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University of Mississippi

Series

2019

Articles 1 - 10 of 10

Full-Text Articles in Physical Sciences and Mathematics

Co-Localization Of Dna I-Motif-Forming Sequences And 5-Hydroxymethyl-Cytosines In Human Embryonic Stem Cells, Yogini P. Bhavsar-Jog, Eric Van Dornshuld, Tracy A. Brooks, Gregory S. Tschumper, Randy M. Wadkins Oct 2019

Co-Localization Of Dna I-Motif-Forming Sequences And 5-Hydroxymethyl-Cytosines In Human Embryonic Stem Cells, Yogini P. Bhavsar-Jog, Eric Van Dornshuld, Tracy A. Brooks, Gregory S. Tschumper, Randy M. Wadkins

Faculty and Student Publications

G-quadruplexes (G4s) and i-motifs (iMs) are tetraplex DNA structures. Sequences capable of forming G4/iMs are abundant near the transcription start sites (TSS) of several genes. G4/iMs affect gene expression in vitro. Depending on the gene, the presence of G4/iMs can enhance or suppress expression, making it challenging to discern the underlying mechanism by which they operate. Factors affecting G4/iM structures can provide additional insight into their mechanism of regulation. One such factor is epigenetic modification. The 5-hydroxymethylated cytosines (5hmCs) are epigenetic modifications that occur abundantly in human embryonic stem cells (hESC). The 5hmCs, like G4/iMs, are known to participate in …

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Can The Merpas Passive Air Sampler Discriminate Landscape, Seasonal, And Elevation Effects On Atmospheric Mercury? A Feasibility Study In Mississippi, Usa, Byunggwon Jeon, James V. Cizdziel Oct 2019

Can The Merpas Passive Air Sampler Discriminate Landscape, Seasonal, And Elevation Effects On Atmospheric Mercury? A Feasibility Study In Mississippi, Usa, Byunggwon Jeon, James V. Cizdziel

Faculty and Student Publications

© 2019 by the authors. Accurately measuring gaseous elemental mercury (GEM) concentrations in the atmosphere is important to understand its sources, cycling, distribution, and temporal trends. The MerPAS passive air sampler from Tekran Inc. (Toronto, ON, Canada) captures GEM on sulfur-impregnated activated carbon after it passes through a Radeillo diffusive barrier. Because they are small, relatively low in cost, and require no power, they can be deployed at multiple locations, yielding a much greater spatial resolution, albeit at coarser temporal resolution, compared to active sampling. In this study, we used the MerPAS to measure GEM concentration gradients at a mixed …

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Air/Surface Exchange Of Gaseous Elemental Mercury At Different Landscapes In Mississippi, Usa, James V. Cizdziel, Yi Zhang, Divya Nallamothu, J. Stephen Brewer, Zhiqiang Gao Sep 2019

Air/Surface Exchange Of Gaseous Elemental Mercury At Different Landscapes In Mississippi, Usa, James V. Cizdziel, Yi Zhang, Divya Nallamothu, J. Stephen Brewer, Zhiqiang Gao

Faculty and Student Publications

© 2019 by the authors. Mercury (Hg) is a global pollutant with human health and ecological impacts. Gas exchange between terrestrial surfaces and the atmosphere is an important route for Hg to enter and exit ecosystems. Here, we used a dynamic flux chamber to measure gaseous elemental Hg (GEM) exchange over different landscapes in Mississippi, including in situ measurements for a wetland (soil and water), forest floor, pond, mowed field and grass-covered lawn, as well as mesocosm experiments for three different agricultural soils. Fluxes were measured during both the summer and winter. Mean ambient levels of GEM ranged between 0.93-1.57 …

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Untangling The Formation Of Methoxymethanol (Ch3Och2Oh) And Dimethyl Peroxide (Ch3Ooch3) In Star-Forming Regions, Cheng Zhu, Robert Frigge, Alexandre Bergantini, Ryan C. Fortenberry, Ralf I. Kaiser Aug 2019

Untangling The Formation Of Methoxymethanol (Ch3Och2Oh) And Dimethyl Peroxide (Ch3Ooch3) In Star-Forming Regions, Cheng Zhu, Robert Frigge, Alexandre Bergantini, Ryan C. Fortenberry, Ralf I. Kaiser

Faculty and Student Publications

© 2019. The American Astronomical Society. All rights reserved.. Methoxymethanol (CH3OCH2OH) was recently detected toward the MM1 core in the high-mass star-forming region NGC 6334I. However, the underlying formation mechanisms of this complex organic molecule (COM) as well as its structural isomers ethylene glycol (HOCH2CH2OH) and the hitherto unobserved dimethyl peroxide (CH3OOCH3) are still elusive. Here, we report the very first confirmed synthesis of dimethyl peroxide - at various deuteration levels within interstellar analogous ices of D3-methanol (CD3OH) exposed to ionizing radiation at ultralow temperatures of 5 K. The discrimination of specific isomers is achieved by exploiting reflectron time-of-flight mass …

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Descent In Symmetry During Solid State Transitions And Other Anomalies In Mixed Valence Compounds Axmxⅱm1-Xⅲf3 (A = K, Rb, Cs; M = V, Cr; X = 0.0 - 1.0), William O. J. Boo, Daniel L. Mattern, Robert M. Metzger Jun 2019

Descent In Symmetry During Solid State Transitions And Other Anomalies In Mixed Valence Compounds Axmxⅱm1-Xⅲf3 (A = K, Rb, Cs; M = V, Cr; X = 0.0 - 1.0), William O. J. Boo, Daniel L. Mattern, Robert M. Metzger

Faculty and Student Publications

The scope of solid-state transitions, from melting temperatures down to 4.2 K, is described for six systems: KxVF3, RbxVF3, CsxVF3, KxCrF3, RbxCrF3, and CsxCrF3 (for x = 0.0 to 1.0). Connections are drawn between the compounds’ compositions and structures with the various transitions and ordering events. Upon solidification from the melt and gradual cooling to room temperature, a sequential descent of symmetry appears to occur, from high-symmetry perovskite phases, through possible reconstructive transitions, to phases designated α …

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Molecular Oxygen Generation From The Reaction Of Water Cations With Oxygen Atoms, Ryan C. Fortenberry, Tarek Trabelsi, Brent R. Westbrook, Weston A. Del Rio, Joseph S. Francisco May 2019

Molecular Oxygen Generation From The Reaction Of Water Cations With Oxygen Atoms, Ryan C. Fortenberry, Tarek Trabelsi, Brent R. Westbrook, Weston A. Del Rio, Joseph S. Francisco

Faculty and Student Publications

© 2019 Author(s). The oxywater cation (H2OO+), previously shown to form barrierlessly in the gas phase from water cations and atomic oxygen, is proposed here potentially to possess a 2A″ ← 4A″ excitation leading to the H2⋯O2+ complex. This complex could then easily decompose into molecular hydrogen and the molecular oxygen cation. The present quantum chemical study shows that the necessary electronic transition takes place in the range of 1.92 eV (645 nm), in the orange-red range of the visible and solar spectrum, and dissociation of the complex only requires 5.8 kcal/mol (0.25 eV). Such a process for the abiotic, …

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Effects Of Polyamine Binding On The Stability Of Dna I-Motif Structures, Michael M. Molnar, Shelby C. Liddell, Randy M. Wadkins May 2019

Effects Of Polyamine Binding On The Stability Of Dna I-Motif Structures, Michael M. Molnar, Shelby C. Liddell, Randy M. Wadkins

Faculty and Student Publications

B-form DNA can adopt alternative structures under conditions such as superhelical duress. Alternative DNA structures are favored when there is asymmetric distribution of guanosine and cytosine on complimentary DNA strands. A guanosine-rich strand can form a four-stranded structure known as a quadruplex (G4). The complimentary cytosine-rich strand can utilize intercalating cytosine−cytosine base pairing to form a four-stranded structure known as the i-motif (iM). Both secondary structures are energetically uphill from double-strand DNA (dsDNA), meaning that additional factors are needed for their formation. Most iMs require slightly acidic conditions for structure stabilization. However, crowding agents such as polyethylene glycols and dextrans …

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Wind-Induced Ground Motion: Dynamic Model And Non-Uniform Structure For Ground, Mohammad Mohammadi, Craig J. Hickey, Richard Raspet, Vahid Naderyan Jan 2019

Wind-Induced Ground Motion: Dynamic Model And Non-Uniform Structure For Ground, Mohammad Mohammadi, Craig J. Hickey, Richard Raspet, Vahid Naderyan

Faculty and Student Publications

Wind-induced ground vibrations are a source of noise in seismic surveys. In a previous study, a wind-ground coupling theory was developed to predict the power spectral density (PSD) of ground motions caused by wind perturbations on the ground surface. The prediction was developed using a superposition of the point source response of an elastic isotropic homogeneous medium deforming quasi-statically with the statistical description of the wind-induced pressure fluctuations on the ground. Model predictions and field measurements were in agreement for the normal component of the displacement but under predicted the horizontal component. In this paper, two generalizations are investigated to …

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Cis/Trans Energetics In Epoxide, Thiirane, Aziridine And Phosphirane Containing Cyclopentanols: Effects Of Intramolecular Oh···O,S,N And P Contacts, Ben E. Smith, Jeremy M. Carr, Gregory S. Tschumper Jan 2019

Cis/Trans Energetics In Epoxide, Thiirane, Aziridine And Phosphirane Containing Cyclopentanols: Effects Of Intramolecular Oh···O,S,N And P Contacts, Ben E. Smith, Jeremy M. Carr, Gregory S. Tschumper

Faculty and Student Publications

c 2019 by the authors A recent computational analysis of the stabilizing intramolecular OH···O contact in 1,2-dialkyl-2,3-epoxycyclopentanol diastereomers has been extended to thiiriane, aziridine and phosphirane analogues. Density functional theory (DFT), second-order Møller-Plesset perturbation theory (MP2) and CCSD(T) coupled-cluster computations with simple methyl and ethyl substituents indicate that electronic energies of the cis isomers are lowered by roughly 3 to 4 kcal mol−1 when the OH group of these cyclopentanol systems forms an intramolecular contact with the O, S, N or P atom on the adjacent carbon. The results also suggest that S and P can participate in these stabilizing …

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Automating The Calculation Of The Hilbert–Kunz Multiplicity And F-Signature, Gabriel Johnson, Sandra Spiroff Jan 2019

Automating The Calculation Of The Hilbert–Kunz Multiplicity And F-Signature, Gabriel Johnson, Sandra Spiroff

Faculty and Student Publications

© 2018 The Authors The Hilbert–Kunz multiplicity and F-signature are important invariants for researchers in commutative algebra and algebraic geometry. We provide software, and describe the automation, for the calculations of the two invariants in the case of intersection algebras over polynomial rings.

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