalysis, April C. Mattei

Theses and Dissertations

Transition metal phosphide materials have found themselves at the forefront of research revolving around energy applications. Due to the vast range of properties possessed by marginally different phase compositions, binary and ternary metal phosphides are utilized as catalysts, semi-conductors and magnetocaloric materials along with many others. These attractive properties, which are highly phase dependent, call for a versatile and cost effective synthesis route for various phosphide materials without sacrificing properties important at the nanoscale such as particle size and morphology.

The primary focus outlined in the work of this dissertation pertains to a versatile wet chemical synthesis capable of producing …

Fabricating Superhydrophobic And Superoleophobic Surfaces With Multiscale Roughness Using Airbrush And Electrospray, Karam N. Almilaji

Theses and Dissertations

Examples of superhydrophobic surfaces found in nature such as self-cleaning property of lotus leaf and walking on water ability of water strider have led to an extensive investigation in this area over the past few decades. When a water droplet rests on a textured surface, it may either form a liquid-solid-vapor composite interface by which the liquid droplet partially sits on air pockets or it may wet the surface in which the water replaces the trapped air depending on the surface roughness and the surface chemistry. Super water repellent surfaces have numerous applications in our daily life such as drag …

Measurement Of Non-Covalent Aromatic Interactions Using Molecular Balances, Jung Wun Hwang

Theses and Dissertations

Non-covalent aromatic interactions govern many of the unique structures and properties of biological and synthetic molecules. Despite the importance of these interactions, their weak nature makes it challenging to study the interactions. To accurately measure weak non-covalent aromatic interactions in solution, we have designed molecular torsion balances that provide a quantitative measure of non-covalent intramolecular interaction strengths. First, we investigated the importance of electrostatic interactions in aromatic interactions. Substituent effects were strongly correlated with electrostatic Hammett parameters. In addition, the substituent effects were additive and showed significant direct substituent-arene interactions that support the recent direct substituent effect model. Next, the …

Investigating Cross Talk Between The High And Low Iron Sensors In Saccharomyces Cerevisiae, John S. Hepburn

Theses and Dissertations

Iron is essential for nearly all life on earth. Cells must maintain sufficient levels of this important nutrient due its function as a central co-factor for many cellular processes. Although iron is extremely plentiful, its poor solubility requires specialized import. On the other side, too much iron inside the cell can lead to the generation of reactive oxygen species (ROS), which have deleterious effects on many cellular functions and have been implicated in a wide variety of diseases such as cancer and Alzheimer’s disease. Using the model eukaryote Saccharomyces cerevisiae, or budding yeast, our research group has accomplished much in …

Synthesis Attempts And Plausible Applications Of Dithiolated Ortho –Carboranyl Transition Metal Complexes And Synthesis Of Bulky Terphenyls, Surendra Bahadur Karki

Theses and Dissertations

The reaction of coordination compounds of palladium, rhodium, ruthenium and nickel with thiolated ortho-carborane derivatives- 1,2-dimercapto-o-carborane (1,2-(HS)2-1,2- C2B10H10 ) and 9,12- dimercapto-o-carborane (9,12-(HS)2-1,2- C2B10H10 ) and with carbornanyl dicarboxylate has been studied. To further investigate the chemistry of o-carboranyl dithiolate, both of the reported literature dithiols have been employed to study the reactivity with some of the above mentioned transition metal coordination compounds. The 1,2-dimercapto-o-carborane reacts with bis(triphenylphosphine)palladium(II) chloride [PdCl2(PPh3)2] to form a square planar bis(triphenylphosphine)palladium(II) carboranyl dithiolate (PdC2B10S2(PPh3)2) complex. With the inspiration from the reactivity of the dithiols and versatility of carboranyldithiolate ligand in organometallic chemistry, new avenue of …

Development Of A Luminescent Polymer Sensor Array For The Discrimination Of Carboxylates And Further Improvements In A Solvent Programmable Polymer, William J. Richardson

Theses and Dissertations

This thesis summarizes the work performed on two stimuli responsive polymer projects. The first project used a lanthanide based luminescent polymer to create a sensor array for carboxylate analytes. Initial attempts incorporated molecular imprinting as a means to incorporate unique selectivity into the polymer by introducing acetate, benzoate, and phenylacetate as templates prior to polymerization. This process was successful at creating unique sensing elements for the array, but the polymers lacked the specific selectivity typically seen in molecularly imprinted polymers (MIPs). Instead, a ligand displacement mechanism that relied on multiple sensors with different labile anion ligands directly complexed with the …

Development Of Reactions And Methods For Labeling Biomolecules In Cells, Enoch Agbesi Adogla

Theses and Dissertations

The complexity of cellular environments presents a challenge to efforts at studying and elucidating biomolecules in cells. Covalent ligation of biomolecules with fluorescent molecules that have a reactive functional group that can react with a complementary functional group on biomolecules is one way that has been utilized to study biomolecules. It enables visualization and tracking of ligation and transportation of molecules within the cell. However, the myriad of functional groups within the cell makes achieving selectivity difficult. To circumvent this problem, reactions that do not interfere with biology have been developed. These reactions, referred to as bioorthogonal reactions must be …

Cobaltocenium Containing Polymers: Complexation With Organic Anion And Initial Assesment For Anion Exchange Membranes, Mohammad Pabel Kabir

Theses and Dissertations

In this thesis, cobaltocenium containing monomers and polymers are investigated for guest anion loading and alkaline anion exchange membrane for fuel cells. The properties of these polymers are characterized and discussed.

Chapter 1 describes overall background and potential applications of metallocene and metallocenium containing polymers. The research objectives of metallocenium containing polymers are discussed.

Cobaltocenium containing polymers have potential applications in biomedical science. Therefore, the effect of different parameters such as electrostatic charge, size, conformation, π-electron system and hydrogen bonding on the interactions between these polymers and small anionic probes has been studied qualitatively, as described in Chapter 2. A …

The Development Of A Miniature Spatial Heterodyne Raman Spectrometer For Applications In Planetary Exploration And Other Extreme Environments, Patrick Doyle Barnett

Theses and Dissertations

Space exploration is arguably one of the most important endeavors our species has ever undertaken. Rapid advances in rocketry and robotics in recent years has allowed for positioning of complex scientific instruments on other planets with a precision that was previously thought impossible. This, along with the need for more sophisticated chemical measurements to achieve the goals of new, more ambitious missions and recent advances in in-situ and remote spectroscopic techniques, has led to a boom in the use of spectroscopic instruments for space exploration. However, future missions to the moons of Jupiter and Saturn, along with other planetary bodies …

Physical Property Control In Core/Shell Inorganic Nanostructures For Fluorescence And Magnetic Targeting Applications, Stephen K. Roberts

Theses and Dissertations

Nanomaterials show immense promise for the future in numerous areas of application. Properties that are unique from the bulk material and are tunable allow for innovation in material design. This thesis will focus on controlling the physical properties of core/shell nanostructures to enhance the utility of the materials.

The first focus is on the impact of different solvent mixtures during the shell growth phase of SILAR based core/shell quantum dot synthesis is studied. Gaining insight into the mechanism for SILAR growth of core/shell nanoparticles allows improved synthetic yields and precursor binding, providing enhanced control to synthesis of core/shell nanoparticles. The …

Using Synthetic Lectins To Investigate Metastatic Potential In Colon Cancer, Erin E. Gatrone

Theses and Dissertations

Cancer is a disease that affects millions of people each year and it is well established that early diagnosis is a key factor towards improving survival rate, with that in mind there is a great need for better diagnostics. From the earliest onset of cancer, changes can be detected in the type and amount of carbohydrates expressed by the cancer cells, i.e., aberrant glycosylation. This process results in differing glycosylation patterns that can be used to detect cancer. Aberrant glycosylation can also greatly affect the potential of cancer cells to metastasize and can be used to stage the disease as …

Investigating The Effects Of Glutathione And Other Key Proteins On Iron Homeostasis And Subcellular Redox Balance In Yeast Model Systems, Kirsten Renee Collins

Theses and Dissertations

Iron homeostasis in Saccharomyces cerevisiae is controlled through several pathways and is important because too much iron can cause cellular damage. Iron homeostasis in yeast is primarily controlled by transcription factors Aft1 and Aft2 which bind to the iron regulon to induce iron uptake when iron levels are low. When iron levels are sufficient, Aft1 and Aft2 are bound and inhibited by monothiol glutaredoxins (Grxs) Grx3 and Grx4. These Grxs are also involved in iron trafficking in the cell and bind to and deliver iron-sulfur clusters to multiple proteins.

The first part of this thesis focuses on determining if excess …

Surface Chemistry And Transport Properties Of Ii-Vi Semiconductor Nanowires, Pravin Paudel

Theses and Dissertations

Semiconductor nanowires have been widely studied due to their unique properties such as width comparable to critical length-scales, high aspect ratio, and high carrier mobility. These unique properties make them a suitable candidate for various optical and electronic devices like photovoltaics, photodetectors, and field effect transistors. The nanowire surface plays an important role in the performance of these devices because of their high surface to volume ratio. The larger surface area of nanowires may provide better charge separation than planar heterostructures in photovoltaics by providing shorter distance to move for carrier before separation, however, presence of surface states may lead …

Forensic Characterization Of Dyes From Synthetic Textile Fibers Exposed To Outdoor And Laundering Effects By Ultra Performance Liquid Chromatography And Spectral Analysis, Molly Rebecca Burnip

Theses and Dissertations

Textile fibers found in an investigation are trace evidence that can connect a suspect to a victim or crime scene. Examination involves comparison of the color and morphology of a questioned fiber to a known fiber with optical spectroscopy. Fibers are considered class evidence, so evaluating more characteristics increases their significance as evidence if a match cannot be excluded. Acrylic, nylon, and polyester are textile polymers that require different extraction solvents based on the polymer chemistry. Methods have been developed for UPLC analysis of basic dyes on acrylic, acid on nylon, and disperse dyes on polyester. After microextraction from single …

Estimation Of The Quantum Effects Of Nuclei In Large Molecular Systems, Bing Gu

Theses and Dissertations

Chemical dynamics, in principle, should be understood by solving the time-dependent Schrödinger equation for a molecular system, describing motion of the nuclei and electrons. However, the computational efforts to solve this partial second-order differential equation scales exponentially with the system size, which prevents us from getting exact numerical solutions for systems larger than 4-5 atoms. Thus, approximations simplifying the picture are necessary. The so-called Born-Oppenheimer approximation, separating motion of the electrons and nuclei is the central one: solution to the electronic Schrödinger equation defines the potential energy surface on which the nuclear motion unfolds, and there are standard quantum chemistry …

Properties And Applications Of Self-Assembled Benzophenone Bis-Urea Macrocycles, Arthur Ariston Korous

Theses and Dissertations

Supramolecular chemistry is a vast multidisciplinary field with great potential and application. It is driven by one simple concept, the self-assembly of small building blocks into larger complex architectures without application of external force. This thesis highlights previous applications of supramolecular chemistry in addition to new potential properties and applications. Recently, the Shimizu group reported a self-assembled benzophenone bis-urea macrocycle (host 1) that facilitated the selective oxidation of an encapsulated alkene when UV-irradiated in an oxygen atmosphere to afford products that are typically observed in radical mediated reactions.1 Surprisingly, the host displayed a stable room temperature radical upon UV irradiation. …

From Model Systems To Real Catalysts: Bridging The Pressure And Materials Gaps, Audrey S. Duke

Theses and Dissertations

For decades a fundamental understanding of heterogeneous catalysts has been pursued for rational catalyst design using model systems under ultrahigh vacuum (UHV) conditions; however, there exist stark differences between the simplified models investigated under UHV and the industrial catalysts used at high pressures. To bridge these gaps, it becomes essential to utilize progressively more complex materials and to correlate their surface structure and activity using incrementally higher pressure techniques. In this work, both model Pt-Re catalysts and powdered metal-organic frameworks (MOFs) were studied using a suite of traditional UHV surface science techniques in addition to ambient pressure X-ray photoelectron spectroscopy …

Classification Of Natural Phytoplankton Populations With Fluorescence Excitation-Based Imaging Multivariate Optical Computing, Shawna Kathleen Tazik

Theses and Dissertations

Phytoplankton account for the majority of the primary productivity in the ocean and contribute significantly to the global carbon cycle through photosynthesis. A quantitative characterization of phytoplankton cell size and taxonomic composition is essential for understanding marine biogeochemical cycles, quantifying carbon export, and for predicting the ocean’s response to future climate change. Our labs have developed a new instrument for this purpose that combines fluorescence excitation spectroscopy with an all-optical approach to multivariate statistics called multivariate optical computing (MOC). The instrument, known as the Shipboard Streak Imaging Multivariate Optical Computing (SSIMOC) photometer, is a simple filter photometer that images the …

Wide Field Measurements Using A Spatial Heterodyne Raman Spectrometer For Transmission Raman Spectroscopy And Standoff Detection, Kimberly A. Fessler

Theses and Dissertations

Our group recently developed a new type of Fourier transform Raman spectrometer, the spatial heterodyne Raman spectrometer (SHRS), for planetary exploration. The SHRS is a high spectral resolution, high throughput, compact dispersive interferometer, similar in design to a Michelson interferometer, where the mirrors are replaced by stationary diffraction gratings. The SHRS has no moving parts and does not require an entrance slit, making the throughput of the system orders of magnitude larger than a typical dispersive spectrometer. The wide field-of-view (FOV) of the SHRS enables wide area measurements without loss of sensitivity or spectral resolution and offers advantages such as …

Virus Particles Provide Nanotopographical Cues For Osteogenic Differentiation Of Mesenchymal Stem Cells, Kamolrat Metavarayuth

Theses and Dissertations

One key aspect of tissue engineering is to develop biomimetic scaffolding materials that can modulate the proliferation, self-renewal and differentiation of multipotent stem cells into different lineages. Bone marrow derived mesenchymal stem cells (BMSCs) can differentiate into several target cells such as osteoblasts, chondrocytes, adipocytes, and smooth muscle cells. BMSCs are commonly used for in vitro osteogenesis studies in bone tissue engineering field. However the mechanisms and signaling pathways that these cells use to recognize and response to biomaterial surface are still unclear. This dissertation focuses on investigating the effect of chemical and physical cues introduced by virus nanoparticles on …

Crystal Growth And Characterization Of Reduced Early Transition Metal Compounds Grown Via Hydrothermal And Molten Flux Methods, Anthony J. Cortese

Theses and Dissertations

Interest in new and facile ways to prepare early transition metal reduced oxides has recently been increasing. In the past difficult flux techniques involving vacuum furnaces, expensive metal tubing, complicated electrolytic reduction apparatuses, were used to achieve in situ reduction of fully oxidized transition metal precursors. Often times these techniques were coupled with use of a difficult flux, such as boric acid, which is hard to remove due to its insolubility in water at room temperature. These limitations can be circumvented in multiple ways, including carefully choosing a redox neutral flux, using evacuated fused silica tubes for reaction vessels, and …

Investigating Structure-Activity Relationships Of Sl11 To Develop A Better Prostate Cancer Diagnostic, Rong Huang

Theses and Dissertations

Prostate cancer is now the second leading cause of cancer death in American men. Since many of the diagnostics either have high false results or risky, it’s important to have better diagnostics and earlier diagnosis of prostate cancer. Aberrant glycosylation is a hallmark of cancer. When cancer occurs, aberrant glycosylation occurs, therefore, glycosylation patterns may provide information about different cancer types and metastatic potential. In order to study and use these glycosylation patterns, the boronic acid functionalized synthetic lectins that can interact with glycans have been developed. The work described here focuses on 1) the structure activities of synthetic lectins …

Cdk8 And Cdk19 As Novel Regulators Of Bmp4 Induced Emt In Cancer, Anne Elizabeth Serrao

Theses and Dissertations

Bone morphogenetic protein 2/4 (BMP2/4), members of the transforming growth factor β (Tgf-β) superfamily, play a dichotomous role in the progression of cancers through cell growth suppression and the enhancement of tumorigenesis in a variety of cancers. Cyclin dependent kinase 8 (CDK8), a protein kinase that regulates gene transcription, is involved in a variety of cancers including breast and pancreatic cancers as well as in mediating BMP2 signaling via its canonical Smad1 pathway. Our studies show that BMP4 induced EMT signals primarily though Smad1 and that Yap1, a transcriptional co-activator, is necessary for BMP4 induced EMT. Using a highly specific …

Synthesis And Utility Of Bis-Urea Macrocycles As Nanoreactors And As Ligands For Metal Organic Materials, Sahan R. Salpage

Theses and Dissertations

“Supramolecular chemistry” powered by non-covalent interactive forces forms the crux in the area of host-guest chemistry. Supramolecular assemblies often have different chemical and physical properties than that of its individual molecular entities and are used to develop novel functional materials. Our expertise involves making functional materials from macrocycles, which contain two urea groups and two rigid C shaped spacer groups. These individual macrocyclic components can self-assemble through hydrogen bonding and other non-covalent interactions to form porous supramolecular assemblies that can be used as confined reaction environments and as ligands to synthesize novel metal organic materials.

This dissertation focuses on studying …