Physical Sciences and Mathematics Commons^™

Testing Diagnostics Of Nuclear Activity And Star Formation In Galaxies At Z > 1, Jonathan R. Trump, Nicholas P. Konidaris, Guillermo Barro, David C. Koo, Dale D. Kocevski, Stéphanie Juneau, Benjamin J. Weiner, S. M. Faber, Ian S. Mclean, Renbin Yan, Pablo G. Pérez-González, Victor Villar

Physics and Astronomy Faculty Publications

We present some of the first science data with the new Keck/MOSFIRE instrument to test the effectiveness of different AGN/SF diagnostics at z ~ 1.5. MOSFIRE spectra were obtained in three H-band multi-slit masks in the GOODS-S field, resulting in 2 hr exposures of 36 emission-line galaxies. We compare X-ray data with the traditional emission-line ratio diagnostics and the alternative mass-excitation and color-excitation diagrams, combining new MOSFIRE infrared data with previous HST/WFC3 infrared spectra (from the 3D-HST survey) and multiwavelength photometry. We demonstrate that a high [O III]/Hβ ratio is insufficient as an active galactic nucleus (AGN) indicator …

The Central Molecular Gas Structure In Liners With Low-Luminosity Active Galactic Nuclei: Evidence For Gradual Disappearance Of The Torus, F. Müller-Sánchez, M. A. Prieto, M. Mezcua, R. I. Davies, M. A. Malkan, Moshe Elitzur

Physics and Astronomy Faculty Publications

We present observations of the molecular gas in the nuclear environment of three prototypical low-luminosity active galactic nuclei (LLAGNs), based on VLT/SINFONI AO-assisted integral-field spectroscopy of H₂ 1-0 S(1) emission at angular resolutions of ~0.''17. On scales of 50-150 pc, the spatial distribution and kinematics of the molecular gas are consistent with a rotating thin disk, where the ratio of rotation (V) to dispersion (σ) exceeds unity. However, in the central 50 pc, the observations reveal a geometrically and optically thick structure of molecular gas (V/σ < 1 and N _H > 10²³ cm^{–2 …}

Lack Of P53 Affects The Expression Of Several Brain Mitochondrial Proteins: Insights From Proteomics Into Important Pathways Regulated By P53, Ada Fiorini, Rukhsana Sultana, Eugenio Barone, Giovanna Cenini, Marzia Perluigi, Cesare Mancuso, Jian Cai, Jon B. Klein, Daret K. St. Clair, D. Allan Butterfield

Chemistry Faculty Publications

The tumor suppressor protein p53 has been described "as the guardian of the genome" for its crucial role in regulating the transcription of numerous genes responsible for cells cycle arrest, senescence, or apoptosis in response to various stress signals. Although p53 promotes longevity by decreasing the risk of cancer through activation of apoptosis or cellular senescence, several findings suggest that an increase of its activity may have deleterious effects leading to selected aspects of the aging phenotype and neurodegenerative diseases. There is the link between p53 and oxidative stress, the latter a crucial factor that contributes to neurodegenerative processes like …

Terrain Analysis For Locating Erosion Channels: Assessing Lidar Data And Flow Direction Algorithm, Adam Pike, Tom Muller, Eduardo Abel Rienzi, Surendran Neelakantan, Blazan Mijatovic, Anastasios D. Karathanasis, Marcos Rodrigues

Plant and Soil Sciences Faculty Publications

No abstract provided.

Two-Component Structure Of The HΒ Broad-Line Region In Quasars. I. Evidence From Spectral Principal Component Analysis, Chen Hu, Jian-Min Wang, Luis C. Ho, Gary J. Ferland, Jack A. Baldwin, Ye Wang

Physics and Astronomy Faculty Publications

We report on a spectral principal component analysis (SPCA) of a sample of 816 quasars, selected to have small Fe II velocity shifts with spectral coverage in the rest wavelength range 3500-5500 Å. The sample is explicitly designed to mitigate spurious effects on SPCA induced by Fe II velocity shifts. We improve the algorithm of SPCA in the literature and introduce a new quantity, the fractional-contribution spectrum, that effectively identifies the emission features encoded in each eigenspectrum. The first eigenspectrum clearly records the power-law continuum and very broad Balmer emission lines. Narrow emission lines dominate the second eigenspectrum. The …

Organics In Environmental Ices: Sources, Chemistry, And Impacts, V. F. Mcneill, A. M. Grannas, J. P. D. Abbatt, M. Ammann, P. Ariya, T. Bartels-Rausch, F. Domine, D. J. Donaldson, Marcelo I. Guzman, D. Heger, T. F. Kahan, P. Klán, S. Masclin, C. Toubin, D. Voisin

Chemistry Faculty Publications

The physical, chemical, and biological processes involving organics in ice in the environment impact a number of atmospheric and biogeochemical cycles. Organic material in snow or ice may be biological in origin, deposited from aerosols or atmospheric gases, or formed chemically in situ. In this manuscript, we review the current state of knowledge regarding the sources, properties, and chemistry of organic materials in environmental ices. Several outstanding questions remain to be resolved and fundamental data gathered before an accurate model of transformations and transport of organic species in the cryosphere will be possible. For example, more information is needed regarding …

Rat Brain Pro-Oxidant Effects Of Peripherally Administered 5 Nm Ceria 30 Days After Exposure, Sarita S. Hardas, Rukhsana Sultana, Govind Warrier, Mo Dan, Rebecca L. Florence, Peng Wu, Eric A. Grulke, Michael T. Tseng, Jason M. Unrine, Uschi M. Graham, Robert A. Yokel, D. Allan Butterfield

Chemistry Faculty Publications

The objective of this study was to determine the residual pro-or anti-oxidant effects in rat brain 30 days after systemic administration of a 5 nm citrate-stabilized ceria dispersion. A ∼4% aqueous ceria dispersion was iv-infused (0 or 85 mg/kg) into rats which were terminated 30 days later. Ceria concentration, localization, and chemical speciation in the brain was assessed by inductively coupled plasma mass spectrometry (ICP-MS), light and electron microscopy (EM), and electron energy loss spectroscopy (EELS), respectively. Pro- or anti-oxidant effects were evaluated by measuring levels of protein carbonyls (PC), 3-nitrotyrosine (3NT), and protein-bound-4-hydroxy-2-trans-nonenal (HNE) in the hippocampus, cortex, and …

Kentucky Water Resources Research Institute Center Of Excellence For Watershed Management Watershed Summit Summary Report, Kentucky Water Resources Research Institute, University Of Kentucky

KWRRI Research Reports

No abstract provided.

Pumping Up The [N I] Nebular Lines, Gary J. Ferland, W. J. Henney, C. R. O'Dell, R. L. Porter, P. A. M. Vanhoof, R. J. R. Williams

Physics and Astronomy Faculty Publications

The optical [N I] doublet near 5200 Å is anomalously strong in a variety of emission-line objects. We compute a detailed photoionization model and use it to show that pumping by far-ultraviolet (FUV) stellar radiation previously posited as a general explanation applies to the Orion Nebula (M42) and its companion M43; but, it is unlikely to explain planetary nebulae and supernova remnants. Our models establish that the observed nearly constant equivalent width of [N I] with respect to the dust-scattered stellar continuum depends primarily on three factors: the FUV to visual-band flux ratio of the stellar population, the optical properties …

Improved He I Emissivities In The Case B Approximation, R. L. Porter, Gary J. Ferland, P. J. Storey, M. J. Detisch

Physics and Astronomy Faculty Publications

We update our prior work on the case B collisional-recombination spectrum of He i to incorporate ab initio photoionization cross-sections. This large set of accurate, self-consistent cross-sections represents a significant improvement in He i emissivity calculations because it largely obviates the piecemeal nature that has marked all modern works. A second, more recent set of ab initio cross-sections is also available, but we show that those are less consistent with bound-bound transition probabilities than our adopted set. We compare our new effective recombination coefficients with our prior work and our new emissivities with those by other researchers, and we conclude …

A Support Vector Machine Based Test For Incongruence Between Sets Of Trees In Tree Space, David C. Haws, Peter Huggins, Eric M. O'Neill, David W. Weisrock, Ruriko Yoshida

Statistics Faculty Publications

BACKGROUND: The increased use of multi-locus data sets for phylogenetic reconstruction has increased the need to determine whether a set of gene trees significantly deviate from the phylogenetic patterns of other genes. Such unusual gene trees may have been influenced by other evolutionary processes such as selection, gene duplication, or horizontal gene transfer.

RESULTS: Motivated by this problem we propose a nonparametric goodness-of-fit test for two empirical distributions of gene trees, and we developed the software GeneOut to estimate a p-value for the test. Our approach maps trees into a multi-dimensional vector space and then applies support vector machines (SVMs) …

Residual Cooling And Persistent Star Formation Amid Active Galactic Nucleus Feedback In Abell 2597, G. R. Tremblay, C. P. O'Dea, S. A. Baum, T. E. Clarke, C. L. Sarazin, J. N. Bregman, F. Combes, M. Donahue, A. C. Edge, A. C. Fabian, Gary J. Ferland, B. R. Mcnamara, R. Mittal, J. B. R. Oonk, A. C. Quillen, H. R. Russell, J. S. Sanders, P. Salomé, G. M. Voit, R. J. Wilman, M. W. Wise

Physics and Astronomy Faculty Publications

New Chandra X-ray and Herschel Far-Infrared (FIR) observations enable a multiwavelength study of active galactic nucleus (AGN) heating and intracluster medium (ICM) cooling in the brightest cluster galaxy (BCG) of Abell 2597 (z= 0.0821). The new Chandra observations reveal the central ≲30 kpc X-ray cavity network to be more extensive than previously thought, and associated with enough enthalpy to theoretically inhibit the inferred classical cooling flow. Nevertheless, we present new evidence, consistent with previous results, that a moderately strong residual cooling flow is persisting at 4–8 per cent of the classically predicted rates in a spatially structured manner …

Lipopolysaccharide Impairs Amyloid Β Efflux From Brain: Altered Vascular Sequestration, Cerebrospinal Fluid Reabsorption, Peripheral Clearance And Transporter Function At The Blood-Brain Barrier, Michelle A. Erickson, Pehr E. Hartvigson, Yoichi Morofuji, Joshua B. Owen, D. Allan Butterfield, William A. Banks

Chemistry Faculty Publications

BACKGROUND: Defects in the low density lipoprotein receptor-related protein-1 (LRP-1) and p-glycoprotein (Pgp) clearance of amyloid beta (Aβ) from brain are thought to contribute to Alzheimer's disease (AD). We have recently shown that induction of systemic inflammation by lipopolysaccharide (LPS) results in impaired efflux of Aβ from the brain. The same treatment also impairs Pgp function. Here, our aim is to determine which physiological routes of Aβ clearance are affected following systemic inflammation, including those relying on LRP-1 and Pgp function at the blood-brain barrier.

METHODS: CD-1 mice aged between 6 and 8 weeks were treated with 3 intraperitoneal injections …

Concentration Effects And Ion Properties Controlling The Fractionation Of Halides During Aerosol Formation, Marcelo I. Guzman, Richa R. Athalye, Jose M. Rodriguez

Chemistry Faculty Publications

During the aerosolization process at the sea surface, halides are incorporated into aerosol droplets, where they may play an important role in tropospheric ozone chemistry. Although this process may significantly contribute to the formation of reactive gas phase molecular halogens, little is known about the environmental factors that control how halides selectively accumulate at the air-water interface. In this study, the production of sea spray aerosol is simulated using electrospray ionization (ESI) of 100 nM equimolar solutions of NaCl, NaBr, NaI, NaNO(2), NaNO(3), NaClO(4), and NaIO(4). The microdroplets generated are analyzed by mass spectrometry to study the comparative enrichment of …

The Nuclear Infrared Emission Of Low-Luminosity Active Galactic Nuclei, R. E. Mason, E. Lopez-Rodriguez, C. Packham, A. Alonso-Herrero, N. A. Levenson, J. Radomski, C. Ramos Almeida, L. Colina, Moshe Elitzur, I. Aretxaga, P. F. Roche, N. Oi

Physics and Astronomy Faculty Publications

We present high-resolution mid-infrared (MIR) imaging, nuclear spectral energy distributions (SEDs), and archival Spitzer spectra for 22 low-luminosity active galactic nuclei (LLAGNs; L_bol ≲ 10⁴² erg s^–1). Infrared (IR) observations may advance our understanding of the accretion flows in LLAGNs, the fate of the obscuring torus at low accretion rates, and, perhaps, the star formation histories of these objects. However, while comprehensively studied in higher-luminosity Seyferts and quasars, the nuclear IR properties of LLAGNs have not yet been well determined. We separate the present LLAGN sample into three categories depending on their Eddington ratio and radio …

Multi-Dimensional Modeling Of Charring Ablators, Haoyue Weng, Huaibao Zhang, Ovais U. Khan, Alexandre Martin

Mechanical Engineering Faculty Publications

Re-entry of a spacecraft occurs at the hypersonic regime where the flow field is extremely complex: high temperature gradients occurring in the shock-layer region ionize and dissociate the air. Even if a large portion of heat generated during this process is convected away in the surrounding air, a fraction of it is still transferred to the vehicle. Therefore, it is important to protect the vehicle with a suitable kind of shielding. Of the many techniques available today, use of ablative material is gaining popularity. The basic idea behind an ablating heat shield is that the energy incident on the spacecraft …

Families Or Unrelated: The Evolving Debate In Genetic Association Studies, David W. Fardo, Richard Charnigo, Michael P. Epstein

Biostatistics Faculty Publications

To help uncover the genetic determinants of complex disease, a scientist often designs an association study using either unrelated subjects or family members within pedigrees. But which of these two subject recruitment paradigms is preferable? This editorial addresses the debate over the relative merits of family- and population-based genetic association studies. We begin by briefly recounting the evolution of genetic epidemiology and the rich crossroads of statistics and genetics. We then detail the arguments for the two aforementioned paradigms in recent and current applications. Finally, we speculate on how the debate may progress with the emergence of next-generation sequencing technologies.

Improving Woody Biomass Estimation Efficiency Using Double Sampling, David L. Parrott, John M. Lhotka, Songlin Fei, B. Scott Shouse

Forestry and Natural Resources Faculty Publications

Although double sampling has been shown to be an effective method to estimate timber volume in forest inventories, only a limited body of research has tested the effectiveness of double sampling on forest biomass estimation. From forest biomass inventories collected over 9,683 ha using systematic point sampling, we examined how a double sampling scheme would have affected precision and efficiency in these biomass inventories. Our results indicated that double sample methods would have yielded biomass estimations with similar precision as systematic point sampling when the small sample was ≥ 20% of the large sample. When the small to large sample …

Genetic Association Studies Of Copy-Number Variation: Should Assignment Of Copy Number States Precede Testing?, Patrick Breheny, Prabhakar Chalise, Anthony Batzler, Liewei Wang, Brooke L. Fridley

Biostatistics Faculty Publications

Recently, structural variation in the genome has been implicated in many complex diseases. Using genomewide single nucleotide polymorphism (SNP) arrays, researchers are able to investigate the impact not only of SNP variation, but also of copy-number variants (CNVs) on the phenotype. The most common analytic approach involves estimating, at the level of the individual genome, the underlying number of copies present at each location. Once this is completed, tests are performed to determine the association between copy number state and phenotype. An alternative approach is to carry out association testing first, between phenotype and raw intensities from the SNP array …

Oxidative Stress In Hpv-Driven Viral Carcinogenesis: Redox Proteomics Analysis Of Hpv-16 Dysplastic And Neoplastic Tissues, Federico De Marco, Elona Bucaj, Cesira Foppoli, Ada Fiorini, Carla Blarzino, Kozeta Filipi, Alessandra Giorgi, Maria Eugenia Schininà, Fabio Di Domenico, Raffaella Coccia, D. Allan Butterfield, Marzia Perluigi

Chemistry Faculty Publications

Genital infection by high risk Human Papillomavirus (HR-HPV), although recognized as the main etio-pathogenetic factor of cervical cancer, is not per se sufficient to induce tumour development. Oxidative stress (OS) represents an interesting and under-explored candidate as a promoting factor in HPV-initiated carcinogenesis. To gain insight into the role of OS in cervical cancer, HPV-16 positive tissues were collected from patients with invasive squamous cervical carcinoma, from patients with High Grade dysplastic HPV lesions and from patients with no clinical evidence of HPV lesions. After virological characterization, modulation of proteins involved in the redox status regulation was investigated. ERp57 and …

The Curious Conundrum Regarding Sulfur Abundances In Planetary Nebulae, R. B. C. Henry, Angela Speck, Amanda I. Karakas, Gary J. Ferland, Mason Maguire

Physics and Astronomy Faculty Publications

Sulfur abundances derived from optical emission line measurements and ionization correction factors (ICFs) in planetary nebulae are systematically lower than expected for the objects' metallicities. We have carefully considered a large range of explanations for this "sulfur anomaly," including: (1) correlations between the size of the sulfur deficit and numerous nebular and central star properties, (2) ICFs which undercorrect for unobserved ions, (3) effects of dielectronic recombination on the sulfur ionization balance, (4) sequestering of S into dust and/or molecules, and (5) excessive destruction of S or production of O by asymptotic giant branch stars. It appears that all but …

Ion-By-Ion Cooling Efficiencies, Orly Gnat, Gary J. Ferland

Physics and Astronomy Faculty Publications

We present ion-by-ion cooling efficiencies for low-density gas. We use Cloudy (version 10.00) to estimate the cooling efficiencies for each ion of the first 30 elements (H-Zn) individually. We present results for gas temperatures between 10⁴ and 10⁸ K, assuming low densities and optically thin conditions. When nonequilibrium ionization plays a significant role the ionization states deviate from those that obtain in collisional ionization equilibrium (CIE), and the local cooling efficiency at any given temperature depends on specific nonequilibrium ion fractions. The results presented here allow for an efficient estimate of the total cooling efficiency for any ionic …

On The Unification Of Active Galactic Nuclei, Moshe Elitzur

Physics and Astronomy Faculty Publications

The inevitable spread in properties of the toroidal obscuration of active galactic nuclei (AGNs) invalidates the widespread notion that type 1 and 2 AGNs are intrinsically the same objects, drawn randomly from the distribution of torus covering factors. Instead, AGNs are drawn preferentially from the distribution; type 2 are more likely drawn from the distribution higher end, type 1 from its lower end. Type 2 AGNs have a higher IR luminosity, lower narrow-line luminosity, and a higher fraction of Compton thick X-ray obscuration than type 1. Meaningful studies of unification statistics cannot be conducted without first determining the intrinsic distribution …

Star Formation In Self-Gravitating Disks In Active Galactic Nuclei. Ii. Episodic Formation Of Broad-Line Regions, Jian-Min Wang, Pu Du, Jack A. Baldwin, Jun-Qiang Ge, Chen Hu, Gary J. Ferland

Physics and Astronomy Faculty Publications

This is the second in a series of papers discussing the process and effects of star formation in the self-gravitating disk around the supermassive black holes in active galactic nuclei (AGNs). We have previously suggested that warm skins are formed above the star-forming (SF) disk through the diffusion of warm gas driven by supernova explosions. Here we study the evolution of the warm skins when they are exposed to the powerful radiation from the inner part of the accretion disk. The skins initially are heated to the Compton temperature, forming a Compton atmosphere (CAS) whose subsequent evolution is divided into …

Rovibrationally Resolved Direct Photodissociation Through The Lyman And Werner Transitions Of H2 For Fuv/X-Ray-Irradiated Environments, C. D. Gay, N. P. Abel, R. L. Porter, P. C. Stancil, Gary J. Ferland, G. Shaw, P. A. M. Vanhoof, R. J. R. Williams

Physics and Astronomy Faculty Publications

Using ab initio potential curves and dipole transition moments, cross-section calculations were performed for the direct continuum photodissociation of H2 through the B¹Σ⁺u ← X¹Σ⁺_g (Lyman) and C¹Π_u ← X¹Σ⁺_g (Werner) transitions. Partial cross-sections were obtained for wavelengths from 100 Å to the dissociation threshold between the upper electronic state and each of the 301 bound rovibrational levels v''J'' within the ground electronic state. The resulting cross-sections are incorporated into three representative classes of interstellar gas models: diffuse clouds, photon-dominated regions, and …

Effect Of Tray Type And Tray Covering On Wicking Speed, Germination, And Spiral Rooting Of Tobacco, William A. Bailey, Bill Pitt

Plant and Soil Sciences Research Report

Poor tray wicking and spiral rooting continue to be recurring concerns in tobacco float systems. Poor wicking of trays can usually be attributed to old media or media that was improperly stored for extended periods of time. Tray design may also influence speed of wicking. The clay-based pelleting materials used to coat tobacco seeds are thought to cause damage to the emerging root radical under certain conditions, leading to an increased incidence of spiral root. Practices that change the microenvironment at the top of the cell area surrounding the seed may reduce spiral rooting by altering the breakdown of the …

Co-Grazing Beef Cattle And Goats In Kentucky, David C. Ditsch, Patty Scharko

Plant and Soil Sciences Research Report

A two season grazing study of mixed (goats and beef cattle) species was conducted in 2006 and 2008 at Sebastian Farms in Breathitt County KY. The objective of this study was to determine if the order of mixed species grazing affected beef cattle and goat weight gain and goat exposure to the barber pole worm (Haemonchus contortus) in a rotational grazing system. In this study, two co-grazing management strategies were tested. In treatment 1, goats and cattle were rotationally grazed together. In treatment 2, goats rotated through pastures as first grazers followed by cattle. Each co-grazing treatment was …

Near Infrared Hydrogen Emission Line Ratios As Diagnostics Of The Broad Emission Line Region, Andrea J. Ruff, David J. E. Floyd, Kirk T. Korista, Rachel L. Webster, Ryan Lucian Porter, Gary J. Ferland

Physics and Astronomy Faculty Publications

Broad emission line flux ratios are a powerful diagnostic of the physical conditions of the broad-line region gas in Active Galactic Nuclei. With recent advances in infrared spectroscopy, previously unstudied emission lines provide a new means to investigate the physical nature of the BELR gas. The hydrogen emission lines are particularly sensitive to the upper limits of both the radius from the central ionising source and the number density of the gas. Using an existing subset of near-infrared quasar spectra from the Glikman et al. (2006) sample [1] together with Cloudy photoionization simulations, we confirm the Locally Optimally emitting Cloud …

Herschel Observations Of Extended Atomic Gas In The Core Of The Perseus Cluster, R. Mittal, J. B. R. Oonk, Gary J. Ferland, A. C. Edge, C. P. O'Dea, S. A. Baum, J. T. Whelan, R. M. Johnstone, F. Combes, P. Salomé, A. C. Fabian, G. R. Tremblay, M. Donahue, Russell H. H.

Physics and Astronomy Faculty Publications

We present Herschel observations of the core of the Perseus cluster of galaxies. Especially intriguing is the network of filaments that surround the brightest cluster galaxy, NGC 1275, previously imaged extensively in Hα and CO. In this work, we report detections of far-infrared (FIR) lines, in particular, [C II] 158, [O I] 63, [N II] 122, [O IB] 145 and [O III] 88  μm, withHerschel. All lines are spatially extended, except [O III], with the [C II] line emission extending up to 25 kpc from the core. [C II] emission is found to be co-spatial with Hα and …

Hydrogen Two-Photon Continuum Emission From The Horseshoe Filament In Ngc 1275, R. M. Johnstone, R. E.A. Canning, A. C. Fabian, Gary J. Ferland, Matt Lykins, R. L. Porter, P. A.M. Vanhoof, R. J.R. Williams

Physics and Astronomy Faculty Publications

Far-ultraviolet emission has been detected from a knot of Hα emission in the Horseshoe filament, far out in the NGC 1275 nebula. The flux detected relative to the brightness of the Hα line in the same spatial region is very close to that expected from hydrogen two-photon continuum emission in the particle heating model of Ferland et al. if reddening internal to the filaments is taken into account. We find no need to invoke other sources of far-ultraviolet emission such as hot stars or emission lines from C IV in intermediate-temperature gas to explain these data.