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Articles 31 - 60 of 347

Full-Text Articles in Physical Chemistry

Battle Of The Ch Motions: Aliphatic Vs Aromatic Contributions To Astronomical Pah Emission And Exploration Of The Aliphatic, Aromatic, And Ethynyl Ch Stretches, Vincent J. Esposito, Salma Bejaoui, Brant E. Billinghurst, Christiaan Boersma, Ryan C. Fortenberry, Farid Salama Nov 2024

Battle Of The Ch Motions: Aliphatic Vs Aromatic Contributions To Astronomical Pah Emission And Exploration Of The Aliphatic, Aromatic, And Ethynyl Ch Stretches, Vincent J. Esposito, Salma Bejaoui, Brant E. Billinghurst, Christiaan Boersma, Ryan C. Fortenberry, Farid Salama

Biology, Chemistry, and Environmental Sciences Faculty Articles and Research

Strong anharmonic coupling between vibrational states in polycyclic aromatic hydrocarbons (PAH) produces highly mixed vibrational transitions that challenge the current understanding of the nature of the astronomical mid-infrared PAH emission bands. Traditionally, PAH emission bands have been characterized as either aromatic or aliphatic, and this assignment is used to determine the fraction of aliphatic carbon in astronomical sources. In reality, each of the transitions previously utilized for such an attribution is highly mixed with contributions from both aliphatic and aromatic CH motions as well as non-CH motions such as CC stretches. High-resolution gas-phase IR absorption measurements of the spectra of …


Substrate Interference And Strain In The Second-Harmonic Generation From Mose2 Monolayers, Sudeep Puri, Sneha Patel, Jose Luis Cabellos, Luis Enrique Rosas-Hernandez, Kaitlin Reynolds, Hugh O.H. Churchill, Salvador Barraza-Lopez, Bernardo S. Mendoza, Hiroyuki Nakamura Oct 2024

Substrate Interference And Strain In The Second-Harmonic Generation From Mose2 Monolayers, Sudeep Puri, Sneha Patel, Jose Luis Cabellos, Luis Enrique Rosas-Hernandez, Kaitlin Reynolds, Hugh O.H. Churchill, Salvador Barraza-Lopez, Bernardo S. Mendoza, Hiroyuki Nakamura

Physics Faculty Publications and Presentations

Nonlinear optical materials of atomic thickness, such as non-centrosymmetric 2H transition metal dichalcogenide monolayers, have a second-order nonlinear susceptibility (χ(2)) whose intensity can be tuned by strain. However, whether χ(2) is enhanced or reduced by tensile strain is a subject of conflicting reports. Here, we grow high-quality MoSe2 monolayers under controlled biaxial strain created by two different substrates and study their linear and nonlinear optical responses with a combination of experimental and theoretical approaches. Up to a 15-fold overall enhancement in second-harmonic generation (SHG) intensity is observed from MoSe2 monolayers grown on SiO2 when …


On The Formation And Detectability Of H2Cncn And Its Progenitors, Ryan C. Fortenberry, Vincent J. Esposito Aug 2024

On The Formation And Detectability Of H2Cncn And Its Progenitors, Ryan C. Fortenberry, Vincent J. Esposito

Biology, Chemistry, and Environmental Sciences Faculty Articles and Research

New highly exothermic formation pathways incorporating both thermodynamic and kinetic control for the newly astronomically detected H2CNCN molecule are paired with extremely accurate quantum chemical rovibrational spectroscopic computations. The reactions between astronomically known CH2CN/CH2CCH + HNCN follow effectively identical pathways and proceed through stable intermediates and over deeply submerged transition states to form H2CNCN and HCN/HCCH coproducts. Similarly, the reaction between CHM2CN and NCN− can also form H2CNCN, although this pathway first requires the initial formation of NCN−, which is currently undetected in space, via …


Experimental Determination Of The Unusual Ch Stretch Frequency Of Protonated Fullerenes, Laura Finazzi, Vincent J. Esposito, Julianna Palotás, Jonathan Martens, Els Peeters, Jan Cami, Giel Berden, Jos Oomens Aug 2024

Experimental Determination Of The Unusual Ch Stretch Frequency Of Protonated Fullerenes, Laura Finazzi, Vincent J. Esposito, Julianna Palotás, Jonathan Martens, Els Peeters, Jan Cami, Giel Berden, Jos Oomens

Biology, Chemistry, and Environmental Sciences Faculty Articles and Research

We report experimental values for the CH stretch frequencies of the protonated fullerenes C60H+ and C70H+. Anharmonic frequency calculations at the B3LYP/6-31G level of theory, which are independent of empirical scaling factors, reproduce the experimental values to within approximately 5 cm−1. Scaling theoretical harmonic frequencies by applying factors derived for polycyclic aromatic hydrocarbons deviate significantly from the experimentally measured frequency. We attribute this deviation to the unusual hydrocarbon structure that affects the degree of anharmonicity of the CH stretch. This result allows us to propose an original, specific scaling factor of …


Fundamental Limits In Measuring The Anisotropic Rotational Diffusion Of Single Molecules, Weiyan Zhou, Tingting Wu, Matthew D. Lew Jul 2024

Fundamental Limits In Measuring The Anisotropic Rotational Diffusion Of Single Molecules, Weiyan Zhou, Tingting Wu, Matthew D. Lew

Electrical & Systems Engineering Publications and Presentations

Many biophysical techniques, such as single-molecule fluorescence correlation spectroscopy, Förster resonance energy transfer, and fluorescence anisotropy, measure the translation and rotation of biomolecules to quantify molecular processes at the nanoscale. These methods often simplify data analysis by assuming isotropic rotational diffusion, e.g., that molecules wobble within a circular cone. This simplification ignores the anisotropy present in many biological contexts that may cause molecules to exhibit different degrees of diffusion in different directions. Here, we loosen this assumption and establish a theoretical framework for describing and measuring anisotropic rotational diffusion using fluorescence imaging. We show that anisotropic wobble is directly quantified …


Thermal Effects On The Voc-Sensitive Polydimethylsiloxane Holographic Gratings, Aleksandra Hernik, Faolan Radford Mcgovern, Patrick Iftime, Izabela Naydenova Jun 2024

Thermal Effects On The Voc-Sensitive Polydimethylsiloxane Holographic Gratings, Aleksandra Hernik, Faolan Radford Mcgovern, Patrick Iftime, Izabela Naydenova

Conference Papers

The imperative for monitoring volatile organic compounds (VOCs) emerges from their harmful impact on human health when inhaled excessively over a long term. Polydimethylsiloxane (PDMS), valued for its transparency and excellent flexibility, has already been demonstrated as a promising biocompatible and cost-effective transducer for optical VOCs sensing. Moreover, it facilitates further functionalisation with adsorbing materials to enhance sensitivity and selectivity for specific VOCs detection. We fabricated and examined PDMS-based surface diffraction gratings after exposure to selected VOCs, demonstrating different response for polar and non-polar molecules. Investigated gratings were prepared by replicating sinusoidal surface relief structures inscribed in acrylamide photopolymer using …


Assigning The Ch Stretch Overtone Spectrum Of Benzene And Naphthalene With Extension To Anthracene And Tetracene Using 2- And 3-Quanta Anharmonic Quantum Chemical Computations, Vincent J. Esposito, Ryan C. Fortenberry, Christiaan Boersma, Louis J. Allamandola Jun 2024

Assigning The Ch Stretch Overtone Spectrum Of Benzene And Naphthalene With Extension To Anthracene And Tetracene Using 2- And 3-Quanta Anharmonic Quantum Chemical Computations, Vincent J. Esposito, Ryan C. Fortenberry, Christiaan Boersma, Louis J. Allamandola

Biology, Chemistry, and Environmental Sciences Faculty Articles and Research

The CH stretch overtone region (5750–6300 cm−1) of benzene and naphthalene is assigned herein using anharmonic quantum chemical computations, and the trend of how this extends to larger polycyclic aromatic hydrocarbons (PAHs) is established. The assignment of all experimental bands to specific vibrational states is performed for the first time. Resonance polyads and the inclusion of 3-quanta vibrational states are both needed to compute accurate vibrational frequencies with the proper density-of-states to match the experimental band shape. Hundreds of 3-quanta states produce the observed band structure in naphthalene, anthracene, and tetracene, and this number is expected to increase …


Simulation Of Linear And Cyclic Alkanes With Second-Order Møller–Plesset Perturbation Theory Through Adaptive Force Matching, Alexei Nikitin, Feng Wang Jun 2024

Simulation Of Linear And Cyclic Alkanes With Second-Order Møller–Plesset Perturbation Theory Through Adaptive Force Matching, Alexei Nikitin, Feng Wang

Chemistry & Biochemistry Faculty Publications and Presentations

Predicting ensemble properties, such as density and heat of vaporization, of small hydrocarbons is challenging due to the dispersion-dominated weak interactions between these molecules. With the adaptive force matching (AFM) method, the bonded and short-range nonbonded interactions are fitted to second-order Møller–Plesset perturbation theory (MP2) references computed with the def2-TZVP basis set. The dispersion is modeled using symmetry adapted perturbation theory (SAPT) at MP4 accuracy using the def2-TZVPD basis set. A new charge matrix decomposition technique is described to obtain partial charges in AFM. Although the models developed do not have any empirical parameters, several properties of the resulting models …


Cn Stretches Around 4.4 Microns Dominate The Ir Absorption Spectra Of Cyanopolycyclic Aromatic Hydrocarbons, Vincent J. Esposito, Ryan C. Fortenberry, Christiaan Boersma, Alexandros Maragkoudakis, Louis J. Allamandola May 2024

Cn Stretches Around 4.4 Microns Dominate The Ir Absorption Spectra Of Cyanopolycyclic Aromatic Hydrocarbons, Vincent J. Esposito, Ryan C. Fortenberry, Christiaan Boersma, Alexandros Maragkoudakis, Louis J. Allamandola

Biology, Chemistry, and Environmental Sciences Faculty Articles and Research

Anharmonic quantum chemical computations reveal a strong, narrow (width = 0.075 μm) band in the 4.3–4.5 μm region of the absorption spectra of the cyano-substituted polycyclic aromatic hydrocarbons (CN-PAHs) cyanonaphthalene, cyanoanthracene, c yanophenanthrene, and c yanopyrene. This narro w windo w with intense IR lines implies that CN-PAHs of various shapes and sizes offer little variation in both wavelength and intensity in this region. Subsequently, this band can be used as a tracer for CN-PAHs. The distinct features making up the band are assigned to mixed vibrational states consisting of the CN stretch fundamental and various combination bands, including in-plane …


Development Of A High-Resolution Mid-Infrared Spectroscopy Apparatus For The Study Of Methane And Other Astrochemical Molecules., S M Shah Riyadh May 2024

Development Of A High-Resolution Mid-Infrared Spectroscopy Apparatus For The Study Of Methane And Other Astrochemical Molecules., S M Shah Riyadh

Electronic Theses and Dissertations

This research documents steps towards building a novel spectroscopic technique, namely, cavity-enhanced double-resonance (CEDR) spectroscopy, for investigating methane (CH4) and other molecules with significance in astrochemistry. These efforts focus on tackling the complexities of their ro-vibrational energy levels and the inefficiencies in analyzing vibrational spectra, particularly for molecules with high symmetry and strong intramolecular interactions. In the CEDR spectroscopy, the first photon, generated by a continuous-wave optical parametric oscillator (CW-OPO) locked to a Doppler-free saturation absorption line, excites the molecule from its ground level to a selected excited ro-vibrational (rotational-vibrational) level, e.g., that of the asymmetric CH-stretch mode. …


Magnetic Properties Of Zgnrs With Nitrogen And Fluorine Adsorbates, A Computational Study, Justin Petit May 2024

Magnetic Properties Of Zgnrs With Nitrogen And Fluorine Adsorbates, A Computational Study, Justin Petit

Electronic Theses and Dissertations

Imposing dimensional restrictions on graphene sheets and adding impurities can give rise to carbon nanostructures with magnetic properties. In this work, zigzag graphene nanoribbons, zGNRs, with nitrogen and fluorine adatoms are investigated for magnetic properties of interest for spin devices. Geometry optimizations were done determining which position along a zGNR electrode that N and F would favorably attach to. Edge positions were determined as the most stable attachment site. M-cell zGNR electrodes (M = 1-3) edge-functionalized by N and F adatoms were investigated with respect to their band structures and spin densities in antiferromagnetic and ferromagnetic, AFM and FM, configurations. …


Electrochemical Modulation Of Surface Plasmon Wave To Investigate Dna-Based Sensing Platforms And Detection Of Sars-Cov2., Anil Sharma May 2024

Electrochemical Modulation Of Surface Plasmon Wave To Investigate Dna-Based Sensing Platforms And Detection Of Sars-Cov2., Anil Sharma

Electronic Theses and Dissertations

This study offers a thorough comparative analysis of optical and electrical signaling strategies for assessing the electrochemical properties of different redox-labeled DNA-based biosensing platforms. In addition, it illustrates the development of an optical interrogation technique with electrochemical modulation of surface plasmon waves (ECM-SPW) as a route for analyzing and implementing DNA-based hybridization sensors. For those quantitative analyses, we chose a model sensing platform composed of a methylene blue (MB)-modified single-stranded DNA (ssDNA) signaling probe and an unlabeled capture ssDNA probe that complements the signaling probe. Two types of signaling probes were employed in this work: one with MB attached to …


Size Limits And Fission Channels Of Doubly Charged Noble Gas Clusters, Ianessa Stromberg, Stefan Bergmeister, Lisa Ganner, Fabio Zappa, Paul Scheier, Olof Echt, Elisabeth Gruber Mar 2024

Size Limits And Fission Channels Of Doubly Charged Noble Gas Clusters, Ianessa Stromberg, Stefan Bergmeister, Lisa Ganner, Fabio Zappa, Paul Scheier, Olof Echt, Elisabeth Gruber

Faculty Publications

Small, highly charged liquid droplets are unstable with respect to spontaneous charge separation when their size drops below the Rayleigh limit or, in other words, their fissility parameter X exceeds the value 1. The absence of small doubly charged atomic cluster ions in mass spectra below an element-specific appearance size na has sometimes been attributed to the onset of barrierless fission at X = 1. However, more realistic models suggest that na marks the size below which the rate of fission surpasses that of competing dissociative channels, and the Rayleigh limit of doubly charged van der Waals clusters …


Mechanistic Investigation Of C—C Bond Activation Of Phosphaalkynes With Pt(0) Complexes, Roberto M. Escobar, Abdurrahman C. Ateşin, Christian Müller, William D. Jones, Tülay Ateşin Mar 2024

Mechanistic Investigation Of C—C Bond Activation Of Phosphaalkynes With Pt(0) Complexes, Roberto M. Escobar, Abdurrahman C. Ateşin, Christian Müller, William D. Jones, Tülay Ateşin

Research Symposium

Carbon–carbon (C–C) bond activation has gained increased attention as a direct method for the synthesis of pharmaceuticals. Due to the thermodynamic stability and kinetic inaccessibility of the C–C bonds, however, activation of C–C bonds by homogeneous transition-metal catalysts under mild homogeneous conditions is still a challenge. Most of the systems in which the activation occurs either have aromatization or relief of ring strain as the primary driving force. The activation of unstrained C–C bonds of phosphaalkynes does not have this advantage. This study employs Density Functional Theory (DFT) calculations to elucidate Pt(0)-mediated C–CP bond activation mechanisms in phosphaalkynes. Investigating the …


Doubly Charged Dimers And Trimers Of Heavy Noble Gases, Gabriel Schöpfer, Stefan Bergmeister, Milan Ončák, Ianessa Stromberg, Masoomeh Mahmoodi-Darian, Paul Scheier, Olof Echt, Elisabeth Gruber Mar 2024

Doubly Charged Dimers And Trimers Of Heavy Noble Gases, Gabriel Schöpfer, Stefan Bergmeister, Milan Ončák, Ianessa Stromberg, Masoomeh Mahmoodi-Darian, Paul Scheier, Olof Echt, Elisabeth Gruber

Faculty Publications

Many doubly charged heteronuclear dimers are metastable or even thermodynamically stable with respect to charge separation. Homonuclear dicationic dimers, however, are more difficult to form. He22+ was the first noble gas dimer predicted to be metastable and, decades later, observed. Ne22+ is the only other dicationic noble gas dimer that has been detected so far. Here, we present a novel approach to form fragile dicationic species, by post-ionization of singly charged ions that are embedded in helium nanodroplets (HNDs). Bare ions are then extracted by colliding the HNDs with helium gas. We detect homonuclear doubly charged …


The Infrared Absorption Spectrum Of Phenylacetylene And Its Deuterated Isotopologue In The Mid- To Far-Ir, Vincent J. Esposito, Pierro Ferrari, Wybren Jan Buma, Ryan C. Fortenberry, Christiaan Boersma, Alessandra Candian, Alexander G. G. M. Tielens Mar 2024

The Infrared Absorption Spectrum Of Phenylacetylene And Its Deuterated Isotopologue In The Mid- To Far-Ir, Vincent J. Esposito, Pierro Ferrari, Wybren Jan Buma, Ryan C. Fortenberry, Christiaan Boersma, Alessandra Candian, Alexander G. G. M. Tielens

Biology, Chemistry, and Environmental Sciences Faculty Articles and Research

Anharmonicity strongly influences the absorption and emission spectra of polycyclic aromatic hydrocarbon (PAH) molecules. Here, IR–UV ion-dip spectroscopy experiments together with detailed anharmonic computations reveal the presence of fundamental, overtone, as well as 2- and 3-quanta combination band transitions in the far- and mid-infrared absorption spectra of phenylacetylene and its singly deuterated isotopologue. Strong absorption features in the 400–900 cm−1 range originate from CH(D) in-plane and out-of-plane wags and bends, as well as bending motions including the C≡C and CH bonds of the acetylene substituent and the aromatic ring. For phenylacetylene, every absorption feature is assigned either directly or …


On The Exact Helium Wave Function Expansion, Ii, An Exponential Modulated Form, Carl W. David Jan 2024

On The Exact Helium Wave Function Expansion, Ii, An Exponential Modulated Form, Carl W. David

Chemistry Education Materials

A 11S wave function’s expansion for 2 electron atoms and ions is proposed employing an appropriate exponential factor and Fock’s logarithmic terms. The leading coefficient’s are presented.


Toward The Ir Detection Of Carbon Acid: Absorption And Emission Spectrum, Ryan C. Fortenberry, Vincent J. Esposito Jan 2024

Toward The Ir Detection Of Carbon Acid: Absorption And Emission Spectrum, Ryan C. Fortenberry, Vincent J. Esposito

Biology, Chemistry, and Environmental Sciences Faculty Articles and Research

With the recent radioastronomical detection of cis-trans-carbonic acid (H2CO3) in a molecular cloud toward the Galactic center, the more stable but currently unobserved cis-cis conformer is shown here to have strong IR features. While the higher-energy cis-trans-carbonic acid was detected at millimeter and centimeter wavelengths, owing to its larger dipole moment, the vibrational structure of cis-cis-carbonic acid is more amenable to its observation at micron wavelengths. Even so, both conformers have relatively large IR intensities, and some of these fall in regions not dominated by polycyclic aromatic hydrocarbons. Water features may inhibit observation …


Attochemistry Regulation Of Charge Migration, Aderonke Folorunso Jan 2024

Attochemistry Regulation Of Charge Migration, Aderonke Folorunso

LSU Doctoral Dissertations

Charge migration (CM) is a coherent attosecond process that involves the movement of localized holes across a molecule. This phenomenon is potentially useful to understand the fundamental principles of photochemistry, such as light harvesting. The first part of this dissertation discusses the molecular modes of attosecond charge migration. In this work, we used first-principles calculations to investigate the modes of charge migration (CM) in halogenated hydrocarbon chains at attosecond timescales. We have simulated the creation of a localized hole on the halogen atom using constrained density functional theory (DFT) and then tracked its subsequent dynamics with time-dependent DFT (TDDFT). Our …


Transient Diode Laser Absorption Spectroscopy For Measuring Collisional Quenching Rates Of Co And Its Potential For Studying H2o, Jordan M. Polvere Jan 2024

Transient Diode Laser Absorption Spectroscopy For Measuring Collisional Quenching Rates Of Co And Its Potential For Studying H2o, Jordan M. Polvere

Master’s Theses

Motivated by the necessity of non-LTE models that account for species that are not in Local Thermodynamic Equilibrium (LTE) in Titan’s and Earth’s atmospheres, collisional quenching rates of CO and H2O(g) have been studied. Providing more accurate and precise values of collisional quenching rate coefficients is crucial in the development of more advanced atmospheric models, which are important to fields of science such as meteorology and astronomy. Rates of collisional quenching of CO(v=1,2) by CO and CO(v=2) by N2 at approximately 301-321 K were measured by transient diode laser absorption spectroscopy. The rate coefficients of CO(v=1)-CO, CO(v=2)-CO, and …


Photoluminescence Of Beryllium-Related Defects In Gallium Nitride, Mykhailo Vorobiov, Mykhailo Vorobiov Jan 2024

Photoluminescence Of Beryllium-Related Defects In Gallium Nitride, Mykhailo Vorobiov, Mykhailo Vorobiov

Theses and Dissertations

This study explores the potential of beryllium (Be) as an alternative dopant to magnesium (Mg) for achieving higher hole concentrations in gallium nitride (GaN). Despite Mg prominence as an acceptor in optoelectronic and high-power devices, its deep acceptor level at 0.22 eV above the valence band limits its effectiveness. By examining Be, this research aims to pave the way to overcoming these limitations and extend the findings to aluminum nitride and aluminum gallium nitride (AlGaN) alloy. Key contributions of this work include. i)Identification of three Be-related luminescence bands in GaN through photoluminescence spectroscopy, improving the understanding needed for further material …


Effect Of Annealing On Photoluminescence From Defects In Gan, Oleksandr Andrieiev Jan 2024

Effect Of Annealing On Photoluminescence From Defects In Gan, Oleksandr Andrieiev

Theses and Dissertations

Annealing is a critical process in modern GaN technology, essential for achieving p-type conductivity by activating the MgGa acceptor, as first demonstrated by Shuji Nakamura in the early 1990s. Despite the omnipresence of hydrogen as an impurity in GaN crystals, the precise mechanisms governing hydrogen diffusion and acceptor passivation remain only partially understood. The presented research investigates the effects of annealing-induced activation and hydrogen passivation on C and Be acceptors in GaN grown by MOCVD, HVPE, and MBE methods. We explored these effects by using several annealing techniques, gas compositions, and thermal regimes. A transient behavior between the C …


Spiral Wave Teleportation And Multiplex Network Synchronization In Light Sensitive Belousov-Zhabotinsky Systems, Shannyn Alicia Tyler Jan 2024

Spiral Wave Teleportation And Multiplex Network Synchronization In Light Sensitive Belousov-Zhabotinsky Systems, Shannyn Alicia Tyler

Graduate Theses, Dissertations, and Problem Reports (ETD)

We experimentally and computationally investigate dynamical behaviors in excitable and oscillatory media using light sensitive Belousov-Zhabotinsky (BZ) systems. These systems are not in a state of thermodynamic equilibrium, and have been proven to show various interesting phenomena including spatiotemporal patterns, self-organization, and chaos. We utilize the BZ reaction, a nonlinear chemical reaction, known for its relaxation-type oscillations, to explore the dynamics of these systems.

We examine spiral wave teleportation in an excitable media as an effective alternate defibrillation method. Spiral waves have emerged as a key phenomenon associated with the initiation and persistence of cardiac arrhythmias. Using a light sensitive …


Jwst: Deuterated Pahs, Pah-Nitriles, And Pah 4 Overtone And Combination Bands I: Program Description And First Look, C. Boersma, L. J. Allamandola, Vincent J. Esposito, A. Maragkoudakis, J. D. Bregman, P. Temi, T. J. Lee, R. C. Fortenberry, E. Peeters Dec 2023

Jwst: Deuterated Pahs, Pah-Nitriles, And Pah 4 Overtone And Combination Bands I: Program Description And First Look, C. Boersma, L. J. Allamandola, Vincent J. Esposito, A. Maragkoudakis, J. D. Bregman, P. Temi, T. J. Lee, R. C. Fortenberry, E. Peeters

Biology, Chemistry, and Environmental Sciences Faculty Articles and Research

A first look is taken at the NIRSpec 1–5 μm observations from James Webb Space Telescope program 1591 that targets seven objects along the low-mass stellar life cycle with polycyclic aromatic hydrocarbon (PAH) emission. Spectra extracted from a 1'.'5 radius circular aperture are explored, showing a wealth of features, including the 3 μm PAH complex, the PAH continuum, and atomic and molecular emission lines from H i, He, H2, and other species. CO2- and H2O-ice absorption and CO emission is also seen. Focusing on the bright-PDR position in M17, the PAH CH stretch falls …


Aspects Of Stochastic Geometric Mechanics In Molecular Biophysics, David Frost Dec 2023

Aspects Of Stochastic Geometric Mechanics In Molecular Biophysics, David Frost

All Dissertations

In confocal single-molecule FRET experiments, the joint distribution of FRET efficiency and donor lifetime distribution can reveal underlying molecular conformational dynamics via deviation from their theoretical Forster relationship. This shift is referred to as a dynamic shift. In this study, we investigate the influence of the free energy landscape in protein conformational dynamics on the dynamic shift by simulation of the associated continuum reaction coordinate Langevin dynamics, yielding a deeper understanding of the dynamic and structural information in the joint FRET efficiency and donor lifetime distribution. We develop novel Langevin models for the dye linker dynamics, including rotational dynamics, based …


Investigation Of The Chemical And Electronic Structure Of A 2h Phase Mos2 Single Crystal, Mary Blankenship Dec 2023

Investigation Of The Chemical And Electronic Structure Of A 2h Phase Mos2 Single Crystal, Mary Blankenship

UNLV Theses, Dissertations, Professional Papers, and Capstones

Molybdenum disulfide has a wide range of applications in energy conversion devices, like thin-film solar cells, batteries, bio sensors, and more. Although the properties of MoS2 and other transition metal dichalcogenides (TMDC) have been widely studied, disagreements and discrepancies regarding its electronic structure remain.

In this thesis, a highly-oriented synthetic 2H phase MoS2 single crystal is investigated using a toolchest of spectroscopic techniques to uncover its chemical and electronic properties. Lab-based x-ray photoelectron spectroscopy (XPS), ultraviolet photoelectron spectroscopy (UPS), inverse photoemission spectroscopy (IPES), and low energy electron diffraction (LEED) were performed at UNLV and combined with resonant inelastic soft …


Contributions Of Tunneling In 8Π-6Π Electrocyclic Cascade Reactions Of Bicyclo[4.2.0]Octa-2,4-Diene Moieties, Ishika Jain, Claire Castro, William L. Karney Nov 2023

Contributions Of Tunneling In 8Π-6Π Electrocyclic Cascade Reactions Of Bicyclo[4.2.0]Octa-2,4-Diene Moieties, Ishika Jain, Claire Castro, William L. Karney

Featured Student Work

Six-electron electrocyclic reactions usually require relatively high temperatures; however recent research has shown that such reactions can occur at significantly lower temperatures in biosynthetic and biomimetic pathways. Pathways resulting in bicyclo[4.2.0]octa-2,4-diene moieties arise from thermally allowed 8π-6π electrocyclization cascade reactions of 1,3,5,7-octatetraenes, as in the biosynthesis of endiandric acids, elysiapyrones, and numerous other natural products. We report multidimensional tunneling calculations to explore the possible contribution of heavy-atom tunneling (e.g. by carbon) to biosynthetic pathways and biomimetic syntheses, and thus to provide a more complete picture of biochemical kinetics. M06-2X/cc-pVDZ calculations on the 8π-6π cascade cyclizations of methylated octatetraene model systems …


Anharmonic Ir Absorption Spectra Of The Prototypical Interstellar Pahs Phenanthrene, Pyrene, And Pentacene In Their Neutral And Cation States, Vincent J. Esposito, Louis J. Allamandola, Christiaan Boersma, Jesse D. Bregman, Ryan C. Fortenberry, Alexandros Maragkoudakis, Pasquale Temi Sep 2023

Anharmonic Ir Absorption Spectra Of The Prototypical Interstellar Pahs Phenanthrene, Pyrene, And Pentacene In Their Neutral And Cation States, Vincent J. Esposito, Louis J. Allamandola, Christiaan Boersma, Jesse D. Bregman, Ryan C. Fortenberry, Alexandros Maragkoudakis, Pasquale Temi

Biology, Chemistry, and Environmental Sciences Faculty Articles and Research

Combination band and overtone transitions of polycyclic aromatic hydrocarbon (PAH) cations in the 2000–2900 cm-1 (5-3.5 µm) region are implicated as carriers of the ‘quasi-continuum’ observed in the near-infrared (IR) emission spectra of many astronomical objects. In neutral PAHs, the strongest absorption features are concentrated in the 700–900 cm-1 (14–11 µm) range, which are associated with CH out-of-plane bending motions. Upon ionization, this shifts to the 1000–1600 cm-1 (10–6 µm) range, where bands are associated with C=C stretches and CH in-plane bends. Anharmonicity is required to accurately characterize the IR absorption spectrum of PAHs, indicated herein by …


Quantifying Temperature-, Pressure-, And Nuclear Quantum Effects On Hydrophobic And Hydrophilic Water-Mediated Interactions, Justin T. Engstler Sep 2023

Quantifying Temperature-, Pressure-, And Nuclear Quantum Effects On Hydrophobic And Hydrophilic Water-Mediated Interactions, Justin T. Engstler

Dissertations, Theses, and Capstone Projects

Water-mediated interactions (WMIs) are responsible for diverse processes in aqueous solutions, including protein folding and nanoparticle aggregation. WMI may be affected by changes in temperature and pressure, and hence, they can alter chemical/physical processes that occur in aqueous environments. Traditionally, attention has been focused on hydrophobic interactions while, in comparison, the role of hydrophilic and hybrid (hydrophobic–hydrophilic) interactions have been mostly overlooked. Here, we study the role of T and P on the WMI between nanoscale (i) hydrophobic–hydrophobic, (ii) hydrophilic–hydrophilic, and (iii) hydrophilic–hydrophobic pairs of (hydroxylated/non-hydroxylated) graphene-based surfaces. We find that hydrophobic, hydrophilic, and hybrid interactions are all sensitive to …


Anharmonicity And Deuteration In The Ir Absorption And Emission Spectra Of Phenylacetylene, Vincent J. Esposito, Pierro Ferrari, Wybren Jan Buma, Christiaan Boersma, Cameron J. Mackie, Alessandra Candian, Ryan C. Fortenberry, Alexander G. G. M. Tielens Aug 2023

Anharmonicity And Deuteration In The Ir Absorption And Emission Spectra Of Phenylacetylene, Vincent J. Esposito, Pierro Ferrari, Wybren Jan Buma, Christiaan Boersma, Cameron J. Mackie, Alessandra Candian, Ryan C. Fortenberry, Alexander G. G. M. Tielens

Biology, Chemistry, and Environmental Sciences Faculty Articles and Research

Anharmonic cascade emission simulations, herein evinced by full reproduction and deep insights into recent emission spectroscopy experiments of phenylacetylene, are integral to the future successful analysis of JWST observational spectra. Experimental infrared absorption experiments conducted in this study reveal a complex spectrum dominated by quantum effects that are uncovered by anharmonic computational analysis. From this work, it becomes clear that phenylacetylene exhibits strong resonance coupling between fundamental and two-quanta combination modes as well as giving indication for coupling with higher-order, three-quanta combination bands. This study benchmarks the development of advanced computational methods that will be extended to larger systems of …