Physical Sciences and Mathematics Commons^™

Resolving The Cofactor-Binding Site In The Proline Biosynthetic Enzyme Human Pyrroline-5-Carboxylate Reductase 1, Emily M. Christensen, Sagar M. Patel, David A. Korasick, Ashley C. Campbell, Kurt L. Krause, Donald F. Becker, John J. Tanner

Department of Chemistry: Faculty Publications

Pyrroline-5-carboxylate reductase (PYCR) is the final enzyme in proline biosynthesis, catalyzing the NAD(P)H-dependent reduction of [?]1-pyrroline-5-carboxylate (P5C) to proline. Mutations in the PYCR1 gene alter mitochondrial function and cause the connective tissue disorder cutis laxa. Furthermore, PYCR1 is overexpressed in multiple cancers, and the PYCR1 knock-out suppresses tumorigenic growth, suggesting that PYCR1 is a potential cancer target. However, inhibitor development has been stymied by limited mechanistic details for the enzyme, particularly in light of a previous crystallographic study that placed the cofactor-binding site in the C-terminal domain rather than the anticipated Rossmann fold of the N-terminal domain. To fill this …

Indole-Induced Reversion Of Intrinsic Multiantibiotic Resistance In Lysobacter Enzymogenes, Yong Han, Yan Wang, Yameng Yu, Haotong Chen, Yuemao Shen, Liangcheng Du

Department of Chemistry: Faculty Publications

Lysobacter species are a group of environmental bacteria that are emerging as a new source of antibiotics. One characteristic of Lysobacter is intrinsic resistance to multiple antibiotics, which had not been studied. To understand the resistance mechanism, we tested the effect of blocking two-component regulatory systems (TCSs) on the antibiotic resistance of Lysobacter enzymogenes, a prolific producer of antibiotics. Upon treatment with LED209, an inhibitor of the widespread TCS QseC/QseB, L. enzymogenes produced a large amount of an unknown metabolite that was barely detectable in the untreated culture. Subsequent structural elucidation by nuclear magnetic resonance (NMR) unexpectedly revealed that …

Synthesis Of Cerium Oxide Nanorods, Chin Li Cheung, Zane Charles Gernhart

Department of Chemistry: Faculty Publications

Cerium oxide nanorods having a variety of aspect ratios can be produced by providing a first mixture that includes a cerium precursor material, and using microwave to heat the first mixture to a first temperature for a period of time to produce first plurality of cerium oxide nanorods having a first range of aspect ratios. A second mixture that includes a cerium precursor material heated using microwave to a second temperature for a period of time to produce second plurality of cerium oxide nanorods having a second range of aspect ratios. The first plurality of cerium oxide nanorods and the …

Human Serine Racemase Structure/Activity Relationship Studies Provide Mechanistic Insight And Point To Position 84 As A Hot Spot For Β-Elimination Function, David L. Nelson, Greg A. Applegate, Matthew L. Beio, Danielle L. Graham, David B. Berkowitz

Department of Chemistry: Faculty Publications

There is currently great interest in human serine racemase, the enzyme responsible for producing the NMDA co-agonist D-serine. Reported correlation of D-serine levels with disorders including Alzheimer’s disease, ALS, and ischemic brain damage (elevated D-serine) and schizophrenia (reduced D-serine) has further piqued this interest. Reported here is a structure/activity relationship study of position Ser⁸⁴, the putative re-face base. In the most extreme case of functional reprogramming, the S84D mutant displays a dramatic reversal of β-elimination substrate specificity in favor of L-serine over the normally preferred L-serine-O-sulfate (~1200-fold change in k_cat/K_{m …}

Moving Towards The Magnetoelectric Graphene Transistor, Shi Cao, Zhiyong Xiao, Chun Pui Kwan, Kai Zhang, Jonathan P. Bird, Lu Wang, Wai-Ning Mei, Xia Hong, Peter A. Dowben

Xia Hong Publications

The interfacial charge transfer between mechanically exfoliated few-layer graphene and Cr₂O₃ (0001) surfaces has been investigated. Electrostatic force microscopy and Kelvin probe force microscopy studies point to hole doping of few-layer graphene, with up to a 150 meV shift in the Fermi level, an aspect that is confirmed by Raman spectroscopy. Density functional theory calculations furthermore confirm the p-type nature of the graphene/chromia interface and suggest that the chromia is able to induce a significant carrier spin polarization in the graphene layer. A large magnetoelectrically controlled magneto-resistance can therefore be anticipated in transistor structures based on this …

The Organic Ferroelectric Vinylidene Fluoride Oligomer: Vacuum Deposition, Properties, And Interfaces, Keith Foreman

Department of Physics and Astronomy: Dissertations, Theses, and Student Research

Organic ferroelectric materials combine the versatility and customizability afforded by organic synthesis with the functionality of ferroelectric materials. The model ferroelectric polymer, poly(vinylidene fluoride) (PVDF), is used in a wide variety of applications and is still the subject of fundamental research nearly 80 years after it was first polymerized. Unfortunately, PVDF suffers from thermal decomposition during thin film evaporation in vacuum. Since PVDF thin films cannot be deposited in the ferroelectric phase in vacuum conditions, its use in new, 21^st century technologies may be limited since the interface between the organic and adjacent metallic thin films is less than …

An Evaluation Of U.S. National Wildlife Refuge Planning For Off-Road Vehicle Use, Robert L. Fischman, Vicky J. Meretsky, Katie Freeman, Alexi Lamm, Leah Missik, Scott Salmon

Articles by Maurer Faculty

Off-road vehicles (hereafter, ORVs) rank high among public-land management challenges because they are popular, often impair environmental conditions, and may cause conflicts with other recreational users. Unit-level planning for federal lands increasingly translates broad, system-wide objectives, such as maintenance of ecological integrity, into place-based limitations on ORV use to minimize and mitigate adverse impacts on wildlife. We reviewed 176 planning documents covering 313 National Wildlife Refuges (hereafter, Refuges) to understand how planning supports or undermines ORV recreation management. These plans offer an important perspective on ORV management because the Refuges are a large, diverse system of conservation lands where recreation …

Ch3Nh3Pbi3 Perovskites: Ferroelasticity Revealed, Evgheni Strelcov, Qingfeng Dong, Tao Li, Jungseok Chae, Yuchuan Shao, Yehao Deng, Alexei Gruverman, Jinsong Huang, Andrea Centrone

Alexei Gruverman Publications

Ferroelectricity has been proposed as a plausible mechanism to explain the high photovoltaic conversion efficiency in organic-inorganic perovskites; however, convincing experimental evidence in support of this hypothesis is still missing. Identifying and distinguishing ferroelectricity from other properties, such as piezoelectricity, ferroelasticity, etc., is typically nontrivial because these phenomena can coexist in many materials. In this work, a combination of microscopic and nanoscale techniques provides solid evidence for the existence of ferroelastic domains in both CH₃NH₃PbI₃ polycrystalline films and single crystals in the pristine state and under applied stress. Experiments show that the configuration of CH …

Anomalous Photovoltaic Effect In Organic-Inorganic Hybrid Perovskite Solar Cells, Yongbo Yuan, Tao Li, Qi Wang, Jie Xing, Alexei Gruverman, Jinsong Huang

Alexei Gruverman Publications

Organic-inorganic hybrid perovskites (OIHPs) have been demonstrated to be highly successful photovoltaic materials yielding very-high-efficiency solar cells. We report the room temperature observation of an anomalous photovoltaic (APV) effect in lateral structure OIHP devices manifested by the device’s open-circuit voltage (V_OC) that is much larger than the bandgap of OIHPs. The persistent V_OC is proportional to the electrode spacing, resembling that of ferroelectric photovoltaic devices. However, the APV effect in OIHP devices is not caused by ferroelectricity. The APV effect can be explained by the formation of tunneling junctions randomly dispersed in the polycrystalline films, which allows …

Domain Formation Mechanism Of The Si(110) “16 × 2” Reconstruction, N. K. Lewis, Nathan B. Clayburn, Evan M. Brunkow, Timothy J. Gay, Y. Lassailly, J. Fujii, I. Vobornik, W. R. Flavell, E. A. Seddon

Timothy J. Gay Publications

The main factor that determines which of the two domains forms upon reconstruction of the Si(110) “16 × 2” surface has been investigated. Low-energy electron diffraction (LEED) and scanning tunneling microscopy (STM) images showed that the domain orientation was independent of the heating current direction used to induce the Si(110) “16 × 2” reconstruction. Reciprocal-space lattice models of the reconstruction allowed for the correct identification of domain orientations in the LEED images, and they confirmed that the reconstruction is two dimensionally chiral. It is proposed that the domain orientation upon surface reconstruction is determined by the direction of monatomic steps …

The Rise Of Cybersecurity And Its Impact On Data Protection, Fred H. Cate, Christopher Kuner, Dan Jerker B. Svantesson, Orla Lynskey, Christopher Millard

Articles by Maurer Faculty

No abstract provided.

Machine Learning With Personal Data: Is Data Protection Law Smart Enough To Meet The Challenge?, Fred H. Cate, Christopher Kuner, Dan Jerker B. Svantesson, Orla Lynskey, Christopher Millard

Articles by Maurer Faculty

No abstract provided.

Data Protection And Humanitarian Emergencies, Fred H. Cate, Christopher Kuner, Dan Jerker B. Svantesson, Orla Lynskey, Christopher Millard

Articles by Maurer Faculty

No abstract provided.

Band-To-Band Transitions, Selection Rules, Effective Mass, And Excitonic Contributions In Monoclinic Β-Ga2o3, Alyssa Mock, Rafal Korlacki, Chad Briley, Vanya Darakchieva, Bo Monemar, Yoshinao Kumagai, Ken Goto, Masataka Higashiwaki, Mathias Schubert

Department of Electrical and Computer Engineering: Faculty Publications

We employ an eigenpolarization model including the description of direction dependent excitonic effects for rendering critical point structures within the dielectric function tensor of monoclinic β-Ga₂O₃ yielding a comprehensive analysis of generalized ellipsometry data obtained from 0.75–9 eV. The eigenpolarization model permits complete description of the dielectric response. We obtain, for single-electron and excitonic band-to-band transitions, anisotropic critical point model parameters including their polarization vectors within the monoclinic lattice. We compare our experimental analysis with results from density functional theory calculations performed using the Gaussian-attenuation-Perdew-Burke-Ernzerhof hybrid density functional. We present and discuss the order of the …

Anisotropy, Phonon Modes, And Lattice Anharmonicity From Dielectric Function Tensor Analysis Of Monoclinic Cadmium Tungstate, Alyssa Mock, Rafal Korlacki, Sean Knight, Mathias Schubert

Department of Electrical and Computer Engineering: Faculty Publications

We determine the frequency dependence of four independent Cartesian tensor elements of the dielectric function for CdWO₄ using generalized spectroscopic ellipsometry within mid-infrared and far-infrared spectral regions. Different single crystal cuts, (010) and (001), are investigated. From the spectral dependencies of the dielectric function tensor and its inverse we determine all long-wavelength active transverse and longitudinal optic phonon modes with A_u and B_u symmetry as well as their eigenvectors within the monoclinic lattice. We thereby demonstrate that such information can be obtained completely without physical model line-shape analysis in materials with monoclinic symmetry. We then augment the …

Assessment Of Metabolic Changes In Mycobacterium Smegmatis Wild Type And Alr Mutant Strains: Evidence For A New Pathway Of D-Alanine Biosynthesis., Darrell D. Marshall, Steven Halouska, Denise K. Zinniel, Robert J. Fenton, Katie Kenealy, Harpreet K. Chahal, Govardhan Rathnaiah, Raul G. Barletta, Robert Powers

Department of Chemistry: Faculty Publications

In mycobacteria, D-alanine is an essential precursor for peptidoglycan biosynthesis. The only confirmed enzymatic pathway to form D-alanine is through the racemization of L-alanine by alanine racemase (Alr, EC 5.1.1.1). Nevertheless, the essentiality of Alr in Mycobacterium tuberculosis and Mycobacterium smegmatis for cell survivability in the absence of D-alanine has been a point of controversy with contradictory results reported in the literature. To address this issue, we examined the effects of alr inactivation on the cellular metabolism of M. smegmatis. The M. smegmatis alr insertion mutant TAM23 exhibited essentially identical growth to wild type mc²155 in the …

Ion Mobility-Resolved Collision-Induced Dissociation And Electron Transfer Dissociation Of N-Glycopeptides: Gathering Orthogonal Connectivity Information From A Single Mass- Selected Precursor Ion Population, Venkata Kolli, Katherine N. Schumacher, Eric Dodds

Department of Chemistry: Faculty Publications

Glycopeptide-level mass spectrometry (MS) and tandem mass spectrometry (MS/MS) analyses are commonly performed to establish site-specific protein glycosylation profiles that are of central importance to gaining structure-function insights on glycoproteins. Confoundingly, the complete characterization of glycopeptide connectivity usually requires the acquisition of multiple MS/MS fragmentation spectra. Complementary ion fragmentation techniques such as collision-induced dissociation (CID) and electron transfer dissociation (ETD) are often applied in concert to address this need. While structurally informative, the requirement for acquisition of two MS/MS spectra per analyte places considerable limitations upon the breadth and depth of large-scale glycoproteomic inquiry. Here, a previously developed method of …

Quantum Metrics On Approximately Finite-Dimensional Algebras, Konrad Aguilar

Electronic Theses and Dissertations

Our dissertation focuses on bringing approximately finite-dimensional (AF) algebras into the realm of noncommutative metric geometry. We construct quantum metric structures on unital AF algebras equipped with a faithful tracial state, and prove that for such metrics, AF algebras are limits of their defining inductive sequences of finite dimensional C*-algebras for the quantum Gromov-Hausdorff propinquity. We then study the geometry, for the quantum propinquity, of three natural classes of AF algebras equipped with our quantum metrics: the UHF algebras, the Effros-Shen AF algebras associated with continued fraction expansions of irrationals, and the Cantor space, on which our construction recovers traditional …

Banach Spaces From Barriers In High Dimensional Ellentuck Spaces, Gabriel Girón-Garnica

Electronic Theses and Dissertations

We construct new Banach spaces using barriers in high dimensional Ellentuck spaces following the classical framework under which a Tsirelson type norm is defined from a barrier in Ellentuck space. It is shown that these spaces contain arbitrary large copies of lⁿ_infinity and specific block subspaces isomorphic to l_p. We also prove that they are l_p-saturated and not isomorphic to each other. Finally, a study of alternative norms for our spaces is presented.

Rock Glacier Hydrology In The San Juan Mountains, Colorado, Emilio Ian Mateo

Electronic Theses and Dissertations

Rock glaciers are unique geomorphological features located in alpine environments and are found in the San Juan Mountains of Colorado. There has been little research done on rock glaciers compared to their ice glacier counterparts. Most rock glaciers are located on the northern slope aspect in mountainous areas (Janke 2007), however, there are multiple in southwest Colorado with different aspects. This research project asks how slope aspect influences the hydrological processes of streams sourced from rock glaciers in the San Juan Mountains. This project focused on three basins that are adjacent to each other and share a common peak, Gilpin …

Biocompatible Copper Oxide Nanoparticle Composites From Cellulose And Chitosan: Facile Synthesis, Unique Structure, And Antimicrobial Activity, Chieu D. Tran, James Makuvaza, Erik Munson, Brian Bennett

Chemistry Faculty Research and Publications

Copper in various forms has been known to have bactericidal activity. Challenges to its application include preventing mobilization of the copper, to both extend activity and avoid toxicity, and bioincompatibility of many candidate substrates for copper immobilization. Using a simple ionic liquid, butylmethylimmidazolium chloride as the solvent, we developed a facile and green method to synthesize biocompatible composites containing copper oxide nanoparticles (CuONPs) from cellulose (CEL) and chitosan (CS) or CEL and keratin (KER). Spectroscopy and imaging results indicate that CEL, CS, and KER remained chemically intact and were homogeneously distributed in the composites with CuONPs with size of 22 …

Detecting Overpressure Zones By Using Model Based Inversion In Kupe Field, New Zealand, Timucin Cakir

Dissertations, Master's Theses and Master's Reports

Overpressure is a significant parameter during a drilling process in oil exploration. This phenomenon happens when pore pressure exceeds the limit of hydrostatic pressure in a formation and causes drastic hazards such as blow outs while drilling. This thesis focuses on the determination of possible overpressure areas and studies at three wells in Kupe Field, which is considered to be a natural-gas field in Taranaki Basin. In an effort to identify potential overpressure zones at the Kupe Field, acoustic impedance responses of 3D seismic data for three wells, along with their well log responses were evaluated.

Seismic inversion plays an …

Using Lidar To Map The Geology And Morphology Of Alluvial Fans: Salton Sea Area, California, Eric Alexander Macleod

Dissertations, Master's Theses and Master's Reports

The main result of this study has been to show that detailed maps of the geology and morphology of alluvial fans can be generated from high spatial resolution (1-meter) DEM’s (Digital Elevation Models) obtained from LiDAR (Light Detection and Ranging) data. DEMs with spatial resolutions of 1-meter, 10-meters and 30-meters were all examined but it was determined that only the 1-meter LiDAR data had sufficient spatial resolution to produce satisfactory maps of the geology and morphology. A case study on an alluvial fan in the Santa Rosa mountains northeast of the Salton Sea (California) showed that 1-meter spatial resolution LiDAR …

Novel Methods For Quantifying Spatio-Temporal Change In Glaciated And Subaqueous Environments, Jordan Mertes

Dissertations, Master's Theses and Master's Reports

In many scientific fields, it is important to actively develop new approaches to monitoring and quantifying changes within different systems. Often adapting existing tools or applying techniques from alternative fields can greatly improve our ability to monitor spatial and temporal changes. In this dissertation, I present four studies aimed at demonstrating new innovative ways at improving our ability to observe and quantify changes occurring on glaciers, submerged cultural resources (SCRs) and supraglacial lakes by using technology such as Structure from Motion + Multi-view stereo photogrammetry (SfM) and ground penetrating radar (GPR) surveying combined with facies analysis.

I have successfully reconstructed …

Executive Summary, Agroforestry: Enhancing Resiliency In U. S. Agricultural Landscapes Under Changing Conditions, Toral Patel-Weynand, Gary Bentrup, Michele M. Schoeneberger

United States Department of Agriculture, Forest Service / University of Nebraska-Lincoln: Faculty Publications

Agroforestry, the intentional integration of trees and shrubs into crop and animal production systems, is being deployed to enhance productivity, profitability, and environmental stewardship of agricultural operations and lands across the United States. The full assessment at https://doi.org/10.2737/WO-GTR-96 and summarized here provides a science-based synthesis on the use of agroforestry for mitigation and adaptation services in the face of climatic variability and change. It provides technical input to land-use sector issues in the National Climate Assessment (NCA) and serves as a framework for including agroforestry systems in agricultural strategies to improve productivity and food security and to build resilience in …

Review Of A Chorus Of Cranes: The Cranes Of North America And The World By Paul A. Johnsgard, Aaron T. Pearse

United States Geological Survey: Staff Publications

Cranes (Gruidae) are widely distributed throughout the world, have lived on Earth for several million years, and currently reside on five continents. Archaeological evidence and historical references suggest that humans have interacted with and been captivated by cranes for many thousands of years (e.g., Leslie 1988, Muellner 1990). A glimpse of our reverence for these birds can be found in A Chorus of Cranes by Paul A. Johnsgard, with photographs by Thomas D. Mangelsen. Many species of cranes are currently identified as threatened or endangered, and their future will likely rest in the hands of humans; this book presents their …

Variation In Δ15N And Δ13C Values Of Forages For Arctic Caribou: Effects Of Location, Phenology And Simulated Digestion, Lindsay L. Vansomeren, Perry S. Barboza, David D. Gustine, M. Syndonia Bret-Harte

United States Geological Survey: Staff Publications

RATIONALE: The use of stable isotopes for dietary estimates of wildlife assumes that there are consistent differences in isotopic ratios among diet items, and that the differences in these ratios between the diet item and the animal tissues (i.e., fractionation) are predictable. However, variation in isotopic ratios and fractionation of δ¹³C and δ¹⁵N values among locations, seasons, and forages are poorly described for arctic herbivores especially migratory species such as caribou (Rangifer tarandus).

METHODS: We measured the δ¹³Cand δ¹⁵N values of seven species of forage growing along a 200-km …

Comparison Of Acoustic Recorders And Field Observers For Monitoring Tundra Bird Communities, Skyler T. Vold, Colleen M. Handel, Lance B. Mcnew

United States Geological Survey: Staff Publications

Acoustic recorders can be useful for studying bird populations but their efficiency and accuracy should be assessed in pertinent ecological settings before use. We investigated the utility of an acoustic recorder formonitoring abundance of tundra-breeding birds relative to point-count surveys in northwestern Alaska, USA, during 2014. Our objectives were to 1) compare numbers of birds and species detected by a field observer with those detected simultaneously by an acoustic recorder; 2) evaluate how detection probabilities for the observer and acoustic recorder varied with distance of birds from the survey point; and 3) evaluate whether avian guild-specific detection rates differed between …

Assessment Of Frequency And Duration Of Point Counts When Surveying For Golden Eagle Presence, Ben R. Skipper, Clint W. Boal, Jo-Szu Tsai, Mark R. Fuller

United States Geological Survey: Staff Publications

We assessed the utility of the recommended golden eagle (Aquila chrysaetos) survey methodology in the U.S. Fish and Wildlife Service 2013 Eagle Conservation Plan Guidance. We conducted 800-m radius, 1-hr point-count surveys broken into 20-min segments, during 2 sampling periods in 3 areas within the Intermountain West of the United States over 2 consecutive breeding seasons during 2012 and 2013. Our goal was to measure the influence of different survey time intervals and sampling periods on detectability and use estimates of golden eagles among different locations. Our results suggest that a less intensive effort (i.e., survey duration shorter …

Micronuclei And Other Erythrocyte Nuclear Abnormalities In Fishes From The Great Lakes Basin,Usa, Ryan P. Braham, Vicki S. Blazer, Cassidy H. Shaw, Patricia M. Mazik

United States Geological Survey: Staff Publications

Biological markers (biomarkers) sensitive to genotoxic and mutagenic contamination in fishes are widely used to identify exposure effects in aquatic environments. The micronucleus assay was incorporated into a suite of indicators to assess exposure to genotoxic and mutagenic contamination at five Great Lakes Areas of Concern (AOCs), as well as one non-AOC (reference) site. The assay allowed enumeration of micronuclei as well as other nuclear abnormalities for both site and species comparisons. Erythrocyte abnormality data was also compared to skin and liver tumor prevalence and hepatic transcript abundance. Erythrocyte abnormalities were observed at all sites with variable occurrence and severity …