Chemistry Commons^™

Improving Protein Analysis By Desorption Electrospray Ionization (Desi-Ms), Elahe Honarvar

Dissertations

Electrospray ionization mass spectrometry (ESI-MS) is one of the most well-known and versatile techniques for analyzing a broad range of molecules and it has become one of the leading techniques to study biomolecules, such as proteins. ESI-MS can accurately determine the molecular weight of proteins and provide information about their peptide sequence, post-translational modifications as well as their interaction with other molecules.

During ESI-MS analysis, by spraying a sample of proteins, prepared in form of a solution, charged droplets are produced using an electric field. As the solvent molecules gradually evaporate from these droplets, freely hovering bare protein ions remain. …

Best Organic Chemistry Practices In The Midwest, Claire Van Der Bosch

Honors Theses

Organic Chemistry is a gateway course to a handful of courses in higher chemical education. Unfortunately, it is notorious for its high-fail, high-withdrawal, and high-drop rate and has a reputation for being time-consuming, with difficult concepts that are oftentimes new to students. It is often taught in a two-semester sequence, with the courses named Organic I and Organic II, and both courses have a lab component. At Western Michigan University, the fail rate for these two courses are 53.5% and 36.9%, respectively. Most higher education institutions are certified with the American Chemical Society (ACS) and given a skeleton of a …

The Effects Of Climate Change And Forest Disturbances On Terpene Production Of White Pine (Pinus Strobus) And Red Pine (Pinus Resinosa) In Northern Michigan, Troy Dehagen

Honors Theses

The secondary impacts that climate change may have on the interactions between forests and the atmosphere through forest disturbances is of increasing interest as the climate continues to change. Anthropogenic climate change, which is a direct result of coal and fossil fuel emissions, is likely to impact forest ecology through increased temperatures and extreme precipitation events, thus increasing the frequency and severity of climate-induced forest disturbances. Forest disturbances may have a secondary impact on the production and emission of biogenic volatile organic compounds (BVOC) within forests. In the presence of oxides of nitrogen (NO_x) produced from fossil fuel …

Stylolites Cathodoluminescence Under Cross Polarized Light, Katherine Dvorak

The Hilltop Review

Devil's Gate limestone under cathodoluminescence. Bright yellow and orange areas are calcite and the bright blue indicates trace minerals along the solution seam. Trace minerals left in the seam are heavy metals and other silicate minerals.

Computational Study Of The Nature Of Tetrel Bond, Yama Aman

Masters Theses

For more than a hundred years, the type of a chemical bond has been distinguished according to the relative electronegativities of chemical units at the ends of a bond. Whereas, the bond of unequally electronegative on both ends is called a polar covalent or even ionic bond or a non-polar covalent bond in case of both equal. Regardless the type of bonded elements, the whole idea for the bond was believed to be electron driven only. In the 20th century the development of the idea, that not just the electronic relation but specific elements are also able to characterize the …

Special Elements Of Excellence: Summer 2018, Department Of Chemistry

Chemistry News

• From the Chair's Desk
• 1st Collaborative Research Gathering
• Emerging Scholar Award
• Associate Prof Andre Venter reports on his sabbatical at the University of Pierre and Marie Curie in Paris, France
• 2017 Spring Award Recipients
• James Kiddle, Recipient of the Local Section Outreach Volunteer of the Year Award

Synthesis And Characterization Of Fluorescent Nanojars, Vageesha Warnajith Liyana Gunawardana

Masters Theses

Self-assembly is a powerful tool utilized by synthetic chemists to create large, intricate structures for a variety of applications such as drug delivery, adaptable materials and electronics. In contrast to stepwise synthesis, this process allows the formation of intricate molecular architectures starting from synthetically rudimentary building blocks. Nanojars are class of self-assembling, cyclic copper(II) pyrazolate coordination compounds that encapsulate oxoanions with negative two or three charge. The strong anion binding characteristics of nanojars have potential towards developing novel tools for detecting biologically and environmentally relevant anions such as carbonate, sulfate and phosphate.

This work addresses the design and synthesis of …

Nanojars: Versatile Platform For Pyrazole Synthesis And Chemistry, And Selective Extraction Of Anions, Basil Mohammed Ahmed

Dissertations

This work is centered around nanojars, a family of nano-sized anion-incarcerating agents. It addresses various aspects of nanojar chemistry, such as synthesis strategies (including green methodologies) for pyrazole ligands needed for the preparation of nanojars, characterization and study of the mechanism of assembly of nanojars, and selective extraction of anions from water using nanojars.

Nanojars are neutral, supramolecular coordination complexes of the general formula [anion⊂ {Cu(μ-OH)(μ-pz)}_n], formed by the reaction of Cu²⁺, HO^‒ and pyrazolate ions (C₃H₂N₂‒, pz^‒) in the presence of oxoanions with large hydration energy …

Organocatalyzed Synthesis Of Epoxides From Chalcones Utilizing Amino Acids, Sabrina N. Kegeler

Masters Theses

The epoxide functional group is important throughout the chemical and pharmaceutical industries, as well as in nature. In the chemical industry, epoxides are present in resins and fragrances. In the pharmaceutical industry, epoxide-containing compounds are used as intermediates in the manufacturing of drugs. In nature, many natural products contain epoxide groups and are used for medicinal purposes, and for models to create synthetic molecules.

One approach to epoxide synthesis involves the use of an alkene precursor, a base, and an oxidizing agent. This is where my investigations began. The first step was to optimize the epoxidation reaction, examining substrate scope, …

Elucidation Of The Toxicity Of Anthropogenic Nanoparticles In Environments Containing Heavy Metals, Chartanay Bonner

Dissertations

The design, synthesis, and applications of anthropogenic nanoparticles continue to rise as technologies utilizing the unique chemical and physical properties of materials with nanoscale dimensions emerge. Engineered silver nanoparticles (Ag NPs) possess antimicrobial properties toward several strains of antibiotic-resistant bacteria. The manufacturing and use of Ag NPs have led to their increased presence in the environment as pollutants. The interaction of Ag NPs with other pollutants influence their surface properties, aggregation state, stability and consequently, their toxic response toward microbial pathogens. In the present study, we examined the interaction of heavy metal ions (Cd²⁺, Hg²⁺, and …

Apan Production Through Photooxidation Of Isoprene In The Presence Of NoX, Timothy Glidewell

Masters Theses

Peroxyacyl nitrates (PANs, RC(O)OONO₂) are of great importance in atmospheric chemistry. They act as transporters of reactive nitrogen, and radical delivery agents. There are no known natural emission sources of PANs; they are produced through reaction of volatile organic compounds (VOCs) and nitrogen oxides (NO_x) in the atmosphere.

VOCs can enter the atmosphere through biogenic and anthropogenic pathways. It has been estimated that isoprene makes up 70% of the biogenic VOCs (BVOCs) emitted annually. Isoprene has been shown to impact ozone levels in both rural and urban areas by sequestering and transporting NO_x in the form …

Structures Of Metallacarboranes And Coordination Complexes: Coordination Sensors Based On Rhodamine B And Quinolines, Agozie Nnaemeka Oyeamalu

Dissertations

Rhodamine-based ligands that can complex different metals has been designed and synthesized. Using Rhodamine B as starting material, we synthesized and characterized quinoline precursors as well as successfully carried out the oxidation of methyl and aldehyde groups on the quinoline ring, and on the hydroxyl moiety of the quinoline spirolactone ring. These turn-on/off rhodamine fluorescence probes sense Cr³⁺ and Ni²⁺ with high selectivity and sensitivity. These probes can be applied to detect other metal ions that are present in chemical, biological and environmental settings. They were designed to fluoresce when bonded to ions such as cyanide in detecting …

Characterization Of Γ-Butyrolactone Rings: A Computational And Toxicological Study, Donald C. Kidd

Masters Theses

Given the declining state of the natural environment, identifying green methodologies in synthetic chemistry is becoming paramount. An under explored area of green chemistry, is the use of catalytic systems in green solvents. One interesting concept in green chemistry is the use of N-Heterocyclic Carbenes (NHCs) as organocatalysts.

Thiamine or vitamin B1 was one of the first NHCs recognized. Thiamine is required for carbohydrate metabolism and helps the cell produce adenosine triphosphate (ATP). Over the last 20 years NHCs have been found to be efficient catalysts in carbon-carbon bond forming reactions.

But to date, little research has been done exploring …

Novel Spectroscopic Tools To Differentiate Drug-Dna Binding Interactions, Fadwa Dhafer Hamad

Masters Theses

DNA-drug interactions play a major role in therapeutics, diagnostics, forensics and imaging. Drugs bind to DNA in several ways based on the mode of interaction and they alter protein-DNA interactions or breaks/cleaves DNA that can lead to the cure of the disease. The major goal of the research carried out in this thesis is to develop novel optical spectroscopic tools that can differentiate Drug-DNA binding interactions mode whether its intercalation or minor-groove binding. To achieve this goal, we developed two-photon absorption (2PA) cross-section based technique to differentiate between Drug-DNA binding modes. The investigations were carried out on two drug molecules, …

Chemotypic Variation Of Biogenic Volatile Organic Compounds In Midwest Forest And Atmospheric Role Of Peroxyacyl Nitrates In Southeastern U.S., Shino Toma

Dissertations

Biogenic volatile organic compounds (VOC), including isoprene and terpenes, impact atmospheric processes such as production of tropospheric ozone, formation and growth of secondary organic aerosol (SOA), global climate change, and human health. Although estimated emission rates of total biogenic VOC exceed anthropogenic emissions, there are many challenges to direct measurements because they are very reactive with atmospheric oxidants and some are still difficult to detect by current analytical techniques. Therefore, high uncertainties lead to discrepancies between individual and total biogenic VOC budget with atmospheric oxidants and an underestimation of SOA formation.

White pine (Pinus strobus) was once a dominant species …

Extraction Studies Of Toxic Multiply Charged Oxoanions From Aqueous Media Using Nanojars, Hartman Christian

Honors Theses

In this paper, the potential of nanojars as extracting agents of chromate and arsenate from aqueous media into a non-polar organic medium is investigated. Nanojars are a class of compounds that consist of multiple [cis-CuII(μ-OH)(μ-pz)]n cyclic polymerization isomers (n = 6, 8, 9, 10, 12, 14; pz = pyrazolato anion) that form from self-assembly reactions around a multiply-charged oxoanion core with capping counterions to render an overall neutral complex. This incarcerates the anion, preventing it from escaping the complex without the use of any covalent bonding, making it a potentially highly effective and unique extracting agent. We have concluded that …

Special Elements Of Excellence: Spring 2017, Department Of Chemistry

Chemistry News

• Chair's Welcome
• The Science Behind Crafting Beer
• 10 Year Chemistry Building Celebration 8th Annual Research Chemistry Research Day & Spring 2017 Awards
• KALSEC Tour - An Insider's Look
• New Faculty Specialist!
• 2017 Million Dollar Club
• Frontiers in Chemistry Lectureship
• Recent Awards received by Students and Faculty of the WMU Department of Chemistry
• Examples of Published Research from the Faculty of WMU Department of Chemistry

Biosorption Of Pharmaceuticals And Noble Metals Nanoparticles By Algal Turf Communities, Haider Abid Faraj

Dissertations

Pharmaceuticals and nanoparticles are increasingly released into the aquatic ecosystem, while removing these contaminants from waters can be challenging. This study explores the use of periphytic algal turf communities to remove these contaminants. Initially algal turfs from different locations and aquatic systems were analyzed for pharmaceuticals commonly observed in wastewater outflows. Lab-grown turfs were exposed to a mixture of six representative pharmaceuticals of different functionality (acid, base, neutral and steroidal). Analysis of water column and the algal biomass showed pharmaceutical removal rates varied, specific to each pharmaceutical. Caffeine and estradiol had the highest removal rates while carbamazepine was not removed. …

Preparation Of Aminoalcohols And Their Application For The Synthesis Of Heterocycles And As Potential Sensors For Nerve Agents, David L. Sellers

Dissertations

Oxazoles and oxazolines are important heterocyclic scaffolds commonly used in pharmaceuticals and optoelectronic materials. Traditionally these heterocyclic compounds are prepared by condensation methodology that suffers from poor reactivity when using electron deficient or sterically crowded reaction partners. Condensation methods also exhibit low tolerance of many functional groups as the reactions typically use strong acids and high temperatures. This dissertation describes an alternate strategy for the formation of these compounds by employing an epoxide opening followed by oxidation to form these heterocyclic compounds.

Epoxide opening reactions with primary aliphatic, allylic, and benzylic amines, aminolysis reactions, often achieve high yields regardless of …

Understanding College Students’ Exam Process In A General Chemistry Course, Angela Willson

Masters Theses

The main way most college chemistry courses assess what a student has learned is through a summative exam. After introductory science courses, such as general chemistry, many students cite poor teaching and disappointing grades in these courses as a reason for dropping out of STEM programs. There has been a lack of qualitative research on students’ experiences of the complete process of taking an exam from start to finish, or the exam process, which includes preparing for an exam, taking an exam, receiving feedback, and responding to feedback after the exam has been graded.

My goal in this exploratory study …

N-Terminal Domains Of Copper Atpases In Plasmodium Falciparum, Dictyostelium Dicsoideum, Human Atp7b And A Chimera Of Atox1 With Metal Binding Domain Four Of Atp7b, Javan Kilango Kisaka

Dissertations

Copper transporting ATPases (Cu-ATPases) are essential for mediating copper uptake, maintaining cellular copper levels and prevention of accumulation of toxic copper. The most studied copper ATPases are the Menkes and Wilson proteins in eukaryotes, CopA and CopB found in bacteria. The precise interaction of the metal binding domains with their copper donor, the association of each metal binding domain within the N-terminal portion of the protein, how they communicate with each other, and the eventual metal ion translocation across the membrane, is little known. The variation in number of the cytosolic metal binding domains may also offer clues on the …

Effects Of Creatine, Leucine, And Ethanol On Glial Cell Line-Derived Neurotrophic Factor In C2c12 Skeletal Muscle Cells, Daniel Waters

Honors Theses

Glial Cell Line-Derived Neurotrophic Factor (GDNF) is a protein expressed throughout the mammalian nervous system that serves several protective functions. Originally discovered in the brain, where it supports the survival of dopaminergic neurons, GDNF has since been shown to be expressed in skeletal muscle and is vital for the maintenance of motor neurons. The relationship between muscle hypertrophy, and GDNF is not well understood. The purpose of this study was to examine the relationship between hypertrophy and GDNF by inducing hypertrophy in C2C12 skeletal muscle cells using leucine and creatine, inhibiting hypertrophy using ethanol and measuring GDNF content. As measured …

The Level Of Polyaromatic Hydrocarbon Contamination On The Kalamazoo River Shoreline Remains High Following The 2010 Enbridge Oil Spill, Wisam Abdulabbas Flayyih Al Isawi

Research and Creative Activities Poster Day

• One of the nation’s worst inland oil spills occurred near Marshall in Michigan in 2010.
• The recent Enbridge Line 6B rupture released over three million liters of diluted bitumen crude oil into the environment.
• The spilled oil entered the Talmadge Creek and flowed into the Kalamazoo River, a Lake Michigan tributary.
• Polycyclic Aromatic Hydrocarbons (PAHs) together with other pollutants were released into the environment.
• PAHs represents significant threats to aquatic organisms due to their carcinogenic and mutagenic properties and their persistence in the environment.
• Five years following the oil spill accident, the levels and identities of PAHs were investigated in …

Selective Incarceration And Extraction Of Oxoanion Contaminants From Aqueous Media By Self-Assembled Nanojars, Basil Ahmed

Research and Creative Activities Poster Day

Selective binding and extraction of anions by artificial receptors is one of the most far‐reaching areas of supramolecular chemistry, with implications in chemical, biological and environmental sciences. The extraction of kosmotropic anions from aqueous media is challenging, due to their large hydration energies (affinity for water). We have recently shown that a class of toroidal copper(II)‐hydroxide/pyrazolate complexes (nanojars), with the formula [Cu(OH)(pz)]_n (n = 27−36), totally incarcerate kosmotropic anions with an unprecedented strength. Lined by H‐bond donors on the inside and hydrophobic on the outside, these ~2 nm sized assemblies selectively extract kosmotropic anions from mixtures with chaotropic anions …

Application Of Electrospray Ionization Mass Spectrometry For Ionic Liquids And Their Biodegradation Products, Sepideh Rahbarirad

Masters Theses

Ionic liquids (ILs) are organic salts with unique physico-chemical properties and are used as green alternatives to volatile organic solvents. ESI-MS is a sensitive technique to detect these stable, permanent ions. My research focused on (1) Identification of biodegradation products of ionic liquids and (2) Multiplexed tandem MS by modulation of ionization efficiency.

Studies, have demonstrated that ILs are toxic to the environment, which makes their biodegradability an important consideration. In this work, metabolites generated during the biodegradation of 1-butyl-3-methylimidazolium chloride (BMIM), a degradation resistant and commonly used ionic liquid, are identified using high performance liquid chromatography-mass spectrometry (LC-MS).

Multiplexed …

Environmental Applications Of Chromatography-Mass Spectrometry, Wisam Abdulabbas Flayyih Al Isawi

Masters Theses

Gas chromatography-mass spectrometry (GC-MS) and liquid chromatographymass spectrometry (LC-MS) are powerful analytical techniques that combine the separation power in a stationary phase with the detection power of mass spectrometry. GCMS and LC-MS have gained dominant positions in identifying and quantifying different analyte species due to their high selectivity, high sensitivity, and high reproducibility.

My research utilizes the analytical power of LC-MS and GC-MS to address two environmental issues: 1) Identification of biodegradation products of the ionic liquid 1- butyl-3-methylimidazolium chloride (BMIMCl) by an activated sludge microbial community using LC-MS and 2) identification and quantification of polycyclic aromatic hydrocarbons (PAHs) in …

Assessment And Comparison Of The Electronic Properties Of Group 10 Bimetallic Nanoparticles Relative To Their Monometallic Counterparts, Ali Bolandi

Dissertations

Group 10 transition metals with nanoscale dimensions offer significant advantages over their bulk counterparts. Significant work has been devoted toward studying the benefits of their catalytic efficiencies, however, less has been dedicated toward understanding their electronic properties and how such changes influence charge storage and sensor efficiency. The dissertation work focuses on designing metallic and bimetallic nanoparticles consisting of nanoscale Group 10 transition metals with welldefined structures, prepared using a facile synthetic procedure. The nanoparticles were characterized by electron microscopy, spectroscopic and x-ray techniques. The efficiency of monometallic and bimetallic nanoparticles toward electron storage was investigated electrochemically and by optical …

Design And Synthesis Of New Non-Steroidal Anti-Inflammatory Drugs With Anti-Cancer Activity On Colon Rectal Cancer Cell Lines Hct-116 And Caco-2, Wanda Ivette Rodríguez Rivera

Dissertations

Colon rectal cancer is one of the most common types of cancer and is the third leading cause of cancer related deaths among western countries. Current chemotherapy treatments are highly toxic and mostly result in only a low percentage of tumor reduction; therefore an effective treatment with low toxicity is needed.

In this study, different innovative new COX-2 inhibitors were synthesized using the frame of biologically active chalcones to which active COX-2 pharmacophores SO₂CH₃, SO₂NH₂, SO₂NHCOCH₃ were added. Additionally, the effect of different alkyl chain lengths and the effect …

Synthesis Of New Platinum-Based Anti-Cancer Drugs, Saud O. Albaroodi Yasser

Masters Theses

Cancer is considered the second leading cause of death after heart attack. Different treatments have been applied to kill cancer cells such as chemotherapy, which is the use of chemicals or drugs in order to treat cancer cells. Platinum-based anti cancer drugs are the backbone of chemotherapy, they play a crucial role in treating various malignant tumor. However, the disadvantages of these drugs are very painful on patients, such as nephrotoxicity and ototoxicity. In the last four decades, thousands of platinum-based anticancer drugs have been synthesized for hope in find a new drug with higher efficacy and less side effects.In …

Ultrafast Charge Carrier Dynamics In Bare And Surface-Modified Semiconductor Nanoparticles, Jameel Abdul-Hadi Hasan

Dissertations

Charge-carrier relaxation dynamics in semiconductor nanoparticles has been in the forefront of research for last three decades both for their fundamental nature as well as for applications in light-harvesting, luminescent labels, light-emitting diodes and nonlinear optics. Significant research has focused on II-VI semiconductors with emphasis on CdS and CdSe that are toxic. On the other hand, ZnO and TiO2 semiconductor nanoparticles are less toxic and have enormous applications in photo-catalysis, water splitting, solar cells and optical sensors. However, the investigations of charge-carrier dynamics in these semiconductor nanomaterials compared to II-VI semiconductor quantum dots are quite limited. The knowledge of charge-carrier …