Chemistry Commons^™

Efforts Toward Difunctionalization Of (Hetero)Arenes Enabled By Visible Light, Eric Allen

Master's Theses (2009 -)

Functionalized arenes and heteroarenes are ubiquitous motifs in natural products, pharmaceuticals, and functional materials. As such, methods to place multiple functionalities on (hetero)arenes in one synthetic step create molecular complexity quickly and are highly valued. The vast majority of current strategies are metal-mediated, although others such as utilizing aryne intermediates and cycloadditions have also been reported. The premier challenge in this research area is the difficulty in controlling regioselectivity. Strategies of controlling regioselectivity have included tuning the electronic nature of the substrate, the use of directing groups (DGs), steric influences, ligand control, and photochemically initiated methods. Certain strategies tend to …

Structure, Dynamics, And Redox Reactivity Of An All-Purpose Flavodoxin, Sharique Khan, Ahmadullah Ansari, Monica Brachi, Debarati Das, Wassim El Housseini, Shelley Minteer, Anne Frances Miller

Chemistry Faculty Research & Creative Works

The Flavodoxin Of Rhodopseudomonas Palustris CGA009 (Rp9Fld) Supplies Highly Reducing Equivalents To Crucial Enzymes Such As Hydrogenase, Especially When The Organism Is Iron-Restricted. By Acquiring Those Electrons From Photodriven Electron Flow Via The Bifurcating Electron Transfer Flavoprotein, Rp9Fld Provides Solar Power To Vital Metabolic Processes. To Understand Rp9Fld's Ability To Work With Diverse Partners, We Solved Its Crystal Structure. We Observed The Canonical Flavodoxin (Fld) Fold And Features Common To Other Long-Chain Flds But Not All The Surface Loops Thought To Recognize Partner Proteins. Moreover, Some Of The Loops Display Alternative Structures And Dynamics. To Advance Studies Of Protein–protein Associations …

The Dynamics Of The Flavin, Nadph, And Active Site Loops Determine The Mechanism Of Activation Of Class B Flavin-Dependent Monooxygenases, Gustavo Pierdominici-Sottile, Juliana Palma, María Leticia Ferrelli, Pablo Sobrado

Chemistry Faculty Research & Creative Works

Flavin-dependent monooxygenases (FMOs) constitute a diverse enzyme family that catalyzes crucial hydroxylation, epoxidation, and Baeyer–Villiger reactions across various metabolic pathways in all domains of life. Due to the intricate nature of this enzyme family's mechanisms, some aspects of their functioning remain unknown. Here, we present the results of molecular dynamics computations, supplemented by a bioinformatics analysis, that clarify the early stages of their catalytic cycle. We have elucidated the intricate binding mechanism of NADPH and L-Orn to a class B monooxygenase, the ornithine hydroxylase from (Formula presented.) (Formula presented.) known as SidA. Our investigation involved a comprehensive characterization of the …

Development Of On-The-Fly Quasi-Steady State Approximation For Chemical Kinetics In Cfd, Abhinav Balamurugan

Doctoral Dissertations and Master's Theses

This study analyzes the feasibility of On-The-Fly Quasi-Steady-State Approximation (OTF-QSSA) application for solving chemical kinetics within Computational Fluid Dynamics (CFD) simulations, aiming to reduce the computational demand of detailed mechanisms. An algorithm that dynamically identifies and designates Quasi-Steady-State (QSS) species at specific grid locations and instances during the simulation was developed. With this information, our method pseudo-delays the advancement of concentrations for these QSS species—effectively setting their rate of concentration change to zero for a set number iteration before updating using the detailed mechanism and thereby omitting the computationally intensive processes typically required for their calculation during those skipped iteration. …

Efficient Photocatalytic Core–Shell Synthesis Of Titanate Nanowire/Rgo, Xiaofang Ye, Yang Tian, Mengyao Gao, Fangjun Cheng, Jinshen Lan, Han Chen, Mark Lanoue, Shengli Huang, Z. Ryan Tian

Chemistry & Biochemistry Faculty Publications and Presentations

Wide bandgap semiconductor-based photocatalysts are usually limited by their low solar energy conversion efficiency due to their limited absorption solar wavelength, their rapid surface recombination of the photogenerated electron–hole pairs, and their low charge-carrier mobility. Here, we report a novel stepwise solution synthesis for achieving a new photocatalytic core–shell consisting of a titanate nanowire/reduced graphene oxide shell (or titanate/rGO) 1D-nanocomposite. The new core–shell nanocomposite maximized the specific surface area, largely reduced the charge transfer resistance and reaction energy barrier, and significantly improved the absorption of visible light. The core–shell nanocomposites’ large on/off current ratio and rapid photo-responses boosted the photocurrent …

Probing Charge Transport Mechanisms In 2d Semiconductive Metal Organic Framewoks, James Nyakuchena

Dissertations (1934 -)

Metal organic frameworks (MOFs) are a class of highly porous crystalline materials constructed from metal nodes connected by multitopic organic ligands. Due to their unique properties such as large surface area, tunable pore structure, and structural diversity, they have demonstrated potential in a wide array of applications including gas storage and separation, sensing, catalysis, and drug delivery. However, there are only a handful of MOFs reported that have electrical conductivity, which prevents their applications in photoelectronic and photocatalytic applications. This is because hard metals and redox inactive ligands with terminal hard linking bases such as carboxylates are often used in …

Tripodal Naphthalene Mono Imide Chemosensor For Detection Of Metal Ions, Joshua Do, Rosanna Jees

Posters - 2024

1,8-Naphthalimide is an excellent fluorophore (fluorescent compound) with long emission wavelength band (400-600 nm), a large stokes shift, insensitive to pH and synthetic versatility. Triazole functional group has been used as binding sites for various metal ions in particular Zn(II), Cu(II) and Fe(III) metal ions. Based on naphthalimide as fluorophore and triazole as binding site, a new tripodal chemosensors has been designed and synthesized by copper catalyzed Huisgen Azide Alkyne cycloaddition reaction (known as click reaction). Its photophysical properties with various metal ions were investigated by fluorescence spectroscopy. Binding studies with various metal ions such as Zn(II), Cd(II) and Fe(III) …

Attendance At Virginia Academy Of Science Meetings: A Report Of The Panel Discussion Held By The Chemistry Section Of The Virginia Academy Of Science, Tom Devore

Virginia Journal of Science

Since the attendance in the Chemistry Section at the Virginia Academy of Science (VAS) spring meetings has not returned to the numbers attending prior to the cancellation of the 2020 meeting due to the Covid pandemic, a roundtable discussion was held as part of the 2023 VAS Annual Meeting at the College of William and Mary on May 25, 2023 to discuss possible ways to increase attendance at future meetings. This is a report of the topics discussed and the suggestions made.

Comparison Of Emissions Across Tobacco Products: A Slippery Slope In Tobacco Control, Ahmad El-Hellani, Ayomipo Adeniji, Hanno C. Erythropel, Thomas Lamb, Qixin Wang, Vladimir Mikheev, Robert Strongin, Multiple Additional Authors

Chemistry Faculty Publications and Presentations

In this narrative review, we highlight the challenges of comparing emissions from different tobacco products under controlled laboratory settings (using smoking/ vaping machines). We focus on tobacco products that generate inhalable smoke or aerosol, such as cigarettes, cigars, hookah, electronic cigarettes, and heated tobacco products. We discuss challenges associated with sample generation including variability of smoking/vaping machines, lack of standardized adaptors that connect smoking/vaping machines to different tobacco products, puffing protocols that are not representative of actual use, and sample generation session length (minutes or number of puffs) that depends on product characteristics. We also discuss the challenges of physically …

Elucidating The Effect Of Surface Modifications On Nanomaterial Function, Nicholas Langer

Dissertations (1934 -)

Nanoparticles (NPs) are an exciting class of materials with unique properties that inspire their use in sensing, catalysis, optoelectronic devices, and more. NPs are frequently coated in organic molecules, termed ligands, to increase their stability, but ligands also influence NP catalytic activity and their interactions with neighboring molecules. To fully realize the potential of nanomaterials as key components in novel complex systems, a more nuanced understanding of the relationships between NPs, ligands, and their surrounding microenvironment is critical. After a brief review of the NP field in Chapter 1, Chapter 2 begins the investigation of structure-function relationships with a cross-class …

Molecular Geometry Changes In Some Carbonyls And Aromatic Rings Upon Electronic Excitation: Herzberg-Teller Vibronic Coupling And Unitary Duschinsky Rotation, Maryam Yahya Al-Sakkaf

Theses

The common assumption in probing the dynamical motion of molecules is that the molecular electronic activity depends weakly on vibrational coordinates on electronic excitation. Therefore, electron-vibration interaction, which is known as Vibronic Coupling (VC), may be ignored. The Herzberg-Teller theory of Vibronic Coupling (HTVC) is a breakdown of the Born-Oppenheimer Approximation (BOA) since nuclear and electronic degrees of freedom can no longer be separated. The inclusion of a single quantum of a non-totally symmetric vibrational mode changes the overall symmetry of the state and permits the transition. Often, this assumption may be invalid, especially in carbonyl and aromatic compounds. This …

Exploring N-H Bond Activation And C-H Bond Activation By Tripodal Tris(Nitroxide) Aluminum And Gallium Complexes, Vivian W. Guo , '24

Senior Theses, Projects, and Awards

The activation of H–X (X = O, N, C) bonds is a common primary step in introducing alcohols, amines, and hydrocarbons into catalytic processes used in various industries. Precious metal complexes are commonly used as catalysts to activate H–X bonds through formal metal-based oxidative addition. However, since precious metals are scarce, expensive, toxic, and environmentally harmful, developing non-precious metal coordination complexes for H–X bond activation is essential. As a result, we investigate the activation of O–H, N–H, and C–H bonds through tripodal tris(nitroxide) aluminum and gallium complexes to develop a green strategy for broad-based H–X bond activation. Past members of …

Differences In The Metabolic Outputs Of Caulobacter Crescentus Modify The Kinetics Of Silver Nanoparticle Dissolution, Tyler M. Hicks , '24

Senior Theses, Projects, and Awards

Silver nanoparticles (AgNPs) are widely used within commercial products due to their distinct antibacterial and antimicrobial properties. As their utilization continues to increase, their inevitable improper disposal could present lasting environmental ramifications due to their nonspecific biotoxicity. One microorganism of interest is Caulobacter crescentus, a common freshwater bacterium found in locations where AgNPs end after their disposal. C. crescentus has two distinct cell types—a stalked and a swarmer form—each with their own unique function and metabolic outputs. Approximately 15% of the C. crescentus metabolome varies with cell cycle, thus making this an interesting and environmentally relevant model organism for …

Multifunctional Nanomaterial Analysis Using Inexpensive Techniques, Casey Jordan , '24

Senior Theses, Projects, and Awards

Designing methods to comprehensively understand nanomaterial interactions is of paramount importance as nanomaterials gain widespread use and their environmental impact becomes a concern. While current characterization methods are suitable for initial assessments, there is a need for comprehensive techniques to evaluate end-of-use scenarios and environmental effects. This report emphasizes the potential of electrochemistry as a versatile measurement tool for nanomaterial analysis. Two projects are presented, showcasing innovative analytical architectures to overcome the limitations of existing techniques. Project 1 integrates linear sweep stripping voltammetry (LSSV) and particle impact voltammetry (PIV) to achieve kinetic resolution and size analysis of silver nanoparticles (AgNPs) …

Virginia Academy Of Science At 100: A Presentation Given To The Chemistry Section Of The Virginia Academy Of Science, Tom Devore

Virginia Journal of Science

While I have not been an active member of the Virginia Academy of Sciences (VAS) for all of its 100 years of existence, I have seen many changes in VAS during the more than 30 years that I have been an active member. This paper, delivered at the VAS Annual Meeting at the College of William and Mary on May 25, 2023, recalls some of the outstanding scientists in Virginia that I have had the privilege of knowing and who have led and lived out the goals of VAS. They inspired me to try to live up to the high …

Characterizing And Developing Chemistry Students’ Data Analysis And Interpretation Of Chemical Data, Stephanie A. Berg

Dissertations and Doctoral Documents, University of Nebraska-Lincoln, 2023–

All chemistry students must develop competency in analyzing and making sense of data. However, there are many difficulties that chemistry students may experience while analyzing data. Many students may not use relevant prior knowledge to aid in making sense of data, or they may not form conclusions using all the data provided. Additionally, prior knowledge seems to influence one’s data analysis, but little is known about how students use it to make sense of data. Thus, I interviewed undergraduate students as they analyzed graphical data for a task and characterized how they used their prior knowledge throughout. My findings suggest …

Shorting At Long Duration: Impact Of Extended Discharge Capacity On Battery Solid Electrolytes, Ryan C. Hill, Amanda S. Peretti, Leo J. Small, Erik D. Spoerke, Yang-Tse Cheng

Chemical and Materials Engineering Faculty Publications

Long-duration energy storage (LDES) is critical to a stable, resilient, and decarbonized electric grid. While batteries are emerging as important LDES devices, extended, high-power discharges necessary for cost-competitive LDES present new materials challenges. Focusing on a new generation of low-temperature molten sodium batteries, we explore here unique phenomena related to long-duration discharge through a well-known solid electrolyte, NaSICON. Specifically, molten sodium symmetric cells at 110 ° C were cycled at 0.1 A cm−2 for 1–23 h discharges. Longer discharges led to unstable overpotentials, reduced resistances, and decreased electrolyte strength, caused by massive sodium penetration not observed in shorter duration discharges. …

Accurate Characterization Of Binding Kinetics And Allosteric Mechanisms For The Hsp90 Chaperone Inhibitors Using Ai-Augmented Integrative Biophysical Studies, Chao Xu, Xianglei Zhang, Lianghao Zhao, Gennady M. Verkhivker, Fang Bai

Mathematics, Physics, and Computer Science Faculty Articles and Research

The binding kinetics of drugs to their targets are gradually being recognized as a crucial indicator of the efficacy of drugs in vivo, leading to the development of various computational methods for predicting the binding kinetics in recent years. However, compared with the prediction of binding affinity, the underlying structure and dynamic determinants of binding kinetics are more complicated. Efficient and accurate methods for predicting binding kinetics are still lacking. In this study, quantitative structure–kinetics relationship (QSKR) models were developed using 132 inhibitors targeting the ATP binding domain of heat shock protein 90α (HSP90α) to predict the dissociation rate …

A Single Hydrogen Bond That Tunes Flavin Redox Reactivity And Activates It For Modification, Debarati Das, Anne-Frances Miller

Markey Cancer Center Faculty Publications

Electron bifurcation produces high-energy products based on less energetic reagents. This feat enables biological systems to exploit abundant mediocre fuel to drive vital but demanding reactions, including nitrogen fixation and CO₂ capture. Thus, there is great interest in understanding principles that can be portable to man-made devices. Bifurcating electron transfer flavoproteins (Bf ETFs) employ two flavins with contrasting reactivities to acquire pairs of electrons from a modest reductant, NADH. The bifurcating flavin then dispatches the electrons individually to a high and a low reduction midpoint potential (E°) acceptor, the latter of which captures most of the energy. Maximum efficiency …

The Study Of Biomass Based Polymers And Cyclic Polymers, Yishayah Bension

Theses and Dissertations

Plastics have become an integral part of everyday life, from household care to aerospace applications, polymers are involved in every industry. Most of these polymeric materials are derived from petroleum feedstocks which have deleterious effects on our environment. The production of petrochemicals has led to an increase in greenhouse gases and microplastic pollution which have accelerated climate change. My research focuses on utilizing existing biomasses to improve the plastic economy’s circularity. This work develops new materials from bio-based polymers such as lignin and soybean oil. Raw lignin suffers from inherently weak mechanical properties, poor solubility, processability, and molecular structure ambiguity. …

Diagnosing Discharge Events Within A Novel Miniature Simplified Coaxial Ion Trap Mass Analyzer, David Virgil Sirbescu-Stanley

Masters Theses

Mass spectrometry is a technique that organizes material samples by mass to reveal their chemical composition by forming a spectrum. Since their invention, ion trap mass spectrometers have undergone significant enhancements. This work, funded by the National Science Foundation and in collaboration with Brigham Young University, the Simplified Coaxial Ion Trap (SCIT), attempts to simplify ion trap geometry and combine three ion traps into one device. Successful demonstration of the SCIT functionality could reduce costs, reduce manufacturing complexity, and shrink total instrument volume. At the same time, trapping capacity and analytical efficiency will be increased. However, as discussed within, challenges …

Magnetic Properties And Biological Relevance Of Scorpionate-Based Transition Metal Complexes, Laxmi Devkota

Dissertations (1934 -)

There are two major components to this research dissertation. The first component describes the synthesis and characterization of high-spin, first-row transition metal complexes supported by facially-coordinating “scorpionate” ligands. These studies have sought to uncover fundamental relationships between molecular structure and magnetic properties, with the ultimate aim of assisting in the design of single molecule magnets (SMMs). To this end, comprehensive series of four and five-coordinated M(II)-X complexes (M = Co, Fe, and Cu; and X = F, Cl, Br, and I) were prepared using hydrotris(pyrazol-1-yl)borate ligands (TpR,R’; where R and R’ indicate substituents at the 3- and 5-position of the …

Synthesis And Characterization Of Heavy-Metal Oxoanion- And Phosphonate-Binding Nanojars, Pooja Singh

Dissertations

Nanojars are an emerging class of anion-binding and extraction agents. These supramolecular coordination complexes (2 nm wide) exhibit exceptional anion binding strength that points to their possible application in the recovery of toxic or valuable anions from water bodies. Nanojars of the formula (TBA)2[XO3/42−⸦{CuII(μ-OH)(μ-pyrazolate)}n] (TBA = tetrabutylammonium cation; XO3/42− = anion; X = Se, Te, Cr, Mo, W, HP, HAs, HV; n = 26 – 36) are synthesized from Cu2+, OH−, pyrazole and the TBA salts of various anions. Nanojars possess hydrophobic exteriors with an array of pyrazolate ligands and hydrophilic interiors with a …

Investigating Ocean Carbonate System Changes Across Latitudes In The North Atlantic Basin With A Time-Series Mooring System, Anna Trujillo

Independent Study Project (ISP) Collection

The world ocean, specifically the Arctic, serves as one of the greatest mitigators for anthropogenic carbon dioxide release, making the study of high latitude ocean carbonate chemistry an increasingly important topic. While much work has been done concerning the science of acidification and future model projections, analyzing data to detect decadal anthropogenic trends and effects is also highly important. Aiming to add to this data pool, this study investigated the ocean carbonate system at three North Atlantic mooring locations at polar, subtropical, and tropical latitudes from 2013 - 2021. Time series datasets of the pH and pCO₂ of surface water …

Self-Assembly Of Core-Substituted Naphthalene Diimide Based Palladium (Ii) And Platinum (Ii) Macrocycles, Samantha Aragon, Camille Kwan, Franchesca Tinacba

Posters - 2024

Coordination-driven self-assembly is an efficient way to create 2D and 3D supramolecular coordination complexes (SCC) due to its predictable features of metal coordination. SCC’s represent a growing area of research with applications in various fields such as host-guest chemistry, catalysis, chemical transfer and separation, and stabilization of its reactive intermediate. Integrating various fluorophore/chromophore into these SCC’s results in unique properties and functions. In this project, core-substituted naphthalenediimide (NDI) based macrocycles were constructed via self-assembly with 90° platinum (II) and palladium (II) phosphane triflates.1H NMR and 31P NMR studies of the self-assembled product in various nonpolar to polar solvents showed two …

Thinking Outside The Membrane: Investigating The Structure Of The Influenza A M2 Ectodomain, Kyra Roepke , '24

Senior Theses, Projects, and Awards

Influenza A leads to annual epidemics that result in three-to-five million cases of severe illness each year and occasional devastating pandemics. Some current prevention and treatment methods target the M2 membrane protein on the surface of the virus. However, viral mutability and drug resistance require the targeting of more conserved parts of the protein.

The goal of this thesis was to investigate the secondary structure and dynamics of the M2 ectodomain (M2e), which is highly conserved across influenza viruses and across evolutionary time. The structure of M2e has previously been challenging to study because of its flexibility. In this study, …

Theoretical And Computational Astrochemistry: A Variational Quantum Monte Carlo (Vqmc) Study Of The Trihydrogen Molecule Cation (H3+), Ahmad Saeed Alsaed

Theses

H₃⁺ is the simplest Three-Center Two-Electron molecule and it is of much interest in astrochemistry due to its high occurrence in the outer space, high reactivity, and strong acidic properties. In addition,H₃⁺ is involved in many chemical reactions in the interstellar medium (ISM) and its significant ability to absorb energy contributed to the cooling of the Universe during its early stages.

The main objective of this thesis is to approximate the ground state electronic energy of H₃⁺ by using a simple trial wavefunction consisting of a doubly occupied molecular orbital multiplied by a Jastrow …

Exploring Cation Exchange: Unveiling Its Significance In Biochar And Bioenergetics Applications, Gyanendra Kharel

Chemistry & Biochemistry Theses & Dissertations

Cation exchange, a cornerstone of soil chemistry and nutrient cycling, is a fundamental chemical process that occurs in soils, sediments, membranes, and other solid materials. It involves the interchange of positively charged ions, or cations, between a solid matrix and a surrounding solution. This process is crucial in various natural and engineered systems, leading to a range of applications across different fields.

This dissertation presents an extensive investigation into the applications of cation exchange in the fields of biochar and bioenergetics, encompassing three distinct aims. The first aim concentrates on the surface oxygenation of biochar through ozonization, aiming to achieve …

Broadband Dielectric Spectroscopic Detection Of Volatile Organic Compounds With Zinc Oxide And Metal-Organic Frameworks As Solid-State Sensor Materials, Papa Kojo Amoah

Electrical & Computer Engineering Theses & Dissertations

The industrial revolution drove technological progress but also increased the release of harmful pollutants, posing significant risks to human health and the environment. Volatile organic compounds (VOCs), which have various anthropogenic and natural sources, are particularly concerning due to their impact on public health, especially in urban areas. Addressing these adverse effects requires comprehensive strategies for mitigation as traditional gas sensing techniques have limitations and there is a need for innovative approaches to VOC detection.

VOCs encompass a diverse group of chemicals with high volatility, emitted from various human activities and natural sources. These compounds play a crucial role in …

Spectroscopy Of Atmospheres, Randika Dodangodage

Physics Theses & Dissertations

Spectroscopic methods are used to study planetary and stellar atmospheres. The information obtained from spectroscopic studies provides insight into atmospheric compositions and dynamics, which can be used to model and characterize atmospheres and climates. Laboratory-recorded absorption cross-sections are needed to interpret the recorded spectra of planets and stars. High resolution ethane, neopentane, propene, and n-butane spectra have been recorded, and absorption cross-sections have been provided for different temperatures and total pressures with different broadening gases, including hydrogen, helium, and nitrogen. The Atmospheric Chemistry Experiment (ACE) satellite orbits Earth and records spectra through solar occultation limb observations. HOCl is a chlorine …