Physical Sciences and Mathematics Commons^™

Ion Cyclotron Waves In The High Altitude Cusp: Cluster Observations At Varying Spacecraft Separations, K. Nykyri, P. J. Cargill, E. A. Lucek, T. S. Horbury, A. Balogh, B. Lavraud, I. Dandouras, H. Reme

Katariina Nykyri

We have analysed high-resolution Cluster magnetic field data during three high-altitude cusp crossings in 2001 and 2002. The Cluster separations for these crossings varied between 100 and 600 km and therefore provided an unique opportunity to study wave properties at different length scales. In the cusp Cluster sees frequent intervals of magnetic field fluctuations with clear peaks in power close to the local ion cyclotron frequency, and both left- and right-handed polarisations. At large separations the power seen at different spacecraft can differ by orders of magnitude. For smaller separations, the power seen at the four spacecraft agrees better but …

Origin Of The Turbulent Spectra In The High-Altitude Cusp: Cluster Spacecraft Observations, K. Nykyri, B. Grison, P. J. Cargill, B. Lavraud, E. Lucek, I. Dandouras, A. Balogh, N. Cornilleau-Wehrlin, H. Reme

Katariina Nykyri

High-resolution magnetic field data from Cluster Flux GateMagnetometer (FGM) and the Spatio-Temporal Analysis of Field Fluctuations (STAFF) instruments are used to study turbulent magnetic field fluctuations during the highaltitude cusp crossing on 17 March 2001. Despite the quiet solar wind conditions, the cusp was filled with magnetic field turbulence whose power correlates with the field-aligned ion plasma flux. The magnetic field wave spectra shows power law behavior with both double and single slopes with break in the spectra usually occurring in the vicinity of the local ion cyclotron frequency. Strong peaks in the wave power close to local ion cyclotron …

Cluster Encounters With The High Altitude Cusp: Boundary Structure And Magnetic Field Depletions, P. J. Cargill, M. W. Dunlop, B. Lavraud, R. C. Elphic, D. L. Holland, K. Nykyri, A. Balogh, I. Dandouras

Katariina Nykyri

Data from the four spacecraft Cluster mission during a high altitude cusp crossing on 13 February 2001 are presented. The spacecraft configuration has one leading spacecraft, with the three trailing spacecraft lying in a plane that corresponds roughly to the nominal magnetopause surface. The typical spacecraft separation is approximately 600 km. The encounter occurs under conditions of strong and steady southward Interplanetary Magnetic Field (IMF). The cusp is identified as a seven-minute long depression in the magnetic field, associated with ion heating and a high abundance of He+. Cusp entry involves passage through a magnetopause boundary that has undergone very …

Cluster Observations Of Bow Shock Energetic Ion Transport Through The Magnetosheath Into The Cusp, K. J. Trattner, S. M. Petrinec, S. A. Fuselier, K. Nykyri, E. Kronberg

Katariina Nykyri

The observation of energetic particles by polar orbiting satellites in the magnetospheric cusp resulted in a controversy about their source region. It has been suggested that these cusp energetic particles (CEP) with significant fluxes from magnetosheath energies up to several hundred keV/e are accelerated locally in the cusp by the turbulence found in cusp diamagnetic cavities (CDC). As an alternative to the local acceleration region, the quasi‐parallel shock is successful as a source region for CEP events. Energetic ions accelerated at the bow shock can be transported downstream and enter the cusp along newly reconnected field lines. Composition and energy …

Cluster Observations Of A Cusp Diamagnetic Cavity: Structure, Size, And Dynamics, K. Nykyri, A. Otto, E. Adamson, E. Dougal, J. Mumme

Katariina Nykyri

We have analyzed Cluster magnetic field and plasma data during high‐altitude cusp crossing and compared them with high‐resolution MHD simulations. Cluster encountered a diamagnetic cavity (DMC) during northward interplanetary magnetic field (IMF) conditions, and as the IMF rotated southward, the spacecraft reencountered the cavity more at the sunward side of the cusp because the reconnection site had changed location. We found evidence of magnetic reconnection both during northward and southward IMF conditions. The Cluster separation was ∼5000 km, enabling for the first time measurements both inside the DMC and surrounding boundaries that allowed us to construct the structure of the …

Optically Controlled Laser-Plasma Electron Acceleration For Compact Gamma-Ray Sources, Serge Y. Kalmykov, X. Davoine, Isaac Ghebregziabher, Bradley A. Shadwick

Serge Youri Kalmykov

Damage Analysis Modified Trac Computer Program (Damtrac), George H. Baker Iii, Alan D. Mcnutt, G. Bradford Shea, David M. Rubenstein

George H Baker

A computer program tailored for EMP damage analysis of solid-state circuitry has been developed by modifying the existing TRAC network analysis program. Modification of the TRAC diode and transistor models to include breakdown parameters and the addition of a semiconductor device parameter library have greatly simplified the analyst's task. An added feature is a subroutine that automatically calculates the amplitude and duration of transient power dissipated in electronic circuit components.

3-D Mesoscale Mhd Simulations Of A Cusp-Like Magnetic Configuration: Method And First Results, E. Adamson, A. Otto, K. Nykyri

Katariina Nykyri

We present a local mesoscale model of the magnetospheric cusp region with high resolution (up to 300 km). We discuss the construction and implementation of the initial configuration and give a detailed description of the numerical simulation. An overview of simulation results for the case of strongly northward interplanetary magnetic field (IMF) is then presented and compared with data from Cluster 2 spacecraft from 14 February 2003. Results show a cusp diamagnetic cavity (CDC) with depth normal to the magnetospheric boundary on the order of 1–2Re and a much larger extent of ~5–9Re tangential to the boundary, bounded by a …

3-D Mesoscale Mhd Simulations Of Magnetospheric Cusp-Like Configurations: Cusp Diamagnetic Cavities And Boundary Structure, E. Adamson, A. Otto, K. Nykyri

Katariina Nykyri

We present results from mesoscale simulations of the magnetospheric cusp region for both strongly northward and strongly southward interplanetary magnetic field (IMF). Simulation results indicate an extended region of depressed magnetic field and strongly enhanced plasma B which exhibits a strong dependence on IMF orientation. These structures correspond to the Cusp Diamagnetic Cavities (CDC’s). The typical features of these CDC’s are generally well reproduced by the simulation. The inner boundaries between the CDC and the magnetosphere are gradual transitions which form a clear funnel shape, regardless of IMF orientation. The outer CDC/magnetosheath boundary exhibits a clear indentation in both the …

The Statistical Mapping Of Magnetosheath Plasma Properties Based On Themis Measurements In The Magnetosheath Interplanetary Medium Reference Frame, A. P. Dimmock, K. Nykyri

Katariina Nykyri

The magnetosheath operates as a natural filter between the solar wind and the magnetospheric plasma. As a result of this, the magnetosheath plays a crucial role in the plasma momentum and energy transport from the interplanetary medium into the magnetosphere. Statistical studies of the magnetosheath are difficult due to the dynamic nature of the terrestrial bow shock and the magnetopause. As a result of this, the spatial and temporal dependence of magnetosheath plasma properties under varying solar wind conditions is still not completely understood. We present a study of magnetosheath plasma properties using 5 years of THEMIS and OMNI data …

Mapping Of The Quasi-Periodic Oscillations At The Flank Magnetopause Into The Ionosphere, E. R. Dougal, K. Nykyri, T. W. Moore

Katariina Nykyri

We have estimated the ionospheric location, area, and travel time of quasi-periodic oscillations originating from the magnetospheric flanks. This was accomplished by utilizing global and local MHD models and Tsyganenko semi-empirical magnetic field model on multiple published and four new cases believed to be caused by the Kelvin– Helmholtz Instability. Finally, we used auroral, magnetometer, and radar instruments to observe the ionospheric signatures. The ionospheric magnetic latitude determined using global MHD and Tsyganenko models ranged from 58.3–80.2 degrees in the Northern Hemisphere and −59.6 degrees to −83.4 degrees in the Southern Hemisphere. The ionospheric magnetic local time ranged between 5.0–13.8 …

The Link Between Shocks, Turbulence And Magnetic Reconnection In Collisionless Plasmas, H. Karimabadi, V. Roytershteyn, H. X. Vu, Y. Omelchenko, J. Scudder, W. Daughton, A. Dimmock, Katariina (Heidi) Nykyri, Et Al.

Katariina Nykyri

Global hybrid (electron fluid, kinetic ions) and fully kinetic simulations of the magnetosphere have been used to show surprising interconnection between shocks, turbulence and magnetic reconnection. In particular collisionless shocks with their reflected ions that can get upstream before retransmission can generate previously unforeseen phenomena in the post shocked flows: (i) formation of reconnecting current sheets and magnetic islands with sizes up to tens of ion inertial length. (ii) Generation of large scale low frequency electromagnetic waves that are compressed and amplified as they cross the shock. These 'wavefronts' maintain their integrity for tens of ion cyclotron times but eventually …

Kelvin-Helmholtz Instability Of The Cme Reconnection Outflow Layer In The Low Corona, Claire Foullon, Erwin Verwichte, Katariina Nykyri, Markus J. Aschwanden, Iain G. Hannah

Katariina Nykyri

New capabilities for studying the Sun allow us to image for the first time the magnetic Kelvin–Helmholtz (KH) instability developing at the surface of a fast coronal mass ejecta (CME) less than 150 Mm above the solar surface. We conduct a detailed observational investigation of this phenomenon, observed off the east solar limb on 2010 November 3, in the EUV with SDO/AIA. In conjunction with STEREO-B/EUVI, we derive the CME source surface position. We ascertain the timing and early evolution of the CME outflow leading to the instability onset. We perform image and spectral analysis, exploring the CME plasma structuring …

Impact Of Mhd Shock Physics On Magnetosheath Symmetry And Kelvin-Helmholtz Instability, K. Nykyri

Katariina Nykyri

We have performed 13 three-dimensional global magnetohydrodynamic (MHD) simulations of the magnetosheath plasma and magnetic field properties for Parker spiral (PS) and ortho-Parker spiral interplanetary magnetic field (IMF) orientations corresponding to a wide range of solar wind plasma conditions. To study the growth of the Kelvin-Helmholtz instability on the dawn and dusk flank magnetopause, we have performed 26 local two-dimensional MHD simulations, with the initial conditions taken from global simulations on both sides of the velocity shear layer at the dawn-dusk terminator. These simulations indicate that while the MHD physics of the fast shocks does not directly lead to strong …

Cluster Observations Of Reconnection Due To The Kelvin-Helmholtz Instability At The Dawnside Magnetospheric Flank, K. Nykyri, A. Otto, B. Lavraud, C. Mouikis, L. M. Kistler, A. Balogh, H. Rème

Katariina Nykyri

On 3 July 2001, the four Cluster satellites traversed along the dawnside magnetospheric flank and observed large variations in all plasma parameters. The estimated magnetopause boundary normals were oscillating in the z-direction and the normal component of the magnetic field showed systematic ~2–3 min bipolar variations for 1 h when the IMF had a small positive bz-component and a Parker-spiral orientation in the x, y-plane. Brief ~33 s intervals with excellent deHoffman Teller frames were observed satisfying the Wal´en relation. Detailed comparisons with 2- D MHD simulations indicate that Cluster encountered rotational discontinuities generated by Kelvin-Helmholtz instability. We estimate a …

Coordinated Cluster/Double Star Observations Of Dayside Reconnection Signatures, M. W. Dunlop, M. G. G. T. Taylor, J. A. Davies, C. J. Owen, F. Pitout, A. N. Fazakerley, K. Nykyri, Et Al.

Katariina Nykyri

The recent launch of the equatorial spacecraft of the Double Star mission, TC-1, has provided an unprecedented opportunity to monitor the southern hemisphere dayside magnetopause boundary layer in conjunction with northern hemisphere observations by the quartet of Cluster spacecraft. We present first results of one such situation where, on 6 April 2004, both Cluster and the Double Star TC-1 spacecraft were on outbound transits through the dawnside magnetosphere. The observations are consistent with ongoing reconnection on the dayside magnetopause, resulting in a series of flux transfer events (FTEs) seen both at Cluster and TC-1, which appear to lie north and …

Asymmetry Of Magnetosheath Flows And Magnetopause Shape During Low Alfvén Mach Number Solar Wind, B. Lavraud, E. Larroque, E. Budnik, V. Génot, J. E. Borovsky, M. W. Dunlop, K. Nykyri, Et Al.

Katariina Nykyri

Previous works have emphasized the significant influence of the solar wind Alfvén Mach number (MA) on magnetospheric dynamics. Here we report statistical, observational results that pertain to changes in the magnetosheath flow distribution and magnetopause shape as a function of solar wind MA and interplanetary magnetic field (IMF) clock angle orientation. We use all Cluster 1 data in the magnetosheath during the period 2001–2010, using an appropriate spatial superposition procedure, to produce magnetosheath flow distributions as a function of location in themagnetosheath relative to the IMF and other parameters. The results demonstrate that enhanced flows in the magnetosheath are expected …

Predictors Of Neonatal Abstinence Syndrome In Buprenorphine Exposed Newborn: Can Cord Blood Buprenorphine Metabolite Levels Help?, Darshan Shah, Stacy Brown, Nick Hagemeier, Shimin Zheng, Amy Kyle, Jason Pryor, Nilesh Dankhara, Piyuesh Singh

Nicholas E. Hagemeier

Background

Buprenorphine is a semi-synthetic opioid used for the treatment of opioid dependence. Opioid use, including buprenorphine, has been increasing in recent years, in the general population and in pregnant women. Consequently, there has been a rise in frequency of neonatal abstinence syndrome (NAS), associated with buprenorphine use during pregnancy. The purpose of this study was to investigate correlations between buprenorphine and buprenorphine-metabolite concentrations in cord blood and onset of NAS in buprenorphine exposed newborns.

Methods

Nineteen (19) newborns who met inclusion criteria were followed after birth until discharge in a double-blind non-intervention study, after maternal consent. Cord blood and …

Effects Of Mutations On The Molecular Dynamics Of Oxygen Escape From The Dimeric Hemoglobin Of Scapharca Inaequivalvis, Kevin Trujillo, Tasso Papagiannopoulos, Kenneth W. Olsen

Ken Olsen

Like many hemoglobins, the structure of the dimeric hemoglobin from the clam Scapharca inaequivalvis is a “closed bottle” since there is no direct tunnel from the oxygen binding site on the heme to the solvent. The proximal histidine faces the dimer interface, which consists of the E and F helicies. This is significantly different from tetrameric vertebrate hemoglobins and brings the heme groups near the subunit interface. The subunit interface is also characterized by an immobile, hydrogen-bonded network of water molecules. Although there is data which is consistent with the histidine gate pathway for ligand escape, these aspects of the …

The Dimerization Domain In Dape Enzymes Is Required For Catalysis, Boguslaw Nocek, Anna Starus, Magdalena Makowska-Grzyska, Blanca Gutierrez, Stephen Sanchez, Robert Jedrzejczak, Jamey C. Mack, Kenneth W. Olsen, Andrzej Joachimiak, Richard C. Holz

Ken Olsen

The emergence of antibiotic-resistant bacterial strains underscores the importance of identifying new drug targets and developing new antimicrobial compounds. Lysine and meso-diaminopimelic acid are essential for protein production and bacterial peptidoglycan cell wall remodeling and are synthesized in bacteria by enzymes encoded within dap operon. Thereforedap enzymes may serve as excellent targets for developing a new class of antimicrobial agents. The dapE-encoded N-succinyl-L,L-diaminopimelic acid desuccinylase (DapE) convertsN-succinyl-L,L-diaminopimelic acid to L,L-diaminopimelic acid and succinate. The enzyme is composed of catalytic and dimerization domains, and belongs to the M20 peptidase family. To understand the specific role …

The Unsuspected Pathway Of The Allosteric Transition In Hemoglobin, Stefan Fischer, Kenneth W. Olsen, Kwangho Nam, Martin Karplus

Ken Olsen

Large conformational transitions play an essential role in the function of many proteins, but experiments do not provide the atomic details of the path followed in going from one end structure to the other. For the hemoglobin tetramer, the transition path between the unliganded (T) and tetraoxygenated (R) structures is not known, which limits our understanding of the cooperative mechanism in this classic allosteric system, where both tertiary and quaternary changes are involved. The conjugate peak refinement algorithm is used to compute an unbiased minimum energy path at atomic detail between the two end states. Although the results confirm some …

Revisiting The Futamura Projections: A Diagrammatic Approach, Brandon Williams, Saverio Perugini

Saverio Perugini

The advent of language implementation tools such as PyPy and Truffle/Graal have reinvigorated and broadened interest in topics related to automatic compiler generation and optimization. Given this broader interest, we revisit the Futamura Projections using a novel diagram scheme. Through these diagrams we emphasize the recurring patterns in the Futamura Projections while addressing their complexity and abstract nature. We anticipate that this approach will improve the accessibility of the Futamura Projections and help foster analysis of those new tools through the lens of partial evaluation.

Lysine Biosynthesis In Bacteria: A Metallodesuccinylase As A Potential Antimicrobial Target, Danuta M. Gillner, Daniel P. Becker Ph.D., Richard C. Holz

Richard C. Holz

In this review, we summarize the recent literature on dapE-encoded N-succinyl-l,l-diaminopimelic acid desuccinylase (DapE) enzymes, with an emphasis on structure–function studies that provide insight into the catalytic mechanism. Crystallographic data have also provided insight into residues that might be involved in substrate and hence inhibitor recognition and binding. These data have led to the design and synthesis of several new DapE inhibitors, which are described along with what is known about how inhibitors interact with the active site of DapE enzymes, including the efficacy of a moderately strong DapE inhibitor.

Identification Of A Histidine Metal Ligand In The Arge-Encoded N-Acetyl-L-Ornithine Deacetylase From Escherichia Coli, Wade C. Mcgregor, Danuta M. Gillner, Sabina I. Swierczek, Dali Liu, Richard C. Holz

Richard C. Holz

The H355A, H355K, H80A, and H80K mutant enzymes of the argE-encoded N-acetyl-L-ornithine deacetylase (ArgE) from Escherichia coli were prepared, however, only the H355A enzyme was found to be soluble. Kinetic analysis of the Co(II)-loaded H355A exhibited activity levels that were 380-fold less than Co(II)-loaded WT ArgE. Electronic absorption spectra of Co(II)-loaded H355A-ArgE indicate that the bound Co(II) ion resides in a distorted, five-coordinate environment and Isothermal Titration Calorimetry (ITC) data for Zn(II) binding to the H355A enzyme provided a dissociation constant (Kd) of 39 μM. A three-dimensional homology model of ArgE was generated using the X-ray crystal structure of the …

The Dimerization Domain In Dape Enzymes Is Required For Catalysis, Boguslaw Nocek, Anna Starus, Magdalena Makowska-Grzyska, Blanca Gutierrez, Stephen Sanchez, Robert Jedrzejczak, Jamey C. Mack, Kenneth W. Olsen, Andrzej Joachimiak, Richard C. Holz

Richard C. Holz

The emergence of antibiotic-resistant bacterial strains underscores the importance of identifying new drug targets and developing new antimicrobial compounds. Lysine and meso-diaminopimelic acid are essential for protein production and bacterial peptidoglycan cell wall remodeling and are synthesized in bacteria by enzymes encoded within dap operon. Thereforedap enzymes may serve as excellent targets for developing a new class of antimicrobial agents. The dapE-encoded N-succinyl-L,L-diaminopimelic acid desuccinylase (DapE) convertsN-succinyl-L,L-diaminopimelic acid to L,L-diaminopimelic acid and succinate. The enzyme is composed of catalytic and dimerization domains, and belongs to the M20 peptidase family. To understand the specific role …

Inhibitors Of Bacterial N-Succinyl-L,L-Diaminopimelic Acid Desuccinylase (Dape) And Demonstration Of In Vitro Antimicrobial Activity, Danuta Gillner, Nicola Armoush, Richard C. Holz, Daniel P. Becker

Richard C. Holz

The dapE-encoded N-succinyl-l,l-diaminopimelic acid desuccinylase (DapE) is a critical bacterial enzyme for the construction of the bacterial cell wall. A screen biased toward compounds containing zinc-binding groups (ZBG’s) including thiols, carboxylic acids, boronic acids, phosphonates and hydroxamates has delivered a number of micromolar inhibitors of DapE from Haemophilus influenzae, including the low micromolar inhibitor l-captopril (IC50 = 3.3 μM, Ki = 1.8 μM). In vitro antimicrobial activity was demonstrated for l-captopril against Escherichia coli.

Direct Patterning Of A Cyclotriveratrylene Derivative For Directed Self-Assembly Of C60, Zachary R. Osner, Dorjderem Nyamjav, Richard C. Holz, Daniel P. Becker

Richard C. Holz

A novel apex-modified cyclotriveratrylene (CTV) derivative with an attached thiolane-containing lipoic acid linker was directly patterned onto gold substrates via dip-pen nanolithography (DPN). The addition of a dithiolane-containing linker to the apex of CTV provides a molecule that can adhere to a gold surface with its bowl-shaped cavity directed away from the surface, thereby providing a surface-bound CTV host that can be used for the directed assembly of guest molecules. Subsequent exposure of these CTV microarrays to C60 in toluene resulted in the directed assembly of predesigned, spatially controlled, high-density microarrays of C60. The molecular recognition capabilities of this CTV …

Consecutivepatterns.Pdf, Peter R. W. Mcnamara, Sergi Elizalde

Peter R. W. McNamara

Optically Controlled Laser-Plasma Electron Accelerator For Compact Gamma-Ray Sources, Serge Y. Kalmykov, X. Davoine, Isaac Ghebregziabher, Bradley A. Shadwick

Serge Youri Kalmykov

Multi-Color, Femtosecond Gamma-Ray Pulse Trains Driven By Comb-Like Electron Beams, Serge Y. Kalmykov, X. Davoine, Isaac Ghebregziabher, Bradley A. Shadwick

Serge Youri Kalmykov