Science.gov

Sample records for study fragmentation reactions

  1. Studies of complex fragment emission in heavy ion reactions

    SciTech Connect

    Charity, R.J.; Sobotka, L.G.

    1992-01-01

    Our work involves the study of intermediate energy heavy-ion nuclear reactions. This work has two foci. On the one hand, we desire to learn about the properties of nuclear matter under abnormal conditions, in this energy domain, predominately low densities. This purpose runs abreast of the second, which is the study of the relevant reaction mechanisms. The two objectives are inexorably linked because our experimental laboratory for studying nuclear matter properties is a dynamic one. We are forced to ask how nuclear matter properties, such as phase transitions, are reflected in the dynamics of the reactions. It may be that irrefutable information about nuclear matter will not be extracted from the reaction work. Nevertheless, we are compelled to undertake this effort not only because it is the only game in town and as yet we do not know that information cannot be extracted, but also because of our second objective. The process leads to an understanding of the reaction mechanism themselves and therefore to the response characteristics of finite, perhaps non-equilibrium, strongly interacting systems. Our program has been: To study energy, mass, and angular momentum deposition by studying incomplete fusion reactions. To gain confidence that we understand how highly excited systems decompose by studying all emissions from the highly excited systems. To push these kinds of studies into the intermediate energy domain, with excitation function studies. And attempt to learn about the dynamics of the decays using particle-particle correlations. In the last effort, we have decided to focus on simple systems, where we believe, definitive statements are possible. These avenues of research share a common theme, large complex fragment production.

  2. MALDI-TOF/TOF CID Study of Poly(1,4-dihydroxybenzene terephthalate) Fragmentation Reactions

    PubMed Central

    Gies, Anthony P.; Stow, Sarah M.; McLean, John A.; Hercules, David M.

    2015-01-01

    MALDI-TOF/TOF collision-induced dissociation (CID) experiments were conducted on model aromatic polyester oligomers. CID fragmentation studies identified initial fracture of the ester bond and subsequent CO loss as a major pathway, consistent with the general fragmentation mechanism used to explain the origin of poly(p-phenylenediamine terephthalamide) (PPD-T) fragment ions. Specifically, both charge-remote and charge-site fragmentation were observed. Different parent-ion species were observed, the major ones being carboxyl-hydroxyl, di-carboxyl, di-hydroxyl, and phenyl-carboxyl terminated. One species observed was hydroxyl-diethylamine terminated caused by reaction of carboxyl groups with triethylamine added to the synthesis reaction mixture. Fragment ions reflected the end groups of the parent oligomers. Some MALDI fragment-ion spectra were obtained for species showing exchange between Li and H at the carboxyl end group. Bond energy calculations provide further insight into suggested fragmentation mechanisms. PMID:26195848

  3. Fragmentation Reactions of Methionine-Containing Protonated Octapeptides and Fragment Ions Therefrom: An Energy-Resolved Study

    NASA Astrophysics Data System (ADS)

    Harrison, Alex G.

    2013-10-01

    The fragmentation reactions of the MH+ ions as well as the b7, a7, and a7* ions derived therefrom have been studied in detail for the octapeptides MAAAAAAA, AAMAAAAA, AAAAMAAA, and AAAAAAMA. Ionization was by electrospray using a QqToF mass spectrometer, which allowed a study of the evolution of the fragmentation channels as a function of the collision energy. Not surprisingly, the product ion mass spectra for the b7 ions are independent of the original precursor sequence, indicating macrocyclization and reopening to the same mixture of protonated oxazolones prior to fragmentation. The results show that this sequence scrambling results in a distinct preference to place the Met residue in the C-terminal position of the protonated oxazolones. The a7 and a7* ions also produce product ion mass spectra independent of the original peptide sequence. The results for the a7 ions indicate that fragmentation occurs primarily from an amide structure analogous to that observed for a4 ions (Bythell et al. in J Am Chem Soc 132:14766-14779, 2010). Clearly, the rearrangement reaction they have proposed applies equally well to an ions as large as a7. The major fragmentation modes of the MH+ ions at low collision energies produce b7, b6, and b5 ions. As the collision energy is increased further fragmentation of these primary products produces, in part, non-direct sequence ions, which become prominent at lower m/z values, particularly for the peptides with the Met residue near the N-terminus.

  4. Theoretical Study of Projectile Fragmentations in Relativistic Heavy-Ion Reactions

    NASA Astrophysics Data System (ADS)

    Ogul, R.; Imal, H.; Ergun, A.; Buyukcizmeci, N.; Botvina, A. S.; Trautmann, W.

    2015-05-01

    We have investigated and interpreted the production cross sections and isotopic distributions of projectile-like residues in the reactions 124Sn + 124Sn and 112Sn + 112Sn at an incident beam energy of 1 GeV/nucleon measured with the FRS fragment separator at the GSI laboratory. For the interpretation of the data, calculations within the statistical multifragmentation model (SMM) for an ensemble of excited sources were performed with ensemble parameters. The possible modification of symmetry energy parameter, in the multifragmentation region at the low density and hot freeze-out environment, is studied. It is reconfirmed that a significant reduction of the symmetry energy term is found necessary to reproduce experimental results at these conditions. We have also found a decreasing trend of the symmetry energy for large neutron-rich fragments of low excitation energy which is interpreted as a nuclear-structure effect.

  5. Fission fragment mass distribution studies in 30Si +180Hf reaction

    NASA Astrophysics Data System (ADS)

    Shamlath, A.; Shareef, M.; Prasad, E.; Sugathan, P.; Thomas, R. G.; Jhingan, A.; Appannababu, S.; Nasirov, A. K.; Vinodkumar, A. M.; Varier, K. M.; Yadav, C.; Babu, B. R. S.; Nath, S.; Mohanto, G.; Mukul, Ish; Singh, D.; Kailas, S.

    2016-01-01

    Fission fragment mass-angle and mass ratio distributions have been measured for the 30Si + 180Hf reaction in the beam energy range 128-148 MeV. Quasifission signature is observed in this reaction, forming the compound system 210Rn. The results are compared with a very asymmetric reaction 16O + 194Pt, forming the same compound nucleus. Calculations assuming saddle point, scission point and DNS models have been performed to interpret the experimental results. The results strongly suggest the entrance channel dependence of quasifission in heavy ion collisions.

  6. Study of near-stability nuclei populated as fission fragments in heavy-ion fusion reactions

    SciTech Connect

    Fotiadis, Nikolaos; Nelson, Ronald O; Devlin, Matthew; Cizewski, Jolie A; Krucken, Reiner; Clark, R M; Fallon, Paul; Lee, I Yang; Macchiavelli, Agusto O; Becker, John A; Younes, Walid

    2010-01-01

    Examples are presented to illustrate the power of prompt {gamma}-ray spectroscopy of fission fragments from compound nuclei with A {approx} 200 formed in fusion-evaporation reactions in experiments using the Gammasphere Ge-detector array. Complementary methods, such as Coulomb excitation and deep-inelastic processes, are also discussed. In other cases (n, xn{gamma}) reactions on stable isotopes have been used to establish neutron excitation functions for {gamma}-rays using a pulsed 'white'-neutron source, coupled to a high-energy-resolution germanium-detector array. The excitation functions can unambiguously assign {gamma}-rays to a specific reaction product. Results from all these methods bridge the gaps in the systematics of high-spin states between the neutron-deficient and neutron-rich nuclei. Results near shell closures should motivate new shell model calculations.

  7. Studies of complex fragment emission in heavy ion reactions. Progress report, January 1, 1993--September 15, 1993

    SciTech Connect

    Charity, R.J.; Sobotka, L.G.

    1993-09-12

    The study of intermediate-energy heavy-ion nuclear reactions is reported. This work has two foci: the properties of nuclear matter under abnormal conditions, in this energy domain, predominately low densities and the study of the relevant reaction mechanisms. Nuclear matter properties, such as phase transitions, are reflected in the dynamics of the reactions. The process leads to an understanding of the reaction mechanism themselves and therefore to the response characteristics of finite, perhaps non-equilibrium, strongly interacting systems. The program has the following objectives: to study energy, mass, and angular momentum deposition by studying incomplete fusion reactions; to gain confidence in the understanding of how highly excited systems decompose by studying all emissions from the highly excited systems; to push these kinds of studies into the intermediate energy domain (where intermediate mass fragment emission is not improbable) with excitation function studies; and to learn about the dynamics of the decays using particle-particle correlations. The last effort focuses on simple systems, where definitive statements are possible. These avenues of research share a common theme, large complex fragment production. It is this feature, more than any other, which distinguishes the intermediate energy domain.

  8. Studies of complex fragment emission in heavy ion reactions. Progress report, January 1, 1990--August 5, 1992

    SciTech Connect

    Charity, R.J.; Sobotka, L.G.

    1992-09-01

    Our work involves the study of intermediate energy heavy-ion nuclear reactions. This work has two foci. On the one hand, we desire to learn about the properties of nuclear matter under abnormal conditions, in this energy domain, predominately low densities. This purpose runs abreast of the second, which is the study of the relevant reaction mechanisms. The two objectives are inexorably linked because our experimental laboratory for studying nuclear matter properties is a dynamic one. We are forced to ask how nuclear matter properties, such as phase transitions, are reflected in the dynamics of the reactions. It may be that irrefutable information about nuclear matter will not be extracted from the reaction work. Nevertheless, we are compelled to undertake this effort not only because it is the only game in town and as yet we do not know that information cannot be extracted, but also because of our second objective. The process leads to an understanding of the reaction mechanism themselves and therefore to the response characteristics of finite, perhaps non-equilibrium, strongly interacting systems. Our program has been: To study energy, mass, and angular momentum deposition by studying incomplete fusion reactions. To gain confidence that we understand how highly excited systems decompose by studying all emissions from the highly excited systems. To push these kinds of studies into the intermediate energy domain, with excitation function studies. And attempt to learn about the dynamics of the decays using particle-particle correlations. In the last effort, we have decided to focus on simple systems, where we believe, definitive statements are possible. These avenues of research share a common theme, large complex fragment production.

  9. A DFT study of addition reaction between fragment ion (CH₂) units and fullerene (C₆₀) molecule.

    PubMed

    Zaragoza, Irineo Pedro; Vergara, Jaime; Pérez-Manríquez, Liliana; Salcedo, Roberto

    2011-05-01

    The theoretical study of the interaction between CH(2) and fullerene (C(60)) suggests the existence of an addition reaction mechanism; this feature is studied by applying an analysis of electronic properties. Several different effects are evident in this interaction as a consequence of the particular electronic transfer which occurs during the procedure. The addition or insertion of the methylene group results in a process, where the inclusion of CH(2) into a fullerene bond produces the formation of several geometric deformations. A simulation of these procedures was carried out, taking advantage of the dynamic semi-classical Born-Oppenheimer approximation. Dynamic aspects were analyzed at different speeds, for the interaction between the CH(2) group and the two bonds: CC (6, 6) and CC (6, 5) respectively on the fullerene (C(60)) rings. All calculations which involved electrons employed DFT as well as exchange and functional correlation. The results indicate a tendency for the CH(2) fragment to attack the CC (6, 5) bond. PMID:20658255

  10. Fission fragment mass distributions in reactions populating 200Pb

    NASA Astrophysics Data System (ADS)

    Chaudhuri, A.; Sen, A.; Ghosh, T. K.; Banerjee, K.; Sadhukhan, Jhilam; Bhattacharya, S.; Roy, P.; Roy, T.; Bhattacharya, C.; Asgar, Md. A.; Dey, A.; Kundu, S.; Manna, S.; Meena, J. K.; Mukherjee, G.; Pandey, R.; Rana, T. K.; Srivastava, V.; Dubey, R.; Kaur, Gurpreet; Saneesh, N.; Sugathan, P.; Bhattacharya, P.

    2016-08-01

    The fission fragment mass distributions have been measured in the reactions 16O+184W and 19F+181Ta populating the same compound nucleus 200Pb* at similar excitation energies. It is found that the widths of the mass distributions increase monotonically with excitation energy, indicating the absence of quasifission for both reactions. This is contrary to two recent claims of the presence of quasifission in the above-mentioned reactions.

  11. Theoretical Study of the Reaction Formalhydrazone with Singlet Oxygen. Fragmentation of the C=N Bond, Ene Reaction, and Other Processes†

    PubMed Central

    Rudshteyn, Benjamin; Castillo, Álvaro; Ghogare, Ashwini A.; Liebman, Joel F.; Greer, Alexander

    2013-01-01

    Photobiologic and synthetic versatility of hydrazones has not yet been established with 1O2 as a route to commonly encountered nitrosamines. Thus, to determine whether the “parent” reaction of formalhydrazone and 1O2 leads to facile C=N bond cleavage and resulting nitrosamine formation, we have carried out CCSD(T)//DFT calculations and analyzed the energetics of the oxidation pathways. A [2 + 2] pathway occurs via diradicals and formation of 3-amino-1,2,3-dioxazetidine in a 16 kcal/mol process. Reversible addition or physical quenching of 1O2 occurs either on the formalhydrazone carbon for triplet diradicals at 2–3 kcal/mol, or on the nitrogen (N(3)) atom forming zwitterions at ~15 kcal/mol, although the quenching channel by charge-transfer interaction was not computed. The computations also predict a facile conversion of formalhydrazone and 1O2 to hydroperoxymethyl diazene in a low-barrier ‘ene’ process, but no 2-amino-oxaziridine-O-oxide (perepoxide-like) intermediate was found. A Benson-like analysis (group increment calculations) on the closed shell species are in accord with the quantum chemical results. PMID:24354600

  12. Cloning of DNA fragments: ligation reactions in agarose gel.

    PubMed

    Furtado, Agnelo

    2014-01-01

    Ligation reactions to ligate a desired DNA fragment into a vector can be challenging to beginners and especially if the amount of the insert is limiting. Although additives known as crowding agents, such as PEG 8000, added to the ligation mixes can increase the success one has with ligation reactions, in practice the amount of insert used in the ligation can determine the success or the failure of the ligation reaction. The method described here, which uses insert DNA in gel slice added directly into the ligation reaction, has two benefits: (a) using agarose as the crowding agent and (b) reducing steps of insert purification. The use of rapid ligation buffer and incubation of the ligation reaction at room temperature greatly increase the efficiency of the ligation reaction even for blunt-ended ligation. PMID:24243199

  13. Study of the peripheral projectile-like fragments from the reaction {sup 129}Xe on {sup 27}Al, {sup nat}Cu, {sup 139}La and {sup 165}Ho, at E/A = 50 MeV

    SciTech Connect

    Garcia-Solis, E.J.; Russ, D.E.; Madani, H.

    1996-02-01

    There are several reaction mechanisms identified for peripheral heavy-ion collisions. For low bombarding energies (E/A {approx} 10 MeV) the predominant reaction channel is the deep-inelastic reaction mechanism. In this process, the projectile and target form a rotating binary system, interchanging nucleons and angular momentum until they separate. At higher bombarding energies (E/A {approx} 50 to 100 MeV) incomplete fusion is thought to be the prevailing reaction channel. In this type of interaction part of the projectile merges with the target during the collision. Finally, for energies greater than 100 MeV/A, the main reaction channel is characterized by the formation of a highly-excited separate fragment (fireball) produced during the overlap between the projectile and the target. The data set studied was from an experiment designed to characterize the projectile-like products of the {sup 27}Al, {sup nat}Cu, {sup 139}La, and {sup 165}Ho reactions at E/A = 50 MeV, which was performed at the Michigan State University Super Cyclotron Laboratory (MSU-NSCL). The Maryland Forward Array (MFA), was used to measure projectile-like fragments in coincidence with target-like fragments and light-charge particles in the MSU 4{pi} detector.

  14. Structural Studies of Geosmin Synthase, a Bifunctional Sesquiterpene Synthase with αα Domain Architecture That Catalyzes a Unique Cyclization-Fragmentation Reaction Sequence.

    PubMed

    Harris, Golda G; Lombardi, Patrick M; Pemberton, Travis A; Matsui, Tsutomu; Weiss, Thomas M; Cole, Kathryn E; Köksal, Mustafa; Murphy, Frank V; Vedula, L Sangeetha; Chou, Wayne K W; Cane, David E; Christianson, David W

    2015-12-01

    Geosmin synthase from Streptomyces coelicolor (ScGS) catalyzes an unusual, metal-dependent terpenoid cyclization and fragmentation reaction sequence. Two distinct active sites are required for catalysis: the N-terminal domain catalyzes the ionization and cyclization of farnesyl diphosphate to form germacradienol and inorganic pyrophosphate (PPi), and the C-terminal domain catalyzes the protonation, cyclization, and fragmentation of germacradienol to form geosmin and acetone through a retro-Prins reaction. A unique αα domain architecture is predicted for ScGS based on amino acid sequence: each domain contains the metal-binding motifs typical of a class I terpenoid cyclase, and each domain requires Mg(2+) for catalysis. Here, we report the X-ray crystal structure of the unliganded N-terminal domain of ScGS and the structure of its complex with three Mg(2+) ions and alendronate. These structures highlight conformational changes required for active site closure and catalysis. Although neither full-length ScGS nor constructs of the C-terminal domain could be crystallized, homology models of the C-terminal domain were constructed on the basis of ∼36% sequence identity with the N-terminal domain. Small-angle X-ray scattering experiments yield low-resolution molecular envelopes into which the N-terminal domain crystal structure and the C-terminal domain homology model were fit, suggesting possible αα domain architectures as frameworks for bifunctional catalysis.

  15. Dissertation: Precompound Emission of Energetic Light Fragments in Spallation Reactions

    SciTech Connect

    Kerby, Leslie Marie

    2015-08-04

    Emission of light fragments (LF) from nuclear reactions is an open question. Different reaction mechanisms contribute to their production; the relative roles of each, and how they change with incident energy, mass number of the target, and the type and emission energy of the fragments is not completely understood. None of the available models are able to accurately predict emission of LF from arbitrary reactions. However, the ability to describe production of LF (especially at energies ≳ 30 MeV) from many reactions is important for different applications, such as cosmic-ray-induced Single Event Upsets (SEUs), radiation protection, and cancer therapy with proton and heavy-ion beams, to name just a few. The Cascade-Exciton Model (CEM) version 03.03 and the Los Alamos version of the Quark-Gluon String Model (LAQGSM) version 03.03 event generators in Monte Carlo N-Particle Transport Code version 6 (MCNP6) describe quite well the spectra of fragments with sizes up to ⁴He across a broad range of target masses and incident energies (up to ~ 5 GeV for CEM and up to ~ 1 TeV/A for LAQGSM). However, they do not predict the high energy tails of LF spectra heavier than ⁴He well. Most LF with energies above several tens of MeV are emitted during the precompound stage of a reaction. The current versions of the CEM and LAQGSM event generators do not account for precompound emission of LF larger than ⁴He. The aim of our work is to extend the precompound model in them to include such processes, leading to an increase of predictive power of LF-production in MCNP6. This entails upgrading the Modified Exciton Model currently used at the preequilibrium stage in CEM and LAQGSM. It also includes expansion and examination of the coalescence and Fermi break-up models used in the precompound stages of spallation reactions within CEM and LAQGSM. Extending our models to include emission of fragments heavier than ⁴He at the precompound stage has indeed provided results that have much

  16. Isospin effects on fragmentation in the asymmetric reactions induced by neutron-rich targets

    NASA Astrophysics Data System (ADS)

    Sharma, Arun

    2016-05-01

    To understand the isospin effects in terms of fragment's yield in the asymmetric reactions induced by neutron-rich targets, we perform a theoretical study using isospin-dependent quantum molecular dynamics (IQMD) model. Simulations are carried out for reactions of 16O+Br80,84,92 and 16O+Ag108,113,122. We envision that fragments's yield in the asymmetric collisions induced by neutron-rich targets is better candidate to study isospin effects via symmetry energy and nucleon-nucleon (nn) cross-sections. Also, pronounced effects of symmetry energy and cross-sections can be found at lower and higher beam energies, respectively.

  17. Proton Mobility in b2 Ion Formation and Fragmentation Reactions of Histidine-Containing Peptides

    NASA Astrophysics Data System (ADS)

    Nelson, Carissa R.; Abutokaikah, Maha T.; Harrison, Alex G.; Bythell, Benjamin J.

    2016-03-01

    A detailed energy-resolved study of the fragmentation reactions of protonated histidine-containing peptides and their b2 ions has been undertaken. Density functional theory calculations were utilized to predict how the fragmentation reactions occur so that we might discern why the mass spectra demonstrated particular energy dependencies. We compare our results to the current literature and to synthetic b2 ion standards. We show that the position of the His residue does affect the identity of the subsequent b2 ion (diketopiperazine versus oxazolone versus lactam) and that energy-resolved CID can distinguish these isomeric products based on their fragmentation energetics. The histidine side chain facilitates every major transformation except trans-cis isomerization of the first amide bond, a necessary prerequisite to diketopiperazine b2 ion formation. Despite this lack of catalyzation, trans-cis isomerization is predicted to be facile. Concomitantly, the subsequent amide bond cleavage reaction is rate-limiting.

  18. Simulations of Chemical Reactions with the Frozen Domain Formulation of the Fragment Molecular Orbital Method.

    PubMed

    Nakata, Hiroya; Fedorov, Dmitri G; Nagata, Takeshi; Kitaura, Kazuo; Nakamura, Shinichiro

    2015-07-14

    The fully analytic first and second derivatives of the energy in the frozen domain formulation of the fragment molecular orbital (FMO) were developed and applied to locate transition states and determine vibrational contributions to free energies. The development is focused on the frozen domain with dimers (FDD) model. The intrinsic reaction coordinate method was interfaced with FMO. Simulations of IR and Raman spectra were enabled using FMO/FDD by developing the calculation of intensities. The accuracy is evaluated for S(N)2 reactions in explicit solvent, and for the free binding energies of a protein-ligand complex of the Trp cage protein (PDB: 1L2Y ). FMO/FDD is applied to study the keto-enol tautomeric reaction of phosphoglycolohydroxamic acid and the triosephosphate isomerase (PDB: 7TIM ), and the role of amino acid residue fragments in the reaction is discussed.

  19. Nuclear fragmentation studies for microelectronic application

    NASA Technical Reports Server (NTRS)

    Ngo, Duc M.; Wilson, John W.; Buck, Warren W.; Fogarty, Thomas N.

    1989-01-01

    A formalism for target fragment transport is presented with application to energy loss spectra in thin silicon devices. Predicted results are compared to experiments with the surface barrier detectors of McNulty et al. The intranuclear cascade nuclear reaction model does not predict the McNulty experimental data for the highest energy events. A semiempirical nuclear cross section gives an adequate explanation of McNulty's experiments. Application of the formalism to specific electronic devices is discussed.

  20. Comparing the gas-phase fragmentation reactions of protonated and radical cations of the tripeptides GXR

    NASA Astrophysics Data System (ADS)

    Wee, Sheena; O'Hair, Richard A. J.; McFadyen, W. David

    2004-05-01

    Electrospray ionization (ESI) mass spectrometry of methanolic solutions of mixtures of the copper salt (2,2':6',2''-terpyridine)copper(II) nitrate monohydrate ([Cu(II)(tpy)(NO3)2].H2O) and a tripeptide GXR (where X = 1 of the 20 naturally occurring amino acids) yielded [Cu(II)(tpy)(GXR)][radical sign]2+ ions, which were then subjected to collision induced dissociation (CID). In all but one case (GRR), these [Cu(II)(tpy)(GXR)][radical sign]2+ ions fragment to form odd electron GXR[radical sign]+ radical cations with sufficient abundance to examine their gas-phase fragmentation reactions. The GXR[radical sign]+ radical cations undergo a diverse range of fragmentation reactions which depend on the nature of the side chain of X. Many of these reactions can be rationalized as arising from the intermediacy of isomeric distonic ions in which the charge (i.e. proton) is sequestered by the highly basic arginine side chain and the radical site is located at various positions on the tripeptide including the peptide back bone and side chains. The radical sites in these distonic ions often direct the fragmentation reactions via the expulsion of small radicals (to yield even electron ions) or small neutrals (to form radical cations). Both classes of reaction can yield useful structural information, allowing for example, distinction between leucine and isoleucine residues. The gas-phase fragmentation reactions of the GXR[radical sign]+ radical cations are also compared to their even electron [GXR+H]+ and [GXR+2H]2+ counterparts. The [GXR+H]+ ions give fewer sequence ions and more small molecule losses while the [GXR+2H]2+ ions yield more sequence information, consistent with the [`]mobile proton model' described in previous studies. In general, all three classes of ions give complementary structural information, but the GXR[radical sign]+ radical cations exhibit a more diverse loss of small species (radicals and neutrals). Finally, links between these gas-phase results and key

  1. Population of bound excited states in intermediate-energy fragmentation reactions

    SciTech Connect

    Obertelli, A.; Gade, A.; Bazin, D.; Hansen, P.G.; Hoagland, T.; Lecouey, J.-L.; Mueller, W.F.; Yoneda, K.; Campbell, C.M.; Cook, J.M.; Davies, A.D.; Dinca, D.-C.; Glasmacher, T.; Terry, J.R.; Zwahlen, H.; Cottle, P.D.; Kemper, K.W.; Reynolds, R.R.; Roeder, B.T.; Tostevin, J.A.

    2006-04-15

    Fragmentation reactions with intermediate-energy heavy-ion beams exhibit a wide range of reaction mechanisms, ranging from direct reactions to statistical processes. We examine this transition by measuring the relative population of excited states in several sd-shell nuclei produced by fragmentation with the number of removed nucleons ranging from two to sixteen. The two-nucleon removal is consistent with a non-dissipative process, whereas the removal of more than five nucleons appears to be mainly statistical.

  2. Production cross sections for heavy-ion fragmentation reactions on a liquid deuterium target at intermediate energies

    SciTech Connect

    Roeder, B. T.; Kemper, K. W.; Aoi, N.; Motobayashi, T.; Takeuchi, S.; Bazin, D.; Mueller, W. F.; Yoneda, K.; Bowen, M.; Campbell, C. M.; Cook, J. M.; Dinca, D.-C.; Gade, A.; Glasmacher, T.; Terry, J. R.; Zwahlen, H.; Iwasaki, H.; Sakurai, H.; Suzuki, H.; Kanno, S.

    2006-09-15

    The inclusive cross sections for 38 different reaction products produced in the interaction of {sup 48}Ca, {sup 40}S, and {sup 42}S beams around 100 MeV/nucleon with a liquid deuterium target are reported. The cross sections for the {sup 48}Ca +{sup 2}H products are compared to those with {sup 48}Ca incident on the commonly used fragmentation targets {sup 9}Be and {sup 181}Ta and also to global calculations for fragmentation reaction cross sections based on the EPAX parameterization. The sizes of the measured reaction cross sections for the deuterium target were comparable to those of the cross sections measured on the heavier targets, indicating that nucleon removal from a deuterium target can be carried out for single- and multiple-nucleon knockout reaction studies. It was also found that the charge exchange cross sections were large enough that it should be possible to obtain nuclear structure information from these reactions.

  3. Bond cleavage, fragment modification and reassembly in enantioselective three-component reactions

    PubMed Central

    Zhang, Dan; Zhou, Jun; Xia, Fei; Kang, Zhenghui; Hu, Wenhao

    2015-01-01

    Chemical bond cleavage and reconstruction are common processes in traditional rearrangement reactions. In contrast, the process that involves bond cleavage, fragment modification and then reconstruction of the modified fragment provides an efficient way to build structurally diversified molecules. Here, we report a palladium(II)/chiral phosphoric acid catalysed three-component reaction of aryldiazoacetates, enamines and imines to afford α-amino-δ-oxo pentanoic acid derivatives in good yields with excellent diastereoselectivities and high enantioselectivities. The stereoselective reaction went through a unique process that involves cleavage of a C–N bond, modification of the resulting amino fragment and selective reassembly of the modified fragment. This innovative multi-component process represents a highly efficient way to build structurally diversified polyfunctional molecules in an atom and step economic fashion. A keto-iminium is proposed as a key intermediate and a chiral palladium/phosphate complex is proposed as an active catalyst. PMID:25586817

  4. A reexamination of the abrasion-ablation model for the description of the nuclear fragmentation reaction

    NASA Astrophysics Data System (ADS)

    Gaimard, J.-J.; Schmidt, K.-H.

    1991-09-01

    The nuclear fragmentation reaction is studied as an important production mechanism for secondary beams. The geometrical abrasion model and a macroscopic evaporation model which describe the two steps of the reaction are reexamined. Several improvements and modifications of these models are discussed and a new model description incorporating these elements is proposed. In particular, the excitation energy and the angular-momentum distribution of the prefragments, the formulation of evaporation as a diffusion process and the role of microscopic structure in the production cross section are considered. The new model description preserves the simplicity and the transparency of the original models. The prediction of the new model are compared to those of the original models and to experimental cross sections. While the original models showed several systematic discrepancies in comparison to measured cross sections, the new model is able to reproduce the whole body of experimental data with satisfactory agreement.

  5. Space fragment in studies of the Earth

    NASA Technical Reports Server (NTRS)

    Avanesov, G. A.; Ziman, Y. L.

    1982-01-01

    The fragment apparatus, mounted on board the artificial earth satellite Meteor, was created for the operational study of the natural resources of the Earth in the optical range of electromagnetic waves. The orbit of the satellite at an altitude of about 650 km makes it possible to observe the same sectors of the Earth's surface at the same time of day with a periodicity of 15 days.

  6. Nuclear reaction studies

    SciTech Connect

    Alexander, J.M.; Lacey, R.A.

    1994-11-01

    Research focused on the statistical and dynamical properties of ``hot`` nuclei formed in symmetric heavy-ion reactions. Theses included ``flow`` measurements and the mechanism for multifragment disassembly. Model calculations are being performed for the reactions C+C, Ne+Al, Ar+Sc, Kr+Nb, and Xe+La. It is planned to study {sup 40}Ar reactions from 27 to 115 MeV/nucleon. 2 figs., 41 refs.

  7. A practical synthesis of (+)-discodermolide and analogues: fragment union by complex aldol reactions.

    PubMed

    Paterson, I; Florence, G J; Gerlach, K; Scott, J P; Sereinig, N

    2001-10-01

    A practical stereocontrolled synthesis of (+)-discodermolide (1) has been completed in 10.3% overall yield (23 steps longest linear sequence). The absolute stereochemistry of the C(1)-C(6) (7), C(9)-C(16) (8), and C(17)-C(24) (9) subunits was established via substrate-controlled, boron-mediated, aldol reactions of the chiral ethyl ketones 10, 11, and 12. Key fragment coupling reactions were a lithium-mediated, anti-selective, aldol reaction of aryl ester 8 (under Felkin-Anh induction from the aldehyde component 9), followed by in situ reduction to produce the 1,3-diol 40, and a (+)-diisopinocampheylboron chloride-mediated aldol reaction of methyl ketone 7 (overturning the inherent substrate induction from the aldehyde component 52) to give the (7S)-adduct 58. The flexibility of our overall strategy is illustrated by the synthesis of a number of diastereomers and structural analogues of discodermolide, which should serve as valuable probes for structure-activity studies.

  8. Mutagenicity Assessment of Organophosphates using Polymerase Chain Reaction-Restriction Fragment Length Polymorphism Assay

    PubMed Central

    Bhinder, Preety; Chaudhry, Asha

    2013-01-01

    Objectives: In this study we have evaluated the mutagenicity of organophosphate pesticides acephate, chlorpyrifos, and profenofos using polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) assay with the mosquito Culex quinquefasciatus taken as an experimental model. Materials and Methods: Second instar larvae were treated with LC20 of each pesticide for 24 h and mutations induced in the sequence of mitochondrial COII gene (690bp) were studied from restriction patterns generated with AluI, PacI, and PsiI restriction endonucleases. Results: Variations in the number and size of digested fragments were recorded from treated individuals compared with controls showing that the restriction enzymes created a cut at different locations. In addition, sequences of COII gene from control and treated individuals were also used to confirm the RFLP patterns. From the sequence alignment data, it was found that mutations caused the destruction and generation of restriction sites in the gene sequence of treated individuals. Conclusion: This study indicates that all the three pesticides had potential to induce mutations in the normal sequence of COII gene and also advocates the use of PCR-RFLP assay as an efficient, rapid, and sensitive technique to detect mutagenicity of pesticides. PMID:24403735

  9. Interplay between compound and fragments aspects of nuclear fission and heavy-ion reaction

    SciTech Connect

    Moller, Peter; Iwamoto, A; Ichikawa, I

    2010-09-10

    The scission point in nuclear fission plays a special role where one-body system changes to two-body system. Inverse of this situation is realized in heavy-ion fusion reaction where two-body system changes to one body system. Among several peculiar phenomena expected to occur during this change, we focus our attention to the behavior of compound and fragments shell effects. Some aspects of the interplay between compound and fragments shell effect are discussed related to the topics of the fission valleys in the potential energy surface of actinide nuclei and the fusion-like trajectory found in the cold fusion reaction leading to superheavy nuclei.

  10. Construction of an antimyoglobin single-chain variable fragment with rapid reaction kinetics.

    PubMed

    Jang, Jun-Hyuck; Kim, Dong-Hyung; Paek, Se-Hwan; Woo, Eui-Jeon; Kim, Young-Wan

    2016-01-01

    Antibodies with rapid reaction kinetics (high association and dissociation rates), named reversible antibodies, are used to perform continuous monitoring of sensitive disease biomarkers. In cases of acute myocardial infarction (AMI), continuous monitoring and early diagnosis are important. Human myoglobin (Myo) is a useful biomarker for AMI during the early stage after the onset of symptoms. In this study, a single-chain variable fragment (scFv) specific to Myo was derived from an IgG antibody that has rapid reaction kinetics. Enzyme-linked immunosorbent assay revealed that recombinant scFv exhibited 3.8-fold reduced affinity compared with the parent IgG antibody based on the antibody concentration necessary for 50% of the maximum signal. The scFv retained the rapid reaction kinetic mode with average kon and koff of 2.63 × 10(5) M(-1) Sec(-1) and 3.25 × 10(-3) Sec(-1) , respectively, which were reduced to 10- and 2.3-fold compared with those of the parent antibody. The equilibrium constant for the association of the scFv (KA = 8.09 × 10(7) M(-1) ) was 4.6-fold lower than that of its parent IgG antibody. This scFv may be a starting point for further mutagenesis/kinetic and structural analyses providing valuable insight into the mechanism of reversible antibodies.

  11. Deduction of compound nucleus formation probability from the fragment angular distributions in heavy-ion reactions

    NASA Astrophysics Data System (ADS)

    Yadav, C.; Thomas, R. G.; Mohanty, A. K.; Kapoor, S. S.

    2015-07-01

    The presence of various fissionlike reactions in heavy-ion induced reactions is a major hurdle in the path to laboratory synthesis of heavy and super-heavy nuclei. It is known that the cross section of forming a heavy evaporation residue in fusion reactions depends on the three factors—the capture cross section, probability of compound nucleus formation PCN, and the survival probability of the compound nucleus against fission. As the probability of compound nucleus formation, PCN is difficult to theoretically estimate because of its complex dependence on several parameters; attempts have been made in the past to deduce it from the fission fragment anisotropy data. In the present work, the fragment anisotropy data for a number of heavy-ion reactions are analyzed and it is found that deduction of PCN from the anisotropy data also requires the knowledge of the ratio of relaxation time of the K degree of freedom to pre-equilibrium fission time.

  12. Purification and characterization of Fab fragments with rapid reaction kinetics against myoglobin.

    PubMed

    Song, Hyung-Nam; Kim, Dong-Hyung; Park, Sung-Goo; Lee, Myung Kyu; Paek, Se-Hwan; Woo, Eui-Jeon

    2015-01-01

    Myoglobin is an early biomarker for acute myocardial infarction. Recently, we isolated the antibody IgG-Myo2-7ds, which exhibits unique rapid reaction kinetics toward human myoglobin antigen. Antibodies with rapid dissociation kinetics are thought to be premature IgG forms that are produced during the early stage of in vivo immunization. In the present study, we identified the epitope region of the IgG-Myo2-7ds antibody to be the C-terminal region of myoglobin, which corresponds to 144-154 aa. The Fab fragment was directly purified by papain cleavage and protein G affinity chromatography and demonstrated kinetics of an association constant of 4.02 × 10(4) M(-1) s(-1) and a dissociation constant of 2.28 × 10(-2) s(-1), which retained the unique reaction kinetics of intact IgG-Myo2-7ds antibodies. Because a rapid dissociation antibody can be utilized for antibody recycling, the results from this study would provide a platform for the development of antibody engineering in potential diagnostic areas such as a continuous monitoring system for heart disease.

  13. Tungsten fragmentation in nuclear reactions induced by high-energy cosmic-ray protons

    SciTech Connect

    Chechenin, N. G. Chuvilskaya, T. V.; Shirokova, A. A.; Kadmenskii, A. G.

    2015-01-15

    Tungsten fragmentation arising in nuclear reactions induced by cosmic-ray protons in space-vehicle electronics is considered. In modern technologies of integrated circuits featuring a three-dimensional layered architecture, tungsten is frequently used as a material for interlayer conducting connections. Within the preequilibrium model, tungsten-fragmentation features, including the cross sections for the elastic and inelastic scattering of protons of energy between 30 and 240 MeV; the yields of isotopes and isobars; their energy, charge, and mass distributions; and recoil energy spectra, are calculated on the basis of the TALYS and EMPIRE-II-19 codes. It is shown that tungsten fragmentation affects substantially forecasts of failures of space-vehicle electronics.

  14. Fission fragment mass distributions in reactions forming the {sup 213}Fr compound nucleus

    SciTech Connect

    Appannababu, S.; Mukherjee, S.; Deshmukh, N. N.; Rath, P. K.; Singh, N. L.; Nayak, B. K.; Thomas, R. G.; Choudhury, R. K.; Sugathan, P.; Jhingan, A.; Negi, D.; Prasad, E.

    2011-03-15

    The fission fragment mass angle correlations and mass ratio distributions have been investigated for the two systems {sup 16}O+{sup 197}Au and {sup 27}Al+{sup 186}W, leading to the same compound nucleus {sup 213}Fr around the Coulomb barrier energies. Systematic analysis of the variance of the mass distributions as a function of temperature and angular momentum suggests true compound nuclear fission for both the reactions, indicating the absence of nonequilibrium fission processes.

  15. Statistical study of auroral fragmentation into patches

    NASA Astrophysics Data System (ADS)

    Hashimoto, Ayumi; Shiokawa, Kazuo; Otsuka, Yuichi; Oyama, Shin-ichiro; Nozawa, Satonori; Hori, Tomoaki; Lester, Mark; Johnsen, Magnar Gullikstad

    2015-08-01

    The study of auroral dynamics is important when considering disturbances of the magnetosphere. Shiokawa et al. (2010, 2014) reported observations of finger-like auroral structures that cause auroral fragmentation. Those structures are probably produced by macroscopic instabilities in the magnetosphere, mainly of the Rayleigh-Taylor type. However, the statistical characteristics of these structures have not yet been investigated. Here based on observations by an all-sky imager at Tromsø (magnetic latitude = 67.1°N), Norway, over three winter seasons, we statistically analyzed the occurrence conditions of 14 large-scale finger-like structures that developed from large-scale auroral regions including arcs and 6 small-scale finger-like structures that developed in auroral patches. The large-scale structures were seen from midnight to dawn local time and usually appeared at the beginning of the substorm recovery phase, near the low-latitude boundary of the auroral region. The small-scale structures were primarily seen at dawn and mainly occurred in the late recovery phase of substorms. The sizes of these large- and small-scale structures mapped in the magnetospheric equatorial plane are usually larger than the gyroradius of 10 keV protons, indicating that the finger-like structures could be caused by magnetohydrodynamic instabilities. However, the scale of small structures is only twice the gyroradius of 10 keV protons, suggesting that finite Larmor radius effects may contribute to the formation of small-scale structures. The eastward propagation velocities of the structures are -40 to +200 m/s and are comparable with those of plasma drift velocities measured by the colocating Super Dual Auroral Radar Network radar.

  16. Modulation of Phosphopeptide Fragmentation via Dual Spray Ion/Ion Reactions Using a Sulfonate-Incorporating Reagent.

    PubMed

    Cotham, Victoria C; McGee, William M; Brodbelt, Jennifer S

    2016-08-16

    The labile nature of phosphoryl groups has presented a long-standing challenge for the characterization of protein phosphorylation via conventional mass spectrometry-based bottom-up proteomics methods. Collision-induced dissociation (CID) causes preferential cleavage of the phospho-ester bond of peptides, particularly under conditions of low proton mobility, and results in the suppression of sequence-informative fragmentation that often prohibits phosphosite determination. In the present study, the fragmentation patterns of phosphopeptides are improved through ion/ion-mediated peptide derivatization with 4-formyl-1,3-benezenedisulfonic acid (FBDSA) anions using a dual spray reactor. This approach exploits the strong electrostatic interactions between the sulfonate moieties of FBDSA and basic sites to facilitate gas-phase bioconjugation and to reduce charge sequestration and increase the yield of phosphate-retaining sequence ions upon CID. Moreover, comparative CID fragmentation analysis between unmodified phosphopeptides and those modified online with FBDSA or in solution via carbamylation and 4-sulfophenyl isothiocyanate (SPITC) provided evidence for sulfonate interference with charge-directed mechanisms that result in preferential phosphate elimination. Our results indicate the prominence of charge-directed neighboring group participation reactions involved in phosphate neutral loss, and the implementation of ion/ion reactions in a dual spray reactor setup provides a means to disrupt the interactions by competing hydrogen-bonding interactions between sulfonate groups and the side chains of basic residues. PMID:27467576

  17. Fission fragments mass distributions of nuclei populated by the multinucleon transfer channels of the 18O + 232Th reaction

    NASA Astrophysics Data System (ADS)

    Léguillon, R.; Nishio, K.; Hirose, K.; Makii, H.; Nishinaka, I.; Orlandi, R.; Tsukada, K.; Smallcombe, J.; Chiba, S.; Aritomo, Y.; Ohtsuki, T.; Tatsuzawa, R.; Takaki, N.; Tamura, N.; Goto, S.; Tsekhanovich, I.; Petrache, C. M.; Andreyev, A. N.

    2016-10-01

    It is shown that the multinucleon transfer reactions is a powerful tool to study fission of exotic neutron-rich actinide nuclei, which cannot be accessed by particle-capture or heavy-ion fusion reactions. In this work, multinucleon transfer channels of the 18O + 232Th reaction are used to study fission of fourteen nuclei 231,232,233,234Th, 232,233,234,235,236Pa, and 234,235,236,237,238U. Identification of fissioning nuclei and of their excitation energy is performed on an event-by-event basis, through the measurement of outgoing ejectile particle in coincidence with fission fragments. Fission fragment mass distributions are measured for each transfer channel, in selected bins of excitation energy. In particular, the mass distributions of 231,234Th and 234,235,236Pa are measured for the first time. Predominantly asymmetric fission is observed at low excitation energies for all studied cases, with a gradual increase of the symmetric mode towards higher excitation energy. The experimental distributions are found to be in general agreement with predictions of the fluctuation-dissipation model.

  18. Refolded scFv Antibody Fragment against Myoglobin Shows Rapid Reaction Kinetics

    PubMed Central

    Song, Hyung-Nam; Jang, Jun-Hyuck; Kim, Young-Wan; Kim, Dong-Hyung; Park, Sung-Goo; Lee, Myung Kyu; Paek, Se-Hwan; Woo, Eui-Jeon

    2014-01-01

    Myoglobin is one of the early biomarkers for acute myocardial infarction. Recently, we have screened an antibody with unique rapid reaction kinetics toward human myoglobin antigen. Antibodies with rapid reaction kinetics are thought to be an early IgG form produced during early stage of in vivo immunization. We produced a recombinant scFv fragment for the premature antibody from Escherichia coli using refolding technology. The scFv gene was constructed by connection of the VH–VL sequence with a (Gly4Ser)3 linker. The scFv fragment without the pelB leader sequence was expressed at a high level, but the solubility was extremely low. A high concentration of 8 M urea was used for denaturation. The dilution refolding process in the presence of arginine and the redox reagents GSH and GSSH successfully produced a soluble scFv protein. The resultant refolded scFv protein showed association and dissociation values of 9.32 × 10−4 M−1·s−1 and 6.29 × 10−3 s−1, respectively, with an affinity value exceeding 107 M−1 (kon/koff), maintaining the original rapid reaction kinetics of the premature antibody. The refolded scFv could provide a platform for protein engineering for the clinical application for diagnosis of heart disease and the development of a continuous biosensor. PMID:25530617

  19. Identification of fungemia agents using the polymerase chain reaction and restriction fragment length polymorphism analysis.

    PubMed

    Santos, M S; Souza, E S; S Junior, R M; Talhari, S; Souza, J V B

    2010-08-01

    Prompt and specific identification of fungemia agents is important in order to define clinical treatment. However, in most cases conventional culture identification can be considered to be time-consuming and not without errors. The aim of the present study was to identify the following fungemia agents: Candida albicans, Candida parapsilosis, Candida tropicalis, Candida glabrata, Cryptococcus neoformans, Cryptococcus gattii, and Histoplasma capsulatum using the polymerase chain reaction and restriction fragment length polymorphism analysis (PCR/RFLP). More specifically: a) to evaluate 3 different amplification regions, b) to investigate 3 different restriction enzymes, and c) to use the best PCR/RFLP procedure to indentify 60 fungemia agents from a culture collection. All 3 pairs of primers (ITS1/ITS4, NL4/ITS5 and Primer1/Primer2) were able to amplify DNA from the reference strains. However, the size of these PCR products did not permit the identification of all the species studied. Three restriction enzymes were used to digest the PCR products: HaeIII, Ddel and Bfal. Among the combinations of pairs of primers and restriction enzymes, only one (primer pair NL4/ITS5 and restriction enzyme Ddel) produced a specific RFLP pattern for each microorganism studied. Sixty cultures of fungemia agents (selected from the culture collection of Fundação de Medicina Tropical do Amazonas--FMTAM) were correctly identified by PCR/RFLP using the prime pair NL4/ITS5 and Ddel. We conclude that the method proved to be both simple and reproducible, and may offer potential advantages over phenotyping methods.

  20. Identification of fungemia agents using the polymerase chain reaction and restriction fragment length polymorphism analysis.

    PubMed

    Santos, M S; Souza, E S; S Junior, R M; Talhari, S; Souza, J V B

    2010-08-01

    Prompt and specific identification of fungemia agents is important in order to define clinical treatment. However, in most cases conventional culture identification can be considered to be time-consuming and not without errors. The aim of the present study was to identify the following fungemia agents: Candida albicans, Candida parapsilosis, Candida tropicalis, Candida glabrata, Cryptococcus neoformans, Cryptococcus gattii, and Histoplasma capsulatum using the polymerase chain reaction and restriction fragment length polymorphism analysis (PCR/RFLP). More specifically: a) to evaluate 3 different amplification regions, b) to investigate 3 different restriction enzymes, and c) to use the best PCR/RFLP procedure to indentify 60 fungemia agents from a culture collection. All 3 pairs of primers (ITS1/ITS4, NL4/ITS5 and Primer1/Primer2) were able to amplify DNA from the reference strains. However, the size of these PCR products did not permit the identification of all the species studied. Three restriction enzymes were used to digest the PCR products: HaeIII, Ddel and Bfal. Among the combinations of pairs of primers and restriction enzymes, only one (primer pair NL4/ITS5 and restriction enzyme Ddel) produced a specific RFLP pattern for each microorganism studied. Sixty cultures of fungemia agents (selected from the culture collection of Fundação de Medicina Tropical do Amazonas--FMTAM) were correctly identified by PCR/RFLP using the prime pair NL4/ITS5 and Ddel. We conclude that the method proved to be both simple and reproducible, and may offer potential advantages over phenotyping methods. PMID:20640387

  1. Feasibility of Traveling Wave Direct Energy Conversion of Fission Reaction Fragments

    NASA Technical Reports Server (NTRS)

    Tarditi, A. G.; George, J. A.; Miley, G. H.; Scott, J. H.

    2013-01-01

    Fission fragment direct energy conversion has been considered in the past for the purpose of increasing nuclear power plant efficiency and for advanced space propulsion. Since the fragments carry electric charge (typically in the order of 20 e) and have 100 MeV-range kinetic energy, techniques utilizing very high-voltage DC electrodes have been considered. This study is focused on a different approach: the kinetic energy of the charged fission fragments is converted into alternating current by means of a traveling wave coupling scheme (Traveling Wave Direct Energy Converter, TWDEC), thereby not requiring the utilization of high voltage technology. A preliminary feasibility analysis of the concept is introduced based on a conceptual level study and on a particle simulation model of the beam dynamics.

  2. Radiation induced redox reactions and fragmentation of constituent ions in ionic liquids II. Imidazolium cations.

    SciTech Connect

    Shkrob, I. A.; Marin, T. W.; Chemerisov, S. D.; Hatcher, J.; Wishart, J.

    2011-04-14

    In part 1 of this study, radiolytic degradation of constituent anions in ionic liquids (ILs) was examined. The present study continues the themes addressed in part 1 and examines the radiation chemistry of 1,3-dialkyl substituted imidazolium cations, which currently comprise the most practically important and versatile class of ionic liquid cations. For comparison, we also examined 1,3-dimethoxy- and 2-methyl-substituted imidazolium and 1-butyl-4-methylpyridinium cations. In addition to identification of radicals using electron paramagnetic resonance spectroscopy (EPR) and selective deuterium substitution, we analyzed stable radiolytic products using {sup 1}H and {sup 13}C nuclear magnetic resonance (NMR) and tandem electrospray ionization mass spectrometry (ESMS). Our EPR studies reveal rich chemistry initiated through 'ionization of the ions': oxidation and the formation of radical dications in the aliphatic arms of the parent cations (leading to deprotonation and the formation of alkyl radicals in these arms) and reduction of the parent cation, yielding 2-imidazolyl radicals. The subsequent reactions of these radicals depend on the nature of the IL. If the cation is 2-substituted, the resulting 2-imidazolyl radical is relatively stable. If there is no substitution at C(2), the radical then either is protonated or reacts with the parent cation forming a C(2)-C(2) {sigma}{sigma}*-bound dimer radical cation. In addition to these reactions, when methoxy or C{sub {alpha}}-substituted alkyl groups occupy the N(1,3) positions, their elimination is observed. The elimination of methyl groups from N(1,3) was not observed. Product analyses of imidazolium liquids irradiated in the very-high-dose regime (6.7 MGy) reveal several detrimental processes, including volatilization, acidification, and oligomerization. The latter yields a polymer with m/z of 650 {+-} 300 whose radiolytic yield increases with dose (0.23 monomer units per 100 eV for 1-methyl-3-butylimidazolium

  3. Radiation induced redox reactions and fragmentation of constituent ions in ionic liquids. 2. Imidazolium cations.

    PubMed

    Shkrob, Ilya A; Marin, Timothy W; Chemerisov, Sergey D; Hatcher, Jasmine L; Wishart, James F

    2011-04-14

    In part 1 of this study, radiolytic degradation of constituent anions in ionic liquids (ILs) was examined. The present study continues the themes addressed in part 1 and examines the radiation chemistry of 1,3-dialkyl substituted imidazolium cations, which currently comprise the most practically important and versatile class of ionic liquid cations. For comparison, we also examined 1,3-dimethoxy- and 2-methyl-substituted imidazolium and 1-butyl-4-methylpyridinium cations. In addition to identification of radicals using electron paramagnetic resonance spectroscopy (EPR) and selective deuterium substitution, we analyzed stable radiolytic products using (1)H and (13)C nuclear magnetic resonance (NMR) and tandem electrospray ionization mass spectrometry (ESMS). Our EPR studies reveal rich chemistry initiated through "ionization of the ions": oxidation and the formation of radical dications in the aliphatic arms of the parent cations (leading to deprotonation and the formation of alkyl radicals in these arms) and reduction of the parent cation, yielding 2-imidazolyl radicals. The subsequent reactions of these radicals depend on the nature of the IL. If the cation is 2-substituted, the resulting 2-imidazolyl radical is relatively stable. If there is no substitution at C(2), the radical then either is protonated or reacts with the parent cation forming a C(2)-C(2) σσ*-bound dimer radical cation. In addition to these reactions, when methoxy or C(α)-substituted alkyl groups occupy the N(1,3) positions, their elimination is observed. The elimination of methyl groups from N(1,3) was not observed. Product analyses of imidazolium liquids irradiated in the very-high-dose regime (6.7 MGy) reveal several detrimental processes, including volatilization, acidification, and oligomerization. The latter yields a polymer with m/z of 650 ± 300 whose radiolytic yield increases with dose (~0.23 monomer units per 100 eV for 1-methyl-3-butylimidazolium trifluorosulfonate). Gradual

  4. DNA studies using atomic force microscopy: capabilities for measurement of short DNA fragments.

    PubMed

    Pang, Dalong; Thierry, Alain R; Dritschilo, Anatoly

    2015-01-01

    Short DNA fragments, resulting from ionizing radiation induced DNA double strand breaks (DSBs), or released from cells as a result of physiological processes and circulating in the blood stream, may play important roles in cellular function and potentially in disease diagnosis and early intervention. The size distribution of DNA fragments contribute to knowledge of underlining biological processes. Traditional techniques used in radiation biology for DNA fragment size measurements lack the resolution to quantify short DNA fragments. For the measurement of cell-free circulating DNA (ccfDNA), real time quantitative Polymerase Chain Reaction (q-PCR) provides quantification of DNA fragment sizes, concentration and specific gene mutation. A complementary approach, the imaging-based technique using Atomic Force Microscopy (AFM) provides direct visualization and measurement of individual DNA fragments. In this review, we summarize and discuss the application of AFM-based measurements of DNA fragment sizes. Imaging of broken plasmid DNA, as a result of exposure to ionizing radiation, as well as ccfDNA in clinical specimens offer an innovative approach for studies of short DNA fragments and their biological functions. PMID:25988169

  5. DNA studies using atomic force microscopy: capabilities for measurement of short DNA fragments

    PubMed Central

    Pang, Dalong; Thierry, Alain R.; Dritschilo, Anatoly

    2015-01-01

    Short DNA fragments, resulting from ionizing radiation induced DNA double strand breaks (DSBs), or released from cells as a result of physiological processes and circulating in the blood stream, may play important roles in cellular function and potentially in disease diagnosis and early intervention. The size distribution of DNA fragments contribute to knowledge of underlining biological processes. Traditional techniques used in radiation biology for DNA fragment size measurements lack the resolution to quantify short DNA fragments. For the measurement of cell-free circulating DNA (ccfDNA), real time quantitative Polymerase Chain Reaction (q-PCR) provides quantification of DNA fragment sizes, concentration and specific gene mutation. A complementary approach, the imaging-based technique using Atomic Force Microscopy (AFM) provides direct visualization and measurement of individual DNA fragments. In this review, we summarize and discuss the application of AFM-based measurements of DNA fragment sizes. Imaging of broken plasmid DNA, as a result of exposure to ionizing radiation, as well as ccfDNA in clinical specimens offer an innovative approach for studies of short DNA fragments and their biological functions. PMID:25988169

  6. Rock fragment movement in shallow rill flow - A laboratory study

    NASA Astrophysics Data System (ADS)

    Becker, Kerstin; Wirtz, Stefan; Seeger, Manuel; Gronz, Oliver; Remke, Alexander; Iserloh, Thomas; Brings, Christine; Casper, Markus; Ries, Johannes B.

    2014-05-01

    Studies concerning rill erosion mainly deal with the erosion and transport of fine material. The transport of rock fragments is examined mostly for mountain rivers. But there are important differences between the conditions and processes in rivers and in rills: (1) In most cases, the river cuts into a coarse substrate, where fine material is sparse, whereas rill erosion occurs on arable land. So the main part of the substrate is fine material and only single rock fragments influence the processes. (2) In rivers, the water depth is relatively high. There are a lot of studies about hydraulic parameters in such flows, but there is almost nothing known about hydraulic conditions in surface runoff events of a few centimeters. Additionally, little information exists about the rock fragment movement as a part of rill erosion processes on arable land. This knowledge should be increased because rock fragments cause non-stationary water turbulences in rills, which enhance the erosive force of flowing water. Field experiments can only show the fact that a certain rock fragment has moved: The starting point and the final position can be estimated. But the moving path and especially the initiation of the movement is not detectable under field conditions. Hence, we developed a laboratory setup to analyze the movement of rock fragments depending on rock fragment properties (size, form), slope gradient, flow velocity and surface roughness. By observing the rock fragments with cameras from two different angles we are able (1) to measure the rotation angles of a rock fragment during the experiment and (2) to deduce different rock fragment movement patterns. On this poster we want to present the experimental setup, developed within the scope of a master thesis, and the results of these experiments.

  7. Global transformation and fate of SOA: Implications of Low Volatility SOA and Gas-Phase Fragmentation Reactions

    SciTech Connect

    Shrivastava, ManishKumar B.; Easter, Richard C.; Liu, Xiaohong; Zelenyuk, Alla; Singh, Balwinder; Zhang, Kai; Ma, Po-Lun; Chand, Duli; Ghan, Steven J.; Jiminez, J. L.; Zhang, Qibin; Fast, Jerome D.; Rasch, Philip J.; Tiitta, P.

    2015-05-16

    Secondary organic aerosols (SOA) are large contributors to fine particle loadings and radiative forcing, but are often represented crudely in global models. We have implemented three new detailed SOA treatments within the Community Atmosphere Model version 5 (CAM5) that allow us to compare the semi-volatile versus non-volatile SOA treatments (based on some of the latest experimental findings) and also investigate the effects of gas-phase fragmentation reactions. For semi-volatile SOA treatments, fragmentation reactions decrease simulated SOA burden from 7.5 Tg to 1.8 Tg. For the non-volatile SOA treatment with fragmentation, the burden is 3.1 Tg. Larger differences between non-volatile and semi-volatile SOA (upto a factor of 5) correspond to continental outflow over the oceans. Compared to a global dataset of surface Aerosol Mass Spectrometer measurements and the US IMPROVE network measurements, the non-volatile SOA with fragmentation treatment (FragNVSOA) agrees best at rural locations. Urban SOA is under-predicted but this may be due to the coarse model resolution. All our three revised treatments show much better agreement with aircraft measurements of organic aerosols (OA) over the N. American Arctic and sub-Arctic in spring and summer, compared to the standard CAM5 formulation. This is due to treating SOA precursor gases from biomass burning, and long-range transport of biomass burning OA at elevated levels. The revised model configuration that include fragmentation (both semi-volatile and non-volatile SOA) show much better agreement with MODIS AOD data over regions dominated by biomass burning during the summer, and predict biomass burning as the largest global source of OA followed by biogenic and anthropogenic sources. The non-volatile and semi-volatile configuration predict the direct radiative forcing of SOA as -0.5 W m-2 and -0.26 W m-2 respectively, at top of the atmosphere, which are higher than previously estimated by most models, but in reasonable

  8. Physical and dynamical studies of meteors. [radar observation of fragmentation

    NASA Technical Reports Server (NTRS)

    Southworth, R. B.; Sekanina, Z.

    1974-01-01

    Distribution of meteors in streams detected in the synoptic-year meteor sample plus a study of the fragmentation characteristics of the synoptic-year meteor sample are presented. Population coefficients and dispersion coefficients were determined for each meteor stream. These two parameters serve to determine the number of definite members of the stream in the sample used, and to estimate the actual space density of meteor streams. From results of the fragmentation study, it appears that the main body of most radar meteors does not ablate fragments layer by layer, but collapses rather suddenly under dynamic pressures on the order of 0,0002 dynes/cm. Furthermore, it is believed that fragmentation does not cause a serious selection effect in the radar meteor data.

  9. Anomalous anisotropies of fission fragments in near- and sub-barrier fusion-fussion reactions

    NASA Astrophysics Data System (ADS)

    Huanqiao, Zhang; Zuhua, Liu; Jincheng, Xu; Jun, Lu; Ming, Ruan; Kan, Xu

    1992-03-01

    Fission cross sections and angular distributions have been measured for the reactions of 16O + 232Th and238U, and19F + 208Pb and232Th at near- and sub-barrier energies. The fission excitation functions are rather well reproduced on the basis of Wong model or coupled channels theory. However, the models which reproduce the sub-barrier fusion cross sections fail to account for the experimental anisotropies of fission fragments. It is found that the observed anisotropies are much larger than expected. For the first time it has been observed that the anisotropies as a function of the center-of-mass energy show a peak centered near 4.5 MeV below the fusion barrier for several reaction systems. The present approaches fail to explain these anomalies. For 19F + 208Pb systems, our results confirm the prediction of an approximately constant value for the mean square spin of the compound nucleus produced in far sub-barrier fusion reaction.

  10. Effects of isospin dynamics on neck fragmentation in isotopic nuclear reactions

    NASA Astrophysics Data System (ADS)

    Feng, Zhao-Qing

    2016-07-01

    The neck dynamics in Fermi-energy heavy-ion collisions, to probe the nuclear symmetry energy in the domain of subsaturation densities, is investigated within an isospin-dependent transport model. The single and double ratios of neutrons to protons from free nucleons and light clusters (complex particles) in the isotopic reactions are analyzed systematically. Isospin effects of particles produced from the neck fragmentations are explored. It is found that the ratios of the energetic isospin particles strongly depend on the stiffness of the nuclear symmetry energy and the effects increase with softening of the symmetry energy, which would be a nice probe for extracting the symmetry energy below the normal density in experiments. A flat structure appears at the tail spectra from the double ratio distributions. The neutron to proton ratio of light intermediate-mass fragments with charge number Z ≤8 is related to the density dependence of the symmetry energy with less sensitivity in comparison to the isospin ratios of nucleons and light particles.

  11. Tissue reactions under piezoelectric shockwave application for the fragmentation of biliary calculi.

    PubMed

    Ell, C; Kerzel, W; Heyder, N; Rödl, W; Langer, H; Mischke, U; Giedl, J; Domschke, W

    1989-05-01

    The tissue reactions that occurred during piezoelectric shockwaves for the fragmentation of biliary calculi were investigated in 10 surgically removed stone containing human gall bladders and in acute (six dogs) and chronic (six dogs) animal experiments. Before and after shockwave (500, 1500 or 3000) in the anaesthetised dogs, computed tomography (CT), magnetic imaging (MRI) and laboratory tests were done; treatment was carried out under continuous ultrasonographic control. Shockwave applications to the human gall bladders resulted in disintegration of the stones with no macroscopically or microscopically detectable tissue changes. In acute animal experiments, small haematomas were observed in all six animals at surfaces, but also inside the liver and gall bladder (max diameter 25 mm). Perforation or intra-abdominal or pleural bleeding did not occur. In chronic experiments, no macroscopic, and only slight microscopic residual lesions (haemosiderin deposits) were seen three weeks after shockwave. In almost all instances, the lesions were detected by CT, MRI, and ultrasonography, while laboratory tests were negative.

  12. [Characterization of aldehyde dehydrogenase gene fragment from mung bean Vigna radiata using the polymerase chain reaction].

    PubMed

    Ponomarev, A G; Bubiakina, V V; Tatarinova, T D; Zelenin, S M

    1998-01-01

    Two degenerate oligonucleotide sequence primers and polymerase chain reactions on total DNA have been utilized to clone on 651--bp gene fragment coding the central part of amino acid sequence of an earlier unknown aldehyde dehydrogenase (ALDH) from mung bean. The deduced partial amino acid sequence for this aldehyde dehydrogenase shows about 65% sequence identity to ALDHs of Vibrio cholerae Rhodococcus sp., Alcaligenes eutrophus and about 45% sequence identity to mammalian ALDHs 1 and 2, ALDHs of Aspergillus niger and A, nidulans, the betain aldehyde dehydrogenase from spinach. Alignment of the mung bean aldehyde dehydrogenase partial amino acid sequence with the sequence of 16 NAD(P)(+)-dependent aldehyde dehydrogenases has demonstrated that all strictly conserved amino acid residues and all three conservative regions are identical. PMID:9778740

  13. Experimental and numerical study on fragmentation of steel projectiles

    NASA Astrophysics Data System (ADS)

    Råkvaag, K. G.; Børvik, T.; Hopperstad, O. S.; Westermann, I.

    2012-08-01

    A previous experimental study on penetration and perforation of circular Weldox 460E target plates with varying thicknesses struck by blunt-nose projectiles revealed that fragmentation of the projectile occurred if the target thickness or impact velocity exceeded a certain value. Thus, numerical simulations that do not account for fragmentation during impact can underestimate the perforation resistance of protective structures. Previous numerical studies have focused primarily on the target plate behaviour. This study considers the behaviour of the projectile and its possible fragmentation during impact. Hardened steel projectiles were launched at varying velocities in a series of Taylor tests. The impact events were captured using a high-speed camera. Fractography of the fragmented projectiles showed that there are several fracture mechanisms present during the fragmentation process. Tensile tests of the projectile material revealed that the hardened material has considerable variations in yield stress and fracture stress and strain. In the finite element model, the stress-strain behaviour from tensile tests was used to model the projectile material with solid elements and the modified Johnson-Cook constitutive relation. Numerical simulations incorporating the variations in material properties are capable of reproducing the experimental fracture patterns, albeit the predicted fragmentation velocities are too low.

  14. Interferometric studies from p-p-fragment coincidences

    SciTech Connect

    Korolija, M. Joint Inst. for Heavy Ion Research, Oak Ridge, TN ); Shapira, D.; Gomez del Campo, J.; Kim, H.J. ); Cindro, N. ); Teh, K. ); Shea, J.Y. (Joint Inst. for Heavy Ion Researc

    1991-01-01

    Exclusive p-p correlations from the {sup 58}Ni + {sup 58}Ni reaction have been measured at an incident energy of 850 MeV. The enhancement in the p-p correlation function for small {Delta}p is satisfactorily explained by p-p final-state interaction effects. the observed enhancement is found to depend on the relative angle between the fragment and p-p c.m. velocities. The observed dependence of the p-p coincidence yield on the orientation of {Delta}p with respect to the plane spanned by the fragment and p-p c.m. velocities is attributed to angular momentum effects. 13 refs., 5 figs.

  15. Taxonomic and ecological discrimination of Fagaceae species based on internal transcribed spacer polymerase chain reaction-restriction fragment length polymorphism.

    PubMed

    Coutinho, João Paulo; Carvalho, Ana; Lima-Brito, José

    2014-11-26

    The internal transcribed spacer (ITS) of ribosomal DNA has been used to confirm taxonomic classifications and define phylogenies in several plant species following sequencing or polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) techniques. In this study, co-dominant ITS PCR-RFLP molecular markers were produced in 30 Fagaceae individuals belonging to the Castanea, Fagus and Quercus genera in order to assess the potential of this technique for taxonomic discrimination and determination of phylogenies. The complete ITS region (ITS1-5.8S rRNA-ITS2) was amplified in most of the Fagaceae individuals as a single fragment of ∼700 bp. The ITS amplified products were digested with nine restriction enzymes, but only four (HaeIII, HpaII, TaqI and Sau96I) produced polymorphic/discriminative patterns. The total expected heterozygosity (HE) was 20.31 % and the gene diversity (I), 32.97 %. The ITS polymorphism was higher within the Quercus genus (85.3 %). The ITS PCR-RFLP markers clustered the Fagaceae species according to genus or infrageneric group (in the case of Quercus sp. individuals). Five oaks did not cluster in line with the adopted infrageneric classification, but three of these were grouped according to their actual ecological distributions. The ITS PCR-RFLP markers indicated their potential for phylogenetic studies since all Fagaceae individuals were discriminated according to genus, and most of the oaks were clustered according to infrageneric group or ecological area.

  16. Genetic divergence between Mexican Opuntia accessions inferred by polymerase chain reaction-restriction fragment length polymorphism analysis.

    PubMed

    Samah, S; Valadez-Moctezuma, E; Peláez-Luna, K S; Morales-Manzano, S; Meza-Carrera, P; Cid-Contreras, R C

    2016-01-01

    Molecular methods are powerful tools in characterizing and determining relationships between plants. The aim of this study was to study genetic divergence between 103 accessions of Mexican Opuntia. To accomplish this, polymerase chain reaction (PCR)-restriction fragment length polymorphism analysis of three chloroplast intergenic spacers (atpB-rbcL, trnL-trnF, and psbA-trnH), one chloroplast gene (ycf1), two nuclear genes (ppc and PhyC), and one mitochondrial gene (cox3) was conducted. The amplified products from all the samples had very similar molecular sizes, and there were only very small differences between the undigested PCR amplicons for all regions, with the exception of ppc. We obtained 5850 bp from the seven regions, and 136 fragments were detected with eight enzymes, 37 of which (27.2%) were polymorphic. We found that 40% of the fragments from the chloroplast regions were polymorphic, 9.8% of the bands detected in the nuclear genes were polymorphic, and 20% of the bands in the mitochondrial locus were polymorphic. trnL-trnF and psbA-trnH were the most variable regions. The Nei and Li/Dice distance was very short, and ranged from 0 to 0.12; indeed, 77 of the 103 genotypes had the same genetic profile. All the xoconostle accessions (acidic fruits) were grouped together without being separated from three genotypes of prickly pear (sweet fruits). We assume that the genetic divergence between prickly pears and xoconostles is very low, and question the number of Opuntia species currently considered in Mexico. PMID:27323120

  17. Genetic divergence between Mexican Opuntia accessions inferred by polymerase chain reaction-restriction fragment length polymorphism analysis.

    PubMed

    Samah, S; Valadez-Moctezuma, E; Peláez-Luna, K S; Morales-Manzano, S; Meza-Carrera, P; Cid-Contreras, R C

    2016-06-03

    Molecular methods are powerful tools in characterizing and determining relationships between plants. The aim of this study was to study genetic divergence between 103 accessions of Mexican Opuntia. To accomplish this, polymerase chain reaction (PCR)-restriction fragment length polymorphism analysis of three chloroplast intergenic spacers (atpB-rbcL, trnL-trnF, and psbA-trnH), one chloroplast gene (ycf1), two nuclear genes (ppc and PhyC), and one mitochondrial gene (cox3) was conducted. The amplified products from all the samples had very similar molecular sizes, and there were only very small differences between the undigested PCR amplicons for all regions, with the exception of ppc. We obtained 5850 bp from the seven regions, and 136 fragments were detected with eight enzymes, 37 of which (27.2%) were polymorphic. We found that 40% of the fragments from the chloroplast regions were polymorphic, 9.8% of the bands detected in the nuclear genes were polymorphic, and 20% of the bands in the mitochondrial locus were polymorphic. trnL-trnF and psbA-trnH were the most variable regions. The Nei and Li/Dice distance was very short, and ranged from 0 to 0.12; indeed, 77 of the 103 genotypes had the same genetic profile. All the xoconostle accessions (acidic fruits) were grouped together without being separated from three genotypes of prickly pear (sweet fruits). We assume that the genetic divergence between prickly pears and xoconostles is very low, and question the number of Opuntia species currently considered in Mexico.

  18. Statistical study of auroral fragmentation into patches

    NASA Astrophysics Data System (ADS)

    Hashimoto, A.; Shiokawa, K.; Otsuka, Y.; Oyama, S. I.; Nozawa, S.; Hori, T.; Lester, M.

    2014-12-01

    Auroral complex shapes are formed through the connection of the ionosphere and magnetosphere by the geomagnetic field lines, projecting disturbances in the magnetosphere onto the ionosphere through auroral particles. Thus, the study of auroral dynamics is important for the understanding of magnetospheric disturbances. Shiokawa et al. [JGR, 2010] reported observations of small-scale finger-like auroral structures which appeared on the west side of auroral patches, at Gillam (GLAT=65.5°N), Canada, suggesting a pressure-driven plasma instability in the magnetosphere. However, statistical characteristics of this phenomenon have not been investigated yet. Using an all-sky imager at Tromsoe (MLAT=67.1°N), Norway, from January 2009 to November 2012, we made a statistical analysis of the occurrence conditions of 19 events of auroral structures that seemed to be caused by pressure-driven instability. We found 14 large-scale finger-like structures, developed from auroral arcs, and 6 small-scale finger-like structures which appeared in auroral patches. The large-scale structures were seen from midnight to dawn MLT and small-scale structures were seen mainly at dawn. Large and small-scale structures tend to appear at the beginning and late recovery phase of substorms, respectively. Their scale sizes are larger than the gyro-radius of the ions in the magnetospheric equatorial plane, indicating that the finger-like structures are caused by MHD instabilities. However, the size of the small-scale structures is roughly two times that of the gyro-radius of the ions, suggesting that the ion finite Larmor radius effects may play a role in the shape of small-scale structures [Hiraki and Sakaguchi, 2010]. Additionally, the eastward propagation speeds of the finger-like structures are slower than the typical midnight auroral drift speed, indicating that the low-energy plasma may be the source of these structures. These results could contradict the idea that the high-energy particles

  19. Frequent occurrence of T cell–mediated late reactions revealed by atopy patch testing with hypoallergenic rBet v 1 fragments

    PubMed Central

    Campana, Raffaela; Moritz, Katharina; Marth, Katharina; Neubauer, Angela; Huber, Hans; Henning, Rainer; Blatt, Katharina; Hoermann, Gregor; Brodie, Tess M.; Kaider, Alexandra; Valent, Peter; Sallusto, Federica; Wöhrl, Stefan; Valenta, Rudolf

    2015-01-01

    Background Late allergic reactions are common in the course of allergen-specific immunotherapy and even occur with allergy vaccines with reduced IgE reactivity. Objective We sought to study atopy patch test (APT) reactions and T-cell responses to the recombinant birch pollen allergen Bet v 1 and recombinant hypoallergenic T-cell epitope–containing Bet v 1 fragments in patients with birch pollen allergy with and without atopic dermatitis (AD). Methods A clinical study was conducted in 15 patients with birch pollen allergy with AD (group 1), 5 patients with birch pollen allergy without AD (group 2), 5 allergic patients without birch pollen allergy (group 3), and 5 nonallergic subjects (group 4) by performing skin prick tests and APTs with rBet v 1 and hypoallergenic rBet v 1 fragments. T-cell, cutaneous lymphocyte antigen (CLA)+ and CCR4+ T-cell and cytokine responses were studied by thymidine uptake, carboxyfluorescein diacetate succinimidyl ester staining, and Luminex technology, respectively. Results rBet v 1 and hypoallergenic rBet v 1 fragments induced APT reactions in not only most of the patients with birch pollen allergy with AD (11/15) but also in most of those without AD (4/5). Patients with birch pollen allergy with AD had higher Bet v 1–specific proliferation of CLA+ and CCR4+ T cells compared with patients with birch pollen allergy without AD. There were no differences in Bet v 1–specific CLA+ and CCR4+ proliferation and cytokine secretion in patients with and without APT reactions. Conclusion Hypoallergenic rBet v 1 fragments induce T cell–dependent late reactions not only in patients with birch pollen allergy with AD but also in those without AD, which can be determined based on APT results but not based on in vitro parameters. PMID:26518092

  20. An Experimental Study of Launch Vehicle Propellant Tank Fragmentation

    NASA Technical Reports Server (NTRS)

    Richardson, Erin; Jackson, Austin; Hays, Michael; Bangham, Mike; Blackwood, James; Skinner, Troy; Richman, Ben

    2014-01-01

    In order to better understand launch vehicle abort environments, Bangham Engineering Inc. (BEi) built a test assembly that fails sample materials (steel and aluminum plates of various alloys and thicknesses) under quasi-realistic vehicle failure conditions. Samples are exposed to pressures similar to those expected in vehicle failure scenarios and filmed at high speed to increase understanding of complex fracture mechanics. After failure, the fragments of each test sample are collected, catalogued and reconstructed for further study. Post-test analysis shows that aluminum samples consistently produce fewer fragments than steel samples of similar thickness and at similar failure pressures. Video analysis shows that there are several failure 'patterns' that can be observed for all test samples based on configuration. Fragment velocities are also measured from high speed video data. Sample thickness and material are analyzed for trends in failure pressure. Testing is also done with cryogenic and noncryogenic liquid loading on the samples. It is determined that liquid loading and cryogenic temperatures can decrease material fragmentation for sub-flight thicknesses. A method is developed for capture and collection of fragments that is greater than 97 percent effective in recovering sample mass, addressing the generation of tiny fragments. Currently, samples tested do not match actual launch vehicle propellant tank material thicknesses because of size constraints on test assembly, but test findings are used to inform the design and build of another, larger test assembly with the purpose of testing actual vehicle flight materials that include structural components such as iso-grid and friction stir welds.

  1. Molecular beam studies of reaction dynamics

    SciTech Connect

    Lee, Y.T.

    1993-12-01

    The major thrust of this research project is to elucidate detailed dynamics of simple elementary reactions that are theoretically important and to unravel the mechanism of complex chemical reactions or photochemical processes that play important roles in many macroscopic processes. Molecular beams of reactants are used to study individual reactive encounters between molecules or to monitor photodissociation events in a collision-free environment. Most of the information is derived from measurement of the product fragment energy, angular, and state distributions. Recent activities are centered on the mechanisms of elementary chemical reactions involving oxygen atoms with unsaturated hydrocarbons, the dynamics of endothermic substitution reactions, the dependence of the chemical reactivity of electronically excited atoms on the alignment of excited orbitals, the primary photochemical processes of polyatomic molecules, intramolecular energy transfer of chemically activated and locally excited molecules, the energetics of free radicals that are important to combustion processes, the infrared-absorption spectra of carbonium ions and hydrated hydronium ions, and bond-selective photodissociation through electric excitation.

  2. Fragmentation reactions of labeled and untabeled Rhodamine B in a high-resolution Fourier transform ion cyclotron resonance mass spectrometer.

    PubMed

    Clemen, Martin; Gernert, Claus; Peters, Jonathan; Grotemeyer, Jürgen

    2013-01-01

    The fragmentation reactions of Rhodamine B have been investigated by the use of electrospray ionization mass spectra in a high mass resolving ion cyclotron resonance mass spectrometer. Using high resolution, it could be shown that the loss of 44 mass units from the molecular ion is due to propane; the measured masses were inconsistent with loss of carbon dioxide. These conclusions are supported using deuterium-labeled Rhodamine B. This sample again only shows the loss of fully-deuterated propane verifying the high-resolution data. These findings illustrate very clearly that the conclusions based solely on low resolution spectra were false. The general implication on fragmentations of aromatic acids is discussed.

  3. Fission fragment angular distributions in the reactions {sup 16}O+{sup 188}Os and {sup 28}Si+{sup 176}Yb

    SciTech Connect

    Tripathi, R.; Sudarshan, K.; Sharma, S. K.; Reddy, A. V. R.; Pujari, P. K.; Goswami, A.; Ramachandran, K.

    2009-06-15

    Fission fragment angular distributions have been measured in the reactions {sup 16}O+{sup 188}Os and {sup 28}Si+{sup 176}Yb to investigate the contribution from noncompound nucleus fission. Parameters for statistical model calculations were fixed using fission cross section data in the {sup 16}O+{sup 188}Os reaction. Experimental anisotropies were in reasonable agreement with those calculated using the statistical saddle point model for both reactions. The present results are also consistent with those of mass distribution studies in the fission of {sup 202}Po, formed in the reactions with varying entrance channel mass asymmetry. However, the present studies do not show a large fusion hindrance as reported in the pre-actinide region based on the measurement of evaporation residue cross section.

  4. Implications of Low Volatility SOA and Gas-Phase Fragmentation Reactions on SOA Loadings and their Spatial and Temporal Evolution in the Atmosphere

    SciTech Connect

    Shrivastava, ManishKumar B.; Zelenyuk, Alla; Imre, Dan; Easter, Richard C.; Beranek, Josef; Zaveri, Rahul A.; Fast, Jerome D.

    2013-04-27

    Recent laboratory and field measurements by a number of groups show that secondary organic aerosol (SOA) evaporates orders of magnitude slower than traditional models assume. In addition, chemical transport models using volatility basis set (VBS) SOA schemes neglect gas-phase fragmentation reactions, which are known to be extremely important. In this work, we present modeling studies to investigate the implications of non-evaporating SOA and gas-phase fragmentation reactions. Using the 3-D chemical transport model, WRF-Chem, we show that previous parameterizations, which neglect fragmentation during multi-generational gas-phase chemistry of semi-volatile/inter-mediate volatility organics ("aging SIVOC"), significantly over-predict SOA as compared to aircraft measurements downwind of Mexico City. In sharp contrast, the revised models, which include gas-phase fragmentation, show much better agreement with measurements downwind of Mexico City. We also demonstrate complex differences in spatial SOA distributions when we transform SOA to non-volatile secondary organic aerosol (NVSOA) to account for experimental observations. Using a simple box model, we show that for same amount of SOA precursors, earlier models that do not employ multi-generation gas-phase chemistry of precursors ("non-aging SIVOC"), produce orders of magnitude lower SOA than "aging SIVOC" parameterizations both with and without fragmentation. In addition, traditional absorptive partitioning models predict almost complete SOA evaporation at farther downwind locations for both "non-aging SIVOC" and "aging SIVOC" with fragmentation. In contrast, in our revised approach, SOA transformed to NVSOA implies significantly higher background concentrations as it remains in particle phase even under highly dilute conditions. This work has significant implications on understanding the role of multi-generational chemistry and NVSOA formation on SOA evolution in the atmosphere.

  5. The Zero-Degree Detector system for fragmentation studies

    NASA Astrophysics Data System (ADS)

    Adams, J. H.; Christl, M. J.; Howell, L. W.; Kuznetsov, E.

    2007-08-01

    The measurement of nuclear fragmentation cross-sections requires the detection and identification of individual projectile fragments. If light and heavy fragments are recorded in the same detector, it may be impossible to distinguish the signal from the light fragment. To overcome this problem, we have developed the Zero-degree Detector System (ZDDS). The ZDDS enables the measurement of cross-sections for light fragment production by using pixelated detectors to separately measure the signals of each fragment. The system has been used to measure the fragmentation of beams as heavy as Fe at the NASA Space Radiation Laboratory at Brookhaven National Laboratory and the Heavy Ion Medical Accelerator in Chiba, Japan.

  6. Effects of ionization mode on charge-site-remote and related fragmentation reactions of long-chain quaternary ammonium ions.

    PubMed

    Seto, C; Grossert, J S; Waddell, D S; Curtis, J M; Boyd, R K

    2001-05-01

    Comparison of collisionally activated fragment spectra of long-chain quaternary ammonium ions, formed by liquid-assisted secondary ion mass spectrometry (LSIMS) and electrospray ionization (ESI), shows the latter are dominated by radical cations while the former yield mainly even-electron charge-site-remote (CSR) fragments, similar to the report for different precursors by Cheng et al., J. Am. Soc. Mass Spectrom. 1998, 9, 840. Here, mixed-site fragmentation products (formal loss of a radical directly bonded to the nitrogen plus a radical derived from the long chain) are of comparable importance for both ionization techniques. These observations are difficult to understand if the CSR ions are formed by a concerted rearrangement-elimination reaction, since precollision internal energies of the ESI ions are much lower than those of the ions from LSIMS. Alternatively, if one discards the concerted mechanism for high-energy CA, and assumes that the even-electron fragments are predominantly formed via homolytic bond cleavage, the colder radical cations from ESI survive to the detector while the more energized counterparts from LSIMS preferentially lose a hydrogen atom to yield the CSR ions, as proposed by Wysocki and Ross (Int. J. Mass Spectrom. Ion Processes 1991, 104, 179). The present work also attempts to reconcile discrepancies involving critical energies and known structures for neutral fragments. PMID:11349955

  7. Study of char gasification reactions

    SciTech Connect

    Ballal, G.D.

    1986-01-01

    A Texas lignite, an anthracite and two bituminous coals, Pittsburgh number8 and Illinois number6, were pyrolyzed in a nitrogen atmosphere to prepare chars. Optical microscopy, mercury porosimetry and gas adsorption techniques using nitrogen, CO/sub 2/ and CO, were employed for pore structure characterization. The lignite char exhibited the fastest rates of gaseous diffusion, followed in order of decreasing diffusivities by the Illinois number6, Pittsburgh number8 and anthracite chars. The changes in reactivities and pore structures of chars were measured experimentally during their reaction with oxygen (400-550C) and CO/sub 2/ (800-1000C). For a particular char-gas system, the normalized rate-conversion pattern was invariant with respect to temperature and gaseous concentration. In the case of lignite and Pittsburgh number8 chars, the rate-conversion pattern was similar during reaction with oxygen and CO/sub 2/. Adsorption experiments on partially reacted chars indicated that the micropores in the lignite char were accessible to both reactants. The micropores in the Illinois number6 char were, however, not accessible during its reaction with oxygen. The evolution of pore structure during reaction was modeled by using a probabilistic approach which accounts for overlapping pores with different shapes and sizes. The kinetics of gasification of the lignite and the Pittsburgh number8 chars was studied using a Langmuir-Hinshelwood type kinetic expression to correlate the experimental data. CO was found to inhibit the reaction substantially. The effect of a potassium carbonate catalyst on the reaction of these two chars was also investigated. Substantial increases in reaction rates were observed, and the enhancement was approximately proportional to the catalyst loading.

  8. Limits of a rapid identification of common Mediterranean sandflies using polymerase chain reaction-restriction fragment length polymorphism

    PubMed Central

    Bounamous, Azzedine; Lehrter, Véronique; Hadj-Henni, Leila; Delecolle, Jean-Claude; Depaquit, Jérôme

    2014-01-01

    A total of 131 phlebotomine Algerian sandflies have been processed in the present study. They belong to the species Phlebotomus bergeroti, Phlebotomus alexandri, Phlebotomus sergenti, Phlebotomus chabaudi, Phlebotomus riouxi, Phlebotomus perniciosus, Phlebotomus longicuspis, Phlebotomus perfiliewi, Phlebotomus ariasi, Phlebotomus chadlii, Sergentomyia fallax, Sergentomyia minuta, Sergentomyia antennata, Sergentomyia schwetzi, Sergentomyia clydei, Sergentomyia christophersi and Grassomyia dreyfussi. They have been characterised by sequencing of a part of the cytochrome b (cyt b), t RNA serine and NADH1 on the one hand and of the cytochrome C oxidase I of the mitochondrial DNA (mtDNA) on the other hand. Our study highlights two sympatric populations within P. sergenti in the area of its type-locality and new haplotypes of P. perniciosus and P. longicuspis without recording the specimens called lcx previously found in North Africa. We tried to use a polymerase chain reaction-restriction fragment length polymorphism method based on a combined double digestion of each marker. These method is not interesting to identify sandflies all over the Mediterranean Basin. PMID:24936911

  9. Limits of a rapid identification of common Mediterranean sandflies using polymerase chain reaction-restriction fragment length polymorphism.

    PubMed

    Bounamous, Azzedine; Lehrter, Véronique; Hadj-Henni, Leila; Delecolle, Jean-Claude; Depaquit, Jérôme

    2014-07-01

    A total of 131 phlebotomine Algerian sandflies have been processed in the present study. They belong to the species Phlebotomus bergeroti, Phlebotomus alexandri, Phlebotomus sergenti, Phlebotomus chabaudi, Phlebotomus riouxi, Phlebotomus perniciosus, Phlebotomus longicuspis, Phlebotomus perfiliewi, Phlebotomus ariasi, Phlebotomus chadlii, Sergentomyia fallax, Sergentomyia minuta, Sergentomyia antennata, Sergentomyia schwetzi, Sergentomyia clydei, Sergentomyia christophersi and Grassomyia dreyfussi. They have been characterised by sequencing of a part of the cytochrome b (cyt b), t RNA serine and NADH1 on the one hand and of the cytochrome C oxidase I of the mitochondrial DNA (mtDNA) on the other hand. Our study highlights two sympatric populations within P. sergenti in the area of its type-locality and new haplotypes of P. perniciosus and P. longicuspis without recording the specimens called lcx previously found in North Africa. We tried to use a polymerase chain reaction-restriction fragment length polymorphism method based on a combined double digestion of each marker. These method is not interesting to identify sandflies all over the Mediterranean Basin.

  10. Projectile-like fragments from {sup 129}Xe+{sup nat}Cu reactions at E/A = 40 MeV

    SciTech Connect

    Russ, D.E.; Mignerey, A.C.; Garcia-Solis, E.J.

    1996-02-01

    The bombarding of heavy nuclei with energetic heavy projectiles has been one of the most important experimental tools for nuclear science. At low beam energies, (E/A) beam <10 MeV, the reactions appear to be dominated by mean field consideration. At higher beam energies, (E/A) beams > 100 MeV, these mean field effects are less important and nucleon-nucleon interactions dominate. Within the intermediate energy region, the situation is less clear because of both the mean field and nucleon-nucleon effects contribute. There is no consensus on the theoretical treatment of nuclear reaction in the intermediate energy regime and statistical, dynamical, and hybrid models have been used with limited success. Previous studies of {sup 136}Xe + {sup 209}Bi at E/A = 28 MeV carried out at Michigan State University (MSU) have been well described by a damped reaction mechanism. On the other hand, {sup 129}Xe + {sup nat}Cu at E/A = 50 MeV also at MSU has been compared with a hybrid model with reasonable success. In order to see a transition from a damped reaction mechanism to more fragmentation-like processes, an experiment was carried out at MSU using {sup 129}Xe beams at E/A = 30, 40, 50, and 60 MeV. The targets were Cu, Sc, and Au. The current study only looks at the projectile-like fragments (PLF) detected in the Maryland Forward Array (MFA).

  11. Interfacial Reaction Studies Using ONIOM

    NASA Technical Reports Server (NTRS)

    Cardelino, Beatriz H.

    2003-01-01

    In this report, we focus on the calculations of the energetics and chemical kinetics of heterogeneous reactions for Organometallic vapor phase epitaxy (OMVPE). The work described in this report builds upon our own previous thermochemical and chemical kinetics studies. The first of these articles refers to the prediction of thermochemical properties, and the latter one deals with the prediction of rate constants for gaseous homolytic dissociation reactions. The calculations of this investigation are at the microscopic level. The systems chosen consisted of a gallium nitride (GaN) substrate, and molecular nitrogen (N2) and ammonia (NH3) as adsorbants. The energetics for the adsorption and the adsorbant dissociation processes were estimated, and reaction rate constants for the dissociation reactions of free and adsorbed molecules were predicted. The energetics for substrate decomposition was also computed. The ONIOM method, implemented in the Gaussian98 program, was used to perform the calculations. This approach has been selected since it allows dividing the system into two layers that can be treated at different levels of accuracy. The atoms of the substrate were modeled using molecular mechanics6 with universal force fields, whereas the adsorbed molecules were approximated using quantum mechanics, based on density functional theory methods with B3LYP functionals and 6-311G(d,p) basis sets. Calculations for the substrate were performed in slabs of several unit cells in each direction. The N2 and NH3 adsorbates were attached to a central location at the Ga-lined surface.

  12. Studies of complex fragment emission in heavy ion reactions

    SciTech Connect

    Charity, R.J.; Sobotka, L.G.

    1991-09-04

    This report discusses the following topics: High energy photon production in a HI collision; the mechanism for the disassembly of excited {sup 16}O projectiles into four alpha particles; the disassembly of excited {sup 28}Si projectiles; large pre-fission multiplicities from temperature; dependent friction and fission barriers; multiplicity correlations; molecular beam induced fusion; dwarf ball and wall; mini wall; and computer and local data acquisition systems.

  13. Polymerase chain reaction-restriction fragment length polymorphism method for differentiation of uropathogenic specific protein gene types.

    PubMed

    Lai, Yun Mei; Zaw, Myo Thura; Shamsudin, Shamsul Bahari; Lin, Zaw

    2016-08-01

    The putative pathogenicity island (PAI) containing the uropathogenic specific protein (usp) gene and three small open reading frames (orfU1, orfU2, and orfU3) encoding 98, 97, and 96 amino acid proteins is widely distributed among uropathogenic Escherichia coli (UPEC) strains. This PAI was designated as PAIusp. Sequencing analysis of PAIusp has revealed that the usp gene can be divided into two types - uspI and uspII - based on sequence variation at the 3' terminal region and the number and position of orfUs differ from strain to strain. Based on usp gene types and orfU sequential patterns, PAIusp can be divided into four subtypes. Subtyping of PAIusp is a useful method to characterize UPEC strains. In this study, we developed a polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) method to differentiate usp gene types. This method could correctly identify the usp gene type in usp-positive UPEC strains in our laboratory.

  14. Amplification refractory mutation system polymerase chain reaction versus optimized polymerase chain reaction restriction-fragment length polymorphism for apolipoprotein E genotyping of majorly depressed patients.

    PubMed

    You, Hongmin; Chen, Jin; Zhou, Jingjing; Huang, Hua; Pan, Junxi; Wang, Ziye; Lv, Lin; Zhang, Lujun; Li, Juan; Qin, Bin; Yang, Yongtao; Xie, Peng

    2015-11-01

    Major depressive disorder (MDD) is a prevalent, debilitating mood disorder that has been associated with several genetic polymorphisms. One such polymorphism, namely that of apolipoprotein E (APOE), has three allelic forms (ε2, ε3 and ε4) that encode for six unique isoforms of the APOE protein. A growing number of techniques have been developed for APOE genotyping; however, not all polymerase chain reaction (PCR)‑based genotyping techniques are equally accurate or cost‑effective. In order to find a more accurate and cost‑effective APOE genotyping method for MDD screening in large populations, the present study comparatively evaluated two genotyping methods, amplification refractory mutation system PCR (ARMS‑PCR) and optimized PCR restriction‑fragment length polymorphism (PCR‑RFLP), in blood samples taken from a population of 708 MDD patients. Although either of the two methods were able to detect all six unique APOE genotypes, comparisons of the two methods with Sanger sequencing demonstrated that ARMS‑PCR (94%) was significantly more accurate than optimized PCR‑RFLP (82%). ARMS‑PCR should prove useful in quickly verifying ambiguous results obtained by other APOE genotyping methods and can be cost-effectively performed in the setting of a small laboratory or a population-based screening program.

  15. Intraocular Lens Fragmentation Using Femtosecond Laser: An In Vitro Study

    PubMed Central

    Bala, Chandra; Shi, Jeffrey; Meades, Kerrie

    2015-01-01

    Purpose: To transect intraocular lenses (IOLs) using a femtosecond laser in cadaveric human eyes. To determine the optimal in vitro settings, to detect and characterize gasses or particles generated during this process. Methods: A femtosecond laser was used to transect hydrophobic and hydrophilic acrylic lenses. The settings required to enable easy separation of the lens fragment were determined. The gasses and particles generated were analysed using gas chromatography mass spectrometer (GC-MS) and total organic carbon analyzer (TOC), respectively. Results: In vitro the IOL fragments easily separated at the lowest commercially available energy setting of 1 μJ, 8-μm spot, and 2-μm line separation. No particles were detected in the 0.5- to 900-μm range. No significant gasses or other organic breakdown by products were detected at this setting. At much higher energy levels 12 μJ (4 × 6 μm spot and line separation) significant pyrolytic products were detected, which could be harmful to the eye. In cadaveric explanted IOL capsule complex the laser pulses could be applied through the capsule to the IOL and successfully fragment the IOL. Conclusion: IOL transection is feasible with femtosecond lasers. Further in vivo animal studies are required to confirm safety. Translational Relevance: In clinical practice there are a number of large intraocular lenses that can be difficult to explant. This in-vitro study examines the possibility of transecting the lasers quickly using femtosecond lasers. If in-vivo studies are successful, then this innovation could help ophthalmic surgeons in IOL explantation. PMID:26101721

  16. Energetics and dynamics of the fragmentation reactions of protonated peptides containing methionine sulfoxide or aspartic acid via energy- and time-resolved surface induced dissociation.

    PubMed

    Lioe, Hadi; Laskin, Julia; Reid, Gavin E; O'Hair, Richard A J

    2007-10-25

    The surface-induced dissociation (SID) of six model peptides containing either methionine sulfoxide or aspartic acid (GAILM(O)GAILR, GAILM(O)GAILK, GAILM(O)GAILA, GAILDGAILR, GAILDGAILK, and GAILDGAILA) have been studied using a specially configured Fourier transform ion-cyclotron resonance mass spectrometer (FT-ICR MS). In particular, we have investigated the energetics and dynamics associated with (i) preferential cleavage of the methionine sulfoxide side chain via the loss of CH3SOH (64 Da), and (ii) preferential cleavage of the amide bond C-terminal to aspartic acid. The role of proton mobility in these selective bond cleavage reactions was examined by changing the C-terminal residue of the peptide from arginine (nonmobile proton conditions) to lysine (partially mobile proton conditions) to alanine (mobile proton conditions). Time- and energy-resolved fragmentation efficiency curves (TFECs) reveal that selective cleavages due to the methionine sulfoxide and aspartic acid residues are characterized by slow fragmentation kinetics. RRKM modeling of the experimental data suggests that the slow kinetics is associated with large negative entropy effects and these may be due to the presence of rearrangements prior to fragmentation. It was found that the Arrhenius pre-exponential factor (A) for peptide fragmentations occurring via selective bond cleavages are 1-2 orders of magnitude lower than nonselective peptide fragmentation reactions, while the dissociation threshold (E0) is relatively invariant. This means that selective bond cleavage is kinetically disfavored compared to nonselective amide bond cleavage. It was also found that the energetics and dynamics for the preferential loss of CH3SOH from peptide ions containing methionine sulfoxide are very similar to selective C-terminal amide bond cleavage at the aspartic acid residue. These results suggest that while preferential cleavage can compete with amide bond cleavage energetically, dynamically, these processes

  17. Energetics and Dynamics of the Fragmentation Reactions of Protonated Peptides Containing Methionine Sulfoxide or Aspartic Acid via Energy- and Time-Resolved Surface Induced Dissociation

    SciTech Connect

    Lioe, Hadi; Laskin, Julia; Reid, Gavin E.; O'Hair, Richard Aj

    2007-10-25

    The surface-induced dissociation (SID) of six model peptides containing either methionine sulfoxide or aspartic acid (GAILM(O)GAILR, GAILM(O)GAILK, GAILM(O)GAILA, GAILDGAILR, GAILDGAILK, and GAILDGAILA) have been studied using a specially configured Fourier transform ion-cyclotron resonance mass spectrometer (FT-ICR MS). In particular, we have investigated the energetics and dynamics associated with (i) preferential cleavage of the methionine sulfoxide side chain via the loss of CH3SOH (64Da), and (ii) preferential cleavage of the amide bond C-terminal to aspartic acid. The role of proton mobility on these selective bond cleavage reactions was examined by changing the C-terminal residue of the peptide from arginine (non-mobile proton conditions) to lysine (partially-mobile proton conditions) to alanine (mobile proton conditions). Time- and energy-resolved fragmentation efficiency curves (TFEC) reveals that selective cleavages due to the methionine sulfoxide and aspartic acid residues are characterized by slow fragmentation kinetics. RRKM modeling of the experimental data suggests that the slow kinetics is associated with large negative entropy effects and these may be due to the presence of rearrangements prior to fragmentation. It was found that the Arrhenius pre-exponential factor (A) for peptide fragmentations occurring via selective bond cleavages are 1–2 orders of magnitude lower than non-selective peptide fragmentation reactions, while the dissociation threshold (E0) is relatively invariant. This means that selective bond cleavage is kinetically disfavored compared to non-selective amide bond cleavage. It was also found that the energetics and dynamics for the preferential loss of CH3SOH from peptide ions containing methionine sulfoxide are very similar to selective C-terminal amide bond cleavage at the aspartic acid residue. These results suggest that while preferential cleavage can compete with amide bond cleavage energetically, dynamically, these

  18. Study of transfer and breakup reactions with the plastic box

    SciTech Connect

    Stokstad, R.G.; Albiston, C.R.; Bantel, M.; Chan, Y.; Countryman, P.J.; Gazes, S.; Harvey, B.G.; Homeyer, H.; Murphy, M.J.; Tserruya, I.

    1984-12-01

    The study of transfer reactions with heavy-ion projectiles is complicated by the frequent presence of three or more nuclei in the final state. One prolific source of three-body reactions is the production of a primary ejectile in an excited state above a particle threshold. A subset of transfer reactions, viz., those producing ejectiles in bound states, can be identified experimentally. This has been accomplished with a 4..pi.. detector constructed of one-millimeter-thick scintillator paddles of dimension 20 cm x 20 cm. The paddles are arranged in the form of a cube centered around the target with small entrance and exit apertures for the beam and the projectile-like fragments, (PLF). The detection of a light particle (e.g., a proton or an alpha particle) in coincidence with a PLF indicates a breakup reaction. The absence of any such coincidence indicates a reaction in which all the charge lost by the projectile was transferred to the target. With this technique we have studied the transfer and breakup reactions induced by 220 and 341 MeV /sup 20/Ne ions on a gold target. Ejectiles from Li to Ne have been measured at several scattering angles. The absolute cross sections, angular distributions and energy spectra for the transfer and breakup reactions are presented. Relatively large cross sections are observed for the complete transfer of up to seven units of charge (i.e., a nitrogen nucleus). The relatively large probabilities for ejectiles to be produced in particle-bound states suggest that on the average, most of the excitation energy in a collision resides in the heavy fragment when mass is transferred from the lighter to the heavier fragment. The gross features and trends in the energy spectra for transfer and breakup reactions are similar. 20 references.

  19. Identification of blood meal sources of Lutzomyia longipalpis using polymerase chain reaction-restriction fragment length polymorphism analysis of the cytochrome B gene.

    PubMed

    Soares, Vítor Yamashiro Rocha; Silva, Jailthon Carlos da; Silva, Kleverton Ribeiro da; Pires e Cruz, Maria do Socorro; Santos, Marcos Pérsio Dantas; Ribolla, Paulo Eduardo Martins; Alonso, Diego Peres; Coelho, Luiz Felipe Leomil; Costa, Dorcas Lamounier; Costa, Carlos Henrique Nery

    2014-06-01

    An analysis of the dietary content of haematophagous insects can provide important information about the transmission networks of certain zoonoses. The present study evaluated the potential of polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) analysis of the mitochondrial cytochrome B (cytb) gene to differentiate between vertebrate species that were identified as possible sources of sandfly meals. The complete cytb gene sequences of 11 vertebrate species available in the National Center for Biotechnology Information database were digested with Aci I, Alu I, Hae III and Rsa I restriction enzymes in silico using Restriction Mapper software. The cytb gene fragment (358 bp) was amplified from tissue samples of vertebrate species and the dietary contents of sandflies and digested with restriction enzymes. Vertebrate species presented a restriction fragment profile that differed from that of other species, with the exception of Canis familiaris and Cerdocyon thous. The 358 bp fragment was identified in 76 sandflies. Of these, 10 were evaluated using the restriction enzymes and the food sources were predicted for four: Homo sapiens (1), Bos taurus (1) and Equus caballus (2). Thus, the PCR-RFLP technique could be a potential method for identifying the food sources of arthropods. However, some points must be clarified regarding the applicability of the method, such as the extent of DNA degradation through intestinal digestion, the potential for multiple sources of blood meals and the need for greater knowledge regarding intraspecific variations in mtDNA.

  20. Multi-Fragment Production in the 32S+58,64Ni Reactions at 11 A MeV

    NASA Astrophysics Data System (ADS)

    Gramegna, F.; Abbondanno, U.; Bonasera, A.; Bruno, M.; Casini, G.; Cavallaro, S.; Chiari, M.; D'Agostino, M.; Lanchais, A.; Margagliotti, G. V.; Mastinu, P. F.; Milazzo, P. M.; Moroni, A.; Nannini, A.; Ordine, A.; Ricci, R. A.; Tonetto, F.; Travaglini, L.; Vannini, G.; Vannucci, L.

    The characteristic features of the 32S+58,64Ni reaction at 11AMeV have been investigated to evidence the possible rise of multi-fragmentation processes at low excitation energies. The importance of such phenomena consists in the fact that they could represent the signature of a nuclear phase transition from a liquid to a gas region. Evidence of multi-fragment production is displayed by the present data; even if the yield of such events is compatible with the predictions of statistical models, the partition of the mass of the decaying system cannot be easily reproduced. Some preliminary indications of isospin effects are suggested by looking at the differences between the two reacting systems.

  1. Recent Direct Reaction Experimental Studies with Radioactive Tin Beams

    SciTech Connect

    Jones, K. L.; Ahn, S.; Allmond, J. M.; Ayres, A.; Bardayan, D. W.; Baugher, T.; Bazin, D.; Berryman, J. S.; Bey, A.; Bingham, C.; Cartegni, L.; Cerizza, G.; Chae, K. Y.; Cizewski, J. A.; Gade, A.; Galindo-Uribarri, A.; Garcia-Ruiz, R. F.; Grzywacz, R.; Howard, M. E.; Kozub, R. L.; Liang, J. F.; Manning, B.; Matoš, M.; McDaniel, S.; Miller, D.; Nesaraja, C. D.; O'Malley, P. D.; Padgett, S.; Padilla-Rodal, E.; Pain, S. D.; Pittman, S. T.; Radford, D. C.; Ratkiewicz, A.; Schmitt, K. T.; Shore, A.; Smith, M. S.; Stracener, D. W.; Stroberg, S. R.; Tostevin, J.; Varner, R. L.; Weisshaar, D.; Wimmer, K.; Winkler, R.

    2015-01-01

    Direct reaction techniques are powerful tools to study the single-particle nature of nuclei. Performing direct reactions on short-lived nuclei requires radioactive ion beams produced either via fragmentation or the Isotope Separation OnLine (ISOL) method. Some of the most interesting regions to study with direct reactions are close to the magic numbers where changes in shell structure can be tracked. These changes can impact the final abundances of explosive nucleosynthesis. The structure of the chain of tin isotopes is strongly influenced by the Z = 50 proton shell closure, as well as the neutron shell closures lying in the neutron-rich, N = 82, and neutron-deficient, N = 50, regions. Here, we present two examples of direct reactions on exotic tin isotopes. The first uses a one-neutron transfer reaction and a low-energy reaccelerated ISOL beam to study states in Sn-131 from across the N = 82 shell closure. The second example utilizes a one-neutron knockout reaction on fragmentation beams of neutron-deficient Sn-106,108Sn. In conclusion, In both cases, measurements of γ rays in coincidence with charged particles proved to be invaluable.

  2. Recent Direct Reaction Experimental Studies with Radioactive Tin Beams

    DOE PAGESBeta

    Jones, K. L.; Ahn, S.; Allmond, J. M.; Ayres, A.; Bardayan, D. W.; Baugher, T.; Bazin, D.; Berryman, J. S.; Bey, A.; Bingham, C.; et al

    2015-01-01

    Direct reaction techniques are powerful tools to study the single-particle nature of nuclei. Performing direct reactions on short-lived nuclei requires radioactive ion beams produced either via fragmentation or the Isotope Separation OnLine (ISOL) method. Some of the most interesting regions to study with direct reactions are close to the magic numbers where changes in shell structure can be tracked. These changes can impact the final abundances of explosive nucleosynthesis. The structure of the chain of tin isotopes is strongly influenced by the Z = 50 proton shell closure, as well as the neutron shell closures lying in the neutron-rich, Nmore » = 82, and neutron-deficient, N = 50, regions. Here, we present two examples of direct reactions on exotic tin isotopes. The first uses a one-neutron transfer reaction and a low-energy reaccelerated ISOL beam to study states in Sn-131 from across the N = 82 shell closure. The second example utilizes a one-neutron knockout reaction on fragmentation beams of neutron-deficient Sn-106,108Sn. In conclusion, In both cases, measurements of γ rays in coincidence with charged particles proved to be invaluable.« less

  3. The population of metastable states as a probe of relativistic-energy fragmentation reactions

    NASA Astrophysics Data System (ADS)

    Denis Bacelar, A. M.; Bruce, A. M.; Podolyák, Zs.; Al-Dahan, N.; Górska, M.; Lalkovski, S.; Pietri, S.; Ricciardi, M. V.; Algora, A.; Alkhomashi, N.; Benlliure, J.; Boutachkov, P.; Bracco, A.; Calore, E.; Casarejos, E.; Cullen, I. J.; Deo, A. Y.; Detistov, P.; Dombradi, Zs.; Domingo-Pardo, C.; Doncel, M.; Farinon, F.; Farrelly, G. F.; Geissel, H.; Gelletly, W.; Gerl, J.; Goel, N.; Grȩbosz, J.; Hoischen, R.; Kojouharov, I.; Kurz, N.; Leoni, S.; Molina, F.; Montanari, D.; Morales, A. I.; Musumarra, A.; Napoli, D. R.; Nicolini, R.; Nociforo, C.; Prochazka, A.; Prokopowicz, W.; Regan, P. H.; Rubio, B.; Rudolph, D.; Schmidt, K.-H.; Schaffner, H.; Steer, S. J.; Steiger, K.; Strmen, P.; Swan, T. P. D.; Szarka, I.; Valiente-Dobón, J. J.; Verma, S.; Walker, P. M.; Weick, H.; Wollersheim, H. J.

    2013-06-01

    Isomeric ratios have been measured for high-spin states in 198,200,206,208Po 84, 208,209,210,211At 85, 210,211,212,213,214Rn 86, 208,211,212,213,214Fr 87, 210,211,212,214,215Ra 88, and Ac21589 following the projectile fragmentation of a 1 A GeV 238U beam by a 9Be target at GSI Helmholtzzentrum für Schwerionenforschung. The fragments were separated in the fragment separator (FRS) and identified by means of energy loss and time-of-flight techniques. They were brought to rest at the centre of the RISING gamma-ray detector array and intensities of gamma rays emitted in the decay of isomeric states with half-lives between 100 ns and 40 μs and spin values up to 55 / 2 ℏ were used to obtain the corresponding isomeric ratios. The data are compared to theoretical isomeric ratios calculated in the framework of the abrasion-ablation model. Large experimental enhancements are obtained for high-spin isomers in comparison to expected values.

  4. Popping Balloons: A Case Study of Dynamical Fragmentation

    NASA Astrophysics Data System (ADS)

    Moulinet, Sébastien; Adda-Bedia, Mokhtar

    2015-10-01

    Understanding the physics of fragmentation is important in a wide range of industrial and geophysical applications. Fragmentation processes involve large strain rates and short time scales that take place during crack nucleation and propagation. Using rubber membranes, we develop an experimental analysis that enables us to track the fragmentation process in situ in both time and space. We find that bursting a highly stretched membrane yields a treelike fragmentation network that originates at a single seed crack, followed by successive crack tip-splitting events. We show that a dynamic instability drives this branching mechanism. Fragmentation occurs when the crack tip speed attains a critical velocity for which tip splitting becomes the sole available mechanism of releasing the stored elastic energy. Given the general character of the fragmentation processes, this framework should be applicable to other crack networks in brittle materials.

  5. Addition-fragmentation reaction of thionoesters compounds in free-radical polymerisation (methyl, cyanomethyl and styryl): a theoretical interpretation

    NASA Astrophysics Data System (ADS)

    Hannachi, Douniazed; Ouddai, Nadia; Arotçaréna, Michel; Chermette, Henry

    2015-07-01

    A joint experimental and theoretical study has been carried out on reversible addition-fragmentation chain transfer polymerisation (RAFT). We have performed density functional theory calculations at the (Perdew-Burke-Ernzerhof) PBE/triple zeta plus polarisation level to analyse the RAFT mechanisms corresponding to these compounds. Global and local reactivity indices have been calculated to investigate the effect of the addition of methyl, cyanomethyl and styryl radicals on the double bond C=S of thionoester compounds producing an adduct radical. This mechanism is shown to be difficult when the cyanomethyl is used contrarily to the methyl and styryl radicals, in agreement with experimental results. The activation barrier of fragmentation of adduct radicals does not correlate well with the length of fragmented bond (O-Cα). The bond topological analysis of radical adduct predicts that the distance between the oxygen and a critical point (O-CP) in the fragment bond is a good parameter to estimate the activation energy of the fragmentation mechanism. It is shown that the nature of the free radicals is more selective than that of the thionoester compounds. With an overall large agreement with experiments, these theoretical results afford an explanation of the efficiency for the RAFT mechanism.

  6. Studies of Fission Fragment Rocket Engine Propelled Spacecraft

    NASA Technical Reports Server (NTRS)

    Werka, Robert O.; Clark, Rodney; Sheldon, Rob; Percy, Thomas K.

    2014-01-01

    The NASA Office of Chief Technologist has funded from FY11 through FY14 successive studies of the physics, design, and spacecraft integration of a Fission Fragment Rocket Engine (FFRE) that directly converts the momentum of fission fragments continuously into spacecraft momentum at a theoretical specific impulse above one million seconds. While others have promised future propulsion advances if only you have the patience, the FFRE requires no waiting, no advances in physics and no advances in manufacturing processes. Such an engine unequivocally can create a new era of space exploration that can change spacecraft operation. The NIAC (NASA Institute for Advanced Concepts) Program Phase 1 study of FY11 first investigated how the revolutionary FFRE technology could be integrated into an advanced spacecraft. The FFRE combines existent technologies of low density fissioning dust trapped electrostatically and high field strength superconducting magnets for beam management. By organizing the nuclear core material to permit sufficient mean free path for escape of the fission fragments and by collimating the beam, this study showed the FFRE could convert nuclear power to thrust directly and efficiently at a delivered specific impulse of 527,000 seconds. The FY13 study showed that, without increasing the reactor power, adding a neutral gas to the fission fragment beam significantly increased the FFRE thrust through in a manner analogous to a jet engine afterburner. This frictional interaction of gas and beam resulted in an engine that continuously produced 1000 pound force of thrust at a delivered impulse of 32,000 seconds, thereby reducing the currently studied DRM 5 round trip mission to Mars from 3 years to 260 days. By decreasing the gas addition, this same engine can be tailored for much lower thrust at much higher impulse to match missions to more distant destinations. These studies created host spacecraft concepts configured for manned round trip journeys. While the

  7. Rapid detection of clarithromycin resistant Helicobacter pylori strains in Spanish patients by polymerase chain reaction-restriction fragment length polymorphism

    PubMed Central

    Agudo, Sonia; Pérez-Pérez, Guillermo; Alarcón, Teresa; López-Brea, Manuel

    2014-01-01

    Introduction The aim of this study was to characterize the mutations types present in the 23S rRNA gene related to H. pylori clarithromycin-resistance strains in Spain and evaluate a novel PCR-RFLP method for detection of the most frequent point mutation in our population. Methods Gastric biopsies were obtained by endoscopy from patients with gastric symptoms. H. pylori was cultured according to standard microbiological procedures and clarithromycin resistance was determined by E-test. DNA extraction was performed by NucliSens platform with the NucliSens magnetic extraction reagents (bioMérieux) according to the manufacturer instructions. Analyses for point mutations in 23S rRNA gene strains were performed by sequence analysis of amplified polymerase chain reaction products. Restriction fragment length polymorphism was performed using BsaI enzyme to detect restriction sites that correspond to the mutation (A2143G). Result We found 42 out of 118 (35.6%) strains resistant to clarithromycin by E-test. E-test results were confirmed for the presence of point mutation in 34 (88.1%) of these strains. Mutation A2143G was found in 85.3% of the strains. Analyses with the restriction enzyme BsaI was able to confirm the presence of A2143G mutation. There were 8 H. pylori strains resistant to clarithromycin by E-test but without any point mutation in the 23 rRNA gene. Conclusion We conclude that PCR-RFLP is a reliable method to detect clarithromycin-resistance H. pylori strains in countries with a high prevalence of clarithromycin-resistance as Spain It may be useful before choosing regimens of H. pylori eradication. PMID:21412667

  8. Study of Shape Isomeric States in Fission Fragments

    NASA Astrophysics Data System (ADS)

    Pyatkov, Yu. V.; Kamanin, D. V.; Alexandrov, A. A.; Alexandrova, I. A.; Kondtatyev, N. A.; Kuznetsova, , E. A.; Strekalovsky, A. O.; Strekalovsky, O. V.; Zhuchko, V. E.; Mkaza, N.

    2015-06-01

    For the first time the brake-up of the fission fragments crossing metal foil was observed. The effect takes place predominantly in front impacts. To treat the data we suppose the bulk of the fragments from the conventional binary fission to be borne in shape-isomer states which look like di-nuclear systems with magic cores.

  9. Molecular variation analysis of Aspergillus flavus using polymerase chain reaction-restriction fragment length polymorphism of the internal transcribed spacer rDNA region

    PubMed Central

    Zarrin, Majid; Erfaninejad, Maryam

    2016-01-01

    Aspergillus flavus is the second most common disease-causing species of Aspergillus in humans. The fungus is frequently associated with life-threatening infections in immunocompromised hosts. The primary aim of the present study was to analyze the genetic variability among different isolates of A. flavus using polymerase chain reaction (PCR)-based restriction fragment length polymorphism (RFLP). A total of 62 A. flavus isolates were tested in the study. Molecular variability was searched for by analysis of the PCR amplification of the internal transcribed spacer (ITS) regions of ribosomal DNA using restriction enzymes. PCR using primers for ITS1 and ITS4 resulted in a product of ~600 bp. Amplicons were subjected to digestion with restriction endonucleases EcoRI, HaeIII and TaqI. Digestion of the PCR products using these restriction enzymes produced different patterns of fragments among the isolates, with different sizes and numbers of fragments, revealing genetic variability. In conclusion, ITS-RFLP is a useful molecular tool in screening for nucleotide polymorphisms among A. flavus isolates. PMID:27588085

  10. DNA fragmentation induced by ionizing radiation - Atomic Force Microscopy study .

    NASA Astrophysics Data System (ADS)

    Gudowska-Nowak, E.; Psonka, K.; Elsaesser, Th.; Brons, S.; Taucher-Scholz, G.

    DNA as a carrier of genetic information is considered to be the critical target for radiation induced damage Especially severe are DNA double-strand breaks DSBs formed when breaks occur in both strands of the molecule The DSBs production is determined by the spatial distribution of ionization events dependent on the physical properties of the energy deposition and the chemical environment of the DNA According to theoretical predictions high LET charged particle radiation induces lesions in close proximity forming so called clustered damage in the DNA Atomic Force Microscopy AFM was newly established as a technique allowing the direct visualization of DNA fragments resulting from DSBs induced in small DNA molecules plasmids by ionizing radiation We have used AFM to visualize the DNA fragmentation induced by heavy ions high LET radiation and to compare it to the fragmentation pattern obtained after X-rays low LET radiation Plasmid supercoiled DNA was irradiated in vitro with X-rays and 3 9 MeV u Ni ions within a dose range 0 -- 3000 Gy Afterwards the samples were analyzed using AFM which allowed the detection and length measurement of individual fragments with a nanometer resolution Recording of the length of the induced fragments allowed to distinguish between molecules broken by a single DSB or by multiple DSBs The fragment length distributions were derived for different doses and different radiation qualities The first results of the measurement of radiation-induced DNA fragmentation show an influence of radiation quality on

  11. Calmodulin Polymerase Chain Reaction-Restriction Fragment Length Polymorphism for Leishmania Identification and Typing.

    PubMed

    Miranda, Aracelis; Samudio, Franklyn; González, Kadir; Saldaña, Azael; Brandão, Adeilton; Calzada, Jose E

    2016-08-01

    A precise identification of Leishmania species involved in human infections has epidemiological and clinical importance. Herein, we describe a preliminary validation of a restriction fragment length polymorphism assay, based on the calmodulin intergenic spacer region, as a tool for detecting and typing Leishmania species. After calmodulin amplification, the enzyme HaeIII yielded a clear distinction between reference strains of Leishmania mexicana, Leishmania amazonensis, Leishmania infantum, Leishmania lainsoni, and the rest of the Viannia reference species analyzed. The closely related Viannia species: Leishmania braziliensis, Leishmania panamensis, and Leishmania guyanensis, are separated in a subsequent digestion step with different restriction enzymes. We have developed a more accessible molecular protocol for Leishmania identification/typing based on the exploitation of part of the calmodulin gene. This methodology has the potential to become an additional tool for Leishmania species characterization and taxonomy.

  12. Sensitivity studies of spin cut-off models on fission fragment observables

    NASA Astrophysics Data System (ADS)

    Thulliez, L.; Litaize, O.; Serot, O.

    2016-03-01

    A fission fragment de-excitation code, FIFRELIN, is being developed at CEA Cadarache. It allows probing the characteristics of the prompt emitted particles, neutrons and gammas, during the de-excitation process of fully accelerated fission fragments. The knowledge of the initial states of the fragments is important to accurately reproduce the fission fragment observables. In this paper a sensitivity study of various spin cut-off models, completely defining the initial fission fragment angular momentum distribution has been performed. This study shows that the choice of the model has a significant impact on gamma observables such as spectrum and multiplicity and almost none on the neutron observables.

  13. Nuclear Structure and Reaction Mechanism Studies with Multinucleon Reactions

    SciTech Connect

    Regan, P. H.; Jones, G. A.; Podolyak, Zs.; Abdullah, M.; Gelletly, W.; Langdown, S. D.; Wollel, G.; De Angelis, G.; Gadea, A.; Kroell, Th.; Marginean, N.; Martinez, T.; Napoli, D. R.; Rusu, C.; Tonev, D.; Zhang, Y. H.; Ur, C. A.; Axiotis, M.; Bazzacco, D.; Farnea, E.

    2006-08-14

    This contribution reports on the results of an experiment to study the near-yrast states in selenium- and osmium-like nuclei, following their population in thick-target, multinucleon transfer reactions between an 82Se beam and a 192Os target. The experimental results for the level scheme for 84Se are presented together with investigations into the use of multi-dimensional gamma-ray energy gating to investigate angular momentum population in such heavy-ion binary reactions.

  14. Role of angular momentum in the production of complex fragments in fusion and quasifission reactions

    SciTech Connect

    Kalandarov, Sh. A.; Adamian, G. G.; Antonenko, N. V.; Scheid, W.

    2011-05-15

    The influence of angular momentum on the competition between complete fusion followed by the decay of compound nucleus and quasifission channels is treated within the dinuclear system model. The charge distributions of the products in the reactions {sup 28}Si+{sup 96}Zr, {sup 4}He+{sup 130}Te, and {sup 40}Ca+{sup 82}Kr are predicted at bombarding energies above the Coulomb barrier. The results of calculations for the reactions {sup 93}Nb+{sup 9}Be,{sup 12}C,{sup 27}Al; {sup 84}Kr+{sup 27}Al; {sup 86}Kr+{sup 63}Cu; {sup 139}La+{sup 12}C,{sup 27}Al; and {sup 45}Sc+{sup 65}Cu are compared with the available experimental data.

  15. New Approach for Studying Slow Fragmentation Kinetics in FT-ICR: Surface-Induced Dissociation Combined with Resonant Ejection

    SciTech Connect

    Laskin, Julia; Futrell, Jean H.

    2015-02-01

    We introduce a new approach for studying the kinetics of large ion fragmentation in the gas phase by coupling surface-induced dissociation (SID) in a Fourier transform ion cyclotron resonance mass spectrometer with resonant ejection of selected fragment ions using a relatively short (5 ms) ejection pulse. The approach is demonstrated for singly protonated angiotensin III ions excited by collisions with a self-assembled monolayer of alkylthiol on gold (HSAM). The overall decomposition rate and rate constants of individual reaction channels are controlled by varying the kinetic energy of the precursor ion in a range of 65–95 eV. The kinetics of peptide fragmentation are probed by varying the delay time between resonant ejection and fragment ion detection at a constant total reaction time. RRKM modeling indicates that the shape of the kinetics plots is strongly affected by the shape and position of the energy deposition function (EDF) describing the internal energy distribution of the ion following ion-surface collision. Modeling of the kinetics data provides detailed information on the shape of the EDF and energy and entropy effects of individual reaction channels.

  16. Experimental Study of Serpentinization Reactions

    NASA Technical Reports Server (NTRS)

    Cohen, B. A.; Brearley, A. J.; Ganguly, J.; Liermann, H.-P.; Keil, K.

    2004-01-01

    Current carbonaceous chondrite parent-body thermal models [1-3] produce scenarios that are inconsistent with constraints on aqueous alteration conditions based on meteorite mineralogical evidence, such as phase stability relationships within the meteorite matrix minerals [4] and isotope equilibration arguments [5, 6]. This discrepancy arises principally because of the thermal runaway effect produced by silicate hydration reactions (here loosely called serpentinization, as the principal products are serpentine minerals), which are so exothermic as to produce more than enough heat to melt more ice and provide a self-sustaining chain reaction. One possible way to dissipate the heat of reaction is to use a very small parent body [e.g., 2] or possibly a rubble pile model. Another possibility is to release this heat more slowly, which depends on the alteration reaction path and kinetics.

  17. Fragmented proteins as food emulsion stabilizers: A theoretical study.

    PubMed

    Ettelaie, Rammile; Zengin, Adem; Lee, Hazel

    2014-09-01

    Using a model based on the primary structure of αs1 -casein, the colloid stabilizing ability of fragmented protein and that of the intact chains are compared. We perform self consistent field (SCF) calculations to obtain the induced interaction potentials between the oil droplets, resulting from the overlap of adsorbed protein layers in each case. For the intact αs1 -casein, we confirm the known result, that the mediated interparticle interaction potential develops a deep attractive energy minimum at high salt concentrations and pH values close to the isoelectric point of the protein. The same does not occur for the appropriately fragmented systems, with improved emulsion stability predicted as a result, even at pH values close to pI. It is shown that this superior performance, for the case considered, is due to the diblock-type behavior of one of the fragments. However, it is well known that αs1 -casein more closely resembles the less favorable triblock structure. However, it is also demonstrated that the presence of a "diblock" like fragment by itself may not always be enough to produce a better emulsion stabilizer. It is seen that the hydrolysis of some peptide bonds may indeed lead to a suitable polypeptide, but that this is displaced from the interface by the structurally less desirable ones, also generated by the fragmentation process. The displacement occurs due to the competitive adsorption between different fragments. The removal of the undesirable fragments from the solution is found to greatly enhance the predicted colloid stabilizing ability of the remaining polypeptide.

  18. Experimental and numerical studies of high-velocity impact fragmentation

    SciTech Connect

    Kipp, M.E.; Grady, D.E.; Swegle, J.W.

    1993-08-01

    Developments are reported in both experimental and numerical capabilities for characterizing the debris spray produced in penetration events. We have performed a series of high-velocity experiments specifically designed to examine the fragmentation of the projectile during impact. High-strength, well-characterized steel spheres (6.35 mm diameter) were launched with a two-stage light-gas gun to velocities in the range of 3 to 5 km/s. Normal impact with PMMA plates, thicknesses of 0.6 to 11 mm, applied impulsive loads of various amplitudes and durations to the steel sphere. Multiple flash radiography diagnostics and recovery techniques were used to assess size, velocity, trajectory and statistics of the impact-induced fragment debris. Damage modes to the primary target plate (plastic) and to a secondary target plate (aluminum) were also evaluated. Dynamic fragmentation theories, based on energy-balance principles, were used to evaluate local material deformation and fracture state information from CTH, a three-dimensional Eulerian solid dynamics shock wave propagation code. The local fragment characterization of the material defines a weighted fragment size distribution, and the sum of these distributions provides a composite particle size distribution for the steel sphere. The calculated axial and radial velocity changes agree well with experimental data, and the calculated fragment sizes are in qualitative agreement with the radiographic data. A secondary effort involved the experimental and computational analyses of normal and oblique copper ball impacts on steel target plates. High-resolution radiography and witness plate diagnostics provided impact motion and statistical fragment size data. CTH simulations were performed to test computational models and numerical methods.

  19. Identification of roots of woody species using polymerase chain reaction (PCR) and restriction fragment length polymorphism (RFLP) analysis

    PubMed

    Bobowski; Hole; Wolf; Bryant

    1999-03-01

    Within the last two decades, substantial progress has been made in understanding seed-bank dynamics and the contribution of the soil seed bank to a postdisturbance plant community. There has been relatively little progress, however, in understanding perennial bud-bank dynamics and the contribution of the soil bud bank to secondary succession. This lack of information is due primarily to the inability to reliably identify roots, rhizomes and lignotubers that lie dormant beneath the soil surface. This investigation addressed the issue of identification of below-ground woody structures. The first objective was to develop a method that used molecular tools to identify woody plant species from subsoil tissue samples. The second objective was to develop a key in which molecular markers served as criteria for the identification and differentiation of selected tree and shrub species common to the mountains of northeast Oregon and southeast Washington. Application of restriction fragment length polymorphism (RFLP) analysis of polymerase chain reaction (PCR)-amplified rbcL appears to be a reliable method to identify and differentiate 15 plants to the genus level. Two restriction enzymes, DpnII and HhaI, provided restriction site polymorphisms in the PCR product. The fragment number and length were used to develop an identification key. However, plants not analysed in this 'exploratory key' might share the same banding patterns, resulting in a false identification of unknowns. PMID:10199009

  20. Leishmania spp. identification by polymerase chain reaction-restriction fragment length polymorphism analysis and its applications in French Guiana.

    PubMed

    Simon, Stéphane; Veron, Vincent; Carme, Bernard

    2010-02-01

    Leishmania (Viannia) guyanensis was for many years the only species commonly identified in French Guiana, but precise species identifications were quite rare. We describe a new restriction fragment length polymorphism-polymerase chain reaction technique using a 615-bp fragment of the RNA polymerase II gene and 2 restriction enzymes, TspRI and HgaI. Seven reference strains (Leishmania (Leishmania) amazonensis, Leishmania (Viannia) lainsoni, Leishmania (Viannia) braziliensis, L. (V.) guyanensis, Leishmania (Viannia) naiffi, Leishmania (Leishmania) major, Leishmania (Leishmania) infantum) and 112 clinical samples from positive lesions were used for the development of the technique. The rates of positive species identification were 85.7% for punch skin biopsy specimens, 93.1% for positive Giemsa-stained smears, and 100% for positive culture supernatants. In the framework of cutaneous leishmaniasis species surveillance for the 2006 to 2008 period, parasite identification was carried out for 199 samples from different patients. The prevalence of the various Leishmania spp. was 84.4% for L. (V.) guyanensis, 8.0% for L. (V.) braziliensis, 5.0% for L. (L.) amazonensis, and 2.6% for L. (V.) lainsoni. L. (V.) braziliensis seems to be locally an emerging pathogen.

  1. Fission and binary fragmentation reactions in {sup 80}Se+{sup 208}Pb and {sup 80}Se+{sup 232}Th systems

    SciTech Connect

    Thomas, R. G.; Saxena, A.; Sahu, P. K.; Kailas, S.; Kapoor, S. S.; Choudhury, R. K.; Govil, I. M.; Barbui, M.; Cinausero, M.; Prete, G.; Rizzi, V.; Fabris, D.; Lunardon, M.; Moretto, S.; Viesti, G.; Nebbia, G.; Pesente, S.; Dalena, B.; D'Erasmo, G.; Fiore, E. M.

    2007-02-15

    Fission and binary fragmentation of the excited nuclear systems of Z=116 and 124 were investigated using the reactions induced by {sup 80}Se beams on {sup 208}Pb and {sup 232}Th targets at bombarding energies ranging from 470 to 630 MeV. The mass and kinetic energy of the binary reaction products were reconstructed by measuring their velocities by the time-of-flight method and the angles of emission using multiwire proportional chambers. Total neutron multiplicities were measured in coincidence with the fragments, using an array of neutron detectors. The fragment mass-energy correlation was studied for the two systems. The average total kinetic energy (TKE) of fragments for the {sup 80}Se+{sup 208}Pb system agrees with earlier measurements and with Viola's systematics in the mass symmetric region for compound nucleus fission, whereas for the {sup 80}Se+{sup 232}Th system, the TKE values are significantly lower. This is also consistent with higher values of total neutron multiplicities observed for the case of {sup 80}Se+{sup 232}Th at comparable available energies. From an extrapolation of the measured total neutron multiplicities for the mass symmetric region to zero compound nucleus excitation energy, the average number of prompt neutrons expected to be emitted in the spontaneous fission of the superheavy Z=116 has been estimated to be {nu}{sub tot}{sup sf}=10{+-}2, which is consistent with the value derived for the same compound nucleus populated in the {sup 56}Fe+{sup 232}Th reaction in an earlier work. In the case of the {sup 80}Se+{sup 232}Th system, similar analysis was carried out by taking the average TKE from Viola's systematics for estimating the available energy for particle emission corresponding to compound nucleus fission. In this way, by extrapolating the observed neutron multiplicities to zero compound nucleus excitation energy, a value of {nu}{sub tot}{sup sf}=15{+-}2 was obtained for the spontaneous fission of the superheavy Z=124 nucleus. The

  2. Studies toward the Total Synthesis of Dihydrolycolucine. Preparation of AB and CEF Ring Fragments

    PubMed Central

    2015-01-01

    A strategy for the synthesis of the lycopodium alkaloid dihydrolycolucine (1) has been investigated. Synthetic routes were developed based on N-acylpyridinium salt chemistry to prepare target fragments 3 and 4 that could ultimately converge to the natural product. Key reactions include IMDA cycloadditions and retro-Mannich ring-openings to form both the AB and the EF ring fragments. The ring C precursor was prepared using pyridine substitution and directed lithiation chemistry. A Suzuki cross-coupling of rings C and EF led to the CEF ring fragment. Initial attempts at closure of the seven-membered D ring were unsuccessful. PMID:24841361

  3. Mass and charge distributions in iron-induced reactions and excitation energy division between the fragments of the 672-MeV [sup 56]Fe + [sup 165]Ho reaction

    SciTech Connect

    Madani, H.

    1993-01-01

    The projectile-like and target-like fragments produced by the 12-MeV/nucleon [sup 56]Fe + [sup 165]Ho reaction were detected in coincidence. The measured parameters were the mass, charge, kinetic energy scattering angle of the projectile-like fragments, and the scattering angle of the target-like fragments. The mass and charge distributions of the projectile-like fragments were generated as a function of energy loss, and characterized by their centroids, variances, and correlation coefficients. The neutron drift of the measured projectile-like products is mostly due to evaporative processes, while the charge drift is a result of a net transfer of protons from the projectile-like fragment to the target-like fragment. The result is a weak drift of the system towards mass asymmetry. The predictions of two nucleon exchange models are compared to the experimental results of the 672-MeV [sup 56]Fe + [sup 165]Ho reaction and other Fe-induced reactions. The fairly good agreement between the experimental and theoretical variances verifies the prevalence of a nucleon exchange mechanism in these reactions. The information from the coincidence measurement and two-body kinematics are used to reconstruct the pre-evaporation masses of the projectile-like and target-like fragments of the reaction. Statistical evaporation calculations are used to translate these masses into excitation energies of the primary fragments. The ratio of excitation energy stored in the projectile-Mm fragment decreases with increasing energy loss, in qualitative agreement with previous measurements; however, higher ratios are observed for the 672-MeV [sup 56]Fe on [sup 165]Ho system.

  4. Mass and charge distributions in iron-induced reactions and excitation energy division between the fragments of the 672-MeV {sup 56}Fe + {sup 165}Ho reaction

    SciTech Connect

    Madani, H.

    1993-05-01

    The projectile-like and target-like fragments produced by the 12-MeV/nucleon {sup 56}Fe + {sup 165}Ho reaction were detected in coincidence. The measured parameters were the mass, charge, kinetic energy scattering angle of the projectile-like fragments, and the scattering angle of the target-like fragments. The mass and charge distributions of the projectile-like fragments were generated as a function of energy loss, and characterized by their centroids, variances, and correlation coefficients. The neutron drift of the measured projectile-like products is mostly due to evaporative processes, while the charge drift is a result of a net transfer of protons from the projectile-like fragment to the target-like fragment. The result is a weak drift of the system towards mass asymmetry. The predictions of two nucleon exchange models are compared to the experimental results of the 672-MeV {sup 56}Fe + {sup 165}Ho reaction and other Fe-induced reactions. The fairly good agreement between the experimental and theoretical variances verifies the prevalence of a nucleon exchange mechanism in these reactions. The information from the coincidence measurement and two-body kinematics are used to reconstruct the pre-evaporation masses of the projectile-like and target-like fragments of the reaction. Statistical evaporation calculations are used to translate these masses into excitation energies of the primary fragments. The ratio of excitation energy stored in the projectile-Mm fragment decreases with increasing energy loss, in qualitative agreement with previous measurements; however, higher ratios are observed for the 672-MeV {sup 56}Fe on {sup 165}Ho system.

  5. DNA fragment length polymorphism analysis of Mycobacterium tuberculosis isolates by arbitrarily primed polymerase chain reaction.

    PubMed

    Palittapongarnpim, P; Chomyc, S; Fanning, A; Kunimoto, D

    1993-04-01

    Strain identification of Mycobacterium tuberculosis would prove whether transmission had occurred between individuals. A method to characterize strains of M. tuberculosis has been developed utilizing polymerase chain reaction (PCR). Purified chromosomal DNA of cultured clinical samples of M. tuberculosis were subjected to PCR using short (10-12 nucleotide) oligonucleotide primers. PCR products visualized after agarose gel electrophoresis and ethidium bromide staining demonstrated that different strains of M. tuberculosis give different banding patterns. This technique was used to confirm the relationship between cases of tuberculosis in several clusters, prove the lack of relationship between 2 isolates with the same antibiotic-resistance pattern, confirm a suspected mislabeling event, and suggest the source of infection in a case of tuberculous meningitis. This method is rapid and simple and does not require radioactive probes.

  6. Kinetic studies of elementary chemical reactions

    SciTech Connect

    Durant, J.L. Jr.

    1993-12-01

    This program concerning kinetic studies of elementary chemical reactions is presently focussed on understanding reactions of NH{sub x} species. To reach this goal, the author is pursuing experimental studies of reaction rate coefficients and product branching fractions as well as using electronic structure calculations to calculate transition state properties and reaction rate calculations to relate these properties to predicted kinetic behavior. The synergy existing between the experimental and theoretical studies allow one to gain a deeper insight into more complex elementary reactions.

  7. Effects of forest fragmentation on nocturnal Asian birds: A case study from Xishuangbanna, China.

    PubMed

    K Dayananda, Salindra; Goodale, Eben; Lee, Myung-Bok; Liu, Jia-Jia; Mammides, Christos; O Pasion, Bonifacio; Quan, Rui-Chang; W Ferry Slik, J; Sreekar, Rachakonda; W Tomlinson, Kyle; Yasuda, Mika

    2016-05-18

    Owls have the potential to be keystone species for conservation in fragmented landscapes, as the absence of these predators could profoundly change community structure. Yet few studies have examined how whole communities of owls respond to fragmentation, especially in the tropics. When evaluating the effect of factors related to fragmentation, such as fragment area and distance to the edge, on these birds, it is also important in heterogeneous landscapes to ask how 'location factors' such as the topography, vegetation and soil of the fragment predict their persistence. In Xishuangbanna, southwest China, we established 43 transects (200 m×60 m) within 20 forest fragments to sample nocturnal birds, both visually and aurally. We used a multimodel inference approach to identify the factors that influence owl species richness, and generalized linear mixed models to predict the occurrence probabilities of each species. We found that fragmentation factors dominated location factors, with larger fragments having more species, and four of eight species were significantly more likely to occur in large fragments. Given the potential importance of these birds on regulating small mammal and other animal populations, and thus indirectly affecting seed dispersal, we suggest further protection of large fragments and programs to increase their connectivity to the remaining smaller fragments.

  8. Effects of forest fragmentation on nocturnal Asian birds: A case study from Xishuangbanna, China

    PubMed Central

    DAYANANDA, Salindra K.; GOODALE, Eben; LEE, Myung-bok; LIU, Jia-Jia; MAMMIDES, Christos; PASION, Bonifacio O.; QUAN, Rui-Chang; SLIK, J. W. Ferry; SREEKAR, Rachakonda; TOMLINSON, Kyle W.; YASUDA, Mika

    2016-01-01

    Owls have the potential to be keystone species for conservation in fragmented landscapes, as the absence of these predators could profoundly change community structure. Yet few studies have examined how whole communities of owls respond to fragmentation, especially in the tropics. When evaluating the effect of factors related to fragmentation, such as fragment area and distance to the edge, on these birds, it is also important in heterogeneous landscapes to ask how ‘location factors’ such as the topography, vegetation and soil of the fragment predict their persistence. In Xishuangbanna, southwest China, we established 43 transects (200 m×60 m) within 20 forest fragments to sample nocturnal birds, both visually and aurally. We used a multimodel inference approach to identify the factors that influence owl species richness, and generalized linear mixed models to predict the occurrence probabilities of each species. We found that fragmentation factors dominated location factors, with larger fragments having more species, and four of eight species were significantly more likely to occur in large fragments. Given the potential importance of these birds on regulating small mammal and other animal populations, and thus indirectly affecting seed dispersal, we suggest further protection of large fragments and programs to increase their connectivity to the remaining smaller fragments. PMID:27265653

  9. Effects of forest fragmentation on nocturnal Asian birds: A case study from Xishuangbanna, China.

    PubMed

    K Dayananda, Salindra; Goodale, Eben; Lee, Myung-Bok; Liu, Jia-Jia; Mammides, Christos; O Pasion, Bonifacio; Quan, Rui-Chang; W Ferry Slik, J; Sreekar, Rachakonda; W Tomlinson, Kyle; Yasuda, Mika

    2016-05-18

    Owls have the potential to be keystone species for conservation in fragmented landscapes, as the absence of these predators could profoundly change community structure. Yet few studies have examined how whole communities of owls respond to fragmentation, especially in the tropics. When evaluating the effect of factors related to fragmentation, such as fragment area and distance to the edge, on these birds, it is also important in heterogeneous landscapes to ask how 'location factors' such as the topography, vegetation and soil of the fragment predict their persistence. In Xishuangbanna, southwest China, we established 43 transects (200 m×60 m) within 20 forest fragments to sample nocturnal birds, both visually and aurally. We used a multimodel inference approach to identify the factors that influence owl species richness, and generalized linear mixed models to predict the occurrence probabilities of each species. We found that fragmentation factors dominated location factors, with larger fragments having more species, and four of eight species were significantly more likely to occur in large fragments. Given the potential importance of these birds on regulating small mammal and other animal populations, and thus indirectly affecting seed dispersal, we suggest further protection of large fragments and programs to increase their connectivity to the remaining smaller fragments. PMID:27265653

  10. [Application of polymerase chain reaction-restriction fragment length polymorphism and lab-on-a-chip technology to the identification of fish species from Bohai Bay].

    PubMed

    Li, Xiao; Qu, Yanyan; Zhang, Piqiao; Zhang, Jin; Zhang, Lihua; Huang, Daliang; Zhang, Yukui

    2011-07-01

    Nine representative fish species from Bohai Bay were identified by polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) and lab-on-a-chip technology. The nine fish species were Pseudosciaena polyactis, Lateolabrax japonicus, Scomberomorus niphonius, Pneumatophorus japonicus, Pseudopleuronectes yokohamae, Collichthys lucidus, Sebastes schlegeli, Cleisthenes herzensteini and Saurida elongata. The 464 bp fragment of mitochondrial cytochrome b gene was amplified and further digested by Dde I , Hae III and Nla III. The digested DNA fragments were analyzed by microfluidic capillary electrophoresis. The nine fish species were fully discriminated. The results demonstrated that the proposed method is efficient, precise and fast in fish species identification.

  11. Rational Design of High-Number dsDNA Fragments Based on Thermodynamics for the Construction of Full-Length Genes in a Single Reaction.

    PubMed

    Birla, Bhagyashree S; Chou, Hui-Hsien

    2015-01-01

    Gene synthesis is frequently used in modern molecular biology research either to create novel genes or to obtain natural genes when the synthesis approach is more flexible and reliable than cloning. DNA chemical synthesis has limits on both its length and yield, thus full-length genes have to be hierarchically constructed from synthesized DNA fragments. Gibson Assembly and its derivatives are the simplest methods to assemble multiple double-stranded DNA fragments. Currently, up to 12 dsDNA fragments can be assembled at once with Gibson Assembly according to its vendor. In practice, the number of dsDNA fragments that can be assembled in a single reaction are much lower. We have developed a rational design method for gene construction that allows high-number dsDNA fragments to be assembled into full-length genes in a single reaction. Using this new design method and a modified version of the Gibson Assembly protocol, we have assembled 3 different genes from up to 45 dsDNA fragments at once. Our design method uses the thermodynamic analysis software Picky that identifies all unique junctions in a gene where consecutive DNA fragments are specifically made to connect to each other. Our novel method is generally applicable to most gene sequences, and can improve both the efficiency and cost of gene assembly.

  12. Rational Design of High-Number dsDNA Fragments Based on Thermodynamics for the Construction of Full-Length Genes in a Single Reaction

    PubMed Central

    Birla, Bhagyashree S.; Chou, Hui-Hsien

    2015-01-01

    Gene synthesis is frequently used in modern molecular biology research either to create novel genes or to obtain natural genes when the synthesis approach is more flexible and reliable than cloning. DNA chemical synthesis has limits on both its length and yield, thus full-length genes have to be hierarchically constructed from synthesized DNA fragments. Gibson Assembly and its derivatives are the simplest methods to assemble multiple double-stranded DNA fragments. Currently, up to 12 dsDNA fragments can be assembled at once with Gibson Assembly according to its vendor. In practice, the number of dsDNA fragments that can be assembled in a single reaction are much lower. We have developed a rational design method for gene construction that allows high-number dsDNA fragments to be assembled into full-length genes in a single reaction. Using this new design method and a modified version of the Gibson Assembly protocol, we have assembled 3 different genes from up to 45 dsDNA fragments at once. Our design method uses the thermodynamic analysis software Picky that identifies all unique junctions in a gene where consecutive DNA fragments are specifically made to connect to each other. Our novel method is generally applicable to most gene sequences, and can improve both the efficiency and cost of gene assembly. PMID:26716828

  13. Oxidation reaction by xanthine oxidase: theoretical study of reaction mechanism.

    PubMed

    Amano, Tatsuo; Ochi, Noriaki; Sato, Hirofumi; Sakaki, Shigeyoshi

    2007-07-01

    The oxidation process by molybdenum-containing enzyme, xanthine oxidase, is theoretically studied with a model complex representing the reaction center and a typical benchmark substrate, formamide. Comparisons were systematically made among reaction mechanisms proposed previously. In the concerted and stepwise mechanisms that were theoretically discussed previously, the oxidation reaction takes place with a moderate activation barrier. However, the product is less stable than the reactant complex, which indicates that these mechanisms are unlikely. Moreover, the product of the concerted mechanism is not consistent with the isotope experimental result. In addition to those mechanisms, another mechanism initiated by the deprotonation of the active site was newly investigated here. In the transition state of this reaction, the carbon atom of formamide interacts with the oxo ligand of the Mo center and the hydrogen atom is moving from the carbon atom to the thioxo ligand. This reaction takes place with a moderate activation barrier and considerably large exothermicity. Furthermore, the product by this mechanism is consistent with the isotope experimental result. Also, our computations clearly show that the deprotonation of the active site occurs with considerable exothermicity in the presence of glutamic acid and substrate. The intermediate of the stepwise mechanism could not be optimized in the case of the deprotonated active site. From all these results, it should be concluded that the one-step mechanism with the deprotonated active site is the most plausible.

  14. Study of Analytic Statistical Model for Decay of Light and Medium Mass Nuclei in Nuclear Fragmentation

    NASA Technical Reports Server (NTRS)

    Cucinotta, Francis A.; Wilson, John W.

    1996-01-01

    The angular momentum independent statistical decay model is often applied using a Monte-Carlo simulation to describe the decay of prefragment nuclei in heavy ion reactions. This paper presents an analytical approach to the decay problem of nuclei with mass number less than 60, which is important for galactic cosmic ray (GCR) studies. This decay problem of nuclei with mass number less than 60 incorporates well-known levels of the lightest nuclei (A less than 11) to improve convergence and accuracy. A sensitivity study of the model level density function is used to determine the impact on mass and charge distributions in nuclear fragmentation. This angular momentum independent statistical decay model also describes the momentum and energy distribution of emitted particles (n, p, d, t, h, and a) from a prefragment nucleus.

  15. High-resolution (e, 2e + ion) study of electron-impact ionization and fragmentation of methane

    SciTech Connect

    Ren, Xueguang Pflüger, Thomas; Weyland, Marvin; Baek, Woon Yong; Rabus, Hans; Ullrich, Joachim; Dorn, Alexander

    2015-05-07

    The ionization and fragmentation of methane induced by low-energy (E{sub 0} = 66 eV) electron-impact is investigated using a reaction microscope. The momentum vectors of all three charged final state particles, two outgoing electrons, and one fragment ion, are detected in coincidence. Compared to the earlier study [Xu et al., J. Chem. Phys. 138, 134307 (2013)], considerable improvements to the instrumental mass and energy resolutions have been achieved. The fragment products CH{sub 4}{sup +}, CH{sub 3}{sup +}, CH{sub 2}{sup +}, CH{sup +}, and C{sup +} are clearly resolved. The binding energy resolution of ΔE = 2.0 eV is a factor of three better than in the earlier measurements. The fragmentation channels are investigated by measuring the ion kinetic energy distributions and the binding energy spectra. While being mostly in consistence with existing photoionization studies the results show differences including missing fragmentation channels and previously unseen channels.

  16. Molecular typing of Iranian mycobacteria isolates by polymerase chain reaction-restriction fragment length polymorphism analysis of 360-bp rpoB gene

    PubMed Central

    Hadifar, Shima; Moghim, Sharareh; Fazeli, Hossein; GhasemianSafaei, Hajieh; Havaei, Seyed Asghar; Farid, Fariba; Esfahani, Bahram Nasr

    2015-01-01

    Background: Diagnosis and typing of Mycobacterium genus provides basic tools for investigating the epidemiology and pathogenesis of this group of bacteria. Polymerase chain reaction (PCR)-restriction fragment length polymorphism analysis (PRA) is an accurate method providing diagnosis and typing of species of mycobacteria. The present study is conducted by the purpose of determining restriction fragment profiles of common types of mycobacteria by PRA method of rpoB gene in this geographical region. Materials and Methods: Totally 60 clinical and environmental isolates from February to October, 2013 were collected and subcultured and identified by phenotypic methods. A 360 bp fragment of the rpoB gene amplified by PCR and products were digested by MspI and HaeIII enzymes. Results: In the present study, of all mycobacteria isolates identified by PRA method, 13 isolates (21.66%) were Mycobacterium tuberculosis, 34 isolates (56.66%) were rapidly growing Nontuberculosis Mycobacteria (NTM) that including 26 clinical isolates (43.33%) and 8 environmental isolates (13.33%), 11 isolates (18.33%) were clinical slowly growing NTM. among the clinical NTM isolates, Mycobacterium fortuitum Type I with the frequency of 57.77% was the most prevalent type isolates. Furthermore, an unrecorded of the PRA pattern of Mycobacterium conceptionense (HeaIII: 120/90/80, MspI: 120/105/80) was found. This study demonstrated that the PRA method was high discriminatory power for identification and typing of mycobacteria species and was able to identify 96.6% of all isolates. Conclusion: Based on the result of this study, rpoB gene could be a potentially useful tool for identification and investigation of molecular epidemiology of mycobacterial species. PMID:26380237

  17. Improved Polymerase Chain Reaction-restriction Fragment Length Polymorphism Genotyping of Toxic Pufferfish by Liquid Chromatography/Mass Spectrometry.

    PubMed

    Miyaguchi, Hajime

    2016-09-20

    An improved version of a polymerase chain reaction (PCR)-restriction fragment length polymorphism (RFLP) method for genotyping toxic pufferfish species by liquid chromatography/electrospray ionization mass spectrometry (LC/ESI-MS) is described. DNA extraction is carried out using a silica membrane-based DNA extraction kit. After the PCR amplification using a detergent-free PCR buffer, restriction enzymes are added to the solution without purifying the reaction solution. A reverse-phase silica monolith column and a Fourier transform high resolution mass spectrometer having a modified Kingdon trap analyzer are employed for separation and detection, respectively. The mobile phase, consisting of 400 mM 1,1,1,3,3,3-hexafluoro-2-propanol, 15 mM triethylamine (pH 7.9) and methanol, is delivered at a flow rate of 0.4 ml/min. The cycle time for LC/ESI-MS analysis is 8 min including equilibration of the column. Deconvolution software having an isotope distribution model of the oligonucleotide is used to calculate the corresponding monoisotopic mass from the mass spectrum. For analysis of oligonucleotides (range 26-79 nucleotides), mass accuracy was 0.62 ± 0.74 ppm (n = 280) and excellent accuracy and precision were sustained for 180 hr without use of a lock mass standard.

  18. Improved Polymerase Chain Reaction-restriction Fragment Length Polymorphism Genotyping of Toxic Pufferfish by Liquid Chromatography/Mass Spectrometry.

    PubMed

    Miyaguchi, Hajime

    2016-01-01

    An improved version of a polymerase chain reaction (PCR)-restriction fragment length polymorphism (RFLP) method for genotyping toxic pufferfish species by liquid chromatography/electrospray ionization mass spectrometry (LC/ESI-MS) is described. DNA extraction is carried out using a silica membrane-based DNA extraction kit. After the PCR amplification using a detergent-free PCR buffer, restriction enzymes are added to the solution without purifying the reaction solution. A reverse-phase silica monolith column and a Fourier transform high resolution mass spectrometer having a modified Kingdon trap analyzer are employed for separation and detection, respectively. The mobile phase, consisting of 400 mM 1,1,1,3,3,3-hexafluoro-2-propanol, 15 mM triethylamine (pH 7.9) and methanol, is delivered at a flow rate of 0.4 ml/min. The cycle time for LC/ESI-MS analysis is 8 min including equilibration of the column. Deconvolution software having an isotope distribution model of the oligonucleotide is used to calculate the corresponding monoisotopic mass from the mass spectrum. For analysis of oligonucleotides (range 26-79 nucleotides), mass accuracy was 0.62 ± 0.74 ppm (n = 280) and excellent accuracy and precision were sustained for 180 hr without use of a lock mass standard. PMID:27684516

  19. Theoretical studies in molecular fragmentation: Processes, energetics and diagnostics

    NASA Astrophysics Data System (ADS)

    Kirby, K. P.

    1983-09-01

    This research is directed toward providing diagnostic tools with which to identify and quantify the presence of fragment species and their energy states resulting from molecular destruction processes. Ab initio methods were used to calculate potential energy curves and transition moments for excited Sigma + and 1 Pi states of CO. Vibration rotation transition probabilities for vibrationally hot CN have been obtained. Work is commencing on the excited electronic states of NH.

  20. Fragmentation studies with the CHIMERA detector at LNS in Catania: recent progress

    NASA Astrophysics Data System (ADS)

    Pagano, A.; Alderighi, M.; Amorini, F.; Anzalone, A.; Arena, L.; Auditore, L.; Baran, V.; Bartolucci, M.; Berceanu, I.; Blicharska, J.; Brzychczyk, J.; Bonasera, A.; Borderie, B.; Bougault, R.; Bruno, M.; Cardella, G.; Cavallaro, S.; Chatterjee, M. B.; Chbihi, A.; Cibor, J.; Colonna, M.; D'Agostino, M.; Dayras, R.; De Filippo, E.; Di Toro, M.; Gawlikowicz, W.; Geraci, E.; Giustolisi, F.; Grzeszczuk, A.; Guazzoni, P.; Guinet, D.; Iacono-Manno, M.; Kowalski, S.; La Guidara, E.; Lanzano, G.; Lanzalone, G.; Le Neindre, N.; Li, S.; Lo Nigro, S.; Maiolino, C.; Majka, Z.; Manfredi, G.; Paduszynski, T.; Papa, M.; Petrovici, M.; Piasecki, E.; Pirrone, S.; Planeta, R.; Politi, G.; Pop, A.; Porto, F.; Rivet, M. F.; Rosato, E.; Rizzo, F.; Russo, S.; Russotto, P.; Sassi, M.; Sechi, G.; Simion, V.; Siwek-Wilczynska, K.; Skwira, I.; Sperduto, M. L.; Steckmeyer, J. C.; Swiderski, L.; Trifiro`, A.; Trimarchi, M.; Vannini, G.; Vigilante, M.; Wieleczko, J. P.; Wilczynski, J.; Wu, H.; Xiao, Z.; Zetta, L.; Zipper, W.

    2004-04-01

    The new detector CHIMERA, in its final 4π configuration, has been installed at Laboratori Nazionali del Sud (LNS) in Catania in January 2003. Beams of different energies ranging from protons to Au ions were delivered by the Tandem and the Super Conducting Cyclotron for nuclear reaction studies, in agreement with the approval of the Scientific Advisory Committee of LNS. Recent experimental results confirm very low energy thresholds of the trigger (below 0.5 MeV/nucleon), ensured within a wide dynamical range. Good characteristics of identification of light charged particles and heavy fragments have been obtained by using three detection techniques: Δ E-E, Δ E-time of flight, and the Pulse-Shape discrimination method. We present results of recent analysis concerning the production of intermediate mass fragments (IMF) in semi-peripheral collisions. Our results combined with theoretical Boltzmann-Nordheim-Vlasov simulations clearly demonstrate the presence of very fast processes of IMF production in the overlapping region of the target and projectile nuclei during re-separation, i.e. in the time scale comparable with the collision time. Evidence for slower, sequential-like production of IMF's is also shown.

  1. Synthetic Studies toward the C14-C29 Fragment of Mirabalin.

    PubMed

    Cornil, Johan; Echeverria, Pierre-Georges; Reymond, Sébastien; Phansavath, Phannarath; Ratovelomanana-Vidal, Virginie; Guérinot, Amandine; Cossy, Janine

    2016-09-16

    A convergent synthesis of one isomer of the C14-C29 fragment of mirabalin is disclosed. The key steps include a Marshall allenylation, a Mukaiyama aldol reaction and a Crimmins aldolization, which allow the control of 10 out of 25 stereogenic centers present in the molecule. PMID:27602486

  2. Polymerase chain reaction-restriction fragment length polymorphism method to distinguish three mealybug groups within the Planococcus citri-P. minor species complex (Hemiptera: Coccoidea: Pseudococcidae).

    PubMed

    Rung, A; Miller, D R; Scheffer, S J

    2009-02-01

    The mealybug species Planococcus citri (Risso) and Planococcus minor (Maskell) (Hemiptera: Coccoidea: Pseudococcidae) have special significance to U.S. quarantine and U.S. agriculture. Commonly intercepted at U.S. ports-of-entry, they are difficult to identify based on morphological characters. This study presents a molecular method for distinguishing P. citri, P. minor, and a genetically distinct group that is morphologically identical to P. citri, from Hawaii. This method uses polymerase chain reaction (PCR) followed by restriction fragment polymorphism analysis (RFLP) using the restriction enzymes BspH1, BsmH1, and HpH1. The resulting band patterns can be visualized in a 2% agarose gel and are sufficient to differentiate between the three entities mentioned above. PCR-RFLP diagnostics can be used for all life stages and is cheaper and faster than DNA sequencing.

  3. Neutron Production in Coincidence with Fragments from the {sup 40}Ca + H Reactions at E{sub lab} = 357 and 565 A MeV

    SciTech Connect

    Tuve, C.; Albergo, S.; Boemi, D.; Caccia, Z.; Chen, C.-X.; Costa, S.; Crawford, H.J.; Cronqvist, M.; Engelage, J.; Greiner, L.; Guzik, T.G.; Insolia, A.; Knott, C.N.; Lindstrom, P.J.; Mitchell, J.W.; Potenza, R.; Russo, G.V.; Soutoul, A.; Testard, O.; Tricomi, A.; Tull, C.E.; Waddington, C.J.; Webber, W.R.; Wefel, J.P.

    2000-12-31

    In the frame of the Transport Collaboration neutrons in coincidence with charged fragments produced in the {sup 40}Ca + H reaction at E{sub lab} = 357 and 565 AMeV have been measured at the Heavy Ion Spectrometer System (HISS) facility of the Lawrence Berkeley National Laboratory, using the multifunctional neutron spectrometer MUFFINS. The detector covered a narrow angular range about the beam in the forward direction (0? - 3.2?). In this contribution we report absolute neutron production cross sections in coincidence with charged fragments (10 {<=} Z {<=} 20). The neutron multiplicities have been estimated from the comparison between the neutron cross sections, in coincidence with the fragments, and the elemental cross sections. We have found evidence for a pre-equilibrium emission of prompt neutrons in superposition to a 'slower' deexcitation of the equilibrated remnant by emission of nucleons and fragments, as already seen in the inclusive rapidity distributions.

  4. Controlling Chemical Reactions by Short, Intense Mid-Infrared Laser Pulses: Comparison of Linear and Circularly Polarized Light in Simulations of ClCHO(+) Fragmentation.

    PubMed

    Shi, Xuetao; Thapa, Bishnu; Li, Wen; Schlegel, H Bernhard

    2016-02-25

    Enhanced mode selective fragmentation of oriented ClCHO(+) → Cl + HCO(+), H + ClCO(+), HCl(+) + CO with linear polarized intense mid-IR pulses was demonstrated in our previous computational study ( J. Phys. Chem. Lett. 2012 , 3 , 2541 ). Simulations of angle-dependent strong field ionization of ClCHO indicate the ionization rate in the molecular plane is nearly twice as large as perpendicular to the plane, suggesting a degree of planar alignment can be obtained experimentally for ClCHO(+), starting from neutral molecules. Classical trajectory calculations with a 4 cycle 7 μm laser pulse (peak intensity of 1.26 × 10(14) W/cm(2)) show that circularly polarized light with the electric field in the plane of the molecule deposits more energy and yields larger branching ratios for higher energy fragmentation channels than linearly polarized light with the same maximum field strength. These results suggest circularly polarized mid-IR pulses can not only achieve control on reactions but also provide an experimentally accessible implementation.

  5. Polymerase chain reaction-restriction fragment length polymorphism assays to distinguish Liriomyza huidobrensis (Diptera: Agromyzidae) from associated species on lettuce cropping systems in Italy.

    PubMed

    Masetti, Antonio; Luchetti, Andrea; Mantovani, Barbara; Burgio, Giovanni

    2006-08-01

    The pea leafminer, Liriomyza huidobrensis (Blanchard) (Diptera: Agromyzidae), is a serious insect pest infesting open field lettuce plantings in northern Italy. In these cropping systems, it coexists with several other agromyzid species that have negligible economic importance on open field vegetables. The rapid detection of L. huidobrensis is crucial for effective management strategies, but the identification of agromyzids to species can be very difficult at adult as well at immature stages. In this study, a polymerase chain reaction (PCR)-restriction fragment length polymorphism assay is proposed to separate L. huidobrensis from Liriomyza bryoniae (Kaltenbach), Liriomyza trifolii (Burgess), and Chromatomyia horticola (Goureau), which usually occur in the same lettuce plantings. An approximately 1,031-bp region of the mitochondrial genome encompassing the 3' region of cytochrome oxidase I, the whole leucine tRNA, and all of the cytochrome oxidase II was amplified by PCR and digested using the enzymes PvuII and SnaBI separately. Both endonucleases cut the amplicons of L. huidobrensis in two fragments, whereas the original band was not cleaved in the other analyzed species. The presence of Dacnusa spp. DNA does not bias the assay, because the PCR conditions and the primer set here described do not amplify any tract of this endoparasitic wasp genome. PMID:16937681

  6. Metallographic study of metallic fragment of lunar surface material

    NASA Technical Reports Server (NTRS)

    Mints, R. I.; Petukhova, T. M.; Ivanov, A. V.

    1974-01-01

    A high precision investigation of a metallic fragment from the lunar material returned by the Soviet Luna 16 automatic station revealed three characteristic temperature intervals with different kinetics of solid solution decomposition. The following were found in the structure of the iron-nickel-cobalt alloy: (1) delta-phase and alpha-ferrite of diffusional, displacement origin in the grain boundary and acicular forms; and (2) martensite of isothermal and athermal nature, acicular, lamellar, massive, and dendritic. The diversity of the shapes of structural constituents is associated with the effect on their formation of elastic distortions and various mechanisms of deformation relaxation processes.

  7. The Influence of Contour Fragmentation on Recognition Memory: An Event-Related Potential Study

    ERIC Educational Resources Information Center

    Brodeur, Mathieu B.; Debruille, J. Bruno; Renoult, Louis; Prevost, Marie; Dionne-Dostie, Emmanuelle; Buchy, Lisa; Lepage, Martin

    2011-01-01

    The present study was carried out to examine how the event-related potentials to fragmentation predict recognition success. Stimuli were abstract meaningless figures that were either complete or fragmented to various extents but still recoverable. Stimuli were first encoded as part of a symmetry discrimination task. In a subsequent recognition…

  8. Theoretical Analysis of the Fragmentation of (CO)5: A Symmetry-Allowed Highly Exothermic Reaction that Follows a Stepwise Pathway.

    PubMed

    Liu, Jiajun; Bao, Xiaoguang; Hrovat, David A; Borden, Weston Thatcher

    2015-12-01

    B3LYP and CCSD(T) calculations, using an aug-cc-pVTZ basis set, have been carried out on the fragmentation of 1,2,3,4,5-cyclopentanepentone, (CO)(5), to five molecules of CO. Although this reaction is calculated to be highly exothermic and is allowed to be concerted by the Woodward-Hoffmann rules, our calculations find that the D(5h) energy maximum is a multidimensional hilltop on the potential energy surface. This D(5h) hilltop is 16-20 kcal/mol higher in energy than a C(2) transition structure for the endothermic cleavage of (CO)(5) to (CO)(4) + CO and 11-15 kcal/mol higher than a C(s) transition structure for the loss of two CO molecules. The reasons for the very high energy of the D(5h) hilltop are discussed, and the geometries of the two lower energy transition structures are rationalized on the basis of mixing of the e(2)' HOMO and the a(2)″ LUMO of the hilltop. PMID:26375997

  9. Improved Studies of b Fragmentation in Z^0 Decays

    NASA Astrophysics Data System (ADS)

    Nesom, Gavin

    2001-04-01

    We present preliminary results of a new measurement of the inclusive b quark fragmentation function in Z^0 decays and of the B-barB energy correlation, using a novel kinematic B hadron energy reconstruction technique. The measurement is performed using hadronic Z^0 events recorded in the SLD experiment at SLAC between 1996 and 1998. The small and stable SLC beam spot and the CCD-based vertex detector are used to reconstruct B-decay vertices with high efficiency and purity, and to provide precise measurements of the kinematic quantities used in this technique. We measure the B energy with good efficiency and resolution over the full kinematic range. We compare the scaled energy distribution of weakly decaying B hadrons with the predictions of several models of b quark fragmentation, and also test several hypothesized functional forms. We exclude many of these models and functional forms, and we present a corrected distribution with a small and well defined model dependence and a precise measurement of the mean value. We also measure the two-dimensional distribution of the B and barB hadron energies in Z^0 arrow bbarb events. A comparison with theory of the moments of the 2D and 1D distributions provides a new test of QCD factorization.

  10. Studying Reaction Intermediates Formed at Graphenic Surfaces

    NASA Astrophysics Data System (ADS)

    Sarkar, Depanjan; Sen Gupta, Soujit; Narayanan, Rahul; Pradeep, Thalappil

    2014-03-01

    We report in-situ production and detection of intermediates at graphenic surfaces, especially during alcohol oxidation. Alcohol oxidation to acid occurs on graphene oxide-coated paper surface, driven by an electrical potential, in a paper spray mass spectrometry experiment. As paper spray ionization is a fast process and the time scale matches with the reaction time scale, we were able to detect the intermediate, acetal. This is the first observation of acetal formed in surface oxidation. The process is not limited to alcohols and the reaction has been extended to aldehydes, amines, phosphenes, sugars, etc., where reaction products were detected instantaneously. By combining surface reactions with ambient ionization and mass spectrometry, we show that new insights into chemical reactions become feasible. We suggest that several other chemical transformations may be studied this way. This work opens up a new pathway for different industrially and energetically important reactions using different metal catalysts and modified substrate.

  11. Improved atmospheric trace gas measurements with an aircraft-based tandem mass spectrometer: Ion identification by mass-selected fragmentation studies

    NASA Astrophysics Data System (ADS)

    Reiner, Thomas; MöHler, Ottmar; Arnold, Frank

    1998-12-01

    We have built and employed an aircraft-borne triple quadrupole mass spectrometer (TQMS) for fragmentation studies of mass-selected ions in the upper troposphere and lower stratosphere. The fragmentation studies included both ambient and artificially produced ions relevant for the measurement of atmospheric trace gases by ion molecule reaction mass spectrometry (IMRMS) and led to an unambiguous identification of the chemical composition of important ions used for IMRMS measurements. Among these are the product ions of ion molecule reactions of CO3-(H2O)n and H3O+(H2O)n ions with HNO3, SO2, acetone, HCN, and methyl cyanide. These reactions have been studied in the laboratory, and ions having the same masses as the expected product ions have been previously observed in atmospheric IMRMS spectra. The present fragmentation studies are the first to actually identify the chemical composition of these ions during aircraft measurements in the upper troposphere and lower stratosphere and demonstrate that these ions can reliably be used for atmospheric trace gas measurements. Furthermore, the fragmentation studies gave indications for the existence and the possible identification of previously unknown ions. Among these the tentative identification of CO3-H2O2 offers the possibility for sensitive measurements of H2O2 by IMRMS. The fragmentation studies were accompanied by IMRMS measurements of atmospheric trace gases using the TQMS. Altitude profiles of HNO3, SO2, and lower limits for H2O2 are shown.

  12. [In vitro study of urinary calculi fragmentation with 4 different systems of lithofragmentation].

    PubMed

    Tellez Martínez-Fornes, M; Burgos Revilla, F J; Soria Descalzo, J; Barbero González, J; Saez Garrido, J C; Vallejo Herrador, J

    1997-03-01

    The results of shockwave lithofragmentation are conditioned by stone composition. Similarly, the different types of lithofragmenting energy can have different effects on the calculi. The purpose of this experimental study is to establish a relationship between calculi composition and type of energy used for fragmentation, with the results of the lithotriptsy treatment. 60 calculi, 12 for each pure composition selected (calcium oxalate mono and dihydrate, phosphocarbonate, ammonium magnesium phosphate and uric acid) underwent in vitro lithofragmentation with 4 different lithofragmenting sources (electrohydraulic, piezoelectric, ultrasound and pulsed laser). It was carried out a study of fragmentation in particles under 3 mm and pulverization in particles under 0.5 mm, analyzing post-lithotriptsy fragments with scanning electron microscopy associated to X-ray dispersion energy. No relationship was shown between calculi composition and amount of energy supplied for the fragmentation. The lithiasic composition correlates to the fragmentation pattern, so that oxalocalcium calculi undergoes good fragmentation and poor pulverization, infective calculi have poor fragmentation but good pulverization and uric acid calculi show poor fragmentation and pulverization.

  13. Experimental determination of particle range and dose distribution in thick targets through fragmentation reactions of stable heavy ions.

    PubMed

    Inaniwa, Taku; Kohno, Toshiyuki; Tomitani, Takehiro; Urakabe, Eriko; Sato, Shinji; Kanazawa, Mitsutaka; Kanai, Tatsuaki

    2006-09-01

    In radiation therapy with highly energetic heavy ions, the conformal irradiation of a tumour can be achieved by using their advantageous features such as the good dose localization and the high relative biological effectiveness around their mean range. For effective utilization of such properties, it is necessary to evaluate the range of incident ions and the deposited dose distribution in a patient's body. Several methods have been proposed to derive such physical quantities; one of them uses positron emitters generated through projectile fragmentation reactions of incident ions with target nuclei. We have proposed the application of the maximum likelihood estimation (MLE) method to a detected annihilation gamma-ray distribution for determination of the range of incident ions in a target and we have demonstrated the effectiveness of the method with computer simulations. In this paper, a water, a polyethylene and a polymethyl methacrylate target were each irradiated with stable (12)C, (14)N, (16)O and (20)Ne beams. Except for a few combinations of incident beams and targets, the MLE method could determine the range of incident ions R(MLE) with a difference between R(MLE) and the experimental range of less than 2.0 mm under the circumstance that the measurement of annihilation gamma rays was started just after the irradiation of 61.4 s and lasted for 500 s. In the process of evaluating the range of incident ions with the MLE method, we must calculate many physical quantities such as the fluence and the energy of both primary ions and fragments as a function of depth in a target. Consequently, by using them we can obtain the dose distribution. Thus, when the mean range of incident ions is determined with the MLE method, the annihilation gamma-ray distribution and the deposited dose distribution can be derived simultaneously. The derived dose distributions in water for the mono-energetic heavy-ion beams of four species were compared with those measured with an

  14. Fragmentation Patterns and Mechanisms of Singly and Doubly Protonated Peptoids Studied by Collision Induced Dissociation

    NASA Astrophysics Data System (ADS)

    Ren, Jianhua; Tian, Yuan; Hossain, Ekram; Connolly, Michael D.

    2016-04-01

    Peptoids are peptide-mimicking oligomers consisting of N-alkylated glycine units. The fragmentation patterns for six singly and doubly protonated model peptoids were studied via collision-induced dissociation tandem mass spectrometry. The experiments were carried out on a triple quadrupole mass spectrometer with an electrospray ionization source. Both singly and doubly protonated peptoids were found to fragment mainly at the backbone amide bonds to produce peptoid B-type N-terminal fragment ions and Y-type C-terminal fragment ions. However, the relative abundances of B- versus Y-ions were significantly different. The singly protonated peptoids fragmented by producing highly abundant Y-ions and lesser abundant B-ions. The Y-ion formation mechanism was studied through calculating the energetics of truncated peptoid fragment ions using density functional theory and by controlled experiments. The results indicated that Y-ions were likely formed by transferring a proton from the C-H bond of the N-terminal fragments to the secondary amine of the C-terminal fragments. This proton transfer is energetically favored, and is in accord with the observation of abundant Y-ions. The calculations also indicated that doubly protonated peptoids would fragment at an amide bond close to the N-terminus to yield a high abundance of low-mass B-ions and high-mass Y-ions. The results of this study provide further understanding of the mechanisms of peptoid fragmentation and, therefore, are a valuable guide for de novo sequencing of peptoid libraries synthesized via combinatorial chemistry.

  15. Fragmentation, labeling and biodistribution studies of KS1/4, a monoclonal antibody

    SciTech Connect

    Mohd, S.B.

    1987-01-01

    In this study, an IgG2a (KS1/4), a monoclonal antibody (MoAb) specific against a human lung adenocarcinoma (UCLA P-3) was successfully fragmented enzymatically to yield F(ab')/sub 2/ and Fab by using pepsin and papain, respectively. The kinetic of fragmentation of the MoAb was compared to that of human immunoglobulin G (IgG). A similar pattern of fragmentation was observed with both antibodies with a higher percentage yield of the F(ab')/sub 2/ and Fab obtained upon the fragmentation of the IgG by the enzymes. The KS1/4 and the two fragments were labeled with three different radionuclides, namely iodine-131, indium-111 and selenium-75. The radioiodination of the MoAb and the fragments was carried out by using a modified chloramine-T method. Radiometal labeling of the MoAb and the fragments with indium-111 was performed by using DTPA as a bifunctional chelating agent, while intrinsic labeling of the MoAb was done by culturing the hybridoma in the presence of /sup 75/Se-methionine. The biodistribution of the radiolabeled MoAb, F(ab')/sub 2/ and Fab fragments were performed by injecting the preparations intravenously into nude mice bearing human lung adenocarcinoma.

  16. An Isoratio Method to Study Free Energy and Temperature Effects in Intermediate Mass Fragments Produced in Heavy-Ion Collisions

    NASA Astrophysics Data System (ADS)

    Ma, Chun-Wang; Qiao, Chun-Yuan; Ding, Tian-Tian; Niu, Fei; Song, Yi-Dan; Niu, Yi-Fei

    2016-07-01

    An isoratio method, i.e., the isotopic (isotonic) ratio among three isotopes (isotones), is proposed to study the free energy and temperature effects in the intermediate mass fragments produced in heavy-ion collisions. The parameterizations for the free energy of nucleus at low temperature, which have been proposed in the framework of the density functional theory using the SKM skymre interaction, are adopted to calculate the temperature-dependent free energy of fragment. By analyzing the measured yields of fragments in the 140A MeV 58,64Ni + 9Be reactions, it is verified that the free energy in the isoratio is almost the same for different reactions. A temperature-dependent pairing-energy is introduced into the parameterizations for free energy, which reveals that the weakened pairing energy at the low temperature accounts for the weakened or disappearing odd-even staggering in isoratio. Supported by the Program for Science and Technology Innovation Talents in Universities of Henan Province under Grant No. 13HASTIT046, the Creative Experimental Project of National Undergraduate Students (CEPNU201510476017)

  17. Genetic polymorphism of toll-like receptors 4 gene by polymerase chain reaction-restriction fragment length polymorphisms, polymerase chain reaction-single-strand conformational polymorphism to correlate with mastitic cows

    PubMed Central

    Gupta, Pooja H.; Patel, Nirmal A.; Rank, D. N.; Joshi, C. G.

    2015-01-01

    Aim: An attempt has been made to study the toll-like receptors 4 (TLR4) gene polymorphism from cattle DNA to correlate with mastitis cows. Materials and Methods: In present investigation, two fragments of TLR4 gene named T4CRBR1 and T4CRBR2 of a 316 bp and 382 bp were amplified by polymerase chain reaction (PCR), respectively from Kankrej (22) and Triple cross (24) cattle. The genetic polymorphisms in the two populations were detected by a single-strand conformational polymorphism in the first locus and by digesting the fragments with restriction endonuclease Alu I in the second one. Results: Results showed that both alleles (A and B) of two loci were found in all the two populations and the value of polymorphism information content indicated that these were highly polymorphic. Statistical results of χ2 test indicated that two polymorphism sites in the two populations fit with Hardy–Weinberg equilibrium (p<0.05). Meanwhile, the effect of polymorphism of TLR4 gene on the somatic cell score (SCS) indicated the cattle with allele a in T4CRBR1 showed lower SCS than that of allele B (p<0.05). Thus, the allele A might play an important role in mastitis resistance in cows. Conclusion: The relationship between the bovine mastitis trait and the polymorphism of TLR4 gene indicated that the bovine TLR4 gene may play an important role in mastitis resistance. PMID:27047144

  18. Characterization of fragment emission in {sup 20}Ne(7-10 MeV/nucleon)+{sup 12}C reactions

    SciTech Connect

    Dey, Aparajita; Bhattacharya, C.; Bhattacharya, S.; Kundu, S.; Banerjee, K.; Mukhopadhyay, S.; Gupta, D.; Bhattacharjee, T.; Banerjee, S. R.; Bhattacharyya, S.; Rana, T. K.; Basu, S. K.; Saha, R.; Krishan, K.; Mukherjee, A.; Bandopadhyay, D.; Beck, C.

    2007-09-15

    The inclusive energy distributions of the complex fragments (3{<=}Z{<=}7) emitted from the bombardment of {sup 12}C by {sup 20}Ne beams with incident energies between 145 and 200 MeV have been measured in the angular range 10 deg.{<=}{theta}{sub lab}{<=}50 deg. Damped fragment yields in all the cases have been found to have the characteristic of emission from fully energy equilibrated composites. The binary fragment yields are compared with the standard statistical model predictions. Whereas Li and Be fragments yields are in agreement with statistical-model calculations, enhanced yields of entrance channel fragments (5{<=}Z{<=}7) indicate the survival of orbiting-like process in {sup 20}Ne+{sup 12}C system at these energies.

  19. [Species identification of grouper and snapper in Taiwan Strait using polymerase chain reaction-restriction fragment length polymorphism analysis and lab-on-a-chip system].

    PubMed

    Chen, Shuangya; Zhang, Jin; Chen, Weiling; Xu, Dunming; Zhou, Yu

    2011-07-01

    Polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) analysis and lab-on-a-chip system were used to identify grouper and snapper species in Taiwan Strait. A fragment of 464 bp length of mitochondrial cytochrome b gene was amplified by PCR and the products were digested with restriction enzymes Dde I , Hae III and NLa III, individually. The fragments generated after digestion were further resolved on the DNA Chip. Eight grouper species and five snapper species were successfully identified. The results demonstrated that PCR-RFLP analysis and lab-on-a-chip system provide a fast, easy, automated, and reliable analysis approach. This approach is potential for the purpose of fish adulteration control.

  20. Total Syntheses, Fragmentation Studies, and Antitumor/Antiproliferative Activities of FR901464 and Its Low Picomolar Analog

    PubMed Central

    Albert, Brian J.; Sivaramakrishnan, Ananthapadmanabhan; Naka, Tadaatsu; Czaicki, Nancy L.

    2008-01-01

    FR901464 is a potent anticancer natural product that lowers the mRNA levels of oncogenes and tumor suppressor genes. In this article, we report a convergent enantioselective synthesis of FR901464, which was accomplished in 13 linear steps. Central to the synthetic approach was the diene-ene cross olefin metathesis reaction to generate the C6-C7 olefin without the use of protecting groups as the final step. Additional key reactions include a Zr/Ag-promoted alkynylation to set the C4 stereocenter, a mild and chemoselective Red-Al reduction, a reagent-controlled stereoselective Mislow-Evans-type [2,3]-sigmatropic rearrangement to install the C5 stereocenter, a Carreira asymmetric alkynylation to generate the C4′ stereocenter, and a highly efficient ring-closing metathesis-allylic oxidation sequence to form an unsaturated lactone. The decomposition pathways of FR901464's right fragment were studied under physiologically relevant conditions. Facile epoxide opening by β-elimination gave two enones, one of which could undergo dehydration via its hemiketal to form a furan. To prevent this decomposition pathway, a right fragment was then rationally designed and synthesized. This analog was 12 times more stable than the right fragment of the natural product. Using this more stable right fragment analog, an FR901464 analog, meayamycin, was then prepared in 13 linear steps. The inhibitions of human breast cancer MCF-7 cell proliferation by synthetic FR901464 and meayamycin were studied, and the GI50 values for these compounds were determined to be 1.1 nM and 10 pM, respectively. Thus, meayamycin is among the most potent anticancer small molecules that do not bind to either DNA or microtubule. PMID:17279752

  1. Analysis of the rDNA internal transcribed spacer region of the Fusarium species by polymerase chain reaction-restriction fragment length polymorphism

    PubMed Central

    ZARRIN, MAJID; GANJ, FARZANEH; FARAMARZI, SAMA

    2016-01-01

    The Fusarium species are a widely spread phytopathogen identified in an extensive variety of hosts. The Fusarium genus is one of the most heterogeneous fungi and is difficult to classify. Polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) analysis is a useful method in detection of DNA polymorphism in objective sequences. The aim of the present study was to identify the phylogenetic associations and usefulness of the internal transcribed spacer (ITS) region as a genetic marker within the most clinically important strain of the Fusarium species. A total of 50 strains of Fusarium spp. were used in the study, including environmental, clinical and reference isolates. The primers ITS1 and ITS4 were used in the study. Two restriction enzymes, HaeIII and SmaI, were assessed for the digestion of PCR products. A PCR product of ~550-base pairs was generated for each Fusarium species. The digested products with HaeIII and SmaI demonstrated that the bands generated for the medically significant Fusarium species, including F. solani, F. oxysporum, F. verticillidea, F. proliferatum and F. fujikuri, have different restriction enzyme patterns. In conclusion, it appears that the PCR-RFLP method used in the present study produces a sufficient restriction profile for differentiation of the most medically significant Fusarium species. PMID:27073635

  2. Giardia duodenalis in Damascus, Syria: Identification of Giardia genotypes in a sample of human fecal isolates using polymerase chain reaction and restriction fragment length polymorphism analyzing method.

    PubMed

    Skhal, Dania; Aboualchamat, Ghalia; Al Nahhas, Samar

    2016-02-01

    Giardia duodenalis is a common gastrointestinal parasite that infects humans and many other mammals. It is most prevalent in many developing and industrialized countries. G. duodenalis is considered to be a complex species. While no morphological distinction among different assemblages exist, it can be genetically differentiated into eight major assemblages: A to H. The aim of this study was to determine the genetic heterogeneity of G. duodenalis in human isolates (a study conducted for the first time in Syria). 40 fecal samples were collected from three different hospitals during the hot summer season of 2014. Extraction of genomic DNA from all Giardia positive samples (based on a microscopic examination) was performed using QIAamp DNA Stool Mini Kit. β-giardin gene was used to differentiate between different Giardia assemblages. The 514 bp fragment was amplified using the Polymerase Chain Reaction method, followed by digestion in HaeIII restriction enzyme. Our result showed that genotype A was more frequent than genotype B, 27/40 (67.5%); 4/40 (10%) respectively. A mixed genotype of A+B was only detected in 9 isolates (22.5%). This is the first molecular study performed on G. duodenalis isolates in Syria in order to discriminate among the different genotypes. Further expanded studies using more genes are needed to detect and identify the Giardia parasite at the level of assemblage and sub-assemblage.

  3. Alpha resonant scattering for astrophysical reaction studies

    NASA Astrophysics Data System (ADS)

    Yamaguchi, H.; Kahl, D.; Nakao, T.; Wakabayashi, Y.; Kubano, S.; Hashimoto, T.; Hayakawa, S.; Kawabata, T.; Iwasa, N.; Teranishi, T.; Kwon, Y. K.; Binh, D. N.; Khiem, L. H.; Duy, N. G.

    2014-05-01

    Several alpha-induced astrophysical reactions have been studied at CRIB (CNS Radioactive Ion Beam separator), which is a low-energy RI beam separator at Center for Nuclear Study (CNS) of the University of Tokyo. One of the methods to study them is the α resonant scattering using the thick-target method in inverse kinematics. Among the recent studies at CRIB, the measurement of 7Be+α resonant scattering is discussed. Based on the result of the experiment, we evaluated the contributions of high-lying resonances for the 7Be(α,γ) reaction, and proposed a new cluster band in 11C.

  4. Alpha resonant scattering for astrophysical reaction studies

    SciTech Connect

    Yamaguchi, H.; Kahl, D.; Nakao, T.; Wakabayashi, Y.; Kubano, S.; Hashimoto, T.; Hayakawa, S.; Kawabata, T.; Iwasa, N.; Teranishi, T.; Kwon, Y. K.; Binh, D. N.; Khiem, L. H.; Duy, N. G.

    2014-05-02

    Several alpha-induced astrophysical reactions have been studied at CRIB (CNS Radioactive Ion Beam separator), which is a low-energy RI beam separator at Center for Nuclear Study (CNS) of the University of Tokyo. One of the methods to study them is the α resonant scattering using the thick-target method in inverse kinematics. Among the recent studies at CRIB, the measurement of {sup 7}Be+α resonant scattering is discussed. Based on the result of the experiment, we evaluated the contributions of high-lying resonances for the {sup 7}Be(α,γ) reaction, and proposed a new cluster band in {sup 11}C.

  5. Production of new neutron-rich isotopes of heavy elements in fragmentation reactions of {sup 238}U projectiles at 1A GeV

    SciTech Connect

    Alvarez-Pol, H.; Benlliure, J.; Casarejos, E.; Cortina-Gil, D.; Fernandez-Dominguez, B.; Pereira, J.; Audouin, L.; Enqvist, T.; Schmidt, K.-H.; Yordanov, O.; Junghans, A. R.; Jurado, B.; Rejmund, F.

    2010-10-15

    The production of heavy neutron-rich nuclei has been investigated using cold-fragmentation reactions of {sup 238}U projectiles at relativistic energies. The experiment performed at the high-resolving-power magnetic spectrometer Fragment Separator at GSI made it possible to identify 40 new heavy neutron-rich nuclei: {sup 205}Pt, {sup 207-210}Au, {sup 211-216}Hg, {sup 214-217}Tl, {sup 215-220}Pb, {sup 219-224}Bi, {sup 223-227}Po, {sup 225-229}At, {sup 230,231}Rn, and {sup 233}Fr. The production cross sections of these nuclei were also determined and used to benchmark reaction codes that predict the production of nuclei far from stability.

  6. An (e, 2e + ion) study of low-energy electron-impact ionization and fragmentation of tetrahydrofuran with high mass and energy resolutions

    SciTech Connect

    Ren, Xueguang Pflüger, Thomas; Weyland, Marvin; Baek, Woon Yoon; Rabus, Hans; Ullrich, Joachim; Dorn, Alexander

    2014-10-07

    We study the low-energy (E{sub 0} = 26 eV) electron-impact induced ionization and fragmentation of tetrahydrofuran using a reaction microscope. All three final-state charged particles, i.e., two outgoing electrons and one fragment ion, are detected in triple coincidence such that the momentum vectors and, consequently, the kinetic energies for charged reaction products are determined. The ionic fragments are clearly identified in the experiment with a mass resolution of 1 amu. The fragmentation pathways of tetrahydrofuran are investigated by measuring the ion kinetic energy spectra and the binding energy spectra where an energy resolution of 1.5 eV has been achieved using the recently developed photoemission electron source. Here, we will discuss the fragmentation reactions for the cations C{sub 4}H{sub 8}O{sup +}, C{sub 4}H{sub 7}O{sup +}, C{sub 2}H{sub 3}O{sup +}, C{sub 3}H{sub 6}{sup +}, C{sub 3}H{sub 5}{sup +}, C{sub 3}H{sub 3}{sup +}, CH{sub 3}O{sup +}, CHO{sup +}, and C{sub 2}H{sub 3}{sup +}.

  7. Reaction of systemic lupus erythematosus antinative DNA antibodies with native DNA fragments from 20 to 1,200 base pairs.

    PubMed Central

    Papalian, M; Lafer, E; Wong, R; Stollar, B D

    1980-01-01

    Double-stranded DNA fragments of varying sizes were isolated and tested for binding to systemic lupus erythematosus (SLE) antinative DNA antibodies. Fragments of 20-25, 40-50, 90-110, and 160-180 base pairs (bp), along with intermediate-size pieces were isolated by preparative gel electrophoresis of a limited micrococcal nuclease digest of calf thymus DNA. Larger helical polynucleotides of 160-200, 380, 600-1,000, and 1,200 bp were isolated by preparative gel electrophoresis of DNA from chicken erythrocyte nucleosomes and oligonucleosomes. The fragments behaved as base-paired structures as tested by thermal denaturation, resistance to S1 nuclease, and serological assays with antibodies to native or denatured DNA. At a concentration of 0.27 muM, fragments of 20-25 bp were able to react with two SLE sera in competition with native DNA. With these and two other sera, DNA of 40-50 bp was a much more effective competitor. One serum required DNA greater than 180 bp for competition in the concentration range tested. Denatured fragments were much less effective than native fragments. The results emphasize the heterogeneity of SLE antinative DNA antibodies, confirm that secondary structure of the antigen is important for specific binding to these antibodies, and support the suggestion that bivalent binding to one molecule may be important for high functional affinity. Images PMID:6153184

  8. Risk to fragmented DNA in dry, wet, and frozen states from computed tomography: a comparative theoretical study.

    PubMed

    Wanek, Johann; Rühli, Frank Jakobus

    2016-05-01

    Computed tomography represents the gold standard in forensic and palaeopathological diagnosis. However, the X-rays used may affect the DNA quality through fragmentation and loss of genetic information. Previous work showed that the effects of ionizing radiation on dry DNA are non-significant with P < 10(-8), which cannot be detected by means of polymerase chain reaction methods. In the present paper, complete analytical model that characterizes radiation effects on fragmented DNA in dry, wet, and frozen states is described. Simulation of radiation tracks in water phantom cells was performed using the Geant4-DNA toolkit. Cell hits by electrons with energies between 5 and 20 keV were simulated, and the formation of radiolytic products was assessed at a temperature of 298 K. The diffusion coefficient and the mean square displacement of reactive species were calculated by Stokes-Einstein-Smoluchowski relations at 273 K. Finally, DNA fragment damage was estimated using the density distribution of fragments calculated from atomic force microscopy images. The lowest probability of radiation-induced DNA damage was observed for dry state, with a range from 2.5 × 10(-9) to 7.8 × 10(-12) at 298 K, followed by that for frozen state, with a range from 0.9 to 4 × 10(-7) at 273 K. The highest probability of radiation-induced DNA damage was demonstrated for fragmented DNA in wet state with a range from 2 to 9 × 10(-7) at 298 K. These results significantly improve the interpretation of CT imaging in future studies in forensic and palaeopathological science.

  9. Authentication of anglerfish species (Lophius spp) by means of polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) and forensically informative nucleotide sequencing (FINS) methodologies.

    PubMed

    Espiñeira, Montserrat; González-Lavín, Nerea; Vieites, Juan M; Santaclara, Francisco J

    2008-11-26

    Lophius represents the most important genus of the family Lophiidae from a commercial point of view. The main marketing formats of the species included in this genus are tails and cheeks, making impossible the species identification on the basis of their morphological characters. In the present study, two methods based on the polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) and phylogenetic analysis of DNA sequences [forensically informative nucleotide sequencing (FINS)] were developed to differentiate the seven species contained in the genus Lophius. In both cases, the molecular marker studied was the cytochrome oxidase subunit I gene (COI). The RFLP analysis of the PCR products digested with the endonuclease Mbo I generated species-specific restriction profiles, and the phylogenetic analysis showing a neighbor-joining tree with independent nodes was strongly supported for all of the studied species. These methods were applied to 40 commercial samples, allowing us to detect the samples incorrectly labeled. The fraudulent labeling ratio was higher in processed products (68.75%) than whole fish (31.25%). The species subjected to mislabeling were L. budegassa (68.75%), L. vomerinus (18.75%), and L. piscatorius (12.5%). Therefore, both methodologies can be independently used to authenticate the species belonging to the genus Lophius, being useful to check the fulfillment of labeling regulations of seafood products and to verify the correct traceability of commercial trade and the control of fisheries. PMID:18975961

  10. Authentication of anglerfish species (Lophius spp) by means of polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) and forensically informative nucleotide sequencing (FINS) methodologies.

    PubMed

    Espiñeira, Montserrat; González-Lavín, Nerea; Vieites, Juan M; Santaclara, Francisco J

    2008-11-26

    Lophius represents the most important genus of the family Lophiidae from a commercial point of view. The main marketing formats of the species included in this genus are tails and cheeks, making impossible the species identification on the basis of their morphological characters. In the present study, two methods based on the polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) and phylogenetic analysis of DNA sequences [forensically informative nucleotide sequencing (FINS)] were developed to differentiate the seven species contained in the genus Lophius. In both cases, the molecular marker studied was the cytochrome oxidase subunit I gene (COI). The RFLP analysis of the PCR products digested with the endonuclease Mbo I generated species-specific restriction profiles, and the phylogenetic analysis showing a neighbor-joining tree with independent nodes was strongly supported for all of the studied species. These methods were applied to 40 commercial samples, allowing us to detect the samples incorrectly labeled. The fraudulent labeling ratio was higher in processed products (68.75%) than whole fish (31.25%). The species subjected to mislabeling were L. budegassa (68.75%), L. vomerinus (18.75%), and L. piscatorius (12.5%). Therefore, both methodologies can be independently used to authenticate the species belonging to the genus Lophius, being useful to check the fulfillment of labeling regulations of seafood products and to verify the correct traceability of commercial trade and the control of fisheries.

  11. Identification of Echinococcus granulosus strains using polymerase chain reaction-restriction fragment length polymorphism amongst livestock in Moroto district, Uganda.

    PubMed

    Chamai, Martin; Omadang, Leonard; Erume, Joseph; Ocaido, Michael; Oba, Peter; Othieno, Emmanuel; Bonaventure, Straton; Kitibwa, Annah

    2016-01-01

    A descriptive study was conducted to identify the different strains of Echinococcus granulosus occurring in livestock in Moroto district, Uganda. Echinococcus cysts from 104 domestic animals, including cattle, sheep, goats and camels, were taken and examined by microscopy, polymerase chain reaction with restriction fragment length polymorphism and Sanger DNA sequencing. Echinococcus granulosus genotypes or strains were identified through use of Bioinformatics tools: BioEdit, BLAST and MEGA6. The major finding of this study was the existence of a limited number of E. granulosus genotypes from cattle, goats, sheep and camels. The most predominant genotype was G1 (96.05%), corresponding to the common sheep strain. To a limited extent (3.95%), the study revealed the existence of Echinococcus canadensis G6/7 in three (n = 3) of the E. granulosus-positive samples. No other strains of E. granulosus were identified. It was concluded that the common sheep strain of Echinococcus sensu stricto and G6/7 of E. canadensis were responsible for echinococcal disease in Moroto district, Uganda. PMID:27543147

  12. Identification of Echinococcus granulosus strains using polymerase chain reaction-restriction fragment length polymorphism amongst livestock in Moroto district, Uganda.

    PubMed

    Chamai, Martin; Omadang, Leonard; Erume, Joseph; Ocaido, Michael; Oba, Peter; Othieno, Emmanuel; Bonaventure, Straton; Kitibwa, Annah

    2016-07-29

    A descriptive study was conducted to identify the different strains of Echinococcus granulosus occurring in livestock in Moroto district, Uganda. Echinococcus cysts from 104 domestic animals, including cattle, sheep, goats and camels, were taken and examined by microscopy, polymerase chain reaction with restriction fragment length polymorphism and Sanger DNA sequencing. Echinococcus granulosus genotypes or strains were identified through use of Bioinformatics tools: BioEdit, BLAST and MEGA6. The major finding of this study was the existence of a limited number of E. granulosus genotypes from cattle, goats, sheep and camels. The most predominant genotype was G1 (96.05%), corresponding to the common sheep strain. To a limited extent (3.95%), the study revealed the existence of Echinococcus canadensis G6/7 in three (n = 3) of the E. granulosus-positive samples. No other strains of E. granulosus were identified. It was concluded that the common sheep strain of Echinococcus sensu stricto and G6/7 of E. canadensis were responsible for echinococcal disease in Moroto district, Uganda.

  13. Theoretical studies of chemical reaction dynamics

    SciTech Connect

    Schatz, G.C.

    1993-12-01

    This collaborative program with the Theoretical Chemistry Group at Argonne involves theoretical studies of gas phase chemical reactions and related energy transfer and photodissociation processes. Many of the reactions studied are of direct relevance to combustion; others are selected they provide important examples of special dynamical processes, or are of relevance to experimental measurements. Both classical trajectory and quantum reactive scattering methods are used for these studies, and the types of information determined range from thermal rate constants to state to state differential cross sections.

  14. Study of laser fragmentation process of silver nanoparticles in aqueous media

    NASA Astrophysics Data System (ADS)

    Šmejkal, Petr; Pfleger, Jiří; Vlčková, Blanka

    2008-12-01

    Laser fragmentation of Ag nanoparticles in Ag hydrosol was studied by simultaneous measurements of the transmitted fluence of the incident laser beam and the time evolution of the surface plasmon extinction (SPE) spectra. The experiments showed that the laser fragmentation in a small volume of hydrosol proceeds during first 20 pulses and then reaches saturation. The value of the transmitted fluence corresponding to saturation increases with incident pulse fluence, but the impact of the first pulse applied to the hydrosols shows an optical limitation. Fluences above 303 mJ/cm2 cause the formation of less stable, aggregating nanoparticles, while fluences below 90 mJ/cm2 do not provide sufficient energy for efficient fragmentation. The interval of fluences between 90-303 mJ/cm2 is optimal for fragmentation, since stable hydrosols constituted by small, non-aggregated nanoparticles are formed.

  15. Chemical reaction and dust formation studies in laboratory hydrocarbon plasmas.

    NASA Astrophysics Data System (ADS)

    Hippler, Rainer; Majumdar, Abhijit; Thejaswini, H. C.

    Plasma chemical reaction studies with relevance to, e.g., Titan's atmosphere have been per-formed in various laboratory plasmas [1,2]. Chemical reactions in a dielectric barrier discharge at medium pressure of 250-300 mbar have been studied in CH4 /N2 and CH4 /Ar gas mixtures by means of mass spectrometry. The main reaction scheme is production of H2 by fragmenta-tion of CH4 , but also production of larger hydrocarbons like Cn Hm with n up to 10 including formation of different functional CN groups is observed. [1] A. Majumdar and R. Hippler, Development of dielectric barrier discharge plasma processing apparatus for mass spectrometry and thin film deposition, Rev. Sci. Instrum. 78, 075103 (2007) [2] H.T. Do, G. Thieme, M. Frühlich, H. Kersten, and R. Hippler, Ion Molecule and Dust Particle Formation in Ar/CH4 , Ar/C2 H2 and Ar/C3 H6 Radio-frequency Plasmas, Contrib. Plasma Phys. 45, No. 5-6, 378-384 (2005)

  16. Transition from participant to spectator fragmentation in Au+Au reactions between 60A and 150A MeV

    SciTech Connect

    Zbiri, K.; Aichelin, J.; Le Fevre, A.; Lukasik, J.; Reisdorf, W.; Lynen, U.; Mueller, W. F. J.; Orth, H.; Schwarz, C.; Sfienti, C.; Trautmann, W.; Turzo, K.; Gulminelli, F.; Lopez, O.; Vient, E.; Zwieglinski, B.; Chbihi, A.; Frankland, J. D.; Wieleczko, J. P.; Charvet, J. L.

    2007-03-15

    Using the quantum molecular dynamics approach, we analyzed the results of the recent INDRA Collaboration Au+Au experiments at GSI in the energy range between 60A and 150A MeV. It turns out that in this energy region, the transition toward a participant-spectator scenario takes place. The large Au+Au system displays, in the simulations as in the experiment, simultaneously dynamical and statistical behavior, which we analyze in detail. The composition of fragments close to midrapidity follows statistical laws, and the system shows bimodality, i.e., a sudden transition between different fragmentation patterns, as a function of centrality, as expected for a phase transition. The fragment spectra at small and large rapidities, on the other hand, are determined by dynamics, and the system as a whole does not come to equilibrium--an observation that is confirmed by FOPI Collaboration experiments for the same system.

  17. Neutrino-nucleus reactions based on recent structure studies

    SciTech Connect

    Suzuki, Toshio

    2015-05-15

    Neutrino-nucleus reactions are studied with the use of new shell model Hamiltonians, which have proper tensor components in the interactions and prove to be successful in the description of Gamow-Teller (GT) strengths in nuclei. The new Hamiltonians are applied to obtain new neutrino-nucleus reaction cross sections in {sup 12}C, {sup 13}C, {sup 56}Fe and {sup 56}Ni induced by solar and supernova neutrinos. The element synthesis by neutrino processes in supernova explosions is discussed with the new cross sections. The enhancement of the production yields of {sup 7}Li, {sup 11}B and {sup 55}Mn is obtained while fragmented GT strength in {sup 56}Ni with two-peak structure is found to result in smaller e-capture rates at stellar environments. The monopole-based universal interaction with tensor force of π+ρ meson exchanges is used to evaluate GT strength in {sup 40}Ar and ν-induced reactions on {sup 40}Ar. It is found to reproduce well the experimental GT strength in {sup 40}Ar.

  18. Novel polymerase chain reaction-restriction fragment length polymorphism assay to determine internal transcribed spacer-2 group in the Chagas disease vector, Triatoma dimidiata (Latreille, 1811).

    PubMed

    Richards, Bethany; Rúa, Nicholas M de la; Monroy, Carlota; Stevens, Lori; Dorn, Patricia L

    2013-06-01

    Triatoma dimidiata is the most important Chagas disease insect vector in Central America as this species is primarily responsible for Trypanosoma cruzi transmission to humans, the protozoan parasite that causes Chagas disease. T. dimidiata sensu lato is a genetically diverse assemblage of taxa and effective vector control requires a clear understanding of the geographic distribution and epidemiological importance of its taxa. The nuclear ribosomal internal transcribed spacer 2 (ITS-2) is frequently used to infer the systematics of triatomines. However, oftentimes amplification and sequencing of ITS-2 fails, likely due to both the large polymerase chain reaction (PCR) product and polymerase slippage near the 5' end. To overcome these challenges we have designed new primers that amplify only the 3'-most 200 base pairs of ITS-2. This region distinguishes the ITS-2 group for 100% of known T. dimidiata haplotypes. Furthermore, we have developed a PCR-restriction fragment length polymorphism (RFLP) approach to determine the ITS-2 group, greatly reducing, but not eliminating, the number of amplified products that need to be sequenced. Although there are limitations with this new PCR-RFLP approach, its use will help with understanding the geographic distribution of T. dimidiata taxa and can facilitate other studies characterising the taxa, e.g. their ecology, evolution and epidemiological importance, thus improving vector control.

  19. Fragmentation energetics for angiotensin II and its analogs from time- and energy-resolved surface-induced dissociation studies

    NASA Astrophysics Data System (ADS)

    Laskin, Julia; Bailey, Thomas H.; Futrell, Jean H.

    2004-05-01

    Surface-induced dissociation (SID) of four model peptides: DRVYIHPF, RVYIHPF, RVYIHAF, and RVYIHDF was studied using a novel Fourier transform ion cyclotron resonance mass spectrometer (FT-ICR MS) specially configured for SID experiments. The energetics and dynamics of peptide fragmentation were deduced by modeling the time- and energy-resolved survival curves for each precursor ion using an RRKM based approach developed in our laboratory. Accurate dissociation parameters can be obtained from these experiments because collision-energy-resolved SID data are very sensitive to both the energetics and dynamics of dissociation. We found that transition from selective to non-selective fragmentation as ion kinetic energy is increased is associated with a substantial (ca. 0.5 eV) increase in the dissociation energy and a 3-4 orders of magnitude increase in the pre-exponential factor. Dissociation thresholds for angiotensin analogs derived from the experimental data are as follows: 1.62 eV for RVYIHAF and RVYIHPF, 1.14 eV for RVYIHDF and 1.13 eV for DRVYIHPF. Pre-exponential factors of 8.2×1011, 7.2×1012, 3.1×108, and 5.0×107 s-1 were obtained for RVYIHPF, RVYIHAF, RVYIHDF, and DRVYIHPF, respectively. Contribution from shattering to the total decomposition of the precursor ion increases for kinetically hindered fragmentation. The largest contribution is observed for a peptide ion that has the largest negative reaction entropy--DRVYIHPF.

  20. Photocross-Linked Peptide-Protein Complexes Analysis: A Comparative Study of CID and ETD Fragmentation Modes

    NASA Astrophysics Data System (ADS)

    Clavier, Séverine; Bolbach, Gérard; Sachon, Emmanuelle

    2015-06-01

    Protein-protein interactions are among the keys to organizing cellular processes in space and time. One of the only direct ways to identify such interactions in their cellular environment is to covalently bond the interacting partners to fix the interaction. Photocross-linking in living cells is thus a very promising technique. The feasibility of in cellulo photocross-linking reactions has been shown and mass spectrometry is a tool of choice to analyze photocross-linked proteins. However, the interpretation of the MS and MS/MS spectra of photocross-linked peptides remains one of the most important bottlenecks of the method and still limits its potential for large-scale applications (interactomics). Fundamental studies are still necessary to understand and characterize the fragmentation behavior of photocross-linked peptides. Here, we report the successful identification of the interaction sites in a well-characterized model of in vitro interaction between a protein and a peptide. We describe in detail the fragmentation pattern of these photocross-linked species in order to identify trends that could be generalized. In particular, we compare CID and ETD fragmentation modes (and HCD in a lesser extent), demonstrating the complementarity of both methods and the advantage of ETD for the analysis of photocross-linked species. The information should help further development of dedicated software to properly score MS/MS spectra of photocross-linked species.

  1. Experiments on a videotape atom chip: fragmentation and transport studies

    NASA Astrophysics Data System (ADS)

    Llorente García, I.; Darquié, B.; Curtis, E. A.; Sinclair, C. D. J.; Hinds, E. A.

    2010-09-01

    This paper reports on experiments with ultracold rubidium atoms confined in microscopic magnetic traps created using a piece of periodically magnetized videotape mounted on an atom chip. The roughness of the confining potential is studied with atomic clouds at temperatures of a few μK and at distances between 30 and 80 μm from the videotape-chip surface. The inhomogeneities in the magnetic field created by the magnetized videotape close to the central region of the chip are characterized in this way. In addition, we demonstrate a novel transport mechanism whereby we convey cold atoms confined in arrays of videotape magnetic micro-traps over distances as large as ~1 cm parallel to the chip surface. This conveying mechanism enables us to survey the surface of the chip and observe potential-roughness effects across different regions.

  2. Vibration from freight trains fragments sleep: A polysomnographic study

    PubMed Central

    Smith, Michael G.; Croy, Ilona; Hammar, Oscar; Persson Waye, Kerstin

    2016-01-01

    As the number of freight trains on railway networks increases, so does the potential for vibration exposure in dwellings nearby to freight railway lines. Nocturnal trains in particular are of particular importance since night-time exposure may interfere with sleep. The present work investigates the impact of vibration and noise from night-time freight trains on human sleep. In an experimental polysomnographic laboratory study, 24 young healthy volunteers with normal hearing were exposed to simulated freight pass-bys with vibration amplitudes of 0.7 and 1.4 mm/s either 20 or 36 times during the night. Stronger vibrations were associated with higher probabilities of event-related arousals and awakenings (p < 0.001), and sleep stage changes (p < 0.05). Sleep macrostructure was most affected in high vibration nights with 36 events, with increased wakefulness (p < 0.05), reduced continual slow wave sleep (p < 0.05), earlier awakenings (p < 0.05) and an overall increase in sleep stage changes (p < 0.05). Subjects reported sleep disturbance due to vibration (F(4,92) = 25.9, p < 0.001) and noise (F(4,92) = 25.9, p < 0.001), with the number of trains having an effect only for the 0.7 mm/s condition (p < 0.05). The findings show that combined vibration and noise from railway freight affects the natural rhythm of sleep, but extrapolation of significance for health outcomes should be approached with caution. PMID:27090401

  3. o-Benzyne fragmentation and isomerization pathways: a CASPT2 study.

    PubMed

    Ghigo, Giovanni; Maranzana, Andrea; Tonachini, Glauco

    2014-11-21

    The mechanisms of the fragmentation and isomerization pathways of o-benzyne were studied at the multi-configurational second-order perturbative level [CAS(12,12)-PT2]. The direct fragmentation of o-benzyne to C2H2 + C4H2 follows two mechanisms: a concerted mechanism and a stepwise mechanism. Although the concerted mechanism is characterized by a single closed-shell transition structure, the stepwise pathway is more complex and structures with a strong diradical character are seen. A third diradicaloid fragmentation pathway of o-benzyne yields C6H2 as the final product. As an alternative to fragmentation, o-benzyne can also undergo rearrangement to its meta and para isomers and to the open chain cis and trans isomers of hexa-3-en-1,6-diyne (HED). These easily fragment to C2H2 + C4H2 or C6H2. Kinetic modelling at several different temperatures between 800 and 3000 K predicted that the thermal decomposition of o-benzyne should yield C2H2, C4H2 and C6H2 as the main products. Small amounts of the HED isomers accumulated at temperatures <1200 K, but they rapidly decompose at higher temperatures. Between 1000 and 1400 K, C2H2 + C4H2 are formed exclusively from the decomposition of trans-HED. At temperatures >1400 K, C2H2 + C4H2 also form from the direct fragmentation of o-benzyne. The formation of C2H2 + C4H2 prevails up to 1600 K but above this temperature the formation of C6H2 prevails. At temperatures >2400 K, the direct fragmentation of o-benzyne again leads to the formation of C2H2 + C4H2. The formation of hydrogen atoms is also explained by our proposed mechanisms. PMID:25283147

  4. o-Benzyne fragmentation and isomerization pathways: a CASPT2 study.

    PubMed

    Ghigo, Giovanni; Maranzana, Andrea; Tonachini, Glauco

    2014-11-21

    The mechanisms of the fragmentation and isomerization pathways of o-benzyne were studied at the multi-configurational second-order perturbative level [CAS(12,12)-PT2]. The direct fragmentation of o-benzyne to C2H2 + C4H2 follows two mechanisms: a concerted mechanism and a stepwise mechanism. Although the concerted mechanism is characterized by a single closed-shell transition structure, the stepwise pathway is more complex and structures with a strong diradical character are seen. A third diradicaloid fragmentation pathway of o-benzyne yields C6H2 as the final product. As an alternative to fragmentation, o-benzyne can also undergo rearrangement to its meta and para isomers and to the open chain cis and trans isomers of hexa-3-en-1,6-diyne (HED). These easily fragment to C2H2 + C4H2 or C6H2. Kinetic modelling at several different temperatures between 800 and 3000 K predicted that the thermal decomposition of o-benzyne should yield C2H2, C4H2 and C6H2 as the main products. Small amounts of the HED isomers accumulated at temperatures <1200 K, but they rapidly decompose at higher temperatures. Between 1000 and 1400 K, C2H2 + C4H2 are formed exclusively from the decomposition of trans-HED. At temperatures >1400 K, C2H2 + C4H2 also form from the direct fragmentation of o-benzyne. The formation of C2H2 + C4H2 prevails up to 1600 K but above this temperature the formation of C6H2 prevails. At temperatures >2400 K, the direct fragmentation of o-benzyne again leads to the formation of C2H2 + C4H2. The formation of hydrogen atoms is also explained by our proposed mechanisms.

  5. Studies on reactions of ozone with alkenes.

    PubMed

    Protczak, Agnieszka; Trzeszczynski, Jerzy

    2002-01-01

    In the last years, a continuous increase of the O3 concentration has been recorded in the lower atmospheric layers. Photochemical reactions with NO(x), CO and organic compounds are the main sources of O3 in the troposphere. In this work, an attempt was made to determine the impact of alkenes on the O3 concentration in the troposphere. A study on the gas-phase reactions of 03 with 1-hexene, 1-heptene and 1-nonene was made. The reactions were carried out at room temperature under atmospheric pressure. Ozone was formed by the ultraviolet radiation emitted by a mercury lamp, in order to simulate the atmospheric conditions. The changes with time in the concentration of O3, 1-alkenes and formed aldehydes were investigated. Qualitative and quantitative analyses were done by means of the gas chromatography and colorimetry. The following products were identified: pentanal from 1-hexene; hexanal from 1-heptene; oktanal from 1-nonene. For each of the reactions, HCHO was also determined as a product. The reaction rate constants were calculated and obtained in units of 10(-17) cm(-3) molecule(-1) s(-1): 1.94-0.99 for 1-hexene, 5.54-4.51 for 1-heptene and 1.54-0.76 for 1-nonene. Based on the results obtained, an explanation of O3 concentration variations in the planetary boundary layer can be given. Last year a considerable increase of O3 concentration on the roads of Western Europe was recorded. This increase could have resulted from the decrease of alkene concentration in the air due to common use of the catalytic converters in cars. The unsaturated hydrocarbons rapidly oxidize on the catalyst. In Eastern Europe, where the amount of cars equipped with catalytic converters is smaller than in Western Europe, the alkene content in the exhaust fumes results in a decrease of the O3 concentration in the troposphere.

  6. Fragment charge and energy distributions in the 1.8-4.8 GeV {sup 3}He + {sup nat}Ag, {sup 197}Au reactions

    SciTech Connect

    Bracken, D.S.; Foxford, E.R.; Kwiatkowski, K.

    1995-10-01

    Moving source fits have been performed for IMFs as a function of observables related to collision violence in the 1.8-4.8 GeV {sup 3}He +{sup nat}Ag, {sup l97}Au reactions. The systematic behavior of the source properties and fragment charge distributions will be reviewed. The evolution of the spectral Coulomb parameters provides evidence for nuclear expansion prior to multifragmentation, suggesting a breakup density of p/p{sub o} {approximately} 1/3. The charge distributions will be examined in terms of power-law fits and moment analyses.

  7. Strong enhancement of dynamical emission of heavy fragments in the neutron-rich {sup 124}Sn+{sup 64}Ni reaction at 35A MeV

    SciTech Connect

    Russotto, P.; Amorini, F.; Cavallaro, S.; Di Toro, M.; Giustolisi, F.; Porto, F.; Rizzo, F.; De Filippo, E.; Pagano, A.; Cardella, G.; Lanzano, G.; Papa, M.; Pirrone, S.; Piasecki, E.; Auditore, L.; Trifiro, A.; Trimarchi, M.

    2010-06-15

    A quantitative comparison is made between the absolute cross sections associated with statistical and dynamical emission of heavy fragments in the {sup 124}Sn+{sup 64}Ni and {sup 112}Sn+{sup 58}Ni collisions experimentally investigated at 35A MeV beam energy using the multidetector CHIMERA. The result shows that the dynamical process is about twice as probable in the neutron-rich {sup 124}Sn+{sup 64}Ni system as in the {sup 112}Sn+{sup 58}Ni neutron-poor one. This unexpected and significant difference indicates that the reaction mechanism is strongly dependent on the entrance-channel isospin (N/Z) content.

  8. Electron-impact-induced tryptophan molecule fragmentation

    NASA Astrophysics Data System (ADS)

    Tamuliene, Jelena; Romanova, Liudmila G.; Vukstich, Vasyl S.; Papp, Alexander V.; Snegursky, Alexander V.

    2015-01-01

    The fragmentation of a gas-phase tryptophan molecule by a low-energy (<70 eV) electron impact was studied both experimentally and theoretically. Various positively charged fragments were observed and analyzed. A special attention was paid to the energy characteristics of the ionic fragment yield. The geometrical parameters of the initial molecule rearrangement were also analyzed. The fragmentation observed was due to either a simple bond cleavage or more complex reactions involving molecular rearrangements. Contribution to the Topical Issue "Elementary Processes with Atoms and Molecules in Isolated and Aggregated States", edited by Friedrich Aumayr, Bratislav Marinkovic, Stefan Matejcik, John Tanis and Kurt H. Becker.

  9. Matrilineage differentiation of the genus Tetragonisca using mitochondrial DNA markers and the polymerase chain reaction-restriction fragment length polymorphism technique.

    PubMed

    Santos, S A; Bronzato, A R; Moreira, B M T; Araujo, K F; Ronqui, L; Mangolin, C A; Toledo, V A A; Ruvolo-Takasusuki, M C C

    2015-10-21

    The Meliponinae are important pollinators of plant species, and one of the most managed species is Tetragonisca angustula. Initially, two subspecies were identified in T. angustula: T. angustula angustula and T. angustula fiebrigi. Subsequently, T. a. fiebrigi was considered a species, based on the coloration of its mesepisternum. The objective of the present study was to obtain genetic markers that could differentiate the two species by amplifying regions of mitochondrial DNA and conducting polymerase chain reaction-restriction fragment length polymorphism analysis. Worker bees were collected in three Brazilian states: Paraná (Maringá, Altônia, and Foz do Iguaçu), São Paulo (Dracena, São Carlos, and Santa Cruz do Rio Pardo), and Rondônia (Ariquemes). Ten pairs of insect heterologous primers were tested and four were used (primer pair 1, ND2 and COI; primer pair 2, COI; primer pair 8, 16S and 12S; and primer pair 9, COII). For the restriction analysis, 13 enzymes were tested: EcoRI, EcoRV, HindIII, HinfI, RsaI, PstI, XbaI, HaeIII, ClaI, XhoI, BglII, PvuII, and ScaI. Markers were obtained (primer pair 8 cleaved with EcoRV and XbaI and primer pair 9 cleaved with HaeIII, RsaI, and XbaI) that enabled matrilineage identification in the nests studied, which confirmed that hybridization could occur between both Tetragonisca species. The beginning of speciation was probably recent, and secondary contact has resulted in crosses between T. angustula females and T. fiebrigi males. Because of this hybridization, it would be appropriate to consider them as two subspecies of T. angustula.

  10. Close association of predominant genotype of herpes simplex virus type 1 with eczema herpeticum analyzed using restriction fragment length polymorphism of polymerase chain reaction.

    PubMed

    Yoshida, Masami; Umene, Kenichi

    2003-04-01

    Herpes simplex virus type 1 (HSV-1) strains belonging to the same genotype can possibly share biological properties and clinical manifestations common to the genotype. We classified previously 66 HSV-1 strains into 35 genotypes (F1-F35) using restriction fragment length polymorphism (RFLP) and F1 and F35 genotypes were revealed to be predominant [Arch. Virol. 13 (1993) 29]. It was found later that the F35 genotype seemed to be closely associated with eczema herpeticum [J. Med. Virol. 49 (1996) 329]. In the present study, a convenient method was developed for classification of two predominant genotypes by RFLP of polymerase chain reaction (RFLP-PCR). Using this method, genotypes of 21 strains isolated from eczema herpeticum were analyzed; seven of 21 strains (33.3%) were of F1 and five of 21 (23.8%) were of F35. Genotypes of 19 strains isolated from facial herpes other than eczema herpeticum were as follows; six of 19 (31.6%) strains were of F1 and one of 19 (5.3%) were of F35. Thus, strains belonging to F35 were appear to have been isolated more frequently from eczema herpeticum (5/21) than from facial herpes (1/19). These ratios showed a statistically significant difference. These results support the hypothesis that F35 strains is clearly associated with eczema herpeticum, in agreement with previous study. This is the first report of PCR-based approach for classification of HSV-1 strains into genotypes seeking an association of a genotype with clinical manifestation.

  11. Theoretical Study of OH Reaction with Toluene

    NASA Astrophysics Data System (ADS)

    Suh, I.; Zhang, D.; Zhang, R.; Molina, L. T.; Molina, M. J.

    2001-12-01

    Aromatic hydrocarbons constitute a major faction of total volatile organic compounds (VOCs) in the urban and regional atmosphere, and are emitted primarily from anthropogenic sources, i.e. emission from automobiles, fuel-based vehicles, and industry. In addition to their important role in gas-phase chemistry of urban air pollution, oxidation of aromatic hydrocarbons leads to formation of various non-volatile and semi-volatile organic compounds, which are responsible for the formation of secondary organic aerosols. Toluene is the most abundant aromatic hydrocarbon. Reactions of toluene in the atmosphere are mainly initiated by attack from hydroxyl radical OH. In this study, we report a theoretical study of the reaction of toluene with OH. Density functional theory (DFT) and ab initio calculations have been employed to investigate the OH-toluene adduct isomers. The geometries and energetics of the four isomers of the OH-toluene adduct radicals as well as their corresponding transition states are presented. The DFT and ab initio theories applicable to the OH-toluene reaction system are evaluated. We also present calculations of the rate constants and isomeric branching ratios of the formation of the OH-toluene adduct isomers.

  12. Studies Toward the Synthesis of Spirolides: Assembly of the Elaborated E-Ring Fragment

    PubMed Central

    Stivala, Craig E.; Zakarian, Armen

    2009-01-01

    A stereoselective synthesis of the spiroimine fragment of spirolide C is described. The congested C7 and C29 tertiary and quaternary centers are constructed by a diastereoselective Ireland-Claisen rearrangement. The E ring is completed by means of an aldol cyclocondensation. Additional studies were preformed on the advanced intermediate to probe a future coupling strategy. PMID:19199776

  13. Fragmentation studies and electrospray ionization mass spectrometry of lapachol: protonated, deprotonated and cationized species.

    PubMed

    Vessecchi, Ricardo; Emery, Flavio S; Galembeck, Sérgio E; Lopes, Norberto P

    2010-07-30

    Electrospray ionization mass spectrometric analysis of lapachol (2-hydroxy-3-(3-methyl-2-butenyl)-1,4-naphthoquinone) was accomplished in order to elucidate the gas-phase dissociation reactions of this important biologically active natural product. The occurrence of protonated and cationized species in the positive mode and of deprotonated species in the negative mode was explored by means of collision-induced dissociation (CID) experiments. For the protonated molecule, the H(2)O and C(4)H(8) losses occur by two competitive channels. For the deprotonated molecule, the even-electron rule is not conserved, and the radicalar species are eliminated by formation of distonic anions. The fragmentation mechanism for each ion was suggested on the basis of computational thermochemistry. Atomic charges, relative energies, and frontier orbitals were employed aiming at a better understanding of the gas-phase reactivity of lapachol. Potential energy surfaces for fragmentation reactions were obtained by the B3LYP/6-31+G(d,p) model. PMID:20552691

  14. Identification of Pork Contamination in Meatballs of Indonesia Local Market Using Polymerase Chain Reaction-Restriction Fragment Length Polymorphism (PCR-RFLP) Analysis.

    PubMed

    Erwanto, Yuny; Abidin, Mohammad Zainal; Sugiyono, Eko Yasin Prasetyo Muslim; Rohman, Abdul

    2014-10-01

    This research applied and evaluated a polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) using cytochrome b gene to detect pork contamination in meatballs from local markets in Surabaya and Yogyakarta regions, Indonesia. To confirm the effectiveness and specificity of this fragment, thirty nine DNA samples from different meatball shops were isolated and amplified, and then the PCR amplicon was digested by BseDI restriction enzyme to detect the presence of pork in meatballs. BseDI restriction enzyme was able to cleave porcine cytochrome b gene into two fragments (131 bp and 228 bp). Testing the meatballs from the local market showed that nine of twenty meatball shops in Yogyakarta region were detected to have pork contamination, but there was no pork contamination in meatball shops in Surabaya region. In conclusion, specific PCR amplification of cytochrome b gen and cleaved by BseDI restriction enzymes seems to be a powerful technique for the identification of pork presence in meatball because of its simplicity, specificity and sensitivity. Furthermore, pork contamination intended for commercial products of sausage, nugget, steak and meat burger can be checked. The procedure is also much cheaper than other methods based on PCR, immunodiffusion and other techniques that need expensive equipment.

  15. Study of aneuploidy rate and sperm DNA fragmentation in large-headed, multiple-tailed spermatozoa.

    PubMed

    Brahem, S; Mehdi, M; Elghezal, H; Saad, A

    2012-04-01

    The aim of this study was to analyse the meiotic segregation and DNA fragmentation rates in ejaculated spermatozoa of Tunisian men who presented the macrocephalic sperm head syndrome and to compare the results with those from 20 fertile men with normal semen profiles. Sperm DNA fragmentation was evaluated by the terminal desoxynucleotidyl transferase-mediated deoxyuridine triphosphate biotin nick-end labelling assay. Fluorescence in situ hybridisation for chromosomes X, Y and 18 was performed for the study of meiotic segregation. Despite a normal blood karyotype, patients with large-headed spermatozoa showed a significantly higher incidence of sperm chromosomal abnormalities compared with the control group. For all the patients, tetraploidy, triploidy and diploidy were the most observed abnormalities. A very high level of DNA fragmentation was shown for these patients. In conclusion, our results demonstrated that patients with large-headed, multiple-tailed spermatozoa had significantly higher incidence of sperm chromosomal abnormalities and very high level of DNA fragmentation. So intracytoplasmic sperm injection should not be recommended to these patients, not only because of its low chances of success rate but also because of its high genetic risk.

  16. Computational Hydrocode Study of Target Damage due to Fragment-Blast Impact

    SciTech Connect

    Hatch-Aguilar, T; Najjar, F; Szymanski, E

    2011-03-24

    ), Pressure-Impulse (PI) and Time of Duration (TD). Other peculiarities include the radial decrease in pressure from the source, any fireball size measurement, and subsequent increase in temperature from the passing of the shockwave through the surrounding medium. In light of all of these metrics, the loading any object receives from a blast event becomes intricately connected to the distance between itself and the source. Because of this, a clear distinction is made between close-in effects and those from a source far away from the object of interest. Explosively generated fragments on the other hand are characterized by means of their localized damage potential. Metrics such as whether the fragment penetrates or perforates a given object is quantified as well as other variables including fragment's residual velocity, % kinetic energy decrease, residual fragment mass and other exit criteria. A fragment launched under such violent conditions could easily be traveling at speeds in excess of 2500 ft/s. Given these speeds it is conceivable to imagine how any given fragment could deliver a concentrated load to a target and penetrates through walls, vehicles or even the protection systems of nearby personnel. This study will focus on the individual fragment-target impact event with the hopes of expanding it to eventually include statistical procedures. Since this is a modeling excursion into the combined frag-blast target damage effects the numerical methods used to frame this problem become important in-so-far as the simulations are done in a consistent manner. For this study a Finite-Element based Hydrocode solution called ALE3D (ALE=Arbitrary Lagrangian-Eulerian) was utilized. ALE3D is developed by Lawrence Livermore National Laboratory (Livermore, CA), and as this paper will show, successfully implemented a converged ALE formulation including as many of the different aspects needed to query the synergistic damage on a given target. Further information on the modeling setup is

  17. The influence of contour fragmentation on recognition memory: an event-related potential study.

    PubMed

    Brodeur, Mathieu B; Debruille, J Bruno; Renoult, Louis; Prévost, Marie; Dionne-Dostie, Emmanuelle; Buchy, Lisa; Lepage, Martin

    2011-06-01

    The present study was carried out to examine how the event-related potentials to fragmentation predict recognition success. Stimuli were abstract meaningless figures that were either complete or fragmented to various extents but still recoverable. Stimuli were first encoded as part of a symmetry discrimination task. In a subsequent recognition phase, encoded stimuli were presented complete along with never presented stimuli and participants performed an old/new discrimination task. Fragmentation stimuli elicited more negative ERPs than complete figures over the frontal, central and parietal areas between 180 and 260 ms, and over the occipito-temporal areas between 220 and 340 ms. Only this latter effect was modulated as a function of whether stimuli were recognized or not during the recognition phase of the memory test. More specifically, the effect occurred for stimuli that were later forgotten and was absent for stimuli that were later recognized. This ERP to fragmentation, the occipito-temporal N(frag), possibly reflects the brain response to encoding difficulty, and is thus predictive of recognition performance.

  18. Competition between functionalization and fragmentation pathways in the OH-initiated oxidation of aqueous tartaric acid droplets: Reaction products and model simulations

    NASA Astrophysics Data System (ADS)

    Cheng, C. T.; Chow, C. Y.; Chan, M. N.; Zuend, A.; Berkemeier, T.; Shiraiwa, M.

    2015-12-01

    To gain better insights into the competition between functionalization and fragmentation pathways for oxygenated organic compounds, we investigate the OH-radical initiated oxidation of aqueous tartaric acid (C4H6O6) droplets using an aerosol flow tube reactor. The molecular composition of reaction products is characterized by an atmospheric pressure ionization source (Direct Analysis in Real Time, DART) coupled with a high resolution mass spectrometer. The reaction produces four major products: a functionalization product (C4H4O6) and three fragmentation products (C3H4O4, C3H2O4 and C3H2O5), with a predominance of the functionalization product which supports the literature result that only less than 10% of carbon loss was observed for the OH oxidation of tartaric acid. The formation of the functionalization product (2-hydroxy-3-oxosuccinic acid, C4H4O6) can be attributed to that the tertiary alkyl radical, formed after hydrogen abstraction, reacts with an O2 molecule to form a hydroxyperoxyl radical which tends to quickly undergo intramolecular HO2 elimination without fragmentation. The molecular transformation of aqueous tartaric acid droplets is stimulated using the kinetic multi-layer model of gas-particle interactions in aerosols and clouds (KM-GAP) and the Aerosol Inorganic-Organic Mixtures Functional groups Activity Coefficients (AIOMFAC) model in order to take into account the change in particle-phase water and activities of reaction products during the oxidation. Results suggest that aqueous tartaric acid droplets become slightly less hygroscopic after oxidation due to the formation of less polar products. The formation of products with different hygroscopicities and volatilities largely determine the amount of particle-phase water, which in turn governs the size of the aqueous droplets and the concentration of the reactants. Consideration of the variation in water content in response to the chemical evolution in the aerosol is needed to better understand

  19. Effects of fragmentation parameter variations on estimates of galactic cosmic ray exposure: Dose sensitivity studies for aluminum shields

    NASA Technical Reports Server (NTRS)

    Townsend, Lawrence W.; Cucinotta, Francis A.; Shinn, Judy L.; Wilson, John W.

    1992-01-01

    Initial studies of the sensitivities of estimates of particle fluence, absorbed dose, and dose equivalent to fragmentation parameter variations are undertaken by using the LaRC galactic cosmic ray transport code (HZETRN). The new results, presented as a function of aluminum shield thickness, include upper and lower bounds on dose/dose equivalent corresponding to the physically realistic extremes of the fragmentation process and the percentage of variation of the dose/dose equivalent as a function of fragmentation parameter variation.

  20. Differentiation of canine distemper virus isolates in fur animals from various vaccine strains by reverse transcription-polymerase chain reaction-restriction fragment length polymorphism according to phylogenetic relations in china

    PubMed Central

    2011-01-01

    In order to effectively identify the vaccine and field strains of Canine distemper virus (CDV), a new differential diagnostic test has been developed based on reverse transcription-polymerase chain reaction (RT-PCR) and restriction fragment length polymorphism (RFLP). We selected an 829 bp fragment of the nucleoprotein (N) gene of CDV. By RFLP analysis using BamHI, field isolates were distinguishable from the vaccine strains. Two fragments were obtained from the vaccine strains by RT-PCR-RFLP analysis while three were observed in the field strains. An 829 nucleotide region of the CDV N gene was analyzed in 19 CDV field strains isolated from minks, raccoon dogs and foxes in China between 2005 and 2007. The results suggest this method is precise, accurate and efficient. It was also determined that three different genotypes exist in CDV field strains in fur animal herds of the north of China, most of which belong to Asian type. Mutated field strains, JSY06-R1, JSY06-R2 and JDH07-F1 also exist in Northern China, but are most closely related to the standard virulent strain A75/17, designated in Arctic and America-2 genetype in the present study, respectively. PMID:21352564

  1. Experimental studies of gas-aerosol reactions

    NASA Astrophysics Data System (ADS)

    Gupta, Anand

    1991-05-01

    The aqueous phase oxidation of SO2 by H2O2 is believed to the principle mechanism for atmospheric sulfate formation in cloud droplets. However, no studies in noncloud aerosol systems have been reported. The objective is to quantify the importance of the noncloud liquid phase reactions of SO2 by H2O2 in the atmosphere. Growth rates of submicron droplets exposed to SO2 and H2O2 were measured using the tandem differential mobility analyzer (TDMA) technique (Rader and McMurry, 1986). The technique uses differential mobility analyzers (DMA's) to generate monodisperse particles and to measure particle size after the reaction. To facilitate submicron monodisperse droplet production with the DMA, a low-ion-concentration charter capable of generating singly charged particles up to 1.0 microns was developed and experimentally evaluated. The experiments were performed using dry and deliquesced (NH4)2SO4 particles with SO2 and H2O2 concentrations from 0-860 ppb and 0-150 ppb, respectively. No growth was observed for dry particles. For droplets greater than or equal to 0.3 microns, the fractional diameter growth was independent of particle size and for droplets less than or equal to 0.2 microns, it decreased as particle size decreased. The observed decrease is due to NH3 evaporation. As ammonia evaporates, droplet pH decreases causing the oxidation rate to decrease, leading to a lower growth rate. To predict the size-dependent growth rates, a theoretical model was developed using solution thermodynamics, gas/particle equilibrium, and chemical kinetics. The experimental and theoretical results are in reasonable agreement. For dry (NH4)2SO4 particles exposed to SO2, H2O2, NH3, and H2O vapor, surface reaction-controlled growth was observed. Particle growth was very sensitive to particle composition. No growth was observed for Polystyrene latex particles, whereas (NH4)2SO4 particles doped with catalysts (Fe(2+), Fe(3+), Mn(2+) and Cu(2+)) in a molar ratio of 1:500 grew slower than

  2. Monitoring Adverse Drug Reactions: A Preliminary Study

    PubMed Central

    Reynolds, J. L.

    1981-01-01

    The feasibility of family physicians functioning as monitors of adverse drug reactions (ADR) was examined over one month in ten practices. This was done as a preliminary trial, before attempting to use the 200 family physicians of the National Reporting System of the College of Family Physicians of Canada to monitor ADRs on a national basis. Both of these trials were designed to examine the feasibility of family physicians acting as prospective monitors of ADRs in newly marketed drugs and to identify a drug group suitable for monitoring. This study examined the detection of ADRs, prescribing and practice profiles. No firm conclusion could be reached as to the value of family doctors monitoring ADRs. This study supports the evidence that older patients receive more drugs and are at even greater risk of an ADR. Antibiotics, cardiovascular, anti-inflammatory or antidepressant drugs are suggested as those most suitable for prospective monitoring in a family practice setting. PMID:21289786

  3. Amplification of ribulose biphosphate carboxylase/oxygenase large subunit (RuBisCO LSU) gene fragments from Thiobacillus ferrooxidans and a moderate thermophile using polymerase chain reaction.

    PubMed

    Holden, P J; Brown, R W

    1993-07-01

    Southern blot analysis of DNA from an iron-oxidising moderate thermophile NMW-6 and from Thiobacillus ferrooxidans strain TFI-35 demonstrated sequences homologous to the RuBisCO LSU gene of Synechococcus. DNA fragments (457 bp) encoding part of the RuBisCO LSU gene (amino acids 73-200) were amplified from the genomic DNA of Thiobacillus ferrooxidans and the moderate thermophile NMW-6 using the polymerase chain reaction (PCR) technique (Saiki et al. (1985) Science 233, 1350-1354). A comparison with the LSU sequences from T. ferrooxidans, Alcaligenes eutrophus, Chromatium vinosum, Synechococcus and Spinacea oleracea, which all have RuBisCOs with a hexadecameric structure, showed that the RuBisCO LSU gene sequence from NMW-6 appeared to be most closely related to that of the hydrogen bacterium A. eutrophus which showed 71.9% homology at the amino acid level. Despite its physiological similarity, T. ferrooxidans showed only 64.1% homology to the amino acid sequence from NMW-6 and had the lowest DNA homology (60.9%) of the hexadecameric type RuBisCOs. In the region sequenced, T. ferrooxidans and the RuBisCOs of the phototrophs C. vinosum, Synechococcus and S. oleracea, had 17 residues that were completely conserved which were substituted in both NMW-6 and A. eutrophus, 11 of these being identical substitutions. Comparison of the nucleotide and derived amino acid sequences of the RuBisCO LSU fragment from T. ferrooxidans with other RuBisCO sequences indicated a closer relationship to the hexadecameric type LSU genes of photosynthetic origin than to that of A. eutrophus. The T. ferrooxidans amino acid sequence showed 93.8%, 78.9% and 77.3% homology, respectively, to the C. vinosum, Synechococcus and S. oleracea (spinach) sequences but only 56.2% to A. eutrophus. The DNA sequence from Rhodospirillum rubrum, which has the atypical large subunit dimer RuBisCO structure with no small subunit, showed 39.2% and 42.7% homology, respectively, with the sequences of NMW-6 and T

  4. Production of cold target-like fragments in the reaction of /sup 48/Ca+/sup 248/Cm

    SciTech Connect

    Gaeggeler, H.; Bruechle, W.; Bruegger, M.; Schaedel, M.; Suemmerer, K.; Wirth, G.; Kratz, J.V.; Lerch, M.; Blaich, T.; Herrmann, G.

    1986-06-01

    Yields for isotopes of Rn through Pu have been measured in the reaction /sup 48/Ca+/sup 248/Cm at an energy of 248--263 MeV (1.04--1.10 times the Coulomb barrier). Despite the low bombarding energy, high and essentially constant integral yields of about 1 to 2 mb for the elements Rn through U were observed. There is evidence that these nuclides are produced with little excitation energy.

  5. Pre-atmospheric parameters and fragment distribution: Case study for the Kosice meteoroid

    NASA Astrophysics Data System (ADS)

    Gritsevich, M.; Vinnikov, V.; Kuznetsova, D.; Kohout, T.; Pupyrev, Y.; Peltoniemi, J.; Tóth, J.; Britt, D.; Turchak, L.; Virtanen, J.

    2014-07-01

    We present results on our investigation on the Košice meteorite --- one of the recent falls with a well-derived trajectory and large number of recovered fragments. A fireball appeared over central-eastern Slovakia on February 28, 2010. The bolide reached an absolute magnitude of at least -18, enabling radiometers of the European Fireball Network to track the fireball despite the cloudy and rainy weather. The landing area was successfully computed on the basis of data from the surveillance cameras operating in Hungary and led to a fast meteorite recovery (Borovička et al. 2013). The first reported fragment of the meteorite was located northwest of the city of Košice in eastern Slovakia (Tóth et al. 2014). 218 fragments of the Košice meteorite, with a total mass of 11.285 kg, have been documented with almost 7 kg belonging to the collection of the Comenius University in Bratislava and Astronomical Institute of Slovak Academy of Sciences (Gritsevich et al. 2014). Based on the statistical investigation of the recovered fragments, bimodal Weibull, bimodal Grady, and bimodal lognormal distributions are found to be the most appropriate distributions for describing the Košice fragmentation process. The most probable scenario suggests that the Košice meteoroid, prior to further extensive fragmentation in the lower atmosphere, was initially represented by two independent pieces with cumulative residual masses of approximately 2 kg and 9 kg respectively (Gritsevich et al. 2014). About 1/3 of the recovered Košice fragments were thoroughly studied, including magnetic susceptibility, bulk and grain density measurements reported by Kohout et al. (2014). This analysis revealed that the Košice meteorites are H5 ordinary chondrites that originated from a homogenous parent meteoroid. To estimate the dynamic mass of the main fragment, we studied the first integral of the drag and mass-loss equations, and the geometrical relation along the meteor trajectory in the atmosphere

  6. Studies directed toward the total synthesis of discodermolide: asymmetric synthesis of the C1-C14 fragment.

    PubMed

    Arefolov, Alexander; Panek, James S

    2002-07-11

    [structure: see text] A convergent and stereoselective assembly of the C1-C14 subunit of marine natural product (+)-discodermolide has been completed. The approach employs chiral allylsilane bond construction methodology to establish four of the eight stereogenic centers. Key fragment coupling is achieved via an efficient stereoselective acetate aldol reaction between C1-C6 and C7-C14 subunits.

  7. Study of the polyoxymethylene and its sputtered fragments: Implications for comets

    NASA Technical Reports Server (NTRS)

    Moore, Marla H.; Tanabe, Toshihiko

    1990-01-01

    Laboratory mass spectra of sputtered polyoxymethylene (POM) reveals a fragmentation pattern consistent with observed peaks in the PICCA experiment on board the Giotto spacecraft. Both commercially available POM and radiation synthesized POM have been used in the studies. Synthesized POM was identified using infrared absorption spectra after proton irradiation of H2CO ice on silicate grains at 20 K. Laboratory results suggest that similar type sputtering is a possible mechanism for removing species from comet grains.

  8. Solid-state and unilateral NMR study of deterioration of a Dead Sea Scroll fragment.

    PubMed

    Masic, A; Chierotti, M R; Gobetto, R; Martra, G; Rabin, I; Coluccia, S

    2012-02-01

    Unilateral and solid-state nuclear magnetic resonance (NMR) analyses were performed on a parchment fragment of the Dead Sea Scroll (DSS). The analyzed sample belongs to the collection of non-inscribed and nontreated fragments of known archaeological provenance from the John Rylands University Library in Manchester. Therefore, it can be considered as original DSS material free from any contamination related to the post-discovery period. Considering the paramount significance of the DSS, noninvasive approaches and portable in situ nondestructive methods are of fundamental importance for the determination of composition, structure, and chemical-physical properties of the materials under study. NMR studies reveal low amounts of water content associated with very short proton relaxation times, T(1), indicating a high level of deterioration of collagen molecules within scroll fragments. In addition, (13)C cross-polarization magic-angle-spinning (CPMAS) NMR spectroscopy shows characteristic peaks of lipids whose presence we attribute to the production technology that did not involve liming. Extraction with chloroform led to the reduction of both lipid and protein signals in the (13)C CPMAS spectrum indicating probable involvement of lipids in parchment degradation processes. NMR absorption and relaxation measurements provide nondestructive, discriminative, and sensitive tools for studying the deterioration effects on the organization and properties of water and collagen within ancient manuscripts.

  9. Suppression of away-side jet fragments with respect to the reaction plane in Au + Au collisions at sNN=200 GeV

    NASA Astrophysics Data System (ADS)

    Adare, A.; Afanasiev, S.; Aidala, C.; Ajitanand, N. N.; Akiba, Y.; Al-Bataineh, H.; Alexander, J.; Aoki, K.; Aphecetche, L.; Aramaki, Y.; Asai, J.; Atomssa, E. T.; Averbeck, R.; Awes, T. C.; Azmoun, B.; Babintsev, V.; Bai, M.; Baksay, G.; Baksay, L.; Baldisseri, A.; Barish, K. N.; Barnes, P. D.; Bassalleck, B.; Basye, A. T.; Bathe, S.; Batsouli, S.; Baublis, V.; Baumann, C.; Bazilevsky, A.; Belikov, S.; Belmont, R.; Bennett, R.; Berdnikov, A.; Berdnikov, Y.; Bickley, A. A.; Boissevain, J. G.; Bok, J. S.; Borel, H.; Boyle, K.; Brooks, M. L.; Buesching, H.; Bumazhnov, V.; Bunce, G.; Butsyk, S.; Camacho, C. M.; Campbell, S.; Chang, B. S.; Chang, W. C.; Charvet, J.-L.; Chen, C.-H.; Chernichenko, S.; Chi, C. Y.; Chiu, M.; Choi, I. J.; Choudhury, R. K.; Christiansen, P.; Chujo, T.; Chung, P.; Churyn, A.; Chvala, O.; Cianciolo, V.; Citron, Z.; Cole, B. A.; Connors, M.; Constantin, P.; Csanád, M.; Csörgő, T.; Dahms, T.; Dairaku, S.; Danchev, I.; Das, K.; Datta, A.; David, G.; Denisov, A.; D'Enterria, D.; Deshpande, A.; Desmond, E. J.; Dietzsch, O.; Dion, A.; Donadelli, M.; Drapier, O.; Drees, A.; Drees, K. A.; Dubey, A. K.; Durham, J. M.; Durum, A.; Dutta, D.; Dzhordzhadze, V.; Edwards, S.; Efremenko, Y. V.; Ellinghaus, F.; Engelmore, T.; Enokizono, A.; En'Yo, H.; Esumi, S.; Eyser, K. O.; Fadem, B.; Fields, D. E.; Finger, M.; Finger, M., Jr.; Fleuret, F.; Fokin, S. L.; Fraenkel, Z.; Frantz, J. E.; Franz, A.; Frawley, A. D.; Fujiwara, K.; Fukao, Y.; Fusayasu, T.; Garishvili, I.; Glenn, A.; Gong, H.; Gonin, M.; Gosset, J.; Goto, Y.; Granier de Cassagnac, R.; Grau, N.; Greene, S. V.; Grosse Perdekamp, M.; Gunji, T.; Gustafsson, H.-Å.; Hadj Henni, A.; Haggerty, J. S.; Hahn, K. I.; Hamagaki, H.; Hamblen, J.; Han, R.; Hanks, J.; Hartouni, E. P.; Haruna, K.; Haslum, E.; Hayano, R.; He, X.; Heffner, M.; Hemmick, T. K.; Hester, T.; Hill, J. C.; Hohlmann, M.; Holzmann, W.; Homma, K.; Hong, B.; Horaguchi, T.; Hornback, D.; Huang, S.; Ichihara, T.; Ichimiya, R.; Ide, J.; Iinuma, H.; Ikeda, Y.; Imai, K.; Imrek, J.; Inaba, M.; Isenhower, D.; Ishihara, M.; Isobe, T.; Issah, M.; Isupov, A.; Ivanischev, D.; Jacak, B. V.; Jia, J.; Jin, J.; Johnson, B. M.; Joo, K. S.; Jouan, D.; Jumper, D. S.; Kajihara, F.; Kametani, S.; Kamihara, N.; Kamin, J.; Kang, J. H.; Kapustinsky, J.; Karatsu, K.; Kawall, D.; Kawashima, M.; Kazantsev, A. V.; Kempel, T.; Khanzadeev, A.; Kijima, K. M.; Kikuchi, J.; Kim, B. I.; Kim, D. H.; Kim, D. J.; Kim, E.; Kim, E. J.; Kim, S. H.; Kim, Y. J.; Kinney, E.; Kiriluk, K.; Kiss, Á.; Kistenev, E.; Klay, J.; Klein-Boesing, C.; Kochenda, L.; Komkov, B.; Konno, M.; Koster, J.; Kotchetkov, D.; Kozlov, A.; Král, A.; Kravitz, A.; Kunde, G. J.; Kurita, K.; Kurosawa, M.; Kweon, M. J.; Kwon, Y.; Kyle, G. S.; Lacey, R.; Lai, Y. S.; Lajoie, J. G.; Layton, D.; Lebedev, A.; Lee, D. M.; Lee, J.; Lee, K.; Lee, K. B.; Lee, K. S.; Lee, T.; Leitch, M. J.; Leite, M. A. L.; Leitner, E.; Lenzi, B.; Li, X.; Liebing, P.; Linden Levy, L. A.; Liška, T.; Litvinenko, A.; Liu, H.; Liu, M. X.; Love, B.; Luechtenborg, R.; Lynch, D.; Maguire, C. F.; Makdisi, Y. I.; Malakhov, A.; Malik, M. D.; Manko, V. I.; Mannel, E.; Mao, Y.; Mašek, L.; Masui, H.; Matathias, F.; McCumber, M.; McGaughey, P. L.; Means, N.; Meredith, B.; Miake, Y.; Mignerey, A. C.; Mikeš, P.; Miki, K.; Milov, A.; Mishra, M.; Mitchell, J. T.; Mohanty, A. K.; Morino, Y.; Morreale, A.; Morrison, D. P.; Moukhanova, T. V.; Mukhopadhyay, D.; Murata, J.; Nagamiya, S.; Nagle, J. L.; Naglis, M.; Nagy, M. I.; Nakagawa, I.; Nakamiya, Y.; Nakamura, T.; Nakano, K.; Newby, J.; Nguyen, M.; Niita, T.; Nouicer, R.; Nyanin, A. S.; O'Brien, E.; Oda, S. X.; Ogilvie, C. A.; Oka, M.; Okada, K.; Onuki, Y.; Oskarsson, A.; Ouchida, M.; Ozawa, K.; Pak, R.; Palounek, A. P. T.; Pantuev, V.; Papavassiliou, V.; Park, I. H.; Park, J.; Park, S. K.; Park, W. J.; Pate, S. F.; Pei, H.; Peng, J.-C.; Pereira, H.; Peresedov, V.; Peressounko, D. Yu.; Pinkenburg, C.; Pisani, R. P.; Proissl, M.; Purschke, M. L.; Purwar, A. K.; Qu, H.; Rak, J.; Rakotozafindrabe, A.; Ravinovich, I.; Read, K. F.; Rembeczki, S.; Reygers, K.; Riabov, V.; Riabov, Y.; Richardson, E.; Roach, D.; Roche, G.; Rolnick, S. D.; Rosati, M.; Rosen, C. A.; Rosendahl, S. S. E.; Rosnet, P.; Rukoyatkin, P.; Ružička, P.; Rykov, V. L.; Sahlmueller, B.; Saito, N.; Sakaguchi, T.; Sakai, S.; Sakashita, K.; Samsonov, V.; Sano, S.; Sato, T.; Sawada, S.; Sedgwick, K.; Seele, J.; Seidl, R.; Semenov, A. Yu.; Semenov, V.; Seto, R.; Sharma, D.; Shein, I.; Shibata, T.-A.; Shigaki, K.; Shimomura, M.; Shoji, K.; Shukla, P.; Sickles, A.; Silva, C. L.; Silvermyr, D.; Silvestre, C.; Sim, K. S.; Singh, B. K.; Singh, C. P.; Singh, V.; Slunečka, M.; Soldatov, A.; Soltz, R. A.; Sondheim, W. E.; Sorensen, S. P.; Sourikova, I. V.; Sparks, N. A.; Staley, F.; Stankus, P. W.; Stenlund, E.; Stepanov, M.; Ster, A.; Stoll, S. P.; Sugitate, T.; Suire, C.; Sukhanov, A.; Sziklai, J.; Takagui, E. M.; Taketani, A.; Tanabe, R.; Tanaka, Y.; Tanida, K.; Tannenbaum, M. J.; Tarafdar, S.; Taranenko, A.; Tarján, P.; Themann, H.; Thomas, T. L.; Togawa, M.; Toia, A.; Tomášek, L.; Tomita, Y.; Torii, H.; Towell, R. S.; Tram, V.-N.; Tserruya, I.; Tsuchimoto, Y.; Vale, C.; Valle, H.; van Hecke, H. W.; Vazquez-Zambrano, E.; Veicht, A.; Velkovska, J.; Vértesi, R.; Vinogradov, A. A.; Virius, M.; Vrba, V.; Vznuzdaev, E.; Wang, X. R.; Watanabe, D.; Watanabe, K.; Watanabe, Y.; Wei, F.; Wei, R.; Wessels, J.; White, S. N.; Winter, D.; Wood, J. P.; Woody, C. L.; Wright, R. M.; Wysocki, M.; Xie, W.; Yamaguchi, Y. L.; Yamaura, K.; Yang, R.; Yanovich, A.; Ying, J.; Yokkaichi, S.; You, Z.; Young, G. R.; Younus, I.; Yushmanov, I. E.; Zajc, W. A.; Zaudtke, O.; Zhang, C.; Zhou, S.; Zolin, L.

    2011-08-01

    Pair correlations between large transverse momentum neutral pion triggers (pT=4--7 GeV/c) and charged hadron partners (pT=3--7 GeV/c) in central (0%-20%) and midcentral (20%-60%) Au+Au collisions at sNN=200 GeV are presented as a function of trigger orientation with respect to the reaction plane. The particles are at larger momentum than where jet shape modifications have been observed, and the correlations are sensitive to the energy loss of partons traveling through hot dense matter. An out-of-plane trigger particle produces only 26±20% of the away-side pairs that are observed opposite of an in-plane trigger particle for midcentral (20%-60%) collisions. In contrast, near-side jet fragments are consistent with no suppression or dependence on trigger orientation with respect to the reaction plane. These observations are qualitatively consistent with a picture of little near-side parton energy loss either due to surface bias or fluctuations and increased away-side parton energy loss due to a long path through the medium. The away-side suppression as a function of reaction-plane angle is shown to be sensitive to both the energy loss mechanism and the space-time evolution of heavy-ion collisions.

  10. Double Gene Targeting Multiplex Polymerase Chain Reaction-Restriction Fragment Length Polymorphism Assay Discriminates Beef, Buffalo, and Pork Substitution in Frankfurter Products.

    PubMed

    Hossain, M A Motalib; Ali, Md Eaqub; Abd Hamid, Sharifah Bee; Asing; Mustafa, Shuhaimi; Mohd Desa, Mohd Nasir; Zaidul, I S M

    2016-08-17

    Beef, buffalo, and pork adulteration in the food chain is an emerging and sensitive issue. Current molecular techniques to authenticate these species depend on polymerase chain reaction (PCR) assays involving long and single targets which break down under natural decomposition and/or processing treatments. This novel multiplex polymerase chain reaction-restriction fragment length polymorphism assay targeted two different gene sites for each of the bovine, buffalo, and porcine materials. This authentication ensured better security, first through a complementation approach because it is highly unlikely that both sites will be missing under compromised states, and second through molecular fingerprints. Mitochondrial cytochrome b and ND5 genes were targeted, and all targets (73, 90, 106, 120, 138, and 146 bp) were stable under extreme boiling and autoclaving treatments. Target specificity and authenticity were ensured through cross-amplification reaction and restriction digestion of PCR products with AluI, EciI, FatI, and CviKI-1 enzymes. A survey of Malaysian frankfurter products revealed rampant substitution of beef with buffalo but purity in porcine materials.

  11. Double Gene Targeting Multiplex Polymerase Chain Reaction-Restriction Fragment Length Polymorphism Assay Discriminates Beef, Buffalo, and Pork Substitution in Frankfurter Products.

    PubMed

    Hossain, M A Motalib; Ali, Md Eaqub; Abd Hamid, Sharifah Bee; Asing; Mustafa, Shuhaimi; Mohd Desa, Mohd Nasir; Zaidul, I S M

    2016-08-17

    Beef, buffalo, and pork adulteration in the food chain is an emerging and sensitive issue. Current molecular techniques to authenticate these species depend on polymerase chain reaction (PCR) assays involving long and single targets which break down under natural decomposition and/or processing treatments. This novel multiplex polymerase chain reaction-restriction fragment length polymorphism assay targeted two different gene sites for each of the bovine, buffalo, and porcine materials. This authentication ensured better security, first through a complementation approach because it is highly unlikely that both sites will be missing under compromised states, and second through molecular fingerprints. Mitochondrial cytochrome b and ND5 genes were targeted, and all targets (73, 90, 106, 120, 138, and 146 bp) were stable under extreme boiling and autoclaving treatments. Target specificity and authenticity were ensured through cross-amplification reaction and restriction digestion of PCR products with AluI, EciI, FatI, and CviKI-1 enzymes. A survey of Malaysian frankfurter products revealed rampant substitution of beef with buffalo but purity in porcine materials. PMID:27501408

  12. Prevalence of Borrelia burgdorferi species and identification of Borrelia valaisiana in questing Ixodes ricinus in the Lyon region of France as determined by polymerase chain reaction-restriction fragment length polymorphism.

    PubMed

    Quessada, T; Martial-Convert, F; Arnaud, S; Leudet De La Vallee, H; Gilot, B; Pichot, J

    2003-03-01

    Many cases of Lyme borreliosis have been reported over the years in the region of Lyon, France. The identification and prevalence of Borrelia burgdorferi sensu lato in Ixodes ricinus were investigated by polymerase chain reaction (PCR) of the flagellin gene and restriction fragment length polymorphism (RFLP) analysis. Questing Ixodes ricinus larvae, nymphs and adults were collected by the flagging method from deciduous forests in four areas in the Lyon region of France between October 1994 and September 1995 and in June 1998. The overall prevalence of Borrelia burgdorferi sensu lato was 13.2% (91/688). No significant differences in prevalence were observed between the different stages and sex of the ixodids or between collection areas. The majority of infections were simple infections (82.4%; 75/91), most of which were due to Borrelia afzelii (41.4%), while coinfections (12.1%) were predominantly (54.5%) a combination of Borrelia valaisiana and Borrelia garinii. No tick was infected with more than two borrelial species, nor was Borrelia lusitaniae identified. The Borrelia valaisiana species was detected for the first time in France, confirming its widespread presence in Europe. This study confirms that the surroundings of Lyon are risk areas for contracting Lyme disease and that no particular clinical manifestations predominate due to the heterogeneous distribution of Borrelia genospecies. Moreover, the polymerase chain reaction restriction fragment length polymorphism analysis is a rapid and easy method for genotyping of Borrelia species.

  13. Asymmetry effects in fragment production

    NASA Astrophysics Data System (ADS)

    Kaur, Manpreet; Kaur, Varinderjit

    2016-05-01

    The production of different fragments has been studied by taking into account the mass asymmetry of the reaction and employing the momentum dependent interactions. Two different set of asymmetric reactions have been analyzed while keeping Atotal fixed using soft momentum dependent equation of state. Our results indicate that the impact of momentum dependent interactions is different in lighter projectile systems as compared to heavier ones. The comparative analysis of IQMD simulations with the experimental data in case of heavier projectile and lighter target system for the reaction of 197Au+27Al (η = 0.7) at E = 600 MeV/nucleon shows that with the inclusion of MDI we are able, upto some extent, to reproduce the experimental universality of rise and fall of intermediate mass fragments (IMFs).

  14. A High-Speed Imaging and Modeling Study of Dendrite Fragmentation Caused by Ultrasonic Cavitation

    NASA Astrophysics Data System (ADS)

    Shu, Da; Sun, Baode; Mi, Jiawei; Grant, Patrick S.

    2012-10-01

    The dynamic behavior of ultrasound-induced cavitation bubbles and their effect on the fragmentation of dendritic grains of a solidifying succinonitrile 1 wt pct camphor organic transparent alloy have been studied experimentally using high-speed digital imaging and complementary numerical analysis of sound wave propagation, cavitation dynamics, and the velocity field in the vicinity of an imploding cavitation bubble. Real-time imaging and analysis revealed that the violent implosion of bubbles created local shock waves that could shatter dendrites nearby into small pieces in a few tens of milliseconds. These catastrophic events were effective in breaking up growing dendritic grains and creating abundant fragmented crystals that may act as embryonic grains; therefore, these events play an important role in grain refinement of metallurgical alloys.

  15. Amplified Fragment Length Polymorphism (AFLP) - an invaluable fingerprinting technique for genomic, transcriptomic and epigenetic studies

    PubMed Central

    Paun, Ovidiu; Schönswetter, Peter

    2012-01-01

    Summary Amplified fragment length polymorphism (AFLP) is a PCR-based technique that uses selective amplification of a subset of digested DNA fragments to generate and compare unique fingerprints for genomes of interest. The power of this method relies mainly in that it does not require prior information regarding the targeted genome, as well as in its high reproducibility and sensitivity for detecting polymorphism at the level of DNA sequence. Widely used for plant and microbial studies, AFLP is employed for a variety of applications, such as: to assess genetic diversity within species or among closely related species, to infer population-level phylogenies and biogeographic patterns, to generate genetic maps and to determine relatedness among cultivars. Variations of standard AFLP methodology have been also developed for targeting additional levels of diversity, like transcriptomic variation and DNA methylation polymorphism. PMID:22419490

  16. True ternary fission, the collinear decay into fragments of similar size in the 252Cf(sf) and 235U(nth, f) reactions

    NASA Astrophysics Data System (ADS)

    von Oertzen, W.; Nasirov, A. K.

    2014-06-01

    The collinear cluster decay in 252Cf(sf, fff), with three cluster fragments of different masses (e.g. 132Sn, 52-48Ca, 68-72Ni), which has been observed by the FOBOS group in JINR, has established a new decay mode of heavy nuclei, the collinear cluster tripartition (CCT). The same type of ternary fission decay has been observed in the reaction 235U(nth, fff). This kind of “true ternary fission” of heavy nuclei has been predicted many times in theoretical works during the last decades. In the present note we discuss true ternary fission (TFFF) into three nuclei of almost equal size (e.g. Z=98→Zi=32, 34, 32) in the same systems. The possible fission channels are predicted from potential-energy (PES) calculations. These PES's show pronounced minima for several ternary fragmentation decays, e.g. for 252Cf(sf) and for 235U(nth, f). They suggest the existence of a variety of collinear ternary fission modes. The TFFF-decays chosen in this letter have very similar dynamical features as the previously observed collinear CCT-decays. The data obtained in the above mentioned experiments allow us to extract the yield for these TFFF-decays in both systems by using specific gates on the measured parameters. These yields are a few 1.0ṡ10-6/(binary fission).

  17. A recoil ion momentum spectrometer for molecular and atomic fragmentation studies.

    PubMed

    Khan, Arnab; Tribedi, Lokesh C; Misra, Deepankar

    2015-04-01

    We report the development and performance studies of a newly built recoil ion momentum spectrometer for the study of atomic and molecular fragmentation dynamics in gas phase upon the impact of charged particles and photons. The present design is a two-stage Wiley-McLaren type spectrometer which satisfies both time and velocity focusing conditions and is capable of measuring singly charged ionic fragments up-to 13 eV in all directions. An electrostatic lens has been introduced in order to achieve velocity imaging. Effects of the lens on time-of-flight as well as on the position have been investigated in detail, both, by simulation and in experiment. We have used 120 keV proton beam on molecular nitrogen gas target. Complete momentum distributions and kinetic energy release distributions have been derived from the measured position and time-of-flight spectra. Along with this, the kinetic energy release spectra of fragmentation of doubly ionized nitrogen molecule upon various projectile impacts are presented.

  18. A recoil ion momentum spectrometer for molecular and atomic fragmentation studies

    SciTech Connect

    Khan, Arnab; Tribedi, Lokesh C.; Misra, Deepankar

    2015-04-15

    We report the development and performance studies of a newly built recoil ion momentum spectrometer for the study of atomic and molecular fragmentation dynamics in gas phase upon the impact of charged particles and photons. The present design is a two-stage Wiley-McLaren type spectrometer which satisfies both time and velocity focusing conditions and is capable of measuring singly charged ionic fragments up-to 13 eV in all directions. An electrostatic lens has been introduced in order to achieve velocity imaging. Effects of the lens on time-of-flight as well as on the position have been investigated in detail, both, by simulation and in experiment. We have used 120 keV proton beam on molecular nitrogen gas target. Complete momentum distributions and kinetic energy release distributions have been derived from the measured position and time-of-flight spectra. Along with this, the kinetic energy release spectra of fragmentation of doubly ionized nitrogen molecule upon various projectile impacts are presented.

  19. Study of aneuploidy and DNA fragmentation in gametes of patients with severe teratozoospermia.

    PubMed

    Perrin, A; Louanjli, N; Ziane, Y; Louanjli, T; Le Roy, C; Gueganic, N; Amice, V; De Braekeleer, M; Morel, F

    2011-02-01

    This study investigated meiotic segregation in spermatozoa to determine if severe teratozoospermia should prevent the use of intracytoplasmic sperm injection (ICSI) because of the high production of gametes with chromosomal aneuploidies and analysed DNA fragmentation in gametes from the same semen to determine if DNA integrity was worse in patients with severe teratozoospermia. Sperm samples from 12 infertile patients were studied by fluorescence in-situ hybridization for chromosomes X, Y, 13, 18 and 21 and by TdT (terminal deoxynucleotidyl transferase)-mediated dUDP nick-end labelling. Four patients with a majority of macrocephalic forms with multiple flagella had more than 99% spermatozoa with abnormal chromosomal content. The other patients (globozoospermia or other abnormalities concerning sperm heads) had no increased aneuploidy or a slightly significant increase (P<0.05). The rate of DNA fragmentation was significantly higher in infertile patients than in the controls (P<0.001; 14.3% versus 1.20%, respectively) but presented important variability. Therefore, ICSI should not be attempted if men have macrocephalic gametes with multiple flagella but morphology is not always a good predictor of chromosomal content, depending upon the kind of teratozoospermia. Evaluation of the rate of aneuploidy and DNA fragmentation in gametes of patients with severe teratozoospermia is recommended.

  20. Investigation of the deuteron spin structure at short nucleon-nucleon distances in the reaction of polarized-deuteron fragmentation to cumulative pions

    SciTech Connect

    Azhgirey, L. S.; Afanasiev, S. V.; Borzounov, Yu. T.; Golovanov, L. B.; Zolin, L. S. Ivanov, V. I.; Isupov, A. Yu. Ladygin, V. P.; Litvinenko, A. G.; Malakhov, A. I.; Penev, V. N.; Peresedov, V. F.; Pilipenko, Yu. K.; Reznikov, S. G.; Rukoyatkin, P. A.; Khrenov, A. N.

    2011-10-15

    Experimental results on the vector (A{sub y}) and tensor (A{sub yy}) analyzing powers in the fragmentation of 5- and 9-GeV/c polarized deuterons to high-momentum pions in the kinematical region corresponding to pion production on a strongly correlated nucleon pair (cumulative meson production) are presented. The angular and momentum dependences of A{sub yy} are not described by calculations performed in the impulse approximation by using standard deuteron wave functions. An explanation for our data should be sought on the basis of models that treat the deuteron at short distances (deuteron-core region) as a multiquark state-for example, a 6q cluster, whose high orbital angular momentum (D wave) leads to the observed strong dependence of the reaction tensor analyzing power A(d-vector, {pi})X on the pion transverse momentum.

  1. Examination of meat components in commercial dog and cat feed by using polymerase chain reaction-restriction fragment length polymorphisms (PCR-RFLPs) technique.

    PubMed

    Wang, Hsien-Chi; Lee, Shu-Hwae; Chang, Tien-Jye; Wong, Min-Liang

    2004-07-01

    It has been shown that certain slow neurological diseases such as bovine spongiform encephalopathy (also known as "mad cow" disease) could be transmitted through contaminated food intake by animals; therefore, the examination of meat components in commercial feeds is important for the control of the disease in public health. The combination of polymerase chain reaction-restriction fragment length polymorphisms (PCR-RFLPs) technique was applied to examine the meat components in dog and cat commercial feeds. The partial nucleotide sequence (359 bp) of animal mitochondrial cytochrome b (cytb, CYT) gene was amplified by PCR and then digested with restriction enzyme Alu I or Mbo I. In this work, eight brands of commercial dog and cat feeds available in Taiwan were examined. All brands of dog feeds that were tested contained meat from four different animals (cattle, pig, goat and chicken). In cat feeds, the chicken meat was found in five out of eight brands. PMID:15297759

  2. Examination of meat components in commercial dog and cat feed by using polymerase chain reaction-restriction fragment length polymorphisms (PCR-RFLPs) technique.

    PubMed

    Wang, Hsien-Chi; Lee, Shu-Hwae; Chang, Tien-Jye; Wong, Min-Liang

    2004-07-01

    It has been shown that certain slow neurological diseases such as bovine spongiform encephalopathy (also known as "mad cow" disease) could be transmitted through contaminated food intake by animals; therefore, the examination of meat components in commercial feeds is important for the control of the disease in public health. The combination of polymerase chain reaction-restriction fragment length polymorphisms (PCR-RFLPs) technique was applied to examine the meat components in dog and cat commercial feeds. The partial nucleotide sequence (359 bp) of animal mitochondrial cytochrome b (cytb, CYT) gene was amplified by PCR and then digested with restriction enzyme Alu I or Mbo I. In this work, eight brands of commercial dog and cat feeds available in Taiwan were examined. All brands of dog feeds that were tested contained meat from four different animals (cattle, pig, goat and chicken). In cat feeds, the chicken meat was found in five out of eight brands.

  3. VUV Photo-processing of PAH Cations: Quantitative Study on the Ionization versus Fragmentation Processes

    NASA Astrophysics Data System (ADS)

    Zhen, Junfeng; Rodriguez Castillo, Sarah; Joblin, Christine; Mulas, Giacomo; Sabbah, Hassan; Giuliani, Alexandre; Nahon, Laurent; Martin, Serge; Champeaux, Jean-Philippe; Mayer, Paul M.

    2016-05-01

    Interstellar polycyclic aromatic hydrocarbons (PAHs) are strongly affected by the absorption of vacuum ultraviolet (VUV) photons in the interstellar medium (ISM), yet the branching ratio between ionization and fragmentation is poorly studied. This is crucial for the stability and charge state of PAHs in the ISM in different environments, affecting in turn the chemistry, the energy balance, and the contribution of PAHs to the extinction and emission curves. We studied the interaction of PAH cations with VUV photons in the 7-20 eV range from the synchrotron SOLEIL beamline, DESIRS. We recorded by action spectroscopy the relative intensities of photo-fragmentation and photo-ionization for a set of eight PAH cations ranging in size from 14 to 24 carbon atoms, with different structures. At photon energies below ˜13.6 eV fragmentation dominates for the smaller species, while for larger species ionization is immediately competitive after the second ionization potential (IP). At higher photon energies all species behave similarly; the ionization yield gradually increases, leveling off between 0.8 and 0.9 at ˜18 eV. Among isomers, PAH structure appears to mainly affect the fragmentation cross section but not the ionization cross section. We also measured the second IP for all species and the third IP for two of them; all are in good agreement with theoretical ones, confirming that PAH cations can be further ionized in the diffuse ISM. Determining actual PAH dication abundances in the ISM will require detailed modeling. Our measured photo-ionization yields for several PAH cations provide a necessary ingredient for such models.

  4. VUV photo-processing of PAH cations: quantitative study on the ionization versus fragmentation processes

    PubMed Central

    Zhen, Junfeng; Castillo, Sarah Rodriguez; Joblin, Christine; Mulas, Giacomo; Sabbah, Hassan; Giuliani, Alexandre; Nahon, Laurent; Martin, Serge; Champeaux, Jean-Philippe; Mayer, Paul M.

    2016-01-01

    Interstellar polycyclic aromatic hydrocarbons (PAHs) are strongly affected by the absorption of vacuum ultraviolet (VUV) photons in the interstellar medium (ISM), yet the branching ratio between ionization and fragmentation is poorly studied. This is crucial for the stability and charge state of PAHs in the ISM in different environments, affecting in turn the chemistry, the energy balance, and the contribution of PAHs to the extinction and emission curves. We studied the interaction of PAH cations with VUV photons in the 7 – 20 eV range from the synchrotron SOLEIL beamline, DESIRS. We recorded by action spectroscopy the relative intensities of photo-fragmentation and photo-ionization for a set of eight PAH cations ranging in size from 14 to 24 carbon atoms, with different structures. At photon energies below ~13.6 eV fragmentation dominates for the smaller species, while for larger species ionization is immediately competitive after the second ionization potential (IP). At higher photon energies, all species behave similarly, the ionization yield gradually increases, leveling off between 0.8 and 0.9 at ~18 eV. Among isomers, PAH structure appears to mainly affect the fragmentation cross section, but not the ionization cross section. We also measured the second IP for all species and the third IP for two of them, all are in good agreement with theoretical ones confirming that PAH cations can be further ionized in the diffuse ISM. Determining actual PAH dication abundances in the ISM will require detailed modeling. Our measured photo-ionization yields for several PAH cations provide a necessary ingredient for such models. PMID:27212712

  5. The N-terminal fragment of the tomato torrado virus RNA1-encoded polyprotein induces a hypersensitive response (HR)-like reaction in Nicotiana benthamiana.

    PubMed

    Wieczorek, Przemysław; Obrępalska-Stęplowska, Aleksandra

    2016-07-01

    The hypersensitive response (HR) is a defence reaction observed during incompatible plant-pathogen interactions in plants infected with a wide range of fungi, bacteria and viruses. Here, we show that an N-terminal polyprotein fragment encoded by tomato torrado virus RNA1, located between the first ATG codon and the protease cofactor (ProCo) motif, induces an HR-like reaction in Nicotiana benthamiana. Agrobacterium tumefaciens-mediated transient expression of the first 105 amino acids (the calculated molecular weight of the fragment was ca. 11.33 kDa, hereafter refered to as the 11K domain) from ToTV RNA1 induced an HR-like phenotype in infiltrated leaves. To investigate whether the 11K domain could influence the virulence and pathogenicity of a recombinant virus, we created a potato virus X (PVX) with the 11K coding sequence inserted under a duplicated coat protein promoter. We found that 11K substantially increased the virulence of the recombinant virus. Disease phenotype induced in N. benthamiana by PVX-11K was characterized by strong local and systemic necrosis. This was not observed when the 11K domain was expressed from PVX in an antisense orientation. Further analyses revealed that the 11K domain could not suppress posttranscriptional gene silencing (PTGS) of green fluorescent protein (GFP) in the N. benthamiana 16c line. In silico analysis of the predicted secondary structure of the 11K domain indicated the presence of two putative helices that are highly conserved in tomato-infecting representatives of the genus Torradovirus. PMID:27072852

  6. TARGET FRAGMENT ENERGIES AND MOMENTA IN THE REACTION OF 4.8 GeV {sup 12}C AND 5.0 GeV {sup 20}Ne WITH {sup 238}U

    SciTech Connect

    Loveland, W.; Luo, Cheng; McGaughey, P. L.; Morrissey, D. J.; Seaborg, G. T.

    1980-10-01

    Target fragment recoil properties were measured using the thick target-thick catcher technique for the interaction of 4.8 GeV {sup 12}C and 5.0 GeV {sup 20}Ne with {sup 238}U. The target fragment energies and momenta are very similar for the reaction of 4.8 GeV (400 MeV/A) {sup 12}C and 5.0 GeV (250 MeV/A) {sup 20}Ne with {sup 238}U. In the complex variation of fragment momenta with their N/Z ratio, one finds evidence suggesting the existence of several mechanisms leading to the formation of the target fragments. Comparison of these results with the predictions of the intranuclear cascade model of Yariv and Fraenkel and the firestreak model shows that both model predictions grossly overestimate the target fragment momenta.

  7. Imidate-Based Cross-Linkers for Structural Proteomics: Increased Charge of Protein and Peptide Ions and CID and ECD Fragmentation Studies

    NASA Astrophysics Data System (ADS)

    Koolen, Hector H. F.; Gomes, Alexandre F.; Schwab, Nicolas V.; Eberlin, Marcos N.; Gozzo, Fabio C.

    2014-07-01

    Chemical cross-linking is an attractive low-resolution technique for structural studies of protein complexes. Distance constraints obtained from cross-linked peptides identified by mass spectrometry (MS) are used to construct and validate protein models. Amidinating cross-linkers such as diethyl suberthioimidate (DEST) have been used successfully in chemical cross-linking experiments. In this work, the application of a commercial diimidate cross-linking reagent, dimethyl suberimidate (DMS), was evaluated with model peptides and proteins. The peptides were designed with acetylated N-termini followed by random sequences containing two Lys residues separated by an Arg residue. After cross-linking reactions, intra- and intermolecular cross-linked species were submitted to CID and ECD dissociations to study their fragmentation features in the gas phase. Fragmentation of intramolecular peptides by collision induced dissociation (CID) demonstrates a unique two-step fragmentation pathway involving formation of a ketimine as intermediate. Electron capture and electron transfer dissociation (ECD and ETD) experiments demonstrated that the cyclic moiety is not dissociated. Intermolecular species demonstrated previously described fragmentation behavior in both CID and ECD experiments. The charge state distributions (CSD) obtained after reaction with DMS were compared with those obtained with disuccinimidyl suberate (DSS). CSDs for peptides and proteins were increased after their reaction with DMS, owing to the higher basicity of DMS modified species. These features were also observed in LC-MS experiments with bovine carbonic anhydrase II (BCA) after cross-linking with DMS and tryptic proteolysis. Cross-linked peptides derived from this protein were identified at high confidence and those species were in agreement with the crystal structure of BCA.

  8. A statistical study of meteoroid fragmentation and differential ablation using the Resolute Bay Incoherent Scatter Radar

    NASA Astrophysics Data System (ADS)

    Malhotra, Akshay; Mathews, John D.

    2011-04-01

    There has been much interest in the meteor physics community recently regarding the detailed processes by which the meteoroid mass flux arrives in the upper atmosphere. Of particular interest are the relative roles of simple ablation, differential ablation, and fragmentation in interpretation of the meteor events observed by the high-power large-aperture (HPLA) radars. An understanding of the relative roles of these mechanisms is necessary to determine whether the considerable meteor mass flux arriving in the upper atmosphere arrives mostly in nanometer dust/smoke (via fragmentation) or atomic form (via ablation), which in turn has important consequences in understanding not only the aeronomy of the region but also the formation and evolution of various upper atmospheric phenomenon such as Polar Mesospheric Summer Echoes. Using meteor observations from the newly operational Resolute Bay Incoherent Scatter Radar (RISR), we present the first statistical study showing the relative contribution of these mechanisms. We find that RISR head echoes exhibited ˜48% fragmentation, ˜32% simple ablation, and ˜20% differential ablation. We also report existence of compound meteor events exhibiting signatures of more than one mass loss mechanism. These results emphasize that the processes by which the meteoroid mass is deposited into the upper atmosphere are complex and involve all three mechanisms described here. This conclusion is unlike the previously reported results that stress the importance of one or the other of these mechanisms. These results will also contribute in improving current meteoroid disintegration/ablation models.

  9. Fragmentation and conformation study of ephedrine by low- and high-resolution mass selective UV spectroscopy

    NASA Astrophysics Data System (ADS)

    Chervenkov, S.; Wang, P. Q.; Braun, J. E.; Neusser, H. J.

    2004-10-01

    The neurotransmitter molecule, ephedrine, has been studied by mass-selective low- and high-resolution UV resonance enhanced two-photon ionization spectroscopy. Under all experimental conditions we observed an efficient fragmentation upon ionization. The detected vibronic peaks in the spectrum are classified according to the efficiency of the fragmentation, which leads to the conclusion that there exist three different species in the molecular beam: ephedrine-water cluster and two distinct conformers. The two-color two-photon ionization experiment with a decreased energy of the second photon leads to an upper limit of 8.3 eV for the ionization energy of ephedrine. The high-resolution (70 MHz) spectrum of the strongest vibronic peak in the spectrum measured at the fragment (m/z=58) mass channel displays a pronounced and rich rotational structure. Its analysis by the use of a specially designed computer-aided rotational fit process yields accurate rotational constants for the S0 and S1 states and the transition moment ratio, providing information on the respective conformational structure.

  10. Experimental and numerical study of thin fragments protection for radiographic detectors

    NASA Astrophysics Data System (ADS)

    Bozier, Olivier; Counilh, Denis; Gillot, Fabrice; Adolf, Lise-Marie; Silvin, Pascale; Rambert, Nicolas; Hebert, David; Bertron, Isabelle

    2015-06-01

    To perform a non-intrusive measurement on a pyrotechnic setup, we usually use radiography. But due to blast and fragments, the X-ray generator head and the detectors of the radiographic chain must be protected. Since the detector holds the data we want to collect, he cannot be sacrificed. The constitution of detector shielding is therefore an essential part of a radiographic chain. The choice of shielding should take into account two conflicting needs. On one hand, shielding must be sufficiently resistant to protect the detector from the blast and fragments generated. On the other hand, it should be thin enough in order to attenuate as little as possible the radiographic signal. We carried out an experimental campaign to test the performances of various shieldings. Cylindrical projectiles of various masses (from 20g to 40g) and aspect ratios (length to diameter ratio from 0.1 to 1) that are representative fragments, have been launched with a gas gun with different initial velocities (from 1500m/s up to 2000m/s). Multiple shielding configurations have been tested. They were assemblies of successive steel, aluminum and B4C plates. Combined with a numerical study, we optimize disposition and thicknesses of the plates which fulfils our requirements in terms of detector protection and radiographic measurement.

  11. Fragmentation of mercury compounds under ultraviolet light irradiation

    SciTech Connect

    Kokkonen, E.; Hautala, L.; Jänkälä, K.; Huttula, M.; Löytynoja, T.

    2015-08-21

    Ultraviolet light induced photofragmentation of mercury compounds is studied experimentally with electron energy resolved photoelectron-photoion coincidence techniques and theoretically with computational quantum chemical methods. A high resolution photoelectron spectrum using synchrotron radiation is presented. Fragmentation of the molecule is studied subsequent to ionization to the atomic-mercury-like d orbitals. State dependent fragmentation behaviour is presented and specific reactions for dissociation pathways are given. The fragmentation is found to differ distinctly in similar orbitals of different mercury compounds.

  12. Mechanisms of peptide fragmentation from time- and energy-resolved surface-induced dissociation studies: Dissociation of angiotensin analogs

    NASA Astrophysics Data System (ADS)

    Laskin, Julia; Bailey, Thomas H.; Futrell, Jean H.

    2006-03-01

    Energetics and mechanism of dissociation of singly protonated angiotensin III (RVYIHPF) and its analogs RVYIFPF, RVYIYPF, RVYIHAF and RVYIHDF was studied using surface-induced dissociation (SID) in a Fourier transform ion cyclotron resonance mass spectrometer (FT-ICR MS) specially configured for studying ion activation by collisions with surfaces. The energetics and dynamics of peptide fragmentation were deduced by modeling the time- and energy-resolved survival curves for each precursor ion using an RRKM-based approach developed in our laboratory. Fragmentation mechanisms were inferred from comparison of time- and energy-resolved fragmentation efficiency curves (TFECs) of different fragment ions followed by RRKM modeling of dissociation of angiotensin III into six major families of fragment ions. Detailed modeling demonstrated that dissociation of these peptides is dominated by loss of ammonia from the precursor ion and characterized by a high-energy barrier of 1.6 eV. Loss of NH3 and subsequent rearrangement of the MH+-NH3 ion results in proton mobilization and release of ca. 30 kcal/mol into internal excitation of the MH+-NH3 ion. The resulting highly excited ion accesses a variety of non-specific dissociation pathways with very high rate constants. Fast fragmentation of excited MH+-NH3 ion forms a variety of abundant bn-NH3 and an-NH3 fragment ions. Abundant XH and HX internal fragments are also formed, reflecting the stability of histidine-containing diketopiperazine structures.

  13. Study of char gasification in a reaction/adsorption apparatus

    SciTech Connect

    Sotirchos, S.V.; Crowley, J.A.

    1987-09-01

    The reaction of an activated carbon (coconut char) with CO/sub 2/ was studied in a reaction/adsorption apparatus which allows successive reactivity and physical adsorption measurements to be made on the same solid sample. Reaction and surface area evolution data were obtained in the temperature range from 800 to 900/sup 0/C. All reaction rate trajectories obtained in this study showed a maximum in the reaction rate, 2-3 times higher than the initial rate, at about 85% conversion. There was no correlation between these results and the evolution of the internal surface area although the reaction appeared to take place initially in the kinetically controlled regime.

  14. Determination of locust bean gum and guar gum by polymerase chain reaction and restriction fragment length polymorphism analysis.

    PubMed

    Meyer, K; Rosa, C; Hischenhuber, C; Meyer, R

    2001-01-01

    A polymerase chain reaction (PCR) was developed to differentiate the thickening agents locust bean gum (LBG) and the cheaper guar gum in finished food products. Universal primers for amplification of the intergenic spacer region between trnL 3' (UAA) exon and trnF (GAA) gene in the chloroplast (cp) genome and subsequent restriction analysis were applied to differentiate guar gum and LBG. The presence of <5% (w/w) guar gum powder added to LBG powder was detectable. Based on data obtained from sequencing this intergenic spacer region, a second PCR method for the specific detection of guar gum DNA was also developed. This assay detected guar gum powder in LBG in amounts as low as 1% (w/w). Both methods successfully detected guar gum and/or LBG in ice cream stabilizers and in foodstuffs, such as dairy products, ice cream, dry seasoning mixes, a finished roasting sauce, and a fruit jelly product, but not in products with highly degraded DNA, such as tomato ketchup and sterilized chocolate cream. Both methods detected guar gum and LBG in ice cream and fresh cheese at levels <0.1%. PMID:11234856

  15. Studies of photoredox reactions on nanosize semiconductors

    SciTech Connect

    Wilcoxon, J.P.; Parsapour, F.; Kelley, D.F.

    1997-08-01

    Light induced electron transfer (ET) from nanosize semiconductors of MoS{sub 2} to organic electron acceptors such as 2,2{prime}-bipyridine (bpy) and methyl substituted 4,4{prime},5,5{prime}-tetramethyl-2,2{prime}-bipyridine (tmb) was studied by static and time resolved photoluminescence spectroscopy. The kinetics of ET were varied by changing the nanocluster size (the band gap), the electron acceptor, and the polarity of the solvent. MoS{sub 2} is an especially interesting semiconductor material as it is an indirect semiconductor in bulk form, and has a layered covalent bonding arrangement which is highly resistant to photocorrosion. Et occurs following photoexcitation of the direct band gap. Quantum confinement results in the smaller nanoclusters having higher conduction band energies, and therefore larger ET driving forces. The ET reaction energies may be varied by changing the electron acceptor, by varying the size of the MoS{sub 2} nanocluster or by varying the polarity of the solvent. In addition, varying the polarity of the solvent affects the reorganization energy and the barrier to electron transfer. TMB is harder to reduce, and thus has a smaller ET driving force than bpy. The solvent polarity is varied by varying the composition of acetonitrile/benzene mixed solvents.

  16. Experimental verification of proton beam monitoring in a human body by use of activity image of positron-emitting nuclei generated by nuclear fragmentation reaction.

    PubMed

    Nishio, Teiji; Miyatake, Aya; Inoue, Kazumasa; Gomi-Miyagishi, Tomoko; Kohno, Ryosuke; Kameoka, Satoru; Nakagawa, Keiichi; Ogino, Takashi

    2008-01-01

    Proton therapy is a form of radiotherapy that enables concentration of dose on a tumor by use of a scanned or modulated Bragg peak. Therefore, it is very important to evaluate the proton-irradiated volume accurately. The proton-irradiated volume can be confirmed by detection of pair-annihilation gamma rays from positron-emitting nuclei generated by the nuclear fragmentation reaction of the incident protons on target nuclei using a PET apparatus. The activity of the positron-emitting nuclei generated in a patient was measured with a PET-CT apparatus after proton beam irradiation of the patient. Activity measurement was performed in patients with tumors of the brain, head and neck, liver, lungs, and sacrum. The 3-D PET image obtained on the CT image showed the visual correspondence with the irradiation area of the proton beam. Moreover, it was confirmed that there were differences in the strength of activity from the PET-CT images obtained at each irradiation site. The values of activity obtained from both measurement and calculation based on the reaction cross section were compared, and it was confirmed that the intensity and the distribution of the activity changed with the start time of the PET imaging after proton beam irradiation. The clinical use of this information about the positron-emitting nuclei will be important for promoting proton treatment with higher accuracy in the future.

  17. Characteristics of vestibulosensory reactions studied by experimental caloric test

    NASA Technical Reports Server (NTRS)

    Kapranov, V. Z.

    1980-01-01

    Vestibulo-sensory reactions were studied in 135 workers who were in contact with nitroethers, by the method of an experimental caloric test. The response vestibulo-sensory reactions were recorded by means of an electroencephalograph. The changes in the sensory reaction depended on the duration of the workers' contact with toxic agents. A study of illusion reactions by the labyrinth calorization widens diagnostic possibilities in the examination of functional condition of the vestibular analyser considerably.

  18. Density functional study of chemical reaction equilibrium for dimerization reactions in slit and cylindrical nanopores.

    PubMed

    Malijevský, Alexandr; Lísal, Martin

    2009-04-28

    We present a theoretical study of the effects of confinement on chemical reaction equilibrium in slit and cylindrical nanopores. We use a density functional theory (DFT) to investigate the effects of temperature, pore geometry, bulk pressure, transition layering, and capillary condensation on a dimerization reaction that mimics the nitric oxide dimerization reaction, 2NO <==> (NO)(2), in carbonlike slit and cylindrical nanopores in equilibrium with a vapor reservoir. In addition to the DFT calculations, we also utilize the reaction ensemble Monte Carlo method to supplement the DFT results for reaction conversion. This work is an extension of the previous DFT study by Tripathi and Chapman [J. Chem. Phys. 118, 7993 (2003)] on the dimerization reactions confined in the planar slits.

  19. A mass spectrometry study of n-octane: Electron impact ionization and ion-molecule reactions

    NASA Astrophysics Data System (ADS)

    Jiao, C. Q.; DeJoseph, C. A.; Garscadden, A.

    2001-02-01

    Electron impact ionization of n-octane over an energy range of 10-70 eV and the subsequent ion-molecule reactions with the parent molecule have been studied using Fourier-transform mass spectrometry. Molecular ion and fragment ions C1+-C6+ are produced from the electron impact with a total ionization cross section of 1.4±0.2×10-15 cm2 between 60 and 70 eV. C3H7+ is the most abundant ion at most of the ionizing energies with the exception for E⩽16 eV where C6H13+ and C6H12+ are the most abundant. Among the fragment ions only C4H7+ and smaller ions react readily with the parent molecule, primarily producing C5H11+ and C4H9+, with rate coefficients of 0.32-2.4×10-9 cm3s-1. Essentially all of the ions, including the molecular ion and the large fragment ions, undergo decomposition upon collision with neutral molecules after they are kinetically excited to an energy range of 1-5 eV, forming a variety of small hydrocarbon ions. Many of the decomposition product ions in turn are capable of further reacting with n-octane. Isotope reagents have been utilized in experiments to probe the type of the ion-molecule reactions studied.

  20. Soot Reaction Properties (Ground-Based Study)

    NASA Technical Reports Server (NTRS)

    Dai, Z.; El-Leathy, A. M.; Lin, K.-C.; Sunderland, P. B.; Xu, F.; Faeth, G. M.; Urban, D. L. (Technical Monitor); Yuan, Z.-G. (Technical Monitor)

    2000-01-01

    Three major soot reaction processes are needed to predict soot properties in flame environments: soot growth, or the formation of soot on soot nuclei and soot particles; soot oxidation, or the reaction of soot with oxidizing species to yield the combustion products of soot oxidation; and soot nucleation, or the formation of soot nuclei from soot precursors having large molecular weights (generally thought to be large and particularly stable PAH molecules in flame environments, called stabilomers). These processes are addressed in the following, considering soot growth, oxidation and nucleation, in turn, by exploiting the soot and flame structure results for premixed and diffusion flames already discussed in Section 2.

  1. Laser studies of chemical reaction and collision processes

    SciTech Connect

    Flynn, G.

    1993-12-01

    This work has concentrated on several interrelated projects in the area of laser photochemistry and photophysics which impinge on a variety of questions in combustion chemistry and general chemical kinetics. Infrared diode laser probes of the quenching of molecules with {open_quotes}chemically significant{close_quotes} amounts of energy in which the energy transferred to the quencher has, for the first time, been separated into its vibrational, rotational, and translational components. Probes of quantum state distributions and velocity profiles for atomic fragments produced in photodissociation reactions have been explored for iodine chloride.

  2. Staff Reactions to Challenging Behaviour: An Observation Study

    ERIC Educational Resources Information Center

    Lambrechts, Greet; Van Den Noortgate, Wim; Eeman, Lieve; Maes, Bea

    2010-01-01

    Staff reactions play an important role in the development and maintaining of clients' challenging behaviour. Because there is a paucity of research on staff reactions in naturalistic settings, this study examined sequential associations between challenging behaviour and staff reactions by means of a descriptive analysis. We analysed video…

  3. Kinetic Study of the Heck Reaction: An Interdisciplinary Experiment

    ERIC Educational Resources Information Center

    Gozzi, Christel; Bouzidi, Naoual

    2008-01-01

    The aim of this experiment is to study and calculate the kinetic constant of a Heck reaction: the arylation of but-3-en-2-ol by iodobenzene catalyzed by palladium acetate in presence of triethylamine in DMF. The reaction leads to a mixture of two ketones. Students use GC analysis to quantify reagents and products of reaction. They control the…

  4. Isolation of Coxiella burnetii by a centrifugation shell-vial assay from ticks collected in Cyprus: detection by nested polymerase chain reaction (PCR) and by PCR-restriction fragment length polymorphism analyses.

    PubMed

    Spyridaki, Ioanna; Psaroulaki, Anna; Loukaides, Fidias; Antoniou, Maria; Hadjichristodolou, Christos; Tselentis, Yannis

    2002-01-01

    Ticks are the principal vectors and reservoirs of Coxiella burnetii. The identification of isolates is necessary for understanding the clinical diversity of Q fever in different geographic areas. This is the first report of isolation of C. burnetii from ticks by the shell-vial assay and by nested polymerase chain reaction (PCR) assay for the detection of this pathogen in ticks. Of 141 ticks collected in Cyprus (Rhipicephalus sanguineus and Hyalloma spp.), 10% were found to be infected with C. burnetii. Three ticks were positive by hemolymph test, and 11 triturated ticks were positive by nested PCR. Three isolates were obtained by the centrifugation shell-vial technique. Analysis by PCR, then restriction fragment length polymorphism showed that the 3 Cyprus isolates had identical restriction profiles to reference strains Nine Mile and Q212. The methods described are useful in studying the epidemiology and ecology of C. burnetii. PMID:12135275

  5. A REDOR NMR Study of a Phosphorylated Statherin Fragment Bound to Hydroxyapatite Crystals

    SciTech Connect

    Gibson, James M.; Raghunathan, Vinodhkumar; Popham, Jennifer M.; Stayton, Patrick; Drobny, Gary P.

    2005-06-09

    Acidic proteins found in mineralized tissues act as nature's crystal engineers, where they play a key role in promoting or inhibiting the growth of minerals such as hydroxyapatite (HAP), Ca10(PO4)6- (OH)2, the main mineral component of bone and teeth. There is remarkably little known about the protein structure-function relationships and the recognition processes governing hard tissue engineering. It is well-known that several salivary proteins (statherin) and peptides (SN-15, N-terminal 15 amino fragment of statherin) bind strongly to HAP to regulate crystal growth.1 In this work, we describe how solid-state NMR can be used to identify which amino acid side chains of SN-15 (DpSpSEE15NKFLRRIGRFG) interact with the HAP surface, even in the presence of phosphorylated side chains. Prior structural studies have indicated that the second through twelfth amino acids are R-helical in full length statherin on HAP, while the SN-15 fragment is in an extended structure toward the N-terminus, only gaining R-helical structure at the seventh amino acid. Additionally, prior dynamics studies have indicated that the region from the seventh amino acid to the C-terminus interacts less strongly with the HAP surface than the first six amino acids.

  6. [Was Beethoven's deafness caused by Paget's disease? Report of findings and study of skull fragments of Ludwig van Beethoven].

    PubMed

    Jesserer, H; Bankl, H

    1986-10-01

    Paget's disease of bone (osteitis deformans) has been repeatedly named as a possible cause for Ludwig van Beethoven's deafness. In 1985 a descendent of Franz Romeo Seligmann (a Viennese medical historian who in 1863 had studied Beethoven's mortal remains on the occasion of their relocation) presented to us three bone fragments allegedly from Beethoven's cranium. They represented fragments of the left parietal bone and the occiputum. It was possible to prove nearly with certainty that these bone fragments actually are Beethoven's. They did not show signs of Paget's disease of bone. It must therefore be concluded that Beethoven's deafness was not caused by Paget's osteitis deformans.

  7. [Was Beethoven's deafness caused by Paget's disease? Report of findings and study of skull fragments of Ludwig van Beethoven].

    PubMed

    Jesserer, H; Bankl, H

    1986-10-01

    Paget's disease of bone (osteitis deformans) has been repeatedly named as a possible cause for Ludwig van Beethoven's deafness. In 1985 a descendent of Franz Romeo Seligmann (a Viennese medical historian who in 1863 had studied Beethoven's mortal remains on the occasion of their relocation) presented to us three bone fragments allegedly from Beethoven's cranium. They represented fragments of the left parietal bone and the occiputum. It was possible to prove nearly with certainty that these bone fragments actually are Beethoven's. They did not show signs of Paget's disease of bone. It must therefore be concluded that Beethoven's deafness was not caused by Paget's osteitis deformans. PMID:3540490

  8. Experimental Study of Stellar Reactions at CNS

    SciTech Connect

    Kubono, S.; Yamaguchi, H.; Wakabayashi, Y.; Amadio, G.; Hayakawa, S.; He, J. J.; Saito, A.; Teranishi, T.; Nishimura, S.; Fukunishi, N.; Iwasa, N.; Inafuku, K.; Kato, S.; Tanaka, M. H.; Fuchi, Y.; Moon, J. Y.; Kwon, K.; Lee, C. S.; Khiem, Le Hong; Chen, A.

    2006-11-02

    After a brief review on low-energy RI beam production technology, nuclear astrophysics programs at CNS are presented including a scope of the field in the Wako campus. The CRIB project involves a total development of the whole facility to maximize the low-energy RI beam intensities, including the ion source, the AVF cyclotron and the low-energy RI beam separator CRIB, Some recent nuclear astrophysics experiments performed with the RI beams were discussed, including the measurement of the 14O({alpha},p)17F reaction, the key stellar reaction for the onset of the high-temperature rp-process. The first experiment performed with a newly installed high-resolution magnetic spectrograph PA of CNS was also presented. Collaboration possibilities for nuclear astrophysics in the RIKEN campus are also touched.

  9. Experimental Study of Stellar Reactions at CNS

    NASA Astrophysics Data System (ADS)

    Kubono, S.; Yamaguchi, H.; Wakabayashi, Y.; Amadio, G.; Hayakawa, S.; He, J. J.; Saito, A.; Teranishi, T.; Nishimura, S.; Fukunishi, N.; Iwasa, N.; Inafuku, K.; Kato, S.; Tanaka, M. H.; Fuchi, Y.; Moon, J. Y.; Kwon, K.; Lee, C. S.; Khiem, Le Hong; Chen, A.; Pearson, J.

    2006-11-01

    After a brief review on low-energy RI beam production technology, nuclear astrophysics programs at CNS are presented including a scope of the field in the Wako campus. The CRIB project involves a total development of the whole facility to maximize the low-energy RI beam intensities, including the ion source, the AVF cyclotron and the low-energy RI beam separator CRIB, Some recent nuclear astrophysics experiments performed with the RI beams were discussed, including the measurement of the 14O(α,p)17F reaction, the key stellar reaction for the onset of the high-temperature rp-process. The first experiment performed with a newly installed high-resolution magnetic spectrograph PA of CNS was also presented. Collaboration possibilities for nuclear astrophysics in the RIKEN campus are also touched.

  10. Fragmentation of the Golgi apparatus of motor neurons in amyotrophic lateral sclerosis (ALS). Clinical studies in ALS of Guam and experimental studies in deafferented neurons and in beta,beta'-iminodipropionitrile axonopathy.

    PubMed Central

    Mourelatos, Z.; Hirano, A.; Rosenquist, A. C.; Gonatas, N. K.

    1994-01-01

    Previous morphological immunoenzymatic studies with organelle-specific antibodies have disclosed an apparent fragmentation of the Golgi apparatus in large numbers of motor neurons in 12 cases of sporadic, non-Guamanian amyotrophic lateral sclerosis (ALS) in three cases of other types of motor neuron disease and in one case of a mitochondrial myopathy with cytochrome c oxidase deficiency. Motor neurons with fragmented Golgi apparatus were moderately atrophic; in these cells, discrete immunostained elements of the organelle were twice as many as in normal neurons, and the size of each Golgi element and the percentage of the cytoplasmic area occupied by the Golgi apparatus were reduced (Am J Pathol 1992, 140: 731-737). In this report we have confirmed the fragmentation of the organelle of motor neurons in the spinal cord in six sporadic cases of Guamanian ALS. In four of the six cases the clinical course was 1 to 2 years. The percentages of motor neurons with fragmented Golgi apparatus varied from 38 to 92. Motor neurons from three additional cases of Guamanian ALS of clinical duration from 5 to 7 years did not show fragmentation of the Golgi apparatus. In two cases of Guamanian ALS and in one non-Guamanian ALS, all neurons with ubiquitin-positive skein-like or granular inclusions believed to be pathognomonic for ALS had fragmented Golgi apparatus. To examine whether the fragmentation of the Golgi apparatus results from reactions to either neuronal deafferentation or to lesions of proximal axons, we conducted two experimental studies. In the first study, we examined in cats the Golgi apparatus of deafferented neurons of the dorsal lateral geniculate nucleus. In the second study, we examined the Golgi apparatus of motor neurons in the spinal cord of rats with proximal axonopathy induced by beta,beta'-iminodipropionitrile. In these two experiments, the neuronal Golgi apparatus studied by immunoenzymatic techniques and morphometry, was not fragmented. Taken together, the

  11. Theoretical study of chemical reactions in solution

    SciTech Connect

    Yokogawa, D.

    2015-12-31

    Quantum chemical calculations in solution are becoming more and more important in chemistry. Reference interaction site model self-consistent field (RISM-SCF) is one of the powerful approaches to perform quantum chemical calculations in solution. In this work, we developed a new generation of RISM-SCF, where a robust fitting method was newly introduced. We applied the new method to tautomerization reaction of cytosine in aqueous phase. Our calculation reproduced experimentally obtained relative stabilities and relative free energies correctly.

  12. A Holistic Multi Evidence Approach to Study the Fragmentation Behaviour of Crystalline Mannitol

    PubMed Central

    Koner, Jasdip S.; Rajabi-Siahboomi, Ali; Bowen, James; Perrie, Yvonne; Kirby, Daniel; Mohammed, Afzal R.

    2015-01-01

    Mannitol is an essential excipient employed in orally disintegrating tablets due to its high palatability. However its fundamental disadvantage is its fragmentation during direct compression, producing mechanically weak tablets. The primary aim of this study was to assess the fracture behaviour of crystalline mannitol in relation to the energy input during direct compression, utilising ball milling as the method of energy input, whilst assessing tablet characteristics of post-milled powders. Results indicated that crystalline mannitol fractured at the hydrophilic (011) plane, as observed through SEM, alongside a reduction in dispersive surface energy. Disintegration times of post-milled tablets were reduced due to the exposure of the hydrophilic plane, whilst more robust tablets were produced. This was shown through higher tablet hardness and increased plastic deformation profiles of the post-milled powders, as observed with a lower yield pressure through an out-of-die Heckel analysis. Evaluation of crystal state using x-ray diffraction/differential scanning calorimetry showed that mannitol predominantly retained the β-polymorph; however x-ray diffraction provided a novel method to calculate energy input into the powders during ball milling. It can be concluded that particle size reduction is a pragmatic strategy to overcome the current limitation of mannitol fragmentation and provide improvements in tablet properties. PMID:26553127

  13. A Holistic Multi Evidence Approach to Study the Fragmentation Behaviour of Crystalline Mannitol

    NASA Astrophysics Data System (ADS)

    Koner, Jasdip S.; Rajabi-Siahboomi, Ali; Bowen, James; Perrie, Yvonne; Kirby, Daniel; Mohammed, Afzal R.

    2015-11-01

    Mannitol is an essential excipient employed in orally disintegrating tablets due to its high palatability. However its fundamental disadvantage is its fragmentation during direct compression, producing mechanically weak tablets. The primary aim of this study was to assess the fracture behaviour of crystalline mannitol in relation to the energy input during direct compression, utilising ball milling as the method of energy input, whilst assessing tablet characteristics of post-milled powders. Results indicated that crystalline mannitol fractured at the hydrophilic (011) plane, as observed through SEM, alongside a reduction in dispersive surface energy. Disintegration times of post-milled tablets were reduced due to the exposure of the hydrophilic plane, whilst more robust tablets were produced. This was shown through higher tablet hardness and increased plastic deformation profiles of the post-milled powders, as observed with a lower yield pressure through an out-of-die Heckel analysis. Evaluation of crystal state using x-ray diffraction/differential scanning calorimetry showed that mannitol predominantly retained the β-polymorph however x-ray diffraction provided a novel method to calculate energy input into the powders during ball milling. It can be concluded that particle size reduction is a pragmatic strategy to overcome the current limitation of mannitol fragmentation and provide improvements in tablet properties.

  14. Fragmented Adipose Tissue Graft for Bone Healing: Histological and Histometric Study in Rabbits’ Calvaria

    PubMed Central

    Oliveira, Lidiane C.; Giovanini, Allan F.; Abuabara, Allan; Klug, Luiz G.; Gonzaga, Carla C.; Zielak, João C.; Urban, Cícero A.

    2013-01-01

    Objective The adipose tissue represents an important reservoir of stem cells. There are few studies in the literature with which to histologically evaluate whether or not the adipose tissue graft is really a safe option to achieve bone repair. This study histologically analyzed the effect of fragmented autogenous adipose tissue grafts on bone healing in surgically created, critical-size defects (CSD) in a rabbit’s calvaria. Study design Forty-two New Zealand rabbits were used in this study. CSD that were 15 mm in diameter were created in the calvarium of each animal. The defects were randomly divided into two groups: in Group C (control), the defect was filled only by a blood clot and, in Group FAT (i.e., fragmented adipose tissue), the defect was filled with fragmented autogenous adipose tissue grafts. The groups were divided into subgroups (n = 7) for euthanasia at 7, 15, and 40 days after the procedure had been conducted. Histologic and histometric analyses were performed. Data were statistically analysed with ANOVA and Tukey’s tests (p < 0.05). Results The amount of bone formation did not show statistically significant differences seven days after the operation, which indicates that the groups had similar amounts of mineral deposition in the earlier period of the repair. Conversely, a significant of amount of bone matrix deposition was identified in the FAT group at 15 and 40 days following the operation, both on the border and in the body of the defect. Such an outcome was not found in the control group. Conclusion In this study, an autologous adipose tissue graft may be considered as likely biomaterial for bone regeneration, since it positively affected the amount of bone formation in surgically created CSD in the rabbits’ calvaria 40 days after the procedure had been performed. Further investigations with a longer time evaluation are warranted to determine the effectiveness of autologous adipose tissue graft in the bone healing. Key words

  15. Screening for JH1 genetic defect carriers in Jersey cattle by a polymerase chain reaction and restriction fragment length polymorphism assay.

    PubMed

    Zhang, Yi; Guo, Gang; Huang, Hetian; Lu, Lu; Wang, Lijie; Fang, Lingzhao; Liu, Lin; Wang, Yachun; Zhang, Shengli

    2015-09-01

    An autosomal recessive genetic defect termed JH1 has been associated with early embryonic loss in the Jersey cattle breed. The genetic basis has been identified as a cytosine to thymine mutation in the CWC15 gene that changes an amino acid from arginine to a stop code. To screen for JH1 carriers in an imported Jersey population in China, a method based on a polymerase chain reaction amplification followed by a restriction fragment length polymorphism assay (PCR-RFLP) was developed for the accurate diagnosis of the JH1 allele. A total of 449 randomly chosen cows were examined with the PCR-RFLP assay, and 31 were identified as JH1 carriers, corresponding to a carrier frequency of 6.9%. The PCR-RFLP method was validated by DNA sequencing of 8 positive and 13 negative samples, with all 21 samples giving the expected DNA sequence. In addition, 3 negative and 3 positive samples were confirmed by a commercial microarray-based single nucleotide polymorphism assay. Finally, samples from 9 bulls in the United States of known status were correctly identified as carriers (5 bulls) or noncarriers (4 bulls). As the JH1 defect has most likely spread worldwide, implementing routine screening is necessary to avoid the risk of carrier-to-carrier matings and to gradually eradicate the deleterious gene.

  16. Studies on the characteristic and activity of low-molecular fragments from zymosan.

    PubMed

    Gao, Yang; Jiang, Ruizhi; Qie, Jing; Chen, Yinghong; Xu, Duoduo; Liu, Wei; Gao, Qipin

    2012-11-01

    Zymosan was hydrolysed with HCl and fractionated by ultrafiltration and dialysis to obtain water-soluble fragments A, B and C. Physical and chemical analyses showed that these fractions are composed primarily of glucose and have molecular weights of 8 kDa, 5 kDa and 2 kDa, respectively. A glycosidic linkage analysis indicated that they are mainly composed of β-1,3-glucans. Fragment A, which has the highest molecular weight, contains approximately 30% β-1,6-linked glucans, but fragment C is almost entirely composed of linear β-1,3-glucan chains. The anti-chronic atrophic gastritis activity experiments showed that fragment A has significant activity, the activity of zymosan is quite low and the activities of fragments B and C are in between those of fragment A and zymosan.

  17. [Preparation of Transmembrane Fragments Growth Hormone Receptor GHR in a Cell-Free Expression System for Structural Studies].

    PubMed

    Bocharova, O V; Kuzmichev, P K; Urban, A S; Goncharuk, S A; Bocharov, E V; Arsenyev, A S

    2015-01-01

    Growth hormone somatotropin and its membrane receptor GHR, belonging to a superfamily of the type I receptors possessing tyrosine kinase activity, are involved in the intercellular signal transduction cascade and regulate a number of important physiological and pathological processes in humans. Binding with somatotropin triggers a transition of GHR between two alternative dimer states, resulting in an allosteric activation of JAK2 tyrosine kinase in the cell cytoplasm. Transmembrane domain of GHR directly involved in this complex conformational transition. It has presumably two dimerization interfaces corresponding to the "unliganded" and the active state of GHR. In order to study the molecular basis of biochemical signal transduction mechanism across the cell membrane, we have developed an efficient cell-free production system of a TM fragment of GHR, which contains its TM domain flanked by functionally important juxtamembrane regions (GHRtm residues 254-298). The developed system allows to obtain -1 mg per 1 ml of reaction mixture of 13C- and 15N-isotope-labeled protein for structural and dynamic studies of the GHR TM domain dimerization in the membrane-mimicking medium by high-resolution heteronuclear NMR spectroscopy. PMID:27125024

  18. Diagnostic fragmentations of adducts formed between carbanions and carbon disulfide in the gas phase. A joint experimental and theoretical study.

    PubMed

    Maclean, Micheal J; Walker, Scott; Wang, Tianfang; Eichinger, Peter C H; Sherman, Patrick J; Bowie, John H

    2010-01-21

    Selected carbanions react with carbon disulfide in a modified LCQ ion trap mass spectrometer to form adducts, which when collisionally activated, decompose by processes which in some cases identify the structures of the original carbanions. For example (i) C(6)H(5)(-) + CS(2)--> C(6)H(5)CS(2)(-)--> C(6)H(5)S(-) + CS, occurs through a 3-membered ring ipso transition state, and (ii) the reaction between C(6)H(5)CH(2)(-) and CS(2) gives an adduct which loses H(2)S, whereas the adduct(s) formed between o-CH(3)C(6)H(5)(-) and CS(2) loses H(2)S and CS. Finally, it is shown that decarboxylation of C(6)H(5)CH(2)CH(2)CO(2)(-) produces the beta-phenylethyl anion (PhCH(2)CH(2)(-)), and that this thermalized anion reacts with CS(2) to form C(6)H(5)CH(2)CH(2)CS(2)(-) which when energized fragments specifically by the process C(6)H(5)CH(2)CH(2)CS(2)(-)--> C(6)H(5)CH(2)(-)CHC(S)SH --> [(C(6)H(5)CH(2)CH[double bond, length as m-dash]C[double bond, length as m-dash]S) (-)SH] --> C(6)H(5)CH(2)CCS(-) + H(2)S. Experimental findings of processes (ii) and (iii) were aided by deuterium labelling studies, and all reaction profiles were studied by theoretical calculations at the UCCSD(T)/6-31+G(d,p)//B3LYP/6-31+G(d,p) level of theory unless indicated to the contrary. PMID:20066272

  19. COLLISIONS OF POROUS CLUSTERS: A GRANULAR-MECHANICS STUDY OF COMPACTION AND FRAGMENTATION

    SciTech Connect

    Ringl, Christian; Urbassek, Herbert M.; Bringa, Eduardo M.; Bertoldi, Dalia S.

    2012-06-20

    The collision of granular clusters can result in a number of complex outcomes from sticking to partial or full destruction of the clusters. These outcomes will contribute to the size distribution of dust aggregates, changing their optical properties and their capability to contribute to solid-state astrochemistry. We study the collision of two clusters of equal size, formed by approximately 7000 sub-{mu}m grains each, with a mass and velocity range that is difficult to sample in experiments. We obtain the outcome of the collision: compaction, fragmentation, and size distribution of ejecta, and type of outcome, as a function of velocity and impact parameter. We compare our results to other models and simulations, at both atomistic and continuum scales, and find some agreement together with some discrepancies. We also study collision-induced compaction as a function of cluster size, up to sizes of N = 250, 000, and find that for large clusters considerably higher compactions result at higher velocities.

  20. Neutron-induced reaction studies using stored ions

    NASA Astrophysics Data System (ADS)

    Glorius, Jan; Litvinov, Yuri A.; Reifarth, René

    2015-11-01

    Storage rings provide unique possibilities for investigations of nuclear reactions. Radioactive ions can be stored if the ring is connected to an appropriate facility and reaction studies are feasible at low beam intensities because of the recycling of beam particles. Using gas jet or droplet targets, charged particle-induced reactions on short-lived isotopes can be studied in inverse kinematics. In such a system a high-flux reactor could serve as a neutron target extending the experimental spectrum to neutron-induced reactions. Those could be studied over a wide energy range covering the research fields of nuclear astrophysics and reactor safety, transmutation of nuclear waste and fusion.

  1. Promiscuity and selectivity in covalent enzyme inhibition: a systematic study of electrophilic fragments.

    PubMed

    Jöst, Christian; Nitsche, Christoph; Scholz, Therese; Roux, Lionel; Klein, Christian D

    2014-09-25

    Covalent ligand-target interactions offer significant pharmacological advantages. However, off-target reactivity of the reactive groups, which usually have electrophilic properties, must be minimized, and the selectivity of irreversible inhibitors is a crucial requirement. We therefore performed a systematic study to determine the selectivity of several electrophilic groups that can be used as building blocks for covalently binding ligands. Six reactive groups with modulated electrophilicity were combined with 11 nonreactive moieties, resulting in a small combinatorial library of 72 fragment-like compounds. These compounds were screened against a group of 11 enzyme targets to assess their selectivity and their potential for promiscuous binding to proteins. The assay results showed a considerably lower degree of promiscuity than initially expected, even for those members of the screening collection that contain supposedly highly reactive electrophiles.

  2. A lower fragmentation mass scale for clumps in high redshift galaxies: a systematic numerical study

    NASA Astrophysics Data System (ADS)

    Tamburello, Valentina; Mayer, Lucio; Shen, Sijing; Wadsley, James

    2015-08-01

    We perform a systematic study of the effect of sub-grid physics, resolution and structural parameters on the fragmentation of gas-rich galaxy discs into massive star forming clumps due to gravitational instability. We use the state-of-the-art zoom-in cosmological hydrodynamical simulation ARGO (Fiacconi et al. 2015) to set up the initial conditions of our models, and then carry out 26 high resolution controlled simulations of high-z galaxies using the GASOLINE2 code, which includes a modern, numerically robust SPH implementation.We find that when blast-wave feedback is included, the formation of long-lived, gravitationally bound clumps requires disc gas fractions of at least 50% and massive discs, which should have Vmax > 200 km/s at z ˜ 2, more massive than the typical galaxies expected at those redshifts.Less than 50 Myr after formation, clumps have stellar masses in the range 4 × 106 - 5 × 107 M⊙.Formation of clumps with mass exceeding ˜108 M⊙ is a rare occurrence, since it requires mergers between multiple massive clumps, as we verified by tracing back in time the particles belonging to such clumps. Such mergers happen after a few orbital times (˜200-300 Myr), but normally clumps migrate inward and are tidally disrupted on shorter timescales.Clump sizes are in the range 100-500 pc. We argue that giant clumps identified in observations (˜109 M⊙ and 1 kpc in size) might either have a different origin, such as minor mergers and clumpy gas accretion, or their sizes and masses may be overestimated due to resolution issues.Using an analytical model, already developed to explain the fragmentation scale in gravitationally unstable 3D protoplanetary discs, we can predict fairly accurately the characteristic gaseous masses of clumps soon after fragmentation, when standard Toome analysis becomes invalid.Due to their modest size, clumps have little effect on bulge growth as they migrate to the center. In our unstable discs a small bulge can form irrespective of

  3. [Reaction mechanism studies of heavy ion induced nuclear reactions]. Annual progress report, [January 1992--February 1993

    SciTech Connect

    Mignerey, A.C.

    1993-02-01

    Completed work is summarized on the topics of excitation energy division in deep-inelastic reactions and the onset of multifragmentation in La-induced reactions at E/A = 45 MeV. Magnetic fields are being calculated for the PHOBOS detector system, a two-arm multiparticle spectrometer for studying low-transverse-momentum particles produced at the Relativistic Heavy Ion Collider. The Maryland Forward Array is being developed for detection of the reaction products from very peripheral collisions; it consists of two individual units of detectors: the annular silicon detector in front and the plastic phoswich detector at back.

  4. New Perpspectives for Studies of Reaction Mechanisms at Low Medium Energies

    NASA Astrophysics Data System (ADS)

    Gramegna, F.; Mastinu, P. F.; Vannucci, L.; Marchi, E. Boscolo; Cherubini, R.; Moroni, A.; Bracco, A.; Camera, F.; Million, B.; Wieland, O.; Benzoni, G.; Leoni, S.; Airoldi, A.; Sacchi, R.; Galbusera, E.; Giussani, A.; Ottolenghi, A.; Gadioli, E.; Ballarini, F.; Maj, A.; Brekiesz, M.; Kmiecik, M.; Barlini, S.; Lanchais, A.; Bruno, M.; D'Agostino, M.; Geraci, E.; Vannini, G.; Ordine, A.; Casini, G.; Nannini, A.; Chiari, M.; Abbondanno, U.; Milazzo, P. M.; Margagliotti, G. V.; Bonasera, A.

    2003-07-01

    In the energetic range between 5 and 20 MeV/n, which is covered by the accelerating system Tandem XTU - Linac ALPI of the Laboratori Nazionali of Legnaro, many open questions regarding the study of reaction mechanisms with heavy ions have still to be solved. Using complex apparatuses like GARFIELD coupled with different ancillary detectors, it is possible to perform exclusive measurements, which are necessary to get new important information. This will bring to a better understanding both on nuclear structure problems, like for example the study of the mechanisms underlying the Giant Dipole Resonance Damping, and on reaction mechanisms phenomena, like the characterization of those mechanisms, which are responsible for the many-fragment emission. Preliminary results and plans to be performed with the GARFIELD facility have been described.

  5. New Perspectives for Studies of Reaction Mechanisms at Low-Medium Energies

    NASA Astrophysics Data System (ADS)

    Gramegna, F.; Mastinu, P. F.; Vannucci, L.; Boscolo Marchi, E.; Cherubini, R.; Moroni, A.; Bracco, A.; Camera, F.; Million, B.; Wieland, O.; Benzoni, G.; Leoni, S.; Airoldi, A.; Sacchi, R.; Galbusera, E.; Giussani, A.; Ottolenghi, A.; Gadioli, E.; Ballarini, F.; Maj, A.; Brekiesz, M.; Kmiecik, M.; Barlini, S.; Lanchais, A.; Bruno, M.; D'Agostino, M.; Geraci, E.; Vannini, G.; Ordine, A.; Casini, G.; Nannini, A.; Chiari, M.; Abbondanno, U.; Milazzo, P. M.; Margagliotti, G. V.; Bonasera, A.

    2003-04-01

    Many open questions regarding the study of reaction mechanisms with heavy ions have still to be solved, even in the energetic range between 5 and 20 MeV/u, which is covered by the accelerating system Tandem XTU--Linac ALPI of the Laboratori Nazionali of Legnaro. Using complex apparatuses like GARFIELD, coupled with different ancillary detectors, it is possible to perform exclusive measurements, which should be capable of giving new important information, in order to better understand both nuclear structure problems, like for example the study of the mechanisms underlying the Giant Dipole Resonance Damping, and reaction mechanisms phenomena, like the characterization of those mechanisms which are responsible for the many-fragment emission. Preliminary results and future plans to be performed with the GARFIELD facility have been described.

  6. Techniques used to study the DNA polymerase reaction pathway

    PubMed Central

    Joyce, Catherine M.

    2009-01-01

    Summary A minimal reaction pathway for DNA polymerases was established over 20 years ago using chemical quench methods. Since that time there has been considerable interest in noncovalent steps in the reaction pathway, conformational changes involving the polymerase or its DNA substrate that may play a role in substrate specificity. Fluorescence-based assays have been devised in order to study these conformational transitions and the results obtained have added new detail to the reaction pathway. PMID:19665596

  7. A Method for Studying the Temperature Dependence of Dynamic Fracture and Fragmentation.

    PubMed

    Jones, David R; Chapman, David J; Eakins, Daniel E

    2015-01-01

    The dynamic fracture of a body is a late-stage phenomenon typically studied under simplified conditions, in which a sample is deformed under uniform stress and strain rate. This can be produced by evenly loading the inner surface of a cylinder. Due to the axial symmetry, as the cylinder expands the wall is placed into a tensile hoop stress that is uniform around the circumference. While there are various techniques to generate this expansion such as explosives, electromagnetic drive, and existing gas gun techniques they are all limited in the fact that the sample cylinder must be at room temperature. We present a new method using a gas gun that facilitates experiments on cylinders from 150 K to 800 K with a consistent, repeatable loading. These highly diagnosed experiments are used to examine the effect of temperature on the fracture mechanisms responsible for failure, and their resulting influence on fragmentation statistics. The experimental geometry employs a steel ogive located inside the target cylinder, with the tip located about halfway in. A single stage light gas gun is then used to launch a polycarbonate projectile into the cylinder at 1,000 m/sec(-1). The projectile impacts and flows around the rigid ogive, driving the sample cylinder from the inside. The use of a non-deforming ogive insert allows us to install temperature control hardware inside the rear of the cylinder. Liquid nitrogen (LN₂) is used for cooling and a resistive high current load for heating. Multiple channels of upshifted photon Doppler velocimetry (PDV) track the expansion velocity along the cylinder enabling direct comparison to computer simulations, while High speed imaging is used to measure the strain to failure. The recovered cylinder fragments are also subject to optical and electron microscopy to ascertain the failure mechanism. PMID:26168019

  8. A DNA Metabarcoding Study of a Primate Dietary Diversity and Plasticity across Its Entire Fragmented Range

    PubMed Central

    Quéméré, Erwan; Hibert, Fabrice; Miquel, Christian; Lhuillier, Emeline; Rasolondraibe, Emmanuel; Champeau, Julie; Rabarivola, Clément; Nusbaumer, Louis; Chatelain, Cyrille; Gautier, Laurent; Ranirison, Patrick; Crouau-Roy, Brigitte; Taberlet, Pierre; Chikhi, Lounès

    2013-01-01

    In tropical regions, most primary ecosystems have been replaced by mosaic landscapes in which species must cope with a large shift in the distribution of their habitat and associated food resources. Primates are particularly vulnerable to habitat modifications. Most species persist in small fragments surrounded by complex human-mediated matrices whose structure and connectivity may strongly influence their dispersal and feeding behavior. Behavioral plasticity appears to be a crucial parameter governing the ability of organisms to exploit the resources offered by new matrix habitats and thus to persist in fragmented habitats. In this study, we were interested in the dietary plasticity of the golden-crowned sifaka (Propithecus tattersalli), an endangered species of lemur, found only in the Daraina region in north-eastern Madagascar. We used a DNA-based approach combining the barcoding concept and Illumina next-generation sequencing to (i) describe the species diet across its entire range and (ii) evaluate the influence of landscape heterogeneity on diet diversity and composition. Faeces from 96 individuals were sampled across the entire species range and their contents were analyzed using the trnL metabarcoding approach. In parallel, we built a large DNA reference database based on a checklist of the plant species of the Daraina region. Our results suggest that golden-crowned sifakas exhibit remarkable dietary diversity with at least 130 plant species belonging to 80 genera and 49 different families. We highlighted an influence of both habitat type and openness on diet composition suggesting a high flexibility of foraging strategies. Moreover, we observed the presence of numerous cultivated and naturalized plants in the faeces of groups living in forest edge areas. Overall, our findings support our initial expectation that P. tattersalli is able to cope with the current level of alteration of the landscape and confirm our previous results on the distribution and the

  9. A Method for Studying the Temperature Dependence of Dynamic Fracture and Fragmentation.

    PubMed

    Jones, David R; Chapman, David J; Eakins, Daniel E

    2015-06-28

    The dynamic fracture of a body is a late-stage phenomenon typically studied under simplified conditions, in which a sample is deformed under uniform stress and strain rate. This can be produced by evenly loading the inner surface of a cylinder. Due to the axial symmetry, as the cylinder expands the wall is placed into a tensile hoop stress that is uniform around the circumference. While there are various techniques to generate this expansion such as explosives, electromagnetic drive, and existing gas gun techniques they are all limited in the fact that the sample cylinder must be at room temperature. We present a new method using a gas gun that facilitates experiments on cylinders from 150 K to 800 K with a consistent, repeatable loading. These highly diagnosed experiments are used to examine the effect of temperature on the fracture mechanisms responsible for failure, and their resulting influence on fragmentation statistics. The experimental geometry employs a steel ogive located inside the target cylinder, with the tip located about halfway in. A single stage light gas gun is then used to launch a polycarbonate projectile into the cylinder at 1,000 m/sec(-1). The projectile impacts and flows around the rigid ogive, driving the sample cylinder from the inside. The use of a non-deforming ogive insert allows us to install temperature control hardware inside the rear of the cylinder. Liquid nitrogen (LN₂) is used for cooling and a resistive high current load for heating. Multiple channels of upshifted photon Doppler velocimetry (PDV) track the expansion velocity along the cylinder enabling direct comparison to computer simulations, while High speed imaging is used to measure the strain to failure. The recovered cylinder fragments are also subject to optical and electron microscopy to ascertain the failure mechanism.

  10. Kinetic and mechanistic studies on the formation and reactions of early-transition-metal-ketene complexes

    SciTech Connect

    Galante, J.M.; Bruno, J.W.; Hazin, P.N.; Folting, K.; Huffman, J.C.

    1988-05-01

    A series of complexes of vanadocene or molybdenocene with unsymmetrical ketenes were prepared, either by reaction of the various ketenes with vanadocene itself or by reaction with the molybdenocene phosphine complex (C/sub 5/H/sub 5/)/sub 2/Mo(PEt/sub 3/). All of the complexes exhibited the expected ketene C=O bonding mode, and all reactions were very specific in their formation of the facial isomer with metallocene fragment located on the side of the smaller ketene substituent. Kinetic studies were used to assess the sensitivity of the incoming vanadocene to steric and electronic effects, with the latter found to dominate. Kinetic studies and activation parameters for reaction of Cp/sub 2/Mo(PEt/sub 3/) with EtPhC=C=O indicated a second-order associative mechanism, proposed to involve a nucleophilic attack of the metal center on the ketene central carbon in the rate-limiting step. Lastly, reactions of the bound ketenes with nucleophiles (alkyllithiums or Grignard reagents) proceeded readily to either ketone or aldehyde enolates (the latter via transfer of a ..beta..-hydride from the alkyl); the clean production of only Z enolates from the unsymmetrical ketenes is indicate of a metal-mediated internal attack of nucleophile on the bound ketene.

  11. Studies of hypersensitivity reactions to foods in infants and children.

    PubMed

    Bock, S A; Lee, W Y; Remigio, L K; May, C D

    1978-12-01

    In order to extend previous investigations of adverse reactions to foods performed at this institution, 68 children, aged 5 mo to 15 yr, were studied. All subjects reported a history of adverse reaction to ingestion of one or more of the 14 foods under study. Sixteen of 43 subjects, 3 yr of age or older, had 22 adverse reactions during 94 food challenges with one or more of the 14 foods. All reactions confirmed were to peanut or other nuts, milk, egg, and soy. Skin testing with 1:20 weight/volume concentrations of food extracts applied by the puncture technique produced a net wheal reaction 3 mm or greater in all subjects 3 yr of age or older in whom double-blind food challenges confirmed the history of adverse reaction. Thirteen of 25 children less than 3 yr of age manifested adverse reactions during 49 food challenges. Skin testing by puncture technique produced a net wheal 3 mm or greater in 9 children less than 3 yr of age in whom food challenge elicited a clinical response within 2 hr. One of 4 subjects less than 3 yr of age in whom the adverse reaction occurred more than 4 hr after food challenge exhibited a wheal to puncture skin test of 3 mm or greater. These studies suggest that at present double-blind food challenge is an indispensible tool for the unequivocal evaluation of adverse reactions to foods.

  12. Matrix isolation as a tool for studying interstellar chemical reactions

    NASA Technical Reports Server (NTRS)

    Ball, David W.; Ortman, Bryan J.; Hauge, Robert H.; Margrave, John L.

    1989-01-01

    Since the identification of the OH radical as an interstellar species, over 50 molecular species were identified as interstellar denizens. While identification of new species appears straightforward, an explanation for their mechanisms of formation is not. Most astronomers concede that large bodies like interstellar dust grains are necessary for adsorption of molecules and their energies of reactions, but many of the mechanistic steps are unknown and speculative. It is proposed that data from matrix isolation experiments involving the reactions of refractory materials (especially C, Si, and Fe atoms and clusters) with small molecules (mainly H2, H2O, CO, CO2) are particularly applicable to explaining mechanistic details of likely interstellar chemical reactions. In many cases, matrix isolation techniques are the sole method of studying such reactions; also in many cases, complexations and bond rearrangements yield molecules never before observed. The study of these reactions thus provides a logical basis for the mechanisms of interstellar reactions. A list of reactions is presented that would simulate interstellar chemical reactions. These reactions were studied using FTIR-matrix isolation techniques.

  13. Electron Capture Dissociation Studies of the Fragmentation Patterns of Doubly Protonated and Mixed Protonated-Sodiated Peptoids

    NASA Astrophysics Data System (ADS)

    Bogdanov, Bogdan; Zhao, Xiaoning; Robinson, David B.; Ren, Jianhua

    2014-07-01

    The fragmentation patterns of a group of doubly protonated ([P + 2H]2+) and mixed protonated-sodiated ([P + H + Na]2+) peptide-mimicking oligomers, known as peptoids, have been studied using electron capturing dissociation (ECD) tandem mass spectrometry techniques. For all the peptoids studied, the primary backbone fragmentation occurred at the N-Cα bonds. The N-terminal fragment ions, the C-ions (protonated) and the C'-ions (sodiated) were observed universally for all the peptoids regardless of the types of charge carrier. The C-terminal ions varied depending on the type of charge carrier. The doubly protonated peptoids with at least one basic residue located at a position other than the N-terminus fragmented by producing the Z•-series of ions. In addition, most doubly protonated peptoids also produced the Y-series of ions with notable abundances. The mixed protonated-sodiated peptoids fragmented by yielding the Z•'-series of ions in addition to the C'-series. Chelation between the sodium cation and the amide groups of the peptoid chain might be an important factor that could stabilize both the N-terminal and the C-terminal fragment ions. Regardless of the types of the charge carrier, one notable fragmentation for all the peptoids was the elimination of a benzylic radical from the odd-electron positive ions of the protonated peptoids ([P + 2H]•+) and the sodiated peptoids ([P + H + Na]•+). The study showed potential utility of using the ECD technique for sequencing of peptoid libraries generated by combinatorial chemistry.

  14. Quantitative real-time polymerase chain reaction (qRT-PCR) restriction fragment length polymorphism (RFLP) method for monitoring highly conserved transgene expression during gene therapy.

    PubMed

    Bruzzone, Carol M; Belcher, John D; Schuld, Nathan J; Newman, Kristal A; Vineyard, Julie; Nguyen, Julia; Chen, Chunsheng; Beckman, Joan D; Steer, Clifford J; Vercellotti, Gregory M

    2008-12-01

    Evaluation of the transfer efficiency of a rat heme oxygenase-1 (HO-1) transgene into mice requires differentiation of rat and mouse HO-1. However, rat and mouse HO-1 have 94% homology; antibodies and enzyme activity cannot adequately distinguish HO-1. We designed a quantitative real-time polymerase chain reaction (qRT-PCR) method to monitor HO-1 transcription relative to a housekeeping gene, GAPDH. The ratio of rat and mouse HO-1 mRNA could be estimated through restriction fragment length polymorphism (RFLP) analysis of the PCR products. In vitro, murine AML12 hepatocytes were transfected with rat HO-1. After 40 h, the total HO-1 mRNA was enriched 2-fold relative to control cells, and rat HO-1 comprised 84% of HO-1 cDNA. In vivo, the rat HO-1 transgene was cloned into a Sleeping Beauty transposase (SB-Tn) construct and was injected hydrodynamically into a mouse model of sickle cell disease (SCD). After 21 days, there was a 32% enrichment of HO-1 mRNA relative to control mice and the rat transgene comprised 88% of HO-1 cDNA. After 21 days, HO-1 protein expression in liver was increased 2.5-fold. In summary, qRT-PCR RFLP is a useful and reliable method to differentiate the transgene from host gene transcription, especially when the host and transgene protein are identical or highly homologous. This method has translational applications to the design, delivery, and monitoring of gene-therapy vectors. PMID:19059164

  15. Repair of avascular meniscal injuries using juvenile meniscal fragments: an in vitro organ culture study.

    PubMed

    Dai, Zhu; Li, Kanghua; Chen, Zhiwei; Liao, Ying; Yang, Lezhong; Liu, Chunlei; Ding, Wenjun

    2013-10-01

    We investigated whether the implantation of juvenile allograft and minced meniscal fragments could improve the healing of avascular meniscal injuries, which cannot heal spontaneously. Concentric cylindrical explants were excised from the inner two-thirds of swine medial menisci. The inner cylinder consisted of a "sandwich" structure, with minced juvenile meniscal fragments, juvenile meniscal columns, minced mature meniscal fragments, or mature meniscal columns implanted in the middle. The explants were cultured in vitro for 2, 4, or 6 weeks. Interfacial meniscal repair was assessed by histology, immunohistochemistry, biomechanical testing, and confocal laser scanning microscopy. Histology and confocal microscopy results revealed that tissue repair and cell accumulation at the interface were best at all time points in the juvenile meniscal fragments group, followed by the juvenile columns, minced mature fragments, and mature columns groups, respectively. At 6 weeks, the implantation of juvenile allograft and minced meniscal fragments increased the shear strength, peak force, and energy to failure in the peripheral interface. Picosirius red/polarized light microscopy and immunohistochemistry results showed concurrent expression of type I and II collagen in the interfacial repair tissue. In conclusion, implantation of juvenile allograft and minced meniscal fragments could increase the healing of avascular meniscal injury in vitro.

  16. Electron ionization mass spectral fragmentation study of sulfation derivatives of polychlorinated biphenyls

    PubMed Central

    Li, Xueshu; Robertson, Larry W; Lehmler, Hans-Joachim

    2009-01-01

    Background Polychlorinated biphenyls are persistent organic pollutants that can be metabolized via hydroxylated PCBs to PCB sulfate metabolites. The sensitive and selective analysis of PCB sulfate monoesters by gas chromatography-mass spectrometry (GC-MS) requires their derivatization, for example, as PCB 2,2,2-trichloroethyl (TCE) sulfate monoesters. To aid in the identification of unknown PCB sulfate metabolites isolated from biological samples, the electron impact MS fragmentation pathways of selected PCB TCE sulfate diesters were analyzed and compared to the fragmentation pathways of the corresponding methoxylated PCBs. Results The most abundant and characteristic fragment ions of PCB TCE sulfate diesters were formed by releasing CHCCl3, SO3, HCl2 and/or CCl3 from the TCE sulfate moiety and Cl2, HCl, ethyne and chloroethyne from an intermediate phenylcyclopentadienyl cation. The fragmentation pattern depended on the degree of chlorination and the position of the TCE sulfate moiety (i.e., ortho vs. meta/para to the second phenyl ring), but were independent of the chlorine substitution pattern. These fragmentation pathways are similar to the fragmentation pathways of structurally related methoxylated PCBs. Conclusion Knowledge of the fragmentation patterns of PCB TCE sulfate diesters will greatly aid in determining the position of sulfate moiety (ortho vs. meta/para) of unknown PCB sulfate metabolites isolated from environmental or laboratory samples. PMID:19272150

  17. Transverse flow reactor studies of the dynamics of radical reactions

    SciTech Connect

    Macdonald, R.G.

    1993-12-01

    Radical reactions are in important in combustion chemistry; however, little state-specific information is available for these reactions. A new apparatus has been constructed to measure the dynamics of radical reactions. The unique feature of this apparatus is a transverse flow reactor in which an atom or radical of known concentration will be produced by pulsed laser photolysis of an appropriate precursor molecule. The time dependence of individual quantum states or products and/or reactants will be followed by rapid infrared laser absorption spectroscopy. The reaction H + O{sub 2} {yields} OH + O will be studied.

  18. Universality of fragment shapes

    PubMed Central

    Domokos, Gábor; Kun, Ferenc; Sipos, András Árpád; Szabó, Tímea

    2015-01-01

    The shape of fragments generated by the breakup of solids is central to a wide variety of problems ranging from the geomorphic evolution of boulders to the accumulation of space debris orbiting Earth. Although the statistics of the mass of fragments has been found to show a universal scaling behavior, the comprehensive characterization of fragment shapes still remained a fundamental challenge. We performed a thorough experimental study of the problem fragmenting various types of materials by slowly proceeding weathering and by rapid breakup due to explosion and hammering. We demonstrate that the shape of fragments obeys an astonishing universality having the same generic evolution with the fragment size irrespective of materials details and loading conditions. There exists a cutoff size below which fragments have an isotropic shape, however, as the size increases an exponential convergence is obtained to a unique elongated form. We show that a discrete stochastic model of fragmentation reproduces both the size and shape of fragments tuning only a single parameter which strengthens the general validity of the scaling laws. The dependence of the probability of the crack plan orientation on the linear extension of fragments proved to be essential for the shape selection mechanism. PMID:25772300

  19. Universality of fragment shapes.

    PubMed

    Domokos, Gábor; Kun, Ferenc; Sipos, András Árpád; Szabó, Tímea

    2015-01-01

    The shape of fragments generated by the breakup of solids is central to a wide variety of problems ranging from the geomorphic evolution of boulders to the accumulation of space debris orbiting Earth. Although the statistics of the mass of fragments has been found to show a universal scaling behavior, the comprehensive characterization of fragment shapes still remained a fundamental challenge. We performed a thorough experimental study of the problem fragmenting various types of materials by slowly proceeding weathering and by rapid breakup due to explosion and hammering. We demonstrate that the shape of fragments obeys an astonishing universality having the same generic evolution with the fragment size irrespective of materials details and loading conditions. There exists a cutoff size below which fragments have an isotropic shape, however, as the size increases an exponential convergence is obtained to a unique elongated form. We show that a discrete stochastic model of fragmentation reproduces both the size and shape of fragments tuning only a single parameter which strengthens the general validity of the scaling laws. The dependence of the probability of the crack plan orientation on the linear extension of fragments proved to be essential for the shape selection mechanism. PMID:25772300

  20. Staff reactions to challenging behaviour: an observation study.

    PubMed

    Lambrechts, Greet; Van Den Noortgate, Wim; Eeman, Lieve; Maes, Bea

    2010-01-01

    Staff reactions play an important role in the development and maintaining of clients' challenging behaviour. Because there is a paucity of research on staff reactions in naturalistic settings, this study examined sequential associations between challenging behaviour and staff reactions by means of a descriptive analysis. We analysed video recordings of the reactions of 10 staff members towards challenging behaviour of clients with severe or profound intellectual disabilities who displayed self-injurious behaviour, stereotyped behaviour and/or aggressive/destructive behaviour. As expected, the staff members used much verbal behaviours after challenging behaviour and often immediately tried to stop the challenging behaviour. Furthermore, staff often gave attention to challenging behaviour whereas offering or taking away material or tasks were less frequently observed reactions. Reactions to aggressive/destructive behaviour and self-injurious behaviour were quite similar. After stereotyped behaviour, not that many reactions occurred significantly more. Although this study has clinical implications and made a valuable contribution to research on staff reactions to challenging behaviour, more research is needed, more specifically, about the effectiveness of these staff reactions.

  1. Electromagnetic studies of nuclear structure and reactions

    SciTech Connect

    Hersman, F.W.; Dawson, J.F.; Heisenberg, J.H.; Calarco, J.R.

    1990-06-01

    This report contains papers on the following topics: giant resonance studies; deep inelastic scattering studies; high resolution nuclear structure work; and relativistic RPA; and field theory in the Schroedinger Representation.

  2. Systematic derivatization, mass fragmentation and acquisition studies in the analysis of chlorophenols, as their silyl derivatives by gas chromatography-mass spectrometry.

    PubMed

    Faludi, T; Andrási, N; Vasanits-Zsigrai, A; Záray, Gy; Molnár-Perl, I

    2013-08-01

    An exhaustive GC-MS sample preparation, derivatization, mass fragmentation and acquisition study was performed, for the simultaneous analysis of chlorophenols (CPs). Selected species were 2-CP, 3-CP, 4-CP, 3,5-dichlorophenol (diCP), 2,5-diCP, 2,6-diCP, 2,4-diCP, 2,3-diCP, 3,4-diCP 2,4,6-trichlorophenol (triCP), 2,4,5-triCP, 2,3,4-triCP, 2,3,4,6-tetrachlorophenol (tetraCP) and pentachlorophenol (pentaCP), in total 14 compounds. As novelties to the field, basic researches, like systematic derivatization, mass fragmentation and acquisition methods have been optimized for the trimethylsilyl (TMS) ether derivatives of CPs. The reactivity of chlorophenols with silylating agents has not been systematically analyzed. Here, we studied the reactivity of 14 chlorophenols with five silylating reagents. The three acquisition techniques, the full scan (FS), the multiple ion monitoring (MIM), and the currently optimized multiple reaction monitoring (MRM) methods, have been compared. We developed a new analytical approach, simultaneously monitoring the fragmentation pattern of the (35)Cl and the (37)Cl containing fragment ions both as precursor and as product ions. This principle resulted in remarkable specificity and sensitivity of detection and quantification; particularly in the cases of the tetraCP and pentaCP derivatives containing the (35)Cl and the (37)Cl fragment ions at an approximate ratio of <1:1. Detailed documentation of the loss of HCl via fragmentation processes, without decomposition of the benzene ring, was attributed to the "ring-walk" mechanism described first for monochlorophenol. Critical evaluation of the derivatization and acquisition protocols was collated and validated with the same characteristics. Data of six point calibration along with the corresponding relative standard deviation percentage (RSD%) values, in the line of FS, MIM and MRM methods (r(2): 0.9987, 0.9992, 0.9989; RSD%: 8.7, 5.6, 8.1), proved to be independent on the acquisition processes

  3. Isotope labelling to study molecular fragmentation during the dielectric barrier discharge wet reforming of methane

    NASA Astrophysics Data System (ADS)

    Montoro-Damas, Antonio M.; Gómez-Ramírez, Ana; Gonzalez-Elipe, Agustín R.; Cotrino, José

    2016-09-01

    Isotope labelling is used to study the wet plasma reforming of methane in a dielectric barrier discharge reactor using D2O and CH4 as reactants. Besides the formation of CO and hydrogen as main products, different partitions of H and D atoms are found in the hydrogen (i.e., H2, HD, D2), methane (i.e., CH4, CH3D and CH2D2) and water (D2O, DHO) molecules detected by mass spectrometry as outlet gases of the plasma process. The effect of operating parameters such as applied current, residence time and the addition of oxygen to the reaction mixture is correlated with the H/D distribution in these molecules, the overall reaction yield and the energetic efficiency of the process. The results prove the plasma formation of intermediate excited species that rendering water and methane instead of CO and hydrogen greatly contribute to decrease the overall energy efficiency of the reforming process.

  4. Fragmentation properties of metals

    SciTech Connect

    Grady, D.E.; Kipp, M.E.

    1996-06-01

    In the present study we are developing an experimental fracture material property test method specific to dynamic fragmentation. Spherical test samples of the metals of interest are subjected to controlled impulsive stress loads by acceleration to high velocities with a light-gas launcher facility and subsequent normal impact on thin plates. Motion, deformation and fragmentation of the test samples are diagnosed with multiple flash radiography methods. The impact plate materials are selected to be transparent to the x-ray method so that only test metal material is imaged. Through a systematic series of such tests, both strain-to-failure and fragmentation resistance properties are determined through this experimental method. Fragmentation property data for several steels, copper, aluminum, tantalum and titanium have been obtained to date. Aspects of the dynamic data have been analyzed with computational methods to achieve a better understanding of the processes leading to failure and fragmentation, and to test an existing computational fragmentation model.

  5. Design of an experimental configuration for studying the dynamic fragmentation of ceramics under impact

    NASA Astrophysics Data System (ADS)

    Zinszner, J.-L.; Forquin, P.; Rossiquet, G.

    2012-05-01

    To characterize the penetration resistance of a ceramic target during impact, it is necessary to take into consideration the mechanical behaviour of the fragmented ceramic. In the present work, a series of numerical simulations have been performed to design an experimental configuration named the "normal impact test". The aim of this configuration is to generate a strong fragmentation of the ceramic tile and to prevent any ejection of debris in order to analyse the fragmentation properties of the impacted ceramic. An anisotropic damage model has been used to perform these computations. The Weibull parameters that constitute input data of this model have been identified from four-point flexural tests performed on the so-called Hexoloy® silicon carbide. Finally, the numerical predictions are compared to the failure pattern of the fragmented ceramic.

  6. Stab or throw? Biomechanical studies on the injuring potential of glass fragments.

    PubMed

    Sterzik, Vera; Kneubuehl, Beat; Rupp, Wolf; Bohnert, Michael

    2010-06-15

    During a Christmas party, two male guests started fighting. The perpetrator was allegedly pushed onto a glass table by the victim or fell into the table together with that man so that the glass top broke and caused a cut wound on the perpetrator's back. According to his statement he then threw a fragment of the broken glass table in the direction of the other man hitting him accidentally in a way so that the subclavian artery was severed and he died from exsanguination. Tests on the breaking characteristics of the glass table, the flying behaviour and the kinetics of thrown glass fragments conducted on various models supported the conclusion that the fatal injury on the victim's neck could not have been caused by a thrown glass fragment. It was much more likely that a stab with a blade-shaped glass fragment was the cause of the fatal injuries.

  7. Ultrahigh-vacuum chamber equipped with a reaction cell for studying liquid-phase catalytic reactions

    NASA Astrophysics Data System (ADS)

    Gardin, Denis E.; Somorjai, Gabor A.

    1993-05-01

    We describe the construction and operation of a liquid-phase reaction cell designed in our laboratory that is attached to an ultrahigh-vacuum (UHV) chamber equipped with the traditional surface science techniques for structure and composition analysis. The sample surface can be prepared and characterized in the UHV chamber prior to transfer in the liquid-phase reaction cell. The transfer has been designed so that there is no loss of the UHV chamber vacuum integrity, as few parts as possible come into contact with the liquid, the surface stays clean during the transfer. The liquid-phase reaction cell itself is designed to study liquid-phase hydrogenation reactions at pressures up to 2 atm and temperatures up to 70 °C. A 1-mm-diam liquid jet with a velocity up to 6 m/s is produced by a gear pump that is incident on the sample surface to allow good mass transfer at the liquid-solid interface. The progress of the reaction is followed by gas chromatography. We report the reaction rate data for the hydrogenation of cyclohexene on a platinum foil.

  8. Measurement and management of human-induced patterns of forest fragmentation: a case study.

    PubMed

    Tole, Lise

    2006-06-01

    In many tropical developing countries, the twin pressures of population and poverty are resulting in substantial fragmentation of forests, increasing the probability of extinction for many species, Forest fragmentation occurs when large contiguous forests are perforated by small holes or broken up into edges and smaller patches to form a nonforested matrix of open spaces. Thus, forest fragmentation refers not only to the area of forest cleared, but also to the pattern of this clearance, the resulting forest's spatial properties. Both characteristics are important for species survivability. Apart from opening up forests to many abiotic and biotic influences, fragmentation can affect species dispersal and migration through its effects on forest connectivity. Landscape ecology conceptualizes connectivity as a gradient of critical thresholds, ranging from the large intact forest to the small unconnected forest patch. This article reports results from a multiple-scale analysis of forest fragmentation in Jamaica's Cockpit Country, an area of once contiguous forest now under threat from human encroachment. Spatial forest data derived from classification of ETM+ satellite imagery are used to measure fragmentation patterns representing various degrees of forest connectivity and density. The results suggest that, overall, 81% of the region is in forest. However, fragmentation patterns also suggest that this forest is riven with extensive perforations indicative of an early stage in the decline of contiguity. The results provided by the spatial fragmentation model are a first step in the design of effective conservation and rehabilitation plans for the area. The article concludes with a discussion of possible multiscale management options for the region.

  9. A complex reaction time study (Sternberg) in space flight

    NASA Technical Reports Server (NTRS)

    Thornton, W.; Uri, John; Moore, Tom

    1993-01-01

    Simple and complex (Sternberg) reaction time studies were flown on three and seven day Shuttle flights in 1985. Three subjects did selftesting with an onboard handheld calculator without difficulty. There was little change in simple reaction time. One subject demonstrated a decrease in the processing rate during space motion sickness while a second exhibited an increase in complex reaction time without a change in processing rate during a period of high work load. The population was too small to demonstrate significant changes. This study demonstrates the ease and practicality of such measurements and indicates the potential value of such studies in space.

  10. Target Neutron Skin Effect on Projectile Fragmentation

    NASA Astrophysics Data System (ADS)

    Laforest, R.; Ramakrishnan, E.; Rowland, D. J.; Winchester, E.; Delafield, R.; Guzman, S. J.; Yennello, S.

    1998-04-01

    Several experimental observables have concluded that projectile fragmentation occurs as a two step process, excitation followed by the sequential decay of the quasi-projectile. However, recent measurements [1] have shown that neutron rich fragments are emitted with smaller velocities than what is expected from the decay of the projectile. A direct breakup mechanism for projectile fragmentation was suggested to explain the data. This direct breakup component depends on the number of neutrons at the zone of contact between the target and the projectile. Experimental data from the reactions of ^28Si on ^112,124Sn targets at 50A MeV were used to study the effect of the neutron skin of the target on projectile fragmentation and on energy dissipation in peripheral collisions. The FAUST forward array was used to detect fragments in the angular range between 1.6 to 33.6 degrees. It is composed of 68 high resolution Si-Csi(Tl) telescopes that allows for isotope identification. It is seen that the neutron rich target yields more neutron rich fragments and a lower fragment multiplicity. This confirms the importance of the direct breakup component. Proton kinetic energy spectra were also different for the two targets. This experimental information can shed some light on the isospin dependence of the equation of state. [1] R. Charity et al., Phys. Rev. C52 (1995) 1.

  11. (Studies of target fragmentation in intermediate energy, relativistic and ultra-relativistic nuclear collisions)

    SciTech Connect

    Loveland, W.D.

    1991-08-01

    The work described herein is part of a project involving the study of low energy (< 10 MeV/A), intermediate energy (10--100 MeV/A) and relativistic (> 250 MeV/A) heavy ion reactions. In the low energy regime, we published a monograph on the properties of the heaviest elements and used that publication as a basis for making a set of best'' semi-empirical predictions of heavy element decay properties. The intermediate energy research effort focussed upon the completion of studies already begun and the initiation of a number of new experiments. In our study of a interaction of 21 MeV/nucleon {sup 129}Xe with {sup 197}Au, we compared the characteristics of the observed deep inelastic phenomena with various models of dissipative reactions and found significant discrepancies between observations and predictions. These discrepancies seemed to be caused by an improper treatment of pre-equilibrium in the early stages of the collision. In our study of the relativistic interaction of 400 MeV/nucleon {sup 12}C with {sup 197}Au, we reported the first direct physical measurement of the properties of the spallation residues from a nucleus-nucleus collision. We found the residue energies to be much lower than those predicted by the intranuclear cascade model, indicating some substantial modifications of that model are needed. But, we also found, indications of significant, non-zero values of the residue transverse momentum, a finding that calls into question the interpretation of a number of radiochemical recoil studies of the kinematics of high energy reactions. A program of performing numerical simulations of intermediate and high energy nuclear collisions using the QMD model was initiated.

  12. Fragment Model Study of Molecular Multiorbital System X[Pd(dmit)2]2

    NASA Astrophysics Data System (ADS)

    Seo, Hitoshi; Tsumuraya, Takao; Tsuchiizu, Masahisa; Miyazaki, Tsuyoshi; Kato, Reizo

    2015-04-01

    The electronic properties of quasi-two-dimensional molecular conductors X[Pd(dmit)2]2 are studied theoretically. We construct an effective model based on the fragment molecular orbital scheme developed recently, which can describe the multiorbital degree of freedom in this system. The tight-binding parameters for a series of β'-type compounds with different cations X are evaluated by fitting to first-principles band calculations. We find that the transfer integrals within the dimers of Pd(dmit)2 molecules, along the intramolecular and intermolecular bonds including the diagonal ones, are of the same order, leading to hybridization between different molecular orbitals. This results in charge disproportionation within each molecule, as shown in our previous ab initio study [Tsumuraya et al., J. Phys. Soc. Jpn. 82, 033709 (2013)], and also leads to a revised picture of the effective dimer model. Furthermore, we discuss broken-symmetry insulating states triggered by interaction effects, which show characteristic features owing to the multiorbital nature. The on-site Coulomb interaction induces antiferromagnetic states with an intramolecular antiparallel spin pattern, while electron-lattice couplings stabilize nonmagnetic charge-lattice-ordered states where two types of dimer with different charge occupations are arranged periodically. These states showing different spatial patterns compete with each other as well as with the paramagnetic metallic state.

  13. Direct studies of (α,p) reactions with HELIOS

    NASA Astrophysics Data System (ADS)

    Lai, Jianping; Blackmon, J. C.; Deibel, C. M.; Dimarco, D.; Gardiner, H.; Lauer, A.; Santiago-Gonzalez, D.; Williams, C.; Digiovine, B.; Greene, J.; Rohrer, J.; Helios Group At Argonne National Lab Collaboration

    2014-09-01

    In a variety of astrophysical processes, (α,p) type reactions have significant effects on final energy output and elemental abundances. However, only a handful of reactions have been measured due to technical limitations. Innovative new equipment and techniques, therefore, are necessary to extend measurement limits of these reactions rates. The HELIcal Orbit Spectrometer(HELIOS), serves as an important tool in studying reactions using radioactive ion beams at the Argonne Tandem Linac Accelerator System facility. With a specially designed gas target, we are able to study (α,p) reaction directly. HELIOS can separate protons from reactions with different energy states and the heavy recoils can be detected in coincidence by a high efficiency gas ionization detector. This combination has been successful in our pilot experiments. A series of (α,p) experiments using this setup in HELIOS are planned. We will start with 20Ne(α,p), which is crucial in Type Ia supernovae. A direct measurement of 30S(α,p), a key reaction in X ray burst, is also included in the near future plans and the beam development of 30S is in progress. Preliminary results will be presented. In a variety of astrophysical processes, (α,p) type reactions have significant effects on final energy output and elemental abundances. However, only a handful of reactions have been measured due to technical limitations. Innovative new equipment and techniques, therefore, are necessary to extend measurement limits of these reactions rates. The HELIcal Orbit Spectrometer(HELIOS), serves as an important tool in studying reactions using radioactive ion beams at the Argonne Tandem Linac Accelerator System facility. With a specially designed gas target, we are able to study (α,p) reaction directly. HELIOS can separate protons from reactions with different energy states and the heavy recoils can be detected in coincidence by a high efficiency gas ionization detector. This combination has been successful in our pilot

  14. Effects of target fragmentation on evaluation of LET spectra from space radiations: implications for space radiation protection studies

    NASA Technical Reports Server (NTRS)

    Cucinotta, F. A.; Wilson, J. W.; Shinn, J. L.; Badavi, F. F.; Badhwar, G. D.

    1996-01-01

    We present calculations of linear energy transfer (LET) spectra in low earth orbit from galactic cosmic rays and trapped protons using the HZETRN/BRYNTRN computer code. The emphasis of our calculations is on the analysis of the effects of secondary nuclei produced through target fragmentation in the spacecraft shield or detectors. Recent improvements in the HZETRN/BRYNTRN radiation transport computer code are described. Calculations show that at large values of LET (> 100 keV/micrometer) the LET spectra seen in free space and low earth orbit (LEO) are dominated by target fragments and not the primary nuclei. Although the evaluation of microdosimetric spectra is not considered here, calculations of LET spectra support that the large lineal energy (y) events are dominated by the target fragments. Finally, we discuss the situation for interplanetary exposures to galactic cosmic rays and show that current radiation transport codes predict that in the region of high LET values the LET spectra at significant shield depths (> 10 g/cm2 of Al) is greatly modified by target fragments. These results suggest that studies of track structure and biological response of space radiation should place emphasis on short tracks of medium charge fragments produced in the human body by high energy protons and neutrons.

  15. Study of Structure and Small-Scale Fragmentation in TMC-1

    NASA Technical Reports Server (NTRS)

    Langer, W. D.; Velusamy, T.; Kuiper, T. B.; Levin, S.; Olsen, E.; Migenes, V.

    1995-01-01

    Large-scale C(sup 18)O maps show that the Taurus molecular cloud 1 (TMC-1) has numerous cores located along a ridge which extends about 12 minutes by at least 35 minutes. The cores traced by C(sup 18)O are about a few arcminutes (0.1-0.2 pc) in extent, typically contain about 0.5-3 solar mass, and are probably gravitationally bound. We present a detailed study of the small-scale fragmentary structure of one of these cores, called core D, within TMC-1 using very high spectral and spatial resolution maps of CCS and CS. The CCS lines are excellent tracers for investigating the density, temperature, and velocity structure in dense cores. The high spectral resolution, 0.008 km /s, data consist mainly of single-dish, Nyquist-sampled maps of CCS at 22 GHz with 45 sec spatial resolution taken with NASA's 70 m DSN antenna at Goldstone. The high spatial resolution spectral line maps were made with the Very Large Array (9 sec resolution) at 22 GHz and with the OVRO millimeter array in CCS and CS at 93 GHz and 98 GHz, respectively, with 6 sec resolution. These maps are supplemented with single-dish observations of CCS and CC(sup 34)S spectra at 33 GHz using a NASA 34 m DSN antenna, CCS 93 GHz, C(sup 34)S (2-1), and C(sup 18)O (1-0) single-dish observations made with the AT&T Bell Laboratories 7 m antenna. Our high spectral and spatial CCS and CS maps show that core D is highly fragmented. The single-dish CCS observations map out several clumps which range in size from approx. 45 sec to 90 sec (0.03-0.06 pc). These clumps have very narrow intrinsic line widths, 0.11-0.25 km/s, slightly larger than the thermal line width for CCS at 10 K, and masses about 0.03-0.2 solar mass. Interferometer observations of some of these clumps show that they have considerable additional internal structure, consisting of several condensations ranging in size from approx. 10 sec- 30 sec (0.007-0.021 pc), also with narrow line widths. The mass of these smallest fragments is of order 0.01 solar mass

  16. Fragmentation of [Ni(NO3)3](-): A Study of Nickel-Oxygen Bonding and Oxidation States in Nickel Oxide Fragments.

    PubMed

    Hester, Thomas H; Albury, Rachael M; Pruitt, Carrie Jo M; Goebbert, Daniel J

    2016-07-01

    Gas-phase nickel nitrate anions are known to produce nickel oxide nitrate anions, [NiOx(NO3)y](-) upon fragmentation. The goal of this study was to investigate the properties of nickel oxide nitrate complexes generated by electrospray ionization using a tandem quadrupole mass spectrometer and theoretical calculations. The [Ni(NO3)3](-) ion undergoes sequential NO2(•) elimination to yield [NiO(NO3)2](-) and [NiO2(NO3)](-), followed by elimination of O2. The electronic structure of the nickel oxide core influences decomposition. Calculations indicate electron density from oxygen is delocalized onto the metal, yielding a partially oxidized oxygen in [NiO(NO3)2](-). Theoretical studies suggest the mechanism for O2 elimination from [NiO2(NO3)](-) involves oxygen atom transfer from a nitrate ligand to yield an intermediate, [NiO(O2)(NO2)](-), containing an oxygen radical anion ligand, O(•-), a superoxide ligand, O2(•-), and a nitrite ligand bound to Ni(2+). Electron transfer from superoxide partially reduces both the metal and oxygen and yields the energetically favored [NiO(NO2)](-) + O2 products. PMID:27328831

  17. Jet-A reaction mechanism study for combustion application

    NASA Technical Reports Server (NTRS)

    Lee, Chi-Ming; Kundu, Krishna; Acosta, Waldo

    1991-01-01

    Simplified chemical kinetic reaction mechanisms for the combustion of Jet A fuel was studied. Initially, 40 reacting species and 118 elementary chemical reactions were chosen based on a literature review. Through a sensitivity analysis with the use of LSENS General Kinetics and Sensitivity Analysis Code, 16 species and 21 elementary chemical reactions were determined from this study. This mechanism is first justified by comparison of calculated ignition delay time with the available shock tube data, then it is validated by comparison of calculated emissions from the plug flow reactor code with in-house flame tube data.

  18. Jet-A reaction mechanism study for combustion application

    NASA Technical Reports Server (NTRS)

    Lee, Chi-Ming; Kundu, Krishna; Acosta, Waldo

    1991-01-01

    Simplified chemical kinetic reaction mechanisms for the combustion of Jet A fuel are studied. Initially 40 reacting species and 118 elementary chemical reactions were chosen based on the literature review of previous works. Through a sensitivity analysis with the use of LSENS General Kinetics and Sensitivity Analysis Code, 16 species and 21 elementary chemical reactions were determined from this study. This mechanism is first justified by comparison of calculated ignition delay time with available shock tube data, then it is validated by comparison of calculated emissions from plug flow reactor code with in-house flame tube data.

  19. Theoretical Studies of Elementary Hydrocarbon Species and Their Reactions

    SciTech Connect

    Allen, Wesley D.; Schaefer, III, Henry F.

    2015-11-14

    This is the final report of the theoretical studies of elementary hydrocarbon species and their reactions. Part A has a bibliography of publications supported by DOE from 2010 to 2016 and Part B goes into recent research highlights.

  20. The combined fragmentation and systematic molecular fragmentation methods.

    PubMed

    Collins, Michael A; Cvitkovic, Milan W; Bettens, Ryan P A

    2014-09-16

    Conspectus Chemistry, particularly organic chemistry, is mostly concerned with functional groups: amines, amides, alcohols, ketones, and so forth. This is because the reactivity of molecules can be categorized in terms of the reactions of these functional groups, and by the influence of other adjacent groups in the molecule. These simple truths ought to be reflected in the electronic structure and electronic energy of molecules, as reactivity is determined by electronic structure. However, sophisticated ab initio quantum calculations of the molecular electronic energy usually do not make these truths apparent. In recent years, several computational chemistry groups have discovered methods for estimating the electronic energy as a sum of the energies of small molecular fragments, or small sets of groups. By decomposing molecules into such fragments of adjacent functional groups, researchers can estimate the electronic energy to chemical accuracy; not just qualitative trends, but accurate enough to understand reactivity. In addition, this has the benefit of cutting down on both computational time and cost, as the necessary calculation time increases rapidly with an increasing number of electrons. Even with steady advances in computer technology, progress in the study of large molecules is slow. In this Account, we describe two related "fragmentation" methods for treating molecules, the combined fragmentation method (CFM) and systematic molecular fragmentation (SMF). In addition, we show how we can use the SMF approach to estimate the energy and properties of nonconducting crystals, by fragmenting the periodic crystal structure into relatively small pieces. A large part of this Account is devoted to simple overviews of how the methods work. We also discuss the application of these approaches to calculating reactivity and other useful properties, such as the NMR and vibrational spectra of molecules and crystals. These applications rely on the ability of these

  1. Theoretical Study of Sodium-Water Surface Reaction Mechanism

    NASA Astrophysics Data System (ADS)

    Kikuchi, Shin; Kurihara, Akikazu; Ohshima, Hiroyuki; Hashimoto, Kenro

    Computational study of the sodium-water reaction at the gas (water) - liquid (sodium) interface has been carried out using the ab initio (first-principle) method. A possible reaction channel has been identified for the stepwise OH bond dissociations of a single water molecule. The energetics including the binding energy of a water molecule on the sodium surface, the activation energies of the bond cleavages, and the reaction energies, have been evaluated, and the rate constants of the first and second OH bond-breakings have been compared. It was found that the estimated rate constant of the former was much larger than the latter. The results are the basis for constructing the chemical reaction model used in a multi-dimensional sodium-water reaction code, SERAPHIM, being developed by Japan Atomic Energy Agency (JAEA) toward the safety assessment of the steam generator (SG) in a sodium-cooled fast reactor (SFR).

  2. Rempi Studies of Molecular Reaction Dynamics.

    NASA Astrophysics Data System (ADS)

    Black, John Forbes

    Available from UMI in association with The British Library. Requires signed TDF. Resonance-Enhanced Multi-Photon Ionisation (REMPI qv.) is used to prepare and probe systems undergoing unimolecular decomposition. It is shown that the highly efficient state selective nature of the REMPI process is well suited to both highly dynamical situations such as the "A-Band" dissociation of MeI at around 280nm and to the slower "Quasi-statistical" dissociations of the mainifold of states of the MeI(+) cation. In the study of the neutral dissociation we attempt to extract the population distributions of the quantum states "by implication" as has been done previously. We demonstrate the failings of the time-of-flight technique in being unable to do this effectively. A comparison with previous studies is made. We report the first rotationally resolved spectrum of a polyatomic (N atoms > 2) photofragment (Me from the "A-Band" photodissociation of MeI) and propose a mechanism to account for the observed differences of the rotational populations in the different dissociation channels. Two-photon linestrength theory incorporating alignment effects is extended to symmetric tops to analyse the data. The pre-dissociation dynamics of a high lying Rydberg state of the methyl radical have been extracted as part of a spectroscopic study performed on CH _3 and CD_3. The dynamics are compared to existing studies on the near-neighbours NH_3 and ND_3 with some apparent correlation. In the dissociations of the A and B states of the MeI(+) cation we are able to provide some more evidence for existing ideas that the A state dissociates by rapid inter-conversion to highly excited levels of the ground state whereas the B state dissociates in a more direct manner. We identify two existing features in the REMPI spectrum of MeI in the "A-Band" region as molecular Rydberg resonances and show that an interesting competition exists between the direct photodissociation and the "virtual" state involved in

  3. Study of Binding Interaction between Pif80 Protein Fragment and Aragonite.

    PubMed

    Du, Yuan-Peng; Chang, Hsun-Hui; Yang, Sheng-Yu; Huang, Shing-Jong; Tsai, Yu-Ju; Huang, Joseph Jen-Tse; Chan, Jerry Chun Chung

    2016-01-01

    Pif is a crucial protein for the formation of the nacreous layer in Pinctada fucata. Three non-acidic peptide fragments of the aragonite-binding domain (Pif80) are selected, which contain multiple copies of the repeat sequence DDRK, to study the interaction between non-acidic peptides and aragonite. The polypeptides DDRKDDRKGGK (Pif80-11) and DDRKDDRKGGKDDRKDDRKGGK (Pif80-22) have similar binding affinity to aragonite. Solid-state NMR data indicate that the backbones of Pif80-11 and Pif80-22 peptides bound on aragonite adopt a random-coil conformation. Pif80-11 is a lot more effective than Pif80-22 in promoting the nucleation of aragonite on the substrate of β-chitin. Our results suggest that the structural arrangement at a protein-mineral interface depends on the surface structure of the mineral substrate and the protein sequence. The side chains of the basic residues, which function as anchors to the aragonite surface, have uniform structures. The role of basic residues as anchors in protein-mineral interaction may play an important role in biomineralization. PMID:27484975

  4. Quantification of contributions of molecular fragments for eye irritation of organic chemicals using QSAR study.

    PubMed

    Kar, Supratik; Roy, Kunal

    2014-05-01

    The eye irritation potential of chemicals has largely been evaluated using the Draize rabbit-eye test for a very long time. The Draize eye-irritation data on 38 compounds established by the European Center for Ecotoxicology and Toxicology of Chemicals (ECETOC) has been used in the present quantitative structure-activity relationship (QSAR) analysis in order to predict molar-adjusted eye scores (MES) and determine possible structural requisites and attributes that are primarily responsible for the eye irritation caused by the studied solutes. The developed model was rigorously validated internally as well as externally by applying principles of the Organization for Economic Cooperation and Development (OECD). The test for applicability domain was also carried out in order to check the reliability of the predictions. Important fragments contributing to higher MES values of the solutes were identified through critical analysis and interpretation of the developed model. Considering all the identified structural attributes, one can choose or design safe solutes with low eye irritant properties. The presented approach suggests a model for use in the context of virtual screening of relevant solute libraries. The developed QSAR model can be used to predict existing as well as future chemicals falling within the applicability domain of the model in order to reduce the use of animals.

  5. Study of Binding Interaction between Pif80 Protein Fragment and Aragonite

    PubMed Central

    Du, Yuan-Peng; Chang, Hsun-Hui; Yang, Sheng-Yu; Huang, Shing-Jong; Tsai, Yu-Ju; Huang, Joseph Jen-Tse; Chan, Jerry Chun Chung

    2016-01-01

    Pif is a crucial protein for the formation of the nacreous layer in Pinctada fucata. Three non-acidic peptide fragments of the aragonite-binding domain (Pif80) are selected, which contain multiple copies of the repeat sequence DDRK, to study the interaction between non-acidic peptides and aragonite. The polypeptides DDRKDDRKGGK (Pif80-11) and DDRKDDRKGGKDDRKDDRKGGK (Pif80-22) have similar binding affinity to aragonite. Solid-state NMR data indicate that the backbones of Pif80-11 and Pif80-22 peptides bound on aragonite adopt a random-coil conformation. Pif80-11 is a lot more effective than Pif80-22 in promoting the nucleation of aragonite on the substrate of β-chitin. Our results suggest that the structural arrangement at a protein-mineral interface depends on the surface structure of the mineral substrate and the protein sequence. The side chains of the basic residues, which function as anchors to the aragonite surface, have uniform structures. The role of basic residues as anchors in protein-mineral interaction may play an important role in biomineralization. PMID:27484975

  6. Study of Binding Interaction between Pif80 Protein Fragment and Aragonite

    NASA Astrophysics Data System (ADS)

    Du, Yuan-Peng; Chang, Hsun-Hui; Yang, Sheng-Yu; Huang, Shing-Jong; Tsai, Yu-Ju; Huang, Joseph Jen-Tse; Chan, Jerry Chun Chung

    2016-08-01

    Pif is a crucial protein for the formation of the nacreous layer in Pinctada fucata. Three non-acidic peptide fragments of the aragonite-binding domain (Pif80) are selected, which contain multiple copies of the repeat sequence DDRK, to study the interaction between non-acidic peptides and aragonite. The polypeptides DDRKDDRKGGK (Pif80-11) and DDRKDDRKGGKDDRKDDRKGGK (Pif80-22) have similar binding affinity to aragonite. Solid-state NMR data indicate that the backbones of Pif80-11 and Pif80-22 peptides bound on aragonite adopt a random-coil conformation. Pif80-11 is a lot more effective than Pif80-22 in promoting the nucleation of aragonite on the substrate of β-chitin. Our results suggest that the structural arrangement at a protein-mineral interface depends on the surface structure of the mineral substrate and the protein sequence. The side chains of the basic residues, which function as anchors to the aragonite surface, have uniform structures. The role of basic residues as anchors in protein-mineral interaction may play an important role in biomineralization.

  7. Quantitative study of Helicobacter pylori in gastric mucus by competitive PCR using synthetic DNA fragments.

    PubMed

    Furuta, T; Kaneko, E; Suzuki, M; Arai, H; Futami, H

    1996-10-01

    Helicobacter pylori is closely related to upper gastrointestinal diseases, and the precise evaluation of H. pylori infection is necessary for the treatment of these diseases. The aim of the present study was to establish a method for the quantitative detection of H. pylori. We applied a competitive PCR method using various amounts of synthetic DNA fragments containing the same primer-binding and a subset of the same template sequences as the target competing for primer binding and amplification in order to quantify H. pylori in gastric mucus. The results obtained by this method were compared with the results of histological examination, the rapid urease test, bacterial culture, the [13C]urea breath test, and urea and ammonia measurements in gastric juice. As the quantity of H. pylori in gastric mucus increased, the rates of positivity of histological examination, the rapid urease test, and bacterial culture increased. The quantity of H. pylori in gastric mucus was also significantly correlated with the results of the [13C]urea breath test and was negatively correlated with the urea/ammonia ratio in gastric juice. The competitive PCR method provides an objective measure of the quantity of H. pylori and makes it possible to distinguish true negatives from false negatives due to incomplete PCR and true positives from false positives due to contamination. This method is very useful for the precise evaluation of gastric H. pylori infection. PMID:8880492

  8. Bulk plasma fragmentation in a C{sub 4}F{sub 8} inductively coupled plasma: A hybrid modeling study

    SciTech Connect

    Zhao, Shu-Xia; Zhang, Yu-Ru; Gao, Fei; Wang, You-Nian; Bogaerts, Annemie

    2015-06-28

    A hybrid model is used to investigate the fragmentation of C{sub 4}F{sub 8} inductive discharges. Indeed, the resulting reactive species are crucial for the optimization of the Si-based etching process, since they determine the mechanisms of fluorination, polymerization, and sputtering. In this paper, we present the dissociation degree, the density ratio of F vs. C{sub x}F{sub y} (i.e., fluorocarbon (fc) neutrals), the neutral vs. positive ion density ratio, details on the neutral and ion components, and fractions of various fc neutrals (or ions) in the total fc neutral (or ion) density in a C{sub 4}F{sub 8} inductively coupled plasma source, as well as the effect of pressure and power on these results. To analyze the fragmentation behavior, the electron density and temperature and electron energy probability function (EEPF) are investigated. Moreover, the main electron-impact generation sources for all considered neutrals and ions are determined from the complicated C{sub 4}F{sub 8} reaction set used in the model. The C{sub 4}F{sub 8} plasma fragmentation is explained, taking into account many factors, such as the EEPF characteristics, the dominance of primary and secondary processes, and the thresholds of dissociation and ionization. The simulation results are compared with experiments from literature, and reasonable agreement is obtained. Some discrepancies are observed, which can probably be attributed to the simplified polymer surface kinetics assumed in the model.

  9. Studies of alpha-induced astrophysical reactions at CRIB

    NASA Astrophysics Data System (ADS)

    Yamaguchi, H.; Hashimoto, T.; Hayakawa, S.; Binh, D. N.; Kahl, D.; Kubono, S.

    2010-08-01

    CRIB (CNS Radioactive Ion Beam separator ) is a low-energy RI beam separator at the Center for Nuclear Study (CNS) of the University of Tokyo. Using the RI beams at CRIB, many measurements on proton alpha resonance scatterings, (α,p) reactions, and others were performed in recent years mainly for studying astrophysical reactions and exotic nuclear structure. Among them, the results on the 7Li+α resonance scatterings are presented.

  10. Studies of alpha-induced astrophysical reactions at CRIB

    SciTech Connect

    Yamaguchi, H.; Hashimoto, T.; Hayakawa, S.; Binh, D. N.; Kahl, D.; Kubono, S.

    2010-08-12

    CRIB (CNS Radioactive Ion Beam separator) is a low-energy RI beam separator at the Center for Nuclear Study (CNS) of the University of Tokyo. Using the RI beams at CRIB, many measurements on proton alpha resonance scatterings, ({alpha},p) reactions, and others were performed in recent years mainly for studying astrophysical reactions and exotic nuclear structure. Among them, the results on the {sup 7}Li+{alpha} resonance scatterings are presented.

  11. Crossed molecular beam studies of atmospheric chemical reaction dynamics

    SciTech Connect

    Zhang, Jingsong

    1993-04-01

    The dynamics of several elementary chemical reactions that are important in atmospheric chemistry are investigated. The reactive scattering of ground state chlorine or bromine atoms with ozone molecules and ground state chlorine atoms with nitrogen dioxide molecules is studied using a crossed molecular beams apparatus with a rotatable mass spectrometer detector. The Cl + O{sub 3} {yields} ClO + O{sub 2} reaction has been studied at four collision energies ranging from 6 kcal/mole to 32 kcal/mole. The derived product center-of-mass angular and translational energy distributions show that the reaction has a direct reaction mechanism and that there is a strong repulsion on the exit channel. The ClO product is sideways and forward scattered with respect to the Cl atom, and the translational energy release is large. The Cl atom is most likely to attack the terminal oxygen atom of the ozone molecule. The Br + O{sub 3} {yields} ClO + O{sub 2} reaction has been studied at five collision energies ranging from 5 kcal/mole to 26 kcal/mole. The derived product center-of-mass angular and translational energy distributions are quite similar to those in the Cl + O{sub 3} reaction. The Br + O{sub 3} reaction has a direct reaction mechanism similar to that of the Cl + O{sub 3} reaction. The electronic structure of the ozone molecule seems to play the central role in determining the reaction mechanism in atomic radical reactions with the ozone molecule. The Cl + NO{sub 2} {yields} ClO + NO reaction has been studied at three collision energies ranging from 10.6 kcal/mole to 22.4 kcal/mole. The center-of-mass angular distribution has some forward-backward symmetry, and the product translational energy release is quite large. The reaction proceeds through a short-lived complex whose lifetime is less than one rotational period. The experimental results seem to show that the Cl atom mainly attacks the oxygen atom instead of the nitrogen atom of the NO{sub 2} molecule.

  12. Genotypic characterization of Indian isolates of infectious bursal disease virus strains by reverse transcription-polymerase chain reaction combined with restriction fragment length polymorphism analysis.

    PubMed

    Priyadharsini, C V; Senthilkumar, T M A; Raja, P; Kumanan, K

    2016-03-01

    The reverse transcription PCR (RT-PCR) combined with restriction fragment length polymorphism (RFLP) is used for the differentiation of classical virulent (cv), virulent (v) and very virulent (vv) strains of infectious bursal disease virus (IBDV) isolates from chicken bursal tissues in southern states of India. In the present study, six different isolates (MB11, HY12, PY12, BGE14, VCN14 and NKL14) of IBDV strains were subjected for genotyping along with vaccine virus (Georgia, intermediate strain) using RT-PCR for amplification of a 743 bp sequence in the hypervariable region of VP2 gene followed by restriction enzyme digestion with 5 different restriction enzymes (BspMI, SacI, HhaI, StuI and SspI). The RT-PCR products obtained from vvIBDV strains were digested by SspI enzyme except PY12, BGE14 and MB11 isolates. The SacI digested the isolate MB11, PY12 and the vaccine strain, but it did not cleave the very virulent isolates of IBDV. HhaI cleaved all the isolates with different restriction profile patterns. StuI digested all the vvIBDV isolates and BspMI was not able to differentiate field isolates from vaccine strain. Though RT-PCR combined with RFLP is a genotypic method, further confirmation of serotypes to distinguish the vvIBDV from cvIBDV has to be carried out using pathogenicity studies.

  13. An experimental study of hydromagmatic fragmentation through energetic, non-explosive magma-water mixing

    USGS Publications Warehouse

    Mastin, L.G.; Spieler, O.; Downey, W.S.

    2009-01-01

    In this paper we report the first experimental investigation of non-explosive hydromagmatic fragmentation during energetic mixing with water. We mix magma and water by two methods: (1) pouring a basaltic melt between two converging water sprays; and (2) jetting basaltic melt at high pressure (3??MPa) through a nozzle into a tank of stagnant water. These experiments involved shear at relative velocities of ~ 5-16??m/s and vigorous mixing for less than a second, providing sufficient time for glassy rinds to grow but insufficient time for clot interiors to cool. In resulting fragments, we examined the gross morphology, which reflects fluid deformation during mixing, and surface textures, which reflect the growth and disruption of glassy rinds. We find major differences in both fragment morphology and surface texture between experiments. Water-spray experiments produced Pele's hair, thin bubble shards, melt droplets, and angular, fracture-bound droplet pieces. Melt-jet experiments produced mostly coarse (> 1??mm diameter), wavy fluidal fragments with broken ends. Fluidal surfaces of fragments produced by water-spray experiments were generally shiny under reflected light and, in microscopic examination, smooth down to micron scale, implying no disruption of glassy rinds, except for (a) rare flaking on Pele's hair that was bent prior to solidification; or (b) cracking and alligator-skin textures on segments of melt balls that had expanded before complete cooling. In contrast, textures of fluidal surfaces on fragments produced by melt-jet experiments are dull in reflected light and, in scanning electron images, exhibit ubiquitous discontinuous skins ("rinds") that are flaked, peeled, or smeared away in stripes. Adhering to these surfaces are flakes, blocks, and blobs of detached material microns to tens of microns in diameter. In the water-spray fragments, we interpret the scarcity of disrupted surface rinds to result from lack of bending after surfaces formed. In the

  14. An experimental study of hydromagmatic fragmentation through energetic, non-explosive magma-water mixing

    NASA Astrophysics Data System (ADS)

    Mastin, L. G.; Spieler, O.; Downey, W. S.

    2009-03-01

    In this paper we report the first experimental investigation of non-explosive hydromagmatic fragmentation during energetic mixing with water. We mix magma and water by two methods: (1) pouring a basaltic melt between two converging water sprays; and (2) jetting basaltic melt at high pressure (3 MPa) through a nozzle into a tank of stagnant water. These experiments involved shear at relative velocities of ~ 5-16 m/s and vigorous mixing for less than a second, providing sufficient time for glassy rinds to grow but insufficient time for clot interiors to cool. In resulting fragments, we examined the gross morphology, which reflects fluid deformation during mixing, and surface textures, which reflect the growth and disruption of glassy rinds. We find major differences in both fragment morphology and surface texture between experiments. Water-spray experiments produced Pele's hair, thin bubble shards, melt droplets, and angular, fracture-bound droplet pieces. Melt-jet experiments produced mostly coarse (> 1 mm diameter), wavy fluidal fragments with broken ends. Fluidal surfaces of fragments produced by water-spray experiments were generally shiny under reflected light and, in microscopic examination, smooth down to micron scale, implying no disruption of glassy rinds, except for (a) rare flaking on Pele's hair that was bent prior to solidification; or (b) cracking and alligator-skin textures on segments of melt balls that had expanded before complete cooling. In contrast, textures of fluidal surfaces on fragments produced by melt-jet experiments are dull in reflected light and, in scanning electron images, exhibit ubiquitous discontinuous skins ("rinds") that are flaked, peeled, or smeared away in stripes. Adhering to these surfaces are flakes, blocks, and blobs of detached material microns to tens of microns in diameter. In the water-spray fragments, we interpret the scarcity of disrupted surface rinds to result from lack of bending after surfaces formed. In the melt

  15. A theoretical study of the reaction of P + with water . Potential energy surfaces and reaction dynamics

    NASA Astrophysics Data System (ADS)

    Flores, Jesús R.; Redondo, Pilar

    1994-12-01

    Accurate ab initio computations have been carried out on the minima and saddle points involved in the dynamics of the reaction of P + with water using a slightly modified version of G1 and G2 theories (J. Chem. Phys. 94 (1991) 4318). In addition, an approximate classical trajectory method and RRKM theory (Progr. Energy Combust. Sci. 18 (1992) 75) have been employed to study the dynamics of such a reaction. The results indicate that intersystem crossing must take place giving HPOH +( 1A'), which could be the intermediate responsible for the production of both PO + ( 1∑ +) + H 2( 1∑ +g) and POH + ( 2A') + H( 2S).

  16. A Monte Carlo study of the radiation quality dependence of DNA fragmentation spectra.

    PubMed

    Alloni, D; Campa, A; Belli, M; Esposito, G; Facoetti, A; Friedland, W; Liotta, M; Mariotti, L; Paretzke, H G; Ottolenghi, A

    2010-03-01

    We simulated the irradiation of human fibroblasts with gamma rays, protons and helium, carbon and iron ions at a fixed dose of 5 Gy. The simulations were performed with the biophysical Monte Carlo code PARTRAC. From the output of the code, containing in particular the genomic positions of the radiation-induced DNA double-strand breaks (DSBs), we obtained the DNA fragmentation spectra. Very small fragments, in particular those related to "complex lesions" (few tens of base pairs), are probably very important for the late cellular consequences, but their detection is not possible with the common experimental techniques. We paid special attention to the differences among the various ions in the production of these very small fragments; in particular, we compared the fragmentation spectra for ions of the same specific energy and for ions of the same LET (linear energy transfer). As found previously for iron ions, we found that the RBE (relative biological effectiveness) for DSB production was considerably higher than 1 for all high-LET radiations considered. This is at variance with the results obtainable from experimental data, and it is due to the ability to count the contribution of small fragments. It should be noted that for a given LET this RBE decreases with increasing ion charge, due mainly to the increasing mean energy of secondary electrons. A precise quantification of the DNA initial damage can be of great importance for both radiation protection, particularly in open-space long-term manned missions, and hadrontherapy.

  17. Exclusive studies of angular distributions in GeV hadron-induced reactions with [sup 197]Au

    SciTech Connect

    Hsi, W.; Kwiatkowski, K.; Wang, G.; Bracken, D.S.; Cornell, E.; Ginger, D.S.; Viola, V.E. ); Korteling, R.G. V5A I56); Morley, K.B. ); Huang, R.; Lynch, W.G.; Tsang, M.B.; Xi, H. ); Gimeno-Nogues, F.; Ramakrishnan, E.; Rowland, D.; Yennello, S.J. ); Breuer, H. ); Gushue, S.; Remsberg, L.P. ); Botvin

    1999-09-01

    Exclusive studies of angular distributions for intermediate-mass fragments (IMFs) produced in GeV hadron-induced reactions have been performed with the Indiana Silicon Sphere (ISiS) 4[pi] detector array. Special emphasis has been given to understanding the origin of sideways peaking, which becomes prominent in the angular distributions for beam momenta above about 10 GeV/c. Both the magnitude of the effect and the peak angle increase as a function of fragment multiplicity and charge. When gated on IMF kinetic energy, the angular distributions evolve from forward-peaked to near isotropy as the fragment kinetic energy decreases. Fragment-fragment angular-correlation analyses show no obvious evidence for a dynamic mechanism that might signal shock wave effects or the breakup of exotic geometric shapes such as bubbles or toroids. Moving-source and intranuclear cascade simulations suggest that the observed sideways peaking is of kinematic origin, arising from significant transverse momentum imparted to the heavy recoil nucleus during the fast cascade stage of the collision. A two-step cascade and statistical multifragmentation calculation is consistent with this assumption. [copyright] [ital 1999] [ital The American Physical Society

  18. Exclusive studies of angular distributions in GeV hadron-induced reactions with {sup 197}Au

    SciTech Connect

    Hsi, W.; Kwiatkowski, K.; Wang, G.; Bracken, D.S.; Cornell, E.; Ginger, D.S.; Viola, V.E.; Korteling, R.G.; Morley, K.B.; Huang, R.; Lynch, W.G.; Tsang, M.B.; Xi, H.; Gimeno-Nogues, F.; Ramakrishnan, E.; Rowland, D.; Yennello, S.J.; Breuer, H.; Gushue, S.; Remsberg, L.P.; Botvina, A.; Friedman, W.A.

    1999-09-01

    Exclusive studies of angular distributions for intermediate-mass fragments (IMFs) produced in GeV hadron-induced reactions have been performed with the Indiana Silicon Sphere (ISiS) 4{pi} detector array. Special emphasis has been given to understanding the origin of sideways peaking, which becomes prominent in the angular distributions for beam momenta above about 10 GeV/c. Both the magnitude of the effect and the peak angle increase as a function of fragment multiplicity and charge. When gated on IMF kinetic energy, the angular distributions evolve from forward-peaked to near isotropy as the fragment kinetic energy decreases. Fragment-fragment angular-correlation analyses show no obvious evidence for a dynamic mechanism that might signal shock wave effects or the breakup of exotic geometric shapes such as bubbles or toroids. Moving-source and intranuclear cascade simulations suggest that the observed sideways peaking is of kinematic origin, arising from significant transverse momentum imparted to the heavy recoil nucleus during the fast cascade stage of the collision. A two-step cascade and statistical multifragmentation calculation is consistent with this assumption. {copyright} {ital 1999} {ital The American Physical Society}

  19. DFT studies of the conformation and relative energies of alpha-maltotetraose (DP-4): An amylose fragment at atomic resolution

    Technology Transfer Automated Retrieval System (TEKTRAN)

    DFT optimization studies of more than one hundred conformations of a-maltotetraose have been carried out at the B3LYP/6-311++G** level of theory. The DP-4 fragments of predominately 4C1 chair residues include tightly bent forms, helix, band-flips, kinks, boat, and some 1C4 conformers. The three do...

  20. A Study of Quark Fragmentation Using Kaons Produced in Association with Prompt $D_s^±/D^±$ Mesons

    SciTech Connect

    Singh, Niharika Ranjan

    2012-01-01

    Quarks are considered to be the fundamental constituents of hadronic matter, but they have never been observed as free particles. When quarks are produced at high energy colliders, they quickly form bound colorless states, which then decay to produce the particles observed in experiments. The process by which an initially free quark combines with other quarks to form a hadronic particle is called quark fragmentation and has been described using phenomenological models since quarks were first proposed. Since then, several models have been developed to describe the quark fragmentation phenomenon, and these have been tuned to reproduce many average properties of hadrons produced in high energy collisions. In this dissertation, we describe an analysis that probes the properties of particles produced in association with a hadron containing a charm quark that provides a way, for the first time, to study what is thought of as the second particle produced in the process of heavy quar k fragmentation. Data from proton anti-proton collisions was used to carry out this research, which were collected with the CDF II detector at the Fermilab Tevatron and corresponds to 360/pb-1 of integrated luminosity. We reconstruct $D_s^±$ and $D^±$ mesons, which contain charm quarks, and identify the kaons produced in association with them. The kinematic properties of these kaons are compared with predictions of the fragmentation models implemented in the PYTHIA and HERWIG event generators. We find that kaon production in association with $D_s^±$ mesons is enhanced at levels that are in agreement with the fragmentation models but observe differences in production rates of kaons that are produced later in the fragmentation process.

  1. Experimental studies of reactions relevant for γ-process nucleosynthesis

    SciTech Connect

    Scholz, P.; Endres, J.; Hennig, A.; Mayer, J.; Netterdon, L.; Zilges, A.; Sauerwein, A.

    2014-05-09

    We report on our recent experimental studies of reactions relevant for the γ process nucleosynthesis. Applying the activation method using the Cologne Clover Counting Setup total cross sections of the reactions {sup 168}Yb(α,γ), {sup 168}Yb(α,n), and {sup 187}Re(α,n) could be obtained. Furthermore, the reaction {sup 89}Y(p,γ) was investigated via the in-beam technique with HPGe detectors at the high-efficiency g-ray spectrometer HORUS in Cologne in order to determine partial and total cross sections.

  2. Study of multi-nucleon transfer reactions with light nuclei

    SciTech Connect

    Benzoni, G.; Montanari, D.; Bracco, A.; Blasi, N.; Camera, F.; Crespi, F. C. L.; Corsi, A.; Leoni, S.; Million, B.; Nicolini, R.; Wieland, O.; Zalite, A.; Zocca, F.; Azaiez, F.; Franchoo, S.; Stefan, I.; Ibrahim, F.; Verney, D.; Battacharyya, S.; De France, G.

    2008-05-12

    Multi-nucleon transfer reactions are useful tools to populate exotic nuclei, particularly the neutron-rich ones. In this view, two different experiments have been performed employing a stable ({sup 22}Ne) and a radioactive ({sup 24}Ne) beam, both impinging on a {sup 208}Pb target. The first reaction has been studied using the CLARA-PRISMA-DANTE set-up at Laboratori Nazionali di Legnaro (Legnaro-Italy), while the second reaction was performed at Ganil (Caen-France) employing a SPIRAL radioactive beam of {sup 24}Ne. In this case recoils and coincident {gamma} rays were detected with the VAMOS-EXOGAM set-up.The data show that MNT reactions can selectively populate states of different nature and, therefore, are a good tool to study nuclear structure further away from stability.

  3. Electronic coupling calculation and pathway analysis of electron transfer reaction using ab initio fragment-based method. I. FMO-LCMO approach

    NASA Astrophysics Data System (ADS)

    Nishioka, Hirotaka; Ando, Koji

    2011-05-01

    By making use of an ab initio fragment-based electronic structure method, fragment molecular orbital-linear combination of MOs of the fragments (FMO-LCMO), developed by Tsuneyuki et al. [Chem. Phys. Lett. 476, 104 (2009)], 10.1016/j.cplett.2009.05.069, we propose a novel approach to describe long-distance electron transfer (ET) in large system. The FMO-LCMO method produces one-electron Hamiltonian of whole system using the output of the FMO calculation with computational cost much lower than conventional all-electron calculations. Diagonalizing the FMO-LCMO Hamiltonian matrix, the molecular orbitals (MOs) of the whole system can be described by the LCMOs. In our approach, electronic coupling TDA of ET is calculated from the energy splitting of the frontier MOs of whole system or perturbation method in terms of the FMO-LCMO Hamiltonian matrix. Moreover, taking into account only the valence MOs of the fragments, we can considerably reduce computational cost to evaluate TDA. Our approach was tested on four different kinds of model ET systems with non-covalent stacks of methane, non-covalent stacks of benzene, trans-alkanes, and alanine polypeptides as their bridge molecules, respectively. As a result, it reproduced reasonable TDA for all cases compared to the reference all-electron calculations. Furthermore, the tunneling pathway at fragment-based resolution was obtained from the tunneling current method with the FMO-LCMO Hamiltonian matrix.

  4. Reaction mechanism and product branching ratios of the CH + C₃H₈ reaction: a theoretical study.

    PubMed

    Ribeiro, Joao Marcelo; Mebel, Alexander M

    2014-10-01

    The C4H9 potential energy surface accessed by the reaction of methylidyne radical, CH (X(2)Π), with propane, C3H8, including possible intermediates, transition states and dissociation products, has been studied by ab initio and density functional calculations at the CCSD(T)/CBS//B3LYP/6-311G(d,p) level of theory. The computed relative energies and molecular parameters were utilized to calculate collision-energy-dependent unimolecular rate constants at the zero-pressure limit for isomerization and dissociation channels of the C4H9 adducts formed in the entrance reaction channels. The rate constants were used to evaluate the product branching ratios in the CH + C3H8 reaction under single-collision conditions. The results show that the reaction can produce mostly ethene (C2H4) + ethyl radical (C2H5) and propene (C3H6) + methyl radical (CH3), and up to 14% of various butene isomers (C4H8) + H. The product branching ratios are sensitive to the initial reaction adduct (a butyl radical, C4H9) formed in the entrance channels via barrierless insertion of the CH radical into the terminal and middle C-H bonds of propane or, possibly, into the single C-C bonds. A more definite answer on relative contributions of various available CH insertion channels can be obtained through ab initio quasiclassical trajectory calculations, which are proposed for the future. The results allowed us to conclude that the CH + C3H8 reaction does not result in major amounts in the direct growth of the carbon-skeleton to four-carbon C4H8 products via the CH-for-H exchange because C-C bond cleavages in C4H9 radicals are generally more preferable than C-H bond cleavages.

  5. Magma Fragmentation

    NASA Astrophysics Data System (ADS)

    Gonnermann, Helge M.

    2015-05-01

    Magma fragmentation is the breakup of a continuous volume of molten rock into discrete pieces, called pyroclasts. Because magma contains bubbles of compressible magmatic volatiles, decompression of low-viscosity magma leads to rapid expansion. The magma is torn into fragments, as it is stretched into hydrodynamically unstable sheets and filaments. If the magma is highly viscous, resistance to bubble growth will instead lead to excess gas pressure and the magma will deform viscoelastically by fracturing like a glassy solid, resulting in the formation of a violently expanding gas-pyroclast mixture. In either case, fragmentation represents the conversion of potential energy into the surface energy of the newly created fragments and the kinetic energy of the expanding gas-pyroclast mixture. If magma comes into contact with external water, the conversion of thermal energy will vaporize water and quench magma at the melt-water interface, thus creating dynamic stresses that cause fragmentation and the release of kinetic energy. Lastly, shear deformation of highly viscous magma may cause brittle fractures and release seismic energy.

  6. Coincidences between light particles, evaporation residues, and complex fragments emitted in the reaction {sup 58}Ni + {sup 58}Ni at 500 MeV bombarding energy

    SciTech Connect

    Gomez del Campo, J.; Shapira, D.; Chavez, E.; Ortiz, M.E.; Dacal, A.; D`Onofrio, A.; Terrasi, F.

    1996-03-01

    Light particles (protons and alphas) were measured in coincidence with complex fragments (4 < Z < 10) and evaporation residues (Z > 40) using the large detector array HILI. A {sup 58}Ni beam of 500 MeV extracted from the HHIRF tandem accelerator was used to bombard a {sup 58}Ni target of 99% enrichment. A good account of the proton and alpha spectra in coincidences with the residues can be achieved only by including in the statistical model calculation the emission of complex fragments and allowing a small emission of a dinuclear configuration formed prior to fusion. The relative kinetic energy spectra between the complex fragments and the residues show a typical Coulomb peak consistent with emission from the compound nucleus and the out of plane angular correlation shows that the emission is coplanar.

  7. Measurements of time delays for projectile-like fragments in the reaction sup 40 Ar+Ge at 44 MeV/nucleon

    SciTech Connect

    Gomez del Campo, J. ); Barrette, J.; Dayras, R.A.; Wieleczko, J.P.; Pollacco, E.C. ); Saint-Laurent, F. ); Toulemonde, M. ); Neskovic, N.; Ostojic, R. )

    1990-01-01

    Crystal-blocking angular distributions have been measured for projectile-like fragments produced in bombarding a 10-{mu}m Ge crystal with a 1.76-GeV {sup 40}Ar beam. Long time delays of the order of (6--12){times}10{sup {minus}18} s were extracted and gave a direct indication of important evaporation effects. The measured times can be reproduced using a broad distribution of primary fragments of the type predicted by the abrasion model, but with excitation energies from 15 to 50 MeV, which are higher than predicted by the model. The measured times can also be reproduced assuming a narrow primary mass distribution with highly excited fragments having excitation energies of about 150 MeV.

  8. Recombinant human prion protein fragment 90-231, a useful model to study prion neurotoxicity.

    PubMed

    Corsaro, Alessandro; Thellung, Stefano; Villa, Valentina; Nizzari, Mario; Aceto, Antonio; Florio, Tullio

    2012-01-01

    Transmissible spongiform encephalopathies (TSE), or prion diseases, are a group of fatal neurodegenerative disorders of animals and humans. Human diseases include Creutzfeldt-Jakob (CJD) and Gerstmann-Straussler-Scheinker (GSSD) diseases, fatal familial insomnia, and Kuru. Human and animal TSEs share a common histopathology with a pathognomonic triad: spongiform vacuolation of the grey matter, neuronal death, glial proliferation, and, more inconstantly, amyloid deposition. According to the "protein only" hypothesis, TSEs are caused by a unique post-translational conversion of normal, host-encoded, protease-sensitive prion protein (PrP(sen) or PrP(C)) to an abnormal disease-associated isoform (PrP(res) or PrP(Sc)). To investigate the molecular mechanism of neurotoxicity induced by PrP(Sc) we developed a protocol to obtain millimolar amounts of soluble recombinant polypeptide encompassing the amino acid sequence 90-231 of human PrP (hPrP90-231). This protein corresponds to the protease-resistant prion protein fragment that originates after amino-terminal truncation. Importantly, hPrP90-231 has a flexible backbone that, similar to PrP(C), can undergo to structural rearrangement. This peptide, structurally resembling PrP(C), can be converted in a PrP(Sc)-like conformation, and thus represents a valuable model to study prion neurotoxicity. In this article we summarized our experimental evidence on the molecular and structural mechanisms responsible of hPrP90-231 neurotoxicity on neuroectodermal cell line SHSY5Y and the effects of some PrP pathogen mutations identified in familial TSE.

  9. Income for the Unemployed: The Variety and Fragmentation of Programs. Studies in Unemployment Insurance.

    ERIC Educational Resources Information Center

    Murray, Merrill G.

    Unemployment insurance is the principal income program for workers who lose their jobs, however, it does not provide adequate income, nor does it provide for all unemployed persons. Because many different programs are operated for this purpose, they tend to have a fragmented effect and leave many unemployed persons with no income support. This…

  10. Studies of heavy-ion reactions and transuranic nuclei. Progress report, September 1, 1992--August 31, 1993

    SciTech Connect

    Schroeder, W.U.

    1993-08-01

    This report contain papers on the following topics: The Cold-Fusion Saga; Decay Patterns of Dysprosium Nuclei Produced in {sup 32}S + {sup 118,124}Sn Fusion Reactions; Unexpected Features of Reactions Between Very Heavy Ions at Intermediate Bombarding Energies; Correlations Between Neutrons and Charged Products from the Dissipative Reaction {sup 197}Au+{sup 208}Pb at E/A = 29 MeV; Dissipative Dynamics of Projectile-Like Fragment Production in the Reaction {sup 209}Bi+{sup 136}Xe at E/A = 28.2 MeV; Dynamical Production of Intermediate-Mass Fragments in Peripheral {sup 209}Bi+{sup 136}Xe Collisions at E{sub lab}/A = 28.2 MeV; The Rochester 960-Liter Neutron Multiplicity Meter; A Simple Pulse Processing Concept for a Low-Cost Pulse-Shape-Based Particle Identification; A One-Transistor Preamplifier for PMT Anode Signals; A Five-Channel Multistop TDC/Event Handler for the SuperBall Neutron Multiplicity Meter; Construction of the SuperBall -- a 16,000-Liter Neutron Detector for Calorimetric Studies of Intermediate-Energy Heavy-Ion Reactions; A Computer Code for Light Detection Efficiency Calculations for Photo-multipliers of a Neutron Detector; Evaluation of Gd-Loaded Liquid Scintillators for the SuperBall Neutron Calorimeter; and Measurement of the Interaction of Cosmic-Ray {mu}{sup {minus}} with a Muon Telescope.

  11. Correlation between landscape fragmentation and sandy desertification: a case study in Horqin Sandy Land, China.

    PubMed

    Ge, Xiaodong; Dong, Kaikai; Luloff, A E; Wang, Luyao; Xiao, Jun; Wang, Shiying; Wang, Qian

    2016-01-01

    The exact roles of landscape fragmentation on sandy desertification are still not fully understood, especially with the impact of different land use types in spatial dimension. Taking patch size and shape into consideration, this paper selected the Ratio of Patch Size and the Fractal Dimension Index to establish a model that reveals the association between the area of bare sand land and the fragmentation of different land use types adjacent to bare sand land. Results indicated that (1) grass land and arable land contributed the most to landscape fragmentation processes in the regions adjacent to bare sand land during the period 1980 to 2010. Grass land occupied 54 % of the region adjacent to bare sand land in 1980. The Ratio of Patch Size of grass land decreased from 1980 to 2000 and increased after 2000. The Fractal Dimension Index of grass increased during the period 1980 to 1990 and decreased after 1990. Arable land expanded significantly during this period. The Ratio of Patch Size of arable land increased from 1980 to 1990 and decreased since 1990. The Fractal Dimension Index of arable land increased from 1990 to 2000 and decreased after 2000. (2) The Ratio of Patch Size and the Fractal Dimension Index were significantly related to the area of bare sand land. The role of landscape fragmentation was not linear to sandy desertification. There were both positive and negative effects of landscape fragmentation on sandy desertification. In 1980, the Ratio of Patch Size and the Fractal Dimension Index were negatively related to the area of bare sand land, showing that the landscape fragmentation and regularity of patches contributed to the expansion of sandy desertification. In 1990, 2000, and 2010, the Ratio of Patch Size and the Fractal Dimension Index were mostly positively related to the area of bare sand land, showing the landscape fragmentation and regularity of patches contributed to the reversion of sandy desertification in this phase. The absolute values of

  12. Correlation between landscape fragmentation and sandy desertification: a case study in Horqin Sandy Land, China.

    PubMed

    Ge, Xiaodong; Dong, Kaikai; Luloff, A E; Wang, Luyao; Xiao, Jun; Wang, Shiying; Wang, Qian

    2016-01-01

    The exact roles of landscape fragmentation on sandy desertification are still not fully understood, especially with the impact of different land use types in spatial dimension. Taking patch size and shape into consideration, this paper selected the Ratio of Patch Size and the Fractal Dimension Index to establish a model that reveals the association between the area of bare sand land and the fragmentation of different land use types adjacent to bare sand land. Results indicated that (1) grass land and arable land contributed the most to landscape fragmentation processes in the regions adjacent to bare sand land during the period 1980 to 2010. Grass land occupied 54 % of the region adjacent to bare sand land in 1980. The Ratio of Patch Size of grass land decreased from 1980 to 2000 and increased after 2000. The Fractal Dimension Index of grass increased during the period 1980 to 1990 and decreased after 1990. Arable land expanded significantly during this period. The Ratio of Patch Size of arable land increased from 1980 to 1990 and decreased since 1990. The Fractal Dimension Index of arable land increased from 1990 to 2000 and decreased after 2000. (2) The Ratio of Patch Size and the Fractal Dimension Index were significantly related to the area of bare sand land. The role of landscape fragmentation was not linear to sandy desertification. There were both positive and negative effects of landscape fragmentation on sandy desertification. In 1980, the Ratio of Patch Size and the Fractal Dimension Index were negatively related to the area of bare sand land, showing that the landscape fragmentation and regularity of patches contributed to the expansion of sandy desertification. In 1990, 2000, and 2010, the Ratio of Patch Size and the Fractal Dimension Index were mostly positively related to the area of bare sand land, showing the landscape fragmentation and regularity of patches contributed to the reversion of sandy desertification in this phase. The absolute values of

  13. The identification and differentiation of the Candida parapsilosis complex species by polymerase chain reaction-restriction fragment length polymorphism of the internal transcribed spacer region of the rDNA

    PubMed Central

    Barbedo, Leonardo Silva; Figueiredo-Carvalho, Maria Helena Galdino; Muniz, Mauro de Medeiros; Zancopé-Oliveira, Rosely Maria

    2016-01-01

    Currently, it is accepted that there are three species that were formerly grouped under Candida parapsilosis: C. para- psilosis sensu stricto, Candida orthopsilosis, andCandida metapsilosis. In fact, the antifungal susceptibility profiles and distinct virulence attributes demonstrate the differences in these nosocomial pathogens. An accurate, fast, and economical identification of fungal species has been the main goal in mycology. In the present study, we searched sequences that were available in the GenBank database in order to identify the complete sequence for the internal transcribed spacer (ITS)1-5.8S-ITS2 region, which is comprised of the forward and reverse primers ITS1 and ITS4. Subsequently, an in silico polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) was performed to differentiate the C. parapsilosis complex species. Ninety-eight clinical isolates from patients with fungaemia were submitted for analysis, where 59 isolates were identified as C. parapsilosis sensu stricto, 37 were identified as C. orthopsilosis, and two were identified as C. metapsilosis. PCR-RFLP quickly and accurately identified C. parapsilosis complex species, making this method an alternative and routine identification system for use in clinical mycology laboratories. PMID:27074256

  14. The identification and differentiation of the Candida parapsilosis complex species by polymerase chain reaction-restriction fragment length polymorphism of the internal transcribed spacer region of the rDNA.

    PubMed

    Barbedo, Leonardo Silva; Figueiredo-Carvalho, Maria Helena Galdino; Muniz, Mauro de Medeiros; Zancopé-Oliveira, Rosely Maria

    2016-04-01

    Currently, it is accepted that there are three species that were formerly grouped under Candida parapsilosis: C. para- psilosis sensu stricto, Candida orthopsilosis, and Candida metapsilosis. In fact, the antifungal susceptibility profiles and distinct virulence attributes demonstrate the differences in these nosocomial pathogens. An accurate, fast, and economical identification of fungal species has been the main goal in mycology. In the present study, we searched sequences that were available in the GenBank database in order to identify the complete sequence for the internal transcribed spacer (ITS)1-5.8S-ITS2 region, which is comprised of the forward and reverse primers ITS1 and ITS4. Subsequently, an in silico polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) was performed to differentiate the C. parapsilosis complex species. Ninety-eight clinical isolates from patients with fungaemia were submitted for analysis, where 59 isolates were identified as C. parapsilosis sensu stricto, 37 were identified as C. orthopsilosis, and two were identified as C. metapsilosis. PCR-RFLP quickly and accurately identified C. parapsilosis complex species, making this method an alternative and routine identification system for use in clinical mycology laboratories.

  15. Revealing Stepwise Mechanisms in Dipolar Cycloaddition Reactions: Computational Study of the Reaction between Nitrones and Isocyanates.

    PubMed

    Darù, Andrea; Roca-López, David; Tejero, Tomás; Merino, Pedro

    2016-01-15

    The mechanism of cycloaddition reactions of nitrones with isocyanates has been studied using density functional theory (DFT) methods at the M06-2X/cc-pVTZ level of theory. The exploration of the potential energy surfaces associated with two reactive channels leading to 1,2,4-oxadiazolidin-5-ones and 1,4,2-dioxazolidines revealed that the cycloaddition reaction takes place through a concerted mechanism in gas phase and in apolar solvents but a stepwise mechanism in polar solvents. In stepwise mechanisms, the first step of the reaction is a rare case in which the nitrone oxygen acts as a nucleophile by attacking the central carbon atom of the isocyanate (interacting with the π-system of the C═O bond) to give an intermediate. The corresponding transition structure is stabilized by an attractive electrostatic interaction favored in a polar medium. The second step of the reaction is the rate-limiting one in which the formation of 1,2,4-oxadiazolidin-5-ones or 1,4,2-dioxazolidines is decided. Calculations indicate that formation of 1,2,4-oxadiazolidin-5-ones is favored both kinetically and thermodynamically independently of the solvent, in agreement with experimental observations. Noncovalent interactions (NCI) and topological analysis of the gradient field of electron localization function (ELF) bonding confirmed the observed interactions.

  16. Revealing Stepwise Mechanisms in Dipolar Cycloaddition Reactions: Computational Study of the Reaction between Nitrones and Isocyanates.

    PubMed

    Darù, Andrea; Roca-López, David; Tejero, Tomás; Merino, Pedro

    2016-01-15

    The mechanism of cycloaddition reactions of nitrones with isocyanates has been studied using density functional theory (DFT) methods at the M06-2X/cc-pVTZ level of theory. The exploration of the potential energy surfaces associated with two reactive channels leading to 1,2,4-oxadiazolidin-5-ones and 1,4,2-dioxazolidines revealed that the cycloaddition reaction takes place through a concerted mechanism in gas phase and in apolar solvents but a stepwise mechanism in polar solvents. In stepwise mechanisms, the first step of the reaction is a rare case in which the nitrone oxygen acts as a nucleophile by attacking the central carbon atom of the isocyanate (interacting with the π-system of the C═O bond) to give an intermediate. The corresponding transition structure is stabilized by an attractive electrostatic interaction favored in a polar medium. The second step of the reaction is the rate-limiting one in which the formation of 1,2,4-oxadiazolidin-5-ones or 1,4,2-dioxazolidines is decided. Calculations indicate that formation of 1,2,4-oxadiazolidin-5-ones is favored both kinetically and thermodynamically independently of the solvent, in agreement with experimental observations. Noncovalent interactions (NCI) and topological analysis of the gradient field of electron localization function (ELF) bonding confirmed the observed interactions. PMID:26682934

  17. Flexible bent rod model with a saturating induced dipole moment to study the electric linear dichroism of DNA fragments

    NASA Astrophysics Data System (ADS)

    Bertolotto, Jorge A.; Umazano, Juan P.

    2016-06-01

    In the present work we make a theoretical study of the steady state electric linear dichroism of DNA fragments in aqueous solution. The here developed theoretical approach considers a flexible bent rod model with a saturating induced dipole moment. The electric polarizability tensor of bent DNA fragments is calculated considering a phenomenological model which theoretical and experimental backgroung is presented here. The model has into account the electric polarizability longitudinal and transversal to the macroion. Molecular flexibility is described using an elastic potential. We consider DNA fragments originally bent with bending fluctuations around an average bending angle. The induced dipole moment is supposed constant once the electric field strength grows up at critical value. To calculate the reduced electric linear dichroism we determine the optical factor considering the basis of the bent DNA perpendicular to the molecular axis. The orientational distribution function has into account the anisotropic electric properties and the molecule flexibility. We applied the present theoretical background to fit electric dichroism experimental data of DNA fragments reported in the bibliography in a wide range of molecular weight and electric field. From these fits, values of DNA physical properties are estimated. We compare and discuss the results here obtained with the theoretical and experimental data presented by other authors. The original contributions of this work are: the inclusion of the transversal electric polarizability saturating with the electric field, the description of the electric properties with an electric polarizability tensor dependant on the bending angle and the use of an arc model originally bent.

  18. Are microsatellite fragment lengths useful for population-level studies? The case of Polygala lewtonii (Polygalaceae)1

    PubMed Central

    Germain-Aubrey, Charlotte C.; Nelson, Cory; Soltis, Douglas E.; Soltis, Pamela S.; Gitzendanner, Matthew A.

    2016-01-01

    Premise of the study: Microsatellites, despite being commonly used population-level markers, contain biases because scoring relies solely on fragment length. Their complexity can lead to homoplasy, the effects of which are poorly understood. We investigated the impact of using fragment lengths, repeats, or flanking region sequences on common population-level analyses. Methods: Five polymorphic microsatellite markers amplified across the central Florida scrub endemic Polygala lewtonii (Polygalaceae) and its close, widespread congener P. polygama. We genotyped 147 individuals of P. lewtonii and 156 of P. polygama, and sequenced the amplicons of four markers across all individuals. We ran basic statistics, spatial clustering analysis, historical demographics, and migration tests. Results: One population of intermediate morphology was genetically clearly identified as P. polygama, making it the southernmost population of this species. Statistics were comparable between the fragment length and repeat numbers, with some notable differences. Flanking regions exhibited surprisingly high polymorphism between species, and between geographically distant conspecific populations. Discussion: The increasing use of markers developed in one species and amplified in another is only a good practice if precautions are taken, notably the sequencing of the fragments between species and populations. Flanking region sequences are a useful marker at the interspecific level. PMID:26949579

  19. Reaction dynamics studies for the system 7Be+58Ni

    NASA Astrophysics Data System (ADS)

    Torresi, D.; Mazzocco, M.; Acosta, L.; Boiano, A.; Boiano, C.; Diaz-Torres, A.; Fierro, N.; Glodariu, T.; Grilj, L.; Guglielmetti, A.; Keeley, N.; La Commara, M.; Martel, I.; Mazzocchi, C.; Molini, P.; Pakou, A.; Parascandolo, C.; Parkar, V. V.; Patronis, N.; Pierroutsakou, D.; Romoli, M.; Rusek, K.; Sanchez-Benitez, A. M.; Sandoli, M.; Signorini, C.; Silvestri, R.; Soramel, F.; Stiliaris, E.; Strano, E.; Stroe, L.; Zerva, K.

    2015-04-01

    The study of reactions induced by exotic weakly bound nuclei at energies around the Coulomb barrier had attracted a large interest in the last decade, since the features of these nuclei can deeply affect the reaction dynamics. The discrimination between different reaction mechanisms is, in general, a rather difficult task. It can be achieved by using detector arrays covering high solid angle and with high granularity that allow to measure the reaction products and, possibly, coincidences between them, as, for example, recently done for stable weakly bound nuclei [1, 2]. We investigated the collision of the weakly bound nucleus 7Be on a 58Ni target at the beam energy of 1.1 times the Coulomb barrier, measuring the elastic scattering angular distribution and the energy and angular distributions of 3He and 4He. The 7Be radioactive ion beam was produced by the facility EXOTIC at INFN-LNL with an energy of 22 MeV and an intensity of ~3×105 pps. Results showed that the 4He yeld is about 4 times larger than 3He yield, suggesting that reaction mechanisms other than the break-up mostly produce the He isotopes. Theoretical calculations for transfer channels and compound nucleus reactions suggest that complete fusion accounts for (41±5%) of the total reaction cross section extracted from optical model analysis of the elastic scattering data, and that 3He and 4He stripping are the most populated reaction channels among direct processes. Eventually estimation of incomplete fusion contributions to the 3,4He production cross sections was performed through semi-classical calculations with the code PLATYPUS [3].

  20. Molecular beam studies of oxygen atom reactions with unsaturated hydrocarbons

    SciTech Connect

    Schmoltner, A.-M.

    1989-10-01

    The dynamics of several elementary reactions relevant to combustion was investigated. The reactive scattering of ground state oxygen atoms with small unsaturated hydrocarbons was studied using a crossed molecular beam apparatus with a rotatable mass spectrometer detector. The infrared and ultraviolet photodissociation of anisole was studied using a rotating beam source/fixed detector apparatus. 253 refs., 64 figs., 4 tabs.

  1. Computer-aided study of the mechanical behavior of the jaw bone fragments under uniaxial compression

    NASA Astrophysics Data System (ADS)

    Kolmakova, Tatyana V.

    2016-08-01

    The article presents the calculated results of the mechanical behavior of simulative bone mesovolumes under uniaxial compression with their architectonics corresponding to the human jaw bone fragments. The results of the calculation show that changes in the structure and mineral content of the bone fragments can lead to the change of their prevailing deformation response. New effective parameters were introduced to reflect the character of the distribution of stresses and strains in the bone mesovolumes. Implants are to be created and selected to correspond to the offered parameters and longitudinal modulus of elasticity of bone mesovolumes in order to maintain the stress and strain state existing in bone macrovolume during the implantation and in order to avoid bone restructuring through its borderline resorption.

  2. Feasibility study on a short-pulsed IR wavelength for effective calculus fragmentation

    NASA Astrophysics Data System (ADS)

    Kang, Hyun Wook

    2015-05-01

    Laser-induced lithotripsy has been used for a minimally-invasive surgery to treat kidney-stone disease associated with urinary obstruction. A short-pulsed Tm:YAG laser (λ = 2.01 µm) was developed to improve fragmentation efficiency and was evaluated with a Ho:YAG laser (λ = 2.12 μm) as to its ablation feature and mass removal rate. Application of a train of sub-microsecond pulses with a lower energy at a frequency of 500 Hz created multiple events of cavitation that accompanied strong acoustic transients. During Tm:YAG irradiation, both high light absorption and secondary photomechanical impacts readily fragmented the calculus into small pieces (< 3 mm) and removed them 130 times faster than photothermal Ho:YAG lithotripsy. The proposed short-pulsed Tm:YAG approach may be an effective lithotripter for treating calculus disease.

  3. Short report: A new polymerase chain reaction-restriction fragment length polymorphism method to identify Anopheles arabiensis from An. gambiae and its two molecular forms from degraded DNA templates or museum samples.

    PubMed

    Santolamazza, Federica; Della Torre, Alessandra; Caccone, Adalgisa

    2004-06-01

    We present a polymerase chain reaction-restriction fragment length polymorphism method to simultaneously distinguish the two Anopheles gambiae M and S molecular forms and Anopheles arabiensis. This method uses different diagnostic sites than previously published methods, and it is based on the amplification of a smaller ribosomal DNA fragment. We have tested this protocol in a variety of samples from different geographic regions and various ages of preservation to ascertain the robustness of this protocol over a wide geographic window and on DNA templates of poor quality. This procedure is as efficient as previous ones in discriminating An. arabiensis from the two taxa in An gambiae s.s. However, it performs better than others on poor quality templates such as the ones from museum collections, and poorly stored field collected material. However, it must be noted that it does not allow the simultaneous discrimination of all the species in the An. gambiae complex.

  4. Target fragmentation in radiobiology

    NASA Technical Reports Server (NTRS)

    Wilson, John W.; Cucinotta, Francis A.; Shinn, Judy L.; Townsend, Lawrence W.

    1993-01-01

    Nuclear reactions in biological systems produce low-energy fragments of the target nuclei seen as local high events of linear energy transfer (LET). A nuclear-reaction formalism is used to evaluate the nuclear-induced fields within biosystems and their effects within several biological models. On the basis of direct ionization interaction, one anticipates high-energy protons to have a quality factor and relative biological effectiveness (RBE) of unity. Target fragmentation contributions raise the effective quality factor of 10 GeV protons to 3.3 in reasonable agreement with RBE values for induced micronuclei in bean sprouts. Application of the Katz model indicates that the relative increase in RBE with decreasing exposure observed in cell survival experiments with 160 MeV protons is related solely to target fragmentation events. Target fragment contributions to lens opacity given an RBE of 1.4 for 2 GeV protons in agreement with the work of Lett and Cox. Predictions are made for the effective RBE for Harderian gland tumors induced by high-energy protons. An exposure model for lifetime cancer risk is derived from NCRP 98 risk tables, and protraction effects are examined for proton and helium ion exposures. The implications of dose rate enhancement effects on space radiation protection are considered.

  5. Study of the fragmentation of a displacement cascade in subcascades within the Binary Collision Approximation framework

    SciTech Connect

    Luneville, Laurence; Simone, David; Weber, William J

    2011-01-01

    When a material is subjected to irradiation, many primary defects are cre- ated at the atomic level by sequences of ballistic collision events to form highly disordered regions defined as displacement cascades. The long term evolution of materials under irradiation is dictated by the number and the spatial distribution of the surviving defects in the displacement cascade. The peculiar power law shape of collision cross sections is responsible for the frag- mentation of a displacement cascade into smaller subcascades. However, it remains difficult to define a subcascade. Within the fractal geometry frame- work, we demonstrate in this work that the set of atomic trajectories in a displacement cascade exhibit a fractal behavior. From this analysis, we present a new criterion to describe the fragmentation of a displacement cas- cade and to calculate the distribution and the number of defects from this fragmentation. Such an analysis provides the natural framework to estimate the number of defects created in a displacement cascade to integrate with results of MD simulations. From this defiintion of the fragmentation of a displacement cascade, this work gives some new insights to describe both the primary defects produced in a material under irradiation and then to compare different irradiations performed with different particles.

  6. Combined FT-Raman spectroscopic and mass spectrometric study of ancient Egyptian sarcophagal fragments.

    PubMed

    Edwards, Howell G M; Stern, Ben; Villar, Susana E Jorge; David, A Rosalie

    2007-02-01

    The application of combined Raman spectroscopic and GC-MS analytical techniques for the characterisation of organic varnish residues from Egyptian Dynastic funerary sarcophagal and cartonnage fragments from the Graeco-Roman period, ca. 2200 BP, is described. The nondestructive use of Raman spectroscopy was initially employed to derive information about the specific location of organic material on the specimens, which were then targeted in specific areas using minimal sampling for GC-MS analysis. In the case of the sarcophagal fragment, a degraded yellow-brown surface treatment was identified as a Pistacia spp. resin; this provides additional evidence for the use of this resin, which has previously been identified in Canaanite transport amphorae, varnishes and "incense" bowls in an Egyptian Late Bronze Age archaeological context. The cartonnage fragment also contained an organic coating for which the Raman spectrum indicated a degradation that was too severe to facilitate identification, but the GC-MS data revealed that it was composed of a complex mixture of fatty acid residues. The combined use of GC-MS and Raman spectroscopy for the characterisation of organic materials in an archaeological context is advocated for minimisation of sampling and restriction to specifically identified targets for museum archival specimens.

  7. Combined FT-Raman spectroscopic and mass spectrometric study of ancient Egyptian sarcophagal fragments.

    PubMed

    Edwards, Howell G M; Stern, Ben; Villar, Susana E Jorge; David, A Rosalie

    2007-02-01

    The application of combined Raman spectroscopic and GC-MS analytical techniques for the characterisation of organic varnish residues from Egyptian Dynastic funerary sarcophagal and cartonnage fragments from the Graeco-Roman period, ca. 2200 BP, is described. The nondestructive use of Raman spectroscopy was initially employed to derive information about the specific location of organic material on the specimens, which were then targeted in specific areas using minimal sampling for GC-MS analysis. In the case of the sarcophagal fragment, a degraded yellow-brown surface treatment was identified as a Pistacia spp. resin; this provides additional evidence for the use of this resin, which has previously been identified in Canaanite transport amphorae, varnishes and "incense" bowls in an Egyptian Late Bronze Age archaeological context. The cartonnage fragment also contained an organic coating for which the Raman spectrum indicated a degradation that was too severe to facilitate identification, but the GC-MS data revealed that it was composed of a complex mixture of fatty acid residues. The combined use of GC-MS and Raman spectroscopy for the characterisation of organic materials in an archaeological context is advocated for minimisation of sampling and restriction to specifically identified targets for museum archival specimens. PMID:16896625

  8. Homonuclear and Heteronuclear NMR Studies of a Statherin Fragment Bound to Hydroxyapatite Crystals

    SciTech Connect

    Raghunathan, Vinodhkumar; Gibson, James M.; Goobes, Gil; Popham, Jennifer M.; Louie, Elizabeth; Stayton, Patrick; Drobny, Gary P.

    2006-05-11

    Acidic proteins found in mineralized tissues act as nature's crystal engineers, where they play a key role in promoting or inhibiting the growth of minerals such as hydroxyapatite (HAP), Ca10(PO4)6(OH)2, the main mineral component of bone and teeth. Key to understanding the structural basis of protein-crystal recognition and protein control of hard tissue growth is the nature of interactions between the protein side chains and the crystal surface. In an earlier work we have measured the proximity of the lysine (K6) side chain in an SN-15 peptide fragment of the salivary protein statherin adsorbed to the Phosphorus-rich surface of HAP using solid-state NMR recoupling experiments. 15N(31P) rotational echo double resonance (REDOR) NMR data on the side-chain nitrogen in K6 gave rise to three different models of protein-surface interaction to explain the experimental data acquired. In this work we extend the analysis of the REDOR data by examining the contribution of interactions between surface phosphorus atoms to the observed 15N REDOR decay. We performed 31P-31P recoupling experiments in HAP and (NH4)2HPO4 (DHP) to explore the nature of dipolar coupled 31P spin networks. These studies indicate that extensive networks of dipolar coupled 31P spins can be represented as stronger effective dipolar couplings, the existence of which must be included in the analysis of REDOR data. We carried out 15N(31P) REDOR in the case of DHP to determine how the size of the dephasing spin network influences the interpretation of the REDOR data. Although use of an extended 31P coupled spin network simulates the REDOR data well, a simplified 31P dephasing system composed of two spins with a larger dipolar coupling also simulates the REDOR data and only perturbs the heteronuclear couplings very slightly. The 31P-31P dipolar couplings between phosphorus nuclei in HAP can be replaced by an effective dipolar interaction of 600 Hz between two 31P spins. We incorporated this coupling and

  9. Theoretical study on interactions of fluorinated organomercurials with arene and gold fragments.

    PubMed

    Mendizabal, Fernando; Miranda-Rojas, Sebastián; Barrientos, Lorena

    2015-10-21

    The electronic structure and spectroscopic properties of [Hg(C6F5)2]2-{L}, [Hg3(o-C6F4)3]2·{L} (L = naphthalene, biphenyl, fluorene) and [Hg3(o-C6F4)3]{Au3(μ-C(OEt)=NC6H4CH3)3}n (n = 1, 2) adducts were studied at the HF, MP2, SCS-MP2, DFT and DFT-D3 levels. The intermolecular interactions among the fragments were analyzed using the levels of calculations proposed. The energy decomposition analysis at the TPSS-D3 level was used to define the dominant components of the interaction. The van der Waals interactions between mercury and arene (Hg-arene) were found to be the main short-range stability contribution in the [Hg(C6F5)2]2-{L} and [Hg3(o-C6F4)3]2·{L} complexes. At the MP2, SCS-MP2 and DFT-D3 levels, equilibrium Hg-C distances are between 360 and 310 pm. The pair-wise energies were found to be between 18.0 and 6.0 kJ mol(-1). In the [Hg3(o-C6F4)3]{Au3(μ-C(OEt)=NC6H4CH3)3}n (n = 1, 2) complexes the metallophilic intermolecular interaction is Hg-Au. Pair-wise energies of 85.7, 39.4, 78.1 and 57.9 kJ mol(-1) were found at the MP2, SCS-MP2, TPSS-D3 and PBE-D3 levels using the [Hg3(o-C6F4)3]{Au3(μ-C(OEt)=NC6H4CH3)3} model. The same trend is maintained for the [Hg3(o-C6F4)3]{Au3(μ-C(OEt)=NC6H4CH3)3}2 model: 73.4, 29.3, 70.6 and 61.3 kJ mol(-1) by MP2, SCS-MP2, TPSS-D3 and PBE-D3, respectively. The absorption spectra of these complexes were calculated using the single excitation time-dependent method at the TPSS-D3 level to validate the models against the experimental data.

  10. Singlet Oxygen Reactions with Flavonoids. A Theoretical – Experimental Study

    PubMed Central

    Morales, Javier; Günther, Germán; Zanocco, Antonio L.; Lemp, Else

    2012-01-01

    Detection of singlet oxygen emission, λmax = 1270 nm, following laser excitation and steady-state methods were employed to measure the total reaction rate constant, kT, and the reactive reaction rate constant, kr, for the reaction between singlet oxygen and several flavonoids. Values of kT determined in deuterated water, ranging from 2.4×107 M−1s−1 to 13.4×107 M−1s−1, for rutin and morin, respectively, and the values measured for kr, ranging from 2.8×105 M−1s−1 to 65.7×105 M−1s−1 for kaempferol and morin, respectively, being epicatechin and catechin chemically unreactive. These results indicate that all the studied flavonoids are good quenchers of singlet oxygen and could be valuable antioxidants in systems under oxidative stress, in particular if a flavonoid-rich diet was previously consumed. Analysis of the dependence of rate constant values with molecular structure in terms of global descriptors and condensed Fukui functions, resulting from electronic structure calculations, supports the formation of a charge transfer exciplex in all studied reactions. The fraction of exciplex giving reaction products evolves through a hydroperoxide and/or an endoperoxide intermediate produced by singlet oxygen attack on the double bond of the ring C of the flavonoid. PMID:22802966

  11. Computational Studies on Cinchona Alkaloid-Catalyzed Asymmetric Organic Reactions.

    PubMed

    Tanriver, Gamze; Dedeoglu, Burcu; Catak, Saron; Aviyente, Viktorya

    2016-06-21

    Remarkable progress in the area of asymmetric organocatalysis has been achieved in the last decades. Cinchona alkaloids and their derivatives have emerged as powerful organocatalysts owing to their reactivities leading to high enantioselectivities. The widespread usage of cinchona alkaloids has been attributed to their nontoxicity, ease of use, stability, cost effectiveness, recyclability, and practical utilization in industry. The presence of tunable functional groups enables cinchona alkaloids to catalyze a broad range of reactions. Excellent experimental studies have extensively contributed to this field, and highly selective reactions were catalyzed by cinchona alkaloids and their derivatives. Computational modeling has helped elucidate the mechanistic aspects of cinchona alkaloid catalyzed reactions as well as the origins of the selectivity they induce. These studies have complemented experimental work for the design of more efficient catalysts. This Account presents recent computational studies on cinchona alkaloid catalyzed organic reactions and the theoretical rationalizations behind their effectiveness and ability to induce selectivity. Valuable efforts to investigate the mechanisms of reactions catalyzed by cinchona alkaloids and the key aspects of the catalytic activity of cinchona alkaloids in reactions ranging from pharmaceutical to industrial applications are summarized. Quantum mechanics, particularly density functional theory (DFT), and molecular mechanics, including ONIOM, were used to rationalize experimental findings by providing mechanistic insights into reaction mechanisms. B3LYP with modest basis sets has been used in most of the studies; nonetheless, the energetics have been corrected with higher basis sets as well as functionals parametrized to include dispersion M05-2X, M06-2X, and M06-L and functionals with dispersion corrections. Since cinchona alkaloids catalyze reactions by forming complexes with substrates via hydrogen bonds and long

  12. Computational Studies on Cinchona Alkaloid-Catalyzed Asymmetric Organic Reactions.

    PubMed

    Tanriver, Gamze; Dedeoglu, Burcu; Catak, Saron; Aviyente, Viktorya

    2016-06-21

    Remarkable progress in the area of asymmetric organocatalysis has been achieved in the last decades. Cinchona alkaloids and their derivatives have emerged as powerful organocatalysts owing to their reactivities leading to high enantioselectivities. The widespread usage of cinchona alkaloids has been attributed to their nontoxicity, ease of use, stability, cost effectiveness, recyclability, and practical utilization in industry. The presence of tunable functional groups enables cinchona alkaloids to catalyze a broad range of reactions. Excellent experimental studies have extensively contributed to this field, and highly selective reactions were catalyzed by cinchona alkaloids and their derivatives. Computational modeling has helped elucidate the mechanistic aspects of cinchona alkaloid catalyzed reactions as well as the origins of the selectivity they induce. These studies have complemented experimental work for the design of more efficient catalysts. This Account presents recent computational studies on cinchona alkaloid catalyzed organic reactions and the theoretical rationalizations behind their effectiveness and ability to induce selectivity. Valuable efforts to investigate the mechanisms of reactions catalyzed by cinchona alkaloids and the key aspects of the catalytic activity of cinchona alkaloids in reactions ranging from pharmaceutical to industrial applications are summarized. Quantum mechanics, particularly density functional theory (DFT), and molecular mechanics, including ONIOM, were used to rationalize experimental findings by providing mechanistic insights into reaction mechanisms. B3LYP with modest basis sets has been used in most of the studies; nonetheless, the energetics have been corrected with higher basis sets as well as functionals parametrized to include dispersion M05-2X, M06-2X, and M06-L and functionals with dispersion corrections. Since cinchona alkaloids catalyze reactions by forming complexes with substrates via hydrogen bonds and long

  13. Super-asymmetric fission in the 245Cm(n th, f) reaction at the Lohengrin fission-fragment mass separator

    NASA Astrophysics Data System (ADS)

    Rochman, D.; Tsekhanovich, I.; Gönnenwein, F.; Sokolov, V.; Storrer, F.; Simpson, G.; Serot, O.

    2004-04-01

    Mass, isotopic yields and single-fragment kinetic energy measurements for thermal-neutron induced fission of 245Cm at the Lohengrin fission-product mass separator are described. Using an ionization chamber coupled to the mass separator, we have measured the mass and isotopic yields from fragment mass A=67 up to A=77 over three yield decades. This considerably extends the data set previously known for the light peak. A full set of data is now available for this actinide in the super-asymmetric mass region. The results of mass and isotopic yields are compared with those of other compound nuclei to highlight the shell effect at mass 70 for the 246Cm ★ compound-nucleus system. Also, the present results are compared to the data from the European library JEF2 and the evaluation from Wahl's Zp model.

  14. Emotional Reactions of Students in Field Education: An Exploratory Study

    ERIC Educational Resources Information Center

    Litvack, Andrea; Mishna, Faye; Bogo, Marion

    2010-01-01

    An exploratory study using qualitative methodology was undertaken with recent MSW graduates (N=12) from 2 graduate social work programs to identify and describe the students' emotional reactions to experiences in field education. Significant and interrelated themes emerged including the subjective and unique definitions of emotionally charged…

  15. Magnetic resonance studies of photo-induced electron transfer reactions

    SciTech Connect

    van Willigen, H.

    1990-12-01

    During the period covered by this report research has been concerned with the application of Fourier Transform Electron Paramagnetic Resonance (FT EPR) in the study of photo-induced electron transfer reactions. Donor molecules used in this investigation have been various porphyrins, whereas quinones were used as acceptor molecules.

  16. Theoretical studies of the dynamics of chemical reactions

    SciTech Connect

    Wagner, A.F.

    1993-12-01

    Recent research effort has focussed on several reactions pertinent to combustion. The formation of the formyl radical from atomic hydrogen and carbon monoxide, recombination of alkyl radicals and halo-alkyl radicals with halogen atoms, and the thermal dissociation of hydrogen cyanide and acetylene have been studied by modeling. In addition, the inelastic collisions of NCO with helium have been investigated.

  17. [The contamination under polymerase chain reaction studies: problems and solutions].

    PubMed

    Titov, V N; Ameliushkina, V A; Rozhkova, T A

    2015-01-01

    The study was carried out to determine risk factors of false positive and false negative results under polymerase chain reaction-analysis of clinical material. The samples with high viral load can be the source of false positive results. The contamination with nucleic acids can occur at any section of polymerase chain reaction analysis. The study data permitted to establish that the most sensitive stage is isolation and purification of nucleic acids especially under manual mode of operation. The detection of positive signal in most samples of one setting indicates total contamination. The cases when only several samples are polluted are special challenge. The presence of sample with high concentration of viral nucleic acid and several samples with low concentration in one setting means necessity of repeated analysis beginning with stage of isolation of nucleic acid. The analysis of curves of accumulation of products of amplification, their forms and positioning on chart is the obligatory stage of polymerase chain reaction study in real time regimen. These actions permit to exclude the readouts of false negative testing results to departments. The study conclusions are equipotent for polymerase chain reaction testing of any nucleic acid targets.

  18. A Study of Illinois Employer Reactions to Training Credentials.

    ERIC Educational Resources Information Center

    Adams, Frank G.; And Others

    A study was conducted in summer 1982 by Project REA to provide employment skill training operators and educators in Illinois with information about the reactions, attitudes, and beliefs of employers toward various forms of accreditation of training, i.e., academic credit, nonacademic credit, certificates, degrees, diplomas, and licenses. The study…

  19. Study of Cold Potassium Atom - Calcium Ion Reactions

    NASA Astrophysics Data System (ADS)

    Egodapitiya, Kisra; Gang, Shu; Clark, Robert; Brown, Kenneth

    2016-05-01

    We report on our progress towards constructing a hybrid system for studying reactions between cold Potassium (K) atoms and cold Calcium (Ca+) ions. Ca+ ions will be trapped and Doppler-cooled inside a linear quadrupole ion trap. Cold K atoms will be created inside a magneto optical trap, such that the ion and the atoms are in an overlapping volume. Trapping and re-pumping beams for the Potassium MOT are derived from the same laser with wavelength 766 nm using two acousto optic modulators. The reaction products will be detected using a time-of- flight mass spectrometer that is designed to detect radially ejected ions. The main objective of this experiment is to study the rate coefficients, and identification of reaction channels between cold K atoms and Ca+ ions. Subsequently this setup will be used to study reactions between cold K atoms and sympathetically cooled molecular ions such as CaO+, and to study internal state quenching of molecular ions.

  20. Study of Daedalus Interstellar Spacecraft Reaction Chamber and Thrust Structure

    NASA Astrophysics Data System (ADS)

    Reddy, S. K.; Benaroya, H.

    Project Daedalus was the 1978 trade study that proved the feasibility of space travel utilizing fusion-based propulsion (Inertial Confinement Fusion). This paper analyzes some of the key structural aspects of the Daedalus spacecraft, in particular, the reaction chamber and thrust structure that is integral to the Daedalus spacecraft, which supports the loads resulting from the fusion reactions. First, the reaction chamber is studied computationally in terms of static loading and vibrational characteristics utilizing the finite element method. Next, a proposed bracing system is integrated into the reaction chamber and the effects are studied. Lastly, the field coils with their supporting truss structure are added to the assembly. Concepts are introduced for actuators and course-correction mechanisms that ensure the spacecraft maintains the required trajectory to rendezvous with the target system. Present-day materials and manufacturing considerations are explored based on the assumptions made in the Daedalus study. Testing, qualification, and assembly of the spacecraft are also discussed. This paper is a summary of the first author's Master's Thesis at Rutgers University.

  1. A model study of sequential enzyme reactions and electrostatic channeling

    NASA Astrophysics Data System (ADS)

    Eun, Changsun; Kekenes-Huskey, Peter M.; Metzger, Vincent T.; McCammon, J. Andrew

    2014-03-01

    We study models of two sequential enzyme-catalyzed reactions as a basic functional building block for coupled biochemical networks. We investigate the influence of enzyme distributions and long-range molecular interactions on reaction kinetics, which have been exploited in biological systems to maximize metabolic efficiency and signaling effects. Specifically, we examine how the maximal rate of product generation in a series of sequential reactions is dependent on the enzyme distribution and the electrostatic composition of its participant enzymes and substrates. We find that close proximity between enzymes does not guarantee optimal reaction rates, as the benefit of decreasing enzyme separation is countered by the volume excluded by adjacent enzymes. We further quantify the extent to which the electrostatic potential increases the efficiency of transferring substrate between enzymes, which supports the existence of electrostatic channeling in nature. Here, a major finding is that the role of attractive electrostatic interactions in confining intermediate substrates in the vicinity of the enzymes can contribute more to net reactive throughput than the directional properties of the electrostatic fields. These findings shed light on the interplay of long-range interactions and enzyme distributions in coupled enzyme-catalyzed reactions, and their influence on signaling in biological systems.

  2. Toluene pyrolysis studies and high temperature reactions of propargyl chloride

    SciTech Connect

    Kern, R.D.; Chen, H.; Qin, Z.

    1993-12-01

    The main focus of this program is to investigate the thermal decompositions of fuels that play an important role in the pre-particle soot formation process. It has been demonstrated that the condition of maximum soot yield is established when the reaction conditions of temperature and pressure are sufficient to establish a radical pool to support the production of polyaromatic hydrocarbon species and the subsequent formation of soot particles. However, elevated temperatures result in lower soot yields which are attributed to thermolyses of aromatic ring structures and result in the bell-shaped dependence of soot yield on temperature. The authors have selected several acyclic hydrocarbons to evaluate the chemical thermodynamic and kinetic effects attendant to benzene formation. To assess the thermal stability of the aromatic ring, the authors have studied the pyrolyses of benzene, toluene, ethylbenzene, chlorobenzene and pyridine. Time-of-flight mass spectrometry (TOF) is employed to analyze the reaction zone behind reflected shock waves. Reaction time histories of the reactants, products, and intermediates are constructed and mechanisms are formulated to model the experimental data. The TOF work is often performed with use of laser schlieren densitometry (LS) to measure density gradients resulting from the heats of various reactions involved in a particular pyrolytic system. The two techniques, TOF and LS, provide independent and complementary information about ring formation and ring rupture reactions.

  3. Kinetic studies of cascade reactions in high-throughput systems.

    PubMed

    Iron, David; Boelens, Hans F M; Westerhuis, Johan A; Rothenberg, Gadi

    2003-12-01

    The application of robotic systems to the study of complex reaction kinetics is considered, using the cascade reaction A --> B --> C as a working example. Practical problems in calculating the rate constants k1 and k2 for the reactions A --> B and B --> C from concentration measurements of CA, CB, or CC are discussed in the light of the symmetry and invertability of the rate equations. A D-optimal analysis is used to determine the points in time and the species that will give the best (i.e., most accurate) results. When exact data are used, the most robust solution results from measuring the pair of concentrations (CA, CC). The system's information function is computed using numeric methods. This function is then used to estimate the amount of information obtainable from a given cascade reaction at any given time. The theoretical findings are compared with experimental results from a set of two-stage cascade experiments monitored using UV-visible spectroscopy. Finally, the pros and cons of using a single reaction sample to estimate both k1 and k2 are discussed. PMID:16465720

  4. A tandem mass spectrometric study of bile acids: interpretation of fragmentation pathways and differentiation of steroid isomers.

    PubMed

    Qiao, Xue; Ye, Min; Liu, Chun-fang; Yang, Wen-zhi; Miao, Wen-juan; Dong, Jing; Guo, De-an

    2012-02-01

    Bile acids are steroids with a pentanoic acid substituent at C-17. They are the terminal products of cholesterol excretion, and play critical physiological roles in human and animals. Bile acids are easy to detect but difficult to identify by using mass spectrometry due to their poly-ring structure and various hydroxylation patterns. In this study, fragmentation pathways of 18 free and conjugated bile acids were interpreted by using tandem mass spectrometry. The analyses were conducted on ion trap and triple quadrupole mass spectrometers. Upon collision-induced dissociation, the conjugated bile acids could cleave into glycine or taurine related fragments, together with the steroid skeleton. Fragmentations of free bile acids were further elucidated, especially by atmospheric pressure chemical ionization mass spectrometry in positive ion mode. Aside from universally observed neutral losses, eliminations occurred on bile acid carbon rings were proposed for the first time. Moreover, four isomeric 5β-cholanic acid hydroxyl derivatives (3α,6α-, 3α,7β-, 3α,7α-, and 3α,12α-) were differentiated using electrospray ionization in negative ion mode: 3α,7β-OH substituent inclined to eliminate H(2)O and CH(2)O(2) groups; 3α,6α-OH substituent preferred neutral loss of two H(2)O molecules; 3α,12α-OH substituent apt to lose the carboxyl in the form of CO(2) molecule; and 3α,7α-OH substituent exhibited no further fragmentation after dehydration. This study provided specific interpretation for mass spectra of bile acids. The results could contribute to bile acid analyses, especially in clinical assays and metabonomic studies.

  5. Studying the triple - α reaction in hyperspherical harmonic approach

    NASA Astrophysics Data System (ADS)

    Nguyen, Ngoc; Nunes, Filomena

    2010-11-01

    The triple-α reaction is studied by using hyperspherical harmonic (HH) method [1]. Starting from three body model, we determine the 2^+ state and the 0^+ resonance as well as the quadrupole strength function B(E2). The triple-α reaction rate are calculated. We also carefully consider the contributions of the nonresonant continuum states to the reaction rate at low temperature (T <=10^8 K). The results are compared with [2,3].[4pt] [1] I. J. Thompson, F. M. Nunes, B. V. Danilin, Comput.Phys.Comm. 161, 87-107 (2004).[0pt] [2] K.Ogata, M.Kan, M.Kamimura, Prog. Theor. Phys. 122, 1055 (2009).[0pt] [3] R. de Diego, E. Garrido, D.V. Fedorov, A.S. Jensen, arXiv:1005.5647v1.

  6. Sum Frequency Generation Studies of Hydrogenation Reactions on Platinum Nanoparticles

    SciTech Connect

    Krier, James M.

    2013-08-31

    Sum Frequency Generation (SFG) vibrational spectroscopy is used to characterize intermediate species of hydrogenation reactions on the surface of platinum nanoparticle catalysts. In contrast to other spectroscopy techniques which operate in ultra-high vacuum or probe surface species after reaction, SFG collects information under normal conditions as the reaction is taking place. Several systems have been studied previously using SFG on single crystals, notably alkene hydrogenation on Pt(111). In this thesis, many aspects of SFG experiments on colloidal nanoparticles are explored for the first time. To address spectral interference by the capping agent (PVP), three procedures are proposed: UV cleaning, H2 induced disordering and calcination (core-shell nanoparticles). UV cleaning and calcination physically destroy organic capping while disordering reduces SFG signal through a reversible structural change by PVP.

  7. 3D-QSAR and molecular fragment replacement study on diaminopyrimidine and pyrrolotriazine ALK inhibitors

    NASA Astrophysics Data System (ADS)

    Ke, Zhipeng; Lu, Tao; Liu, Haichun; Yuan, Haoliang; Ran, Ting; Zhang, Yanmin; Yao, Sihui; Xiong, Xiao; Xu, Jinxing; Xu, Anyang; Chen, Yadong

    2014-06-01

    Over expression of anaplastic lymphoma kinase (ALK) has been found in many types of cancer, and ALK is a promising therapeutic target for the treatment of cancer. To obtain new potent inhibitors of ALK, we conducted lead optimization using 3D-QSAR modeling and molecular docking investigation of 2,4-diaminopyrimidines and 2,7-disubstituted-pyrrolo[2,1-f][1,2,4]triazine-based compounds. Three favorable 3D-QSAR models (CoMFA with q2, 0.555; r2, 0.939; CoMSIA with q2, 0.625; r2, 0.974; Topomer CoMFA with q2, 0.557; r2 0.756) have been developed to predict the biological activity of novel compounds. Topomer Search was utilized for virtual screening to obtain suitable fragments. The novel compounds generated by molecular fragment replacement (MFR) were evaluated by Topomer CoMFA prediction, Glide (docking) and further evaluated with CoMFA and CoMSIA prediction. 25 novel 2,7-disubstituted-pyrrolo[2,1-f][1,2,4]triazine derivatives as potential ALK inhibitors were finally obtained. In this paper, a combination of CoMFA, CoMSIA and Topomer CoMFA could obtain favorable 3D-QSAR models and suitable fragments for ALK inhibitors optimization. The work flow which comprised 3D-QSAR modeling, Topomer Search, MFR, molecular docking and evaluating criteria could be applied to de novo drug design and the resulted compounds initiate us to further optimize and design new potential ALK inhibitors.

  8. On the origin of rock fragment mulches on Vertisols: A case study from the Ethiopian highlands

    NASA Astrophysics Data System (ADS)

    Moeyersons, Jan; Nyssen, Jan; Poesen, Jean; Deckers, Jozef; Haile, Mitiku

    2006-06-01

    Many Vertisols in Tigray, Ethiopia, typically carry a discontinuous rock fragment (RF, size 0.5-> 40 · 10 - 2 m) cover with 10 to 100 RFs m - 2 . Such RF mulches are of agricultural and environmental significance because they influence the water balance in the underlying soils and the crop yield. Natural RF concentrations are mostly considered as eolian or hydraulic lag deposits, or as the result of lateral transport over the soil surface from a rock outcrop, upslope. In cultivated areas RF mulches can develop by tillage. This paper presents the case of a natural RF mulch whose lithology indicates that the RFs are up-squeezed by the local Vertisol. The study site is located in the pass of Enda Maryam, Tigray, Northern Ethiopia (39°8' E and 13°36' N). A circular area of 10 m diameter, about 200 m away from the water divide in the valley has been cleared annually between 01/1999 and 05/2003. During this period, 625 RFs, 17 being > 7.5 · 10 - 2 m in size, totalling a mass of nearly 62 kg, have been collected. After correction for measurement procedures, the rate of RF up-warping by the Vertisol at Enda Maryam is assessed at 5 RFs m - 2 in 3 years. At this rate of appearance, the formation of current RF concentrations on top of active valley Vertisols is only a matter of 10 1-2 years, provided the availability of RFs below the soil surface. Although important underground displacements were measured in the Vertisol between 01/1999 and 05/2002, the supposed link between up-squeezing of RFs and plastic deformations of 'chimney', 'diapir' or 'intrusion'-like type in the Vertisol could not be evidenced. Instead, RFs are clearly concentrated on the soil surface as well as in depth, along the existing vertical desiccation cracks, often > 1 m deep which display polygonal configurations at the soil surface. Further, bundles of slickensides containing some RFs, have been mapped at the base of the Vertisol. The slickenside configuration suggests that the RF-bearing substrate

  9. Assays to Study the Fragmentation of the Golgi Complex During the G2-M Transition of the Cell Cycle.

    PubMed

    Ayala, Inmaculada; Colanzi, Antonino

    2016-01-01

    The Golgi complex of mammalian cells is composed of stacks of flattened cisternae that are connected by tubules to form a continuous membrane system, also known as the Golgi ribbon. At the onset of mitosis, the Golgi ribbon is progressively fragmented into small tubular-vesicular clusters and it is reconstituted before completion of cytokinesis. The investigation of the mechanisms behind this reversible cycle of disassembly and reassembly has led to the identification of structural Golgi proteins and regulators. Moreover, these studies allowed to discover that disassembly of the ribbon is necessary for cell entry into mitosis. Here, we describe an in vitro assay that reproduces the mitotic Golgi fragmentation and that has been successfully employed to identify many important mechanisms and proteins involved in the mitotic Golgi reorganization. PMID:27632010

  10. Aminoindazole PDK1 Inhibitors: A Case Study in Fragment-Based Drug Discovery

    SciTech Connect

    Medina, Jesus R.; Blackledge, Charles W.; Heerding, Dirk A.; Campobasso, Nino; Ward, Paris; Briand, Jacques; Wright, Lois; Axten, Jeffrey M.

    2012-05-29

    Fragment screening of phosphoinositide-dependent kinase-1 (PDK1) in a biochemical kinase assay afforded hits that were characterized and prioritized based on ligand efficiency and binding interactions with PDK1 as determined by NMR. Subsequent crystallography and follow-up screening led to the discovery of aminoindazole 19, a potent leadlike PDK1 inhibitor with high ligand efficiency. Well-defined structure-activity relationships and protein crystallography provide a basis for further elaboration and optimization of 19 as a PDK1 inhibitor.

  11. Studying Nuclear Level Densities of 238U in the Nuclear Reactions within the Macroscopic Nuclear Models

    NASA Astrophysics Data System (ADS)

    Razavi, Rohallah; Rahmatinejad, Azam; Kakavand, Tayeb; Taheri, Fariba; Aghajani, Maghsood; Khooy, Asghar

    2016-02-01

    In this work the nuclear level density parameters of 238U have been extracted in the back-shifted Fermi gas model (BSFGM), as well as the constant temperature model (CTM), through fitting with the recent experimental data on nuclear level densities measured by the Oslo group. The excitation functions for 238U(p,2nα)233Pa, and 238U(p,4n)235Np reactions and the fragment yields for the fragments of the 238U(p,f) reaction have been calculated using obtained level density parameters. The results are compared to their corresponding experimental values. It was found that the extracted excitation functions and the fragment yields in the CTM coincide well with the experimental values in the low-energy region. This finding is according to the claim made by the Oslo group that the extracted level densities of 238U show a constant temperature behaviour.

  12. Ionization and fragmentation of complex molecules studied with a density functional theory based approach

    NASA Astrophysics Data System (ADS)

    Kirchner, Tom

    2013-05-01

    Ion-impact induced ionization and fragmentation of complex molecules have important applications in many branches of science. If the molecule is H2O an obvious topic to address is the radiobiological relevance of these processes, e.g. in the context of hadron therapy, to name just one example. From a more fundamental physics viewpoint ion-molecule collision systems constitute interesting many-body systems, whose analysis poses challenges to both experimentalists and theorists. This talk will describe a theoretical approach to ion-molecule collisions, which is based on density functional theory to describe the nonperturbative electron dynamics. The basis generator method applied in the past successfully to ion-atom collisions is adapted to deal with the multi-center problem one faces when one considers molecular targets. Cross sections for single- and multiple-electron processes (capture and transfer to the continuum) are obtained directly from solving time-dependent Kohn-Sham-type orbital equations and using a Slater determinant based analysis. Fragmentation yields are predicted on the basis of a semi-phenomenological model which uses the calculated cross sections as input. Results will be presented for various ions impacting on water molecules in the energy range of 10-5000 keV/amu and compared with experimental data and previous theoretical calculations where available. First applications of the model to collisions involving CH4 molecules will also be discussed. This work has been supported by SHARCNET and NSERC Canada.

  13. Lamellar spacing of photosystem II membrane fragments upon dehydration studied by neutron membrane diffraction

    NASA Astrophysics Data System (ADS)

    Pieper, Jörg; Rusevich, Leonid; Hauß, Thomas; Renger, Gernot

    2015-12-01

    The effect of dehydration on the lamellar spacing of photosystem II (PS II) membrane fragments from spinach has been investigated using neutron membrane diffraction at room temperature. The diffraction data reveal a major peak at a scattering vector Q of 0.049 Å-1 at a relative humidity (r.h.) of 90% corresponding to a repeat distance D of about 129 Å. Upon dehydration to 44% r.h., this peak shifts to about 0.060 Å-1 corresponding to a distance of 104.7±2.5 Å. Within experimental error, the latter repeat distance remains almost the same at hydration levels below 44% r.h. indicating that most of the hydration water is removed. This result is consistent with the earlier finding that hydration-induced conformational protein motions in PS II membrane fragments are observed above 44% r.h. and correlated with the onset electron transfer in PS II (Pieper et al. 2008, Eur. Biophys. J. 37: 657-663).

  14. Lamellar spacing of photosystem II membrane fragments upon dehydration studied by neutron membrane diffraction

    NASA Astrophysics Data System (ADS)

    Pieper, Jörg; Rusevich, Leonid; Hauß, Thomas; Renger, Gernot

    2016-02-01

    The effect of dehydration on the lamellar spacing of photosystem II (PS II) membrane fragments from spinach has been investigated using neutron membrane diffraction at room temperature. The diffraction data reveal a major peak at a scattering vector Q of 0.049 Å-1 at a relative humidity (r.h.) of 90% corresponding to a repeat distance D of about 129 Å. Upon dehydration to 44% r.h., this peak shifts to about 0.060 Å-1 corresponding to a distance of 104.7±2.5 Å. Within experimental error, the latter repeat distance remains almost the same at hydration levels below 44% r.h. indicating that most of the hydration water is removed. This result is consistent with the earlier finding that hydration-induced conformational protein motions in PS II membrane fragments are observed above 44% r.h. and correlated with the onset electron transfer in PS II (Pieper et al. 2008, Eur. Biophys. J. 37: 657-663).

  15. Hydration of ligands of influenza virus neuraminidase studied by the fragment molecular orbital method.

    PubMed

    Tokuda, Kana; Watanabe, Chiduru; Okiyama, Yoshio; Mochizuki, Yuji; Fukuzawa, Kaori; Komeiji, Yuto

    2016-09-01

    The fragment molecular orbital (FMO) method was applied to quantum chemical calculations of neuramic acid, the natural substrate of the influenza virus neuraminidase, and two of its competitive inhibitors, Oseltamivir (Tamiful(®)) and Zanamivir (Relenza(®)), to investigate their hydrated structures and energetics. Each of the three ligands was immersed in an explicit water solvent, geometry-optimized by classical MM and QM/MM methods, and subjected to FMO calculations with 2-, 3-, and 4-body corrections under several fragmentation options. The important findings were that QM/MM optimization was preferable to obtain reliable hydrated structures of the ligands, that the 3-body correction was important for quantitative evaluation of the solvation energy, and that the dehydration effect was most remarkable near the hydrophobic sections of the ligands. In addition, the hydration energy calculated by the explicit solvent was compared with the hydration free energy calculated by the implicit solvent via the Poisson-Boltzmann equation, and the two showed a fairly good correlation. These findings will serve as useful information for rapid drug design. PMID:27611645

  16. Reaction mechanism studies of unsaturated molecules using photofragment translational spectroscopy

    SciTech Connect

    Longfellow, C.A. |

    1996-05-01

    A number of molecules have been studied using the technique of photofragment translational spectroscopy. In Chapter One a brief introduction to the experimental technique is given. In Chapter Two the infrared multiphoton dissociation (IRMPD) of acetic acid is discussed. Carbon dioxide and methane were observed for the first time as products from dissociation under collisionless conditions. Chapter Three relates an IRMPD experiment of hexafluoropropene. The predominant channel produces CFCF{sub 3} or C{sub 2}F{sub 4} and CF{sub 2}, with the heavier species undergoing further dissociation to two CF{sub 2} fragments. In Chapter Four the ultraviolet (UV) dissociation of hexafluoropropene is investigated. Chapter Five explores the IRMPD of octafluoro-1-butene and octafluoro-2-butene.

  17. Low Mass MS/MS Fragments of Protonated Amino Acids Used for Distinction of Their 13C- Isotopomers in Metabolic Studies

    NASA Astrophysics Data System (ADS)

    Ma, Xin; Dagan, Shai; Somogyi, Árpád; Wysocki, Vicki H.; Scaraffia, Patricia Y.

    2013-04-01

    Glu, Gln, Pro, and Ala are the main amino acids involved in ammonia detoxification in mosquitoes. In order to develop a tandem mass spectrometry method (MS2) to monitor each carbon of the above isotopically-labeled 13C-amino acids for metabolic studies, the compositions and origins of atoms in fragments of the protonated amino acid should be first elucidated. Thus, various electrospray (ESI)-based MS2 tools were employed to study the fragmentation of these unlabeled and isotopically-labeled amino acids and better understand their dissociation pathways. A broad range of fragments, including previously-undescribed low m/z fragments was revealed. The formulae of the fragments (from m/z 130 down to m/z 27) were confirmed by their accurate masses. The structures and conformations of the larger fragments of Glu were also explored by ion mobility mass spectrometry (IM-MS) and gas-phase hydrogen/deuterium exchange (HDX) experiments. It was found that some low m/z fragments ( m/z 27-30) are common to Glu, Gln, Pro, and Ala. The origins of carbons in these small fragments are discussed and additional collision induced dissociation (CID) MS2 fragmentation pathways are proposed for them. It was also found that small fragments (≤ m/z 84) of protonated, methylated Glu, and methylated Gln are the same as those of the underivatized Glu and Gln. Taken together, the new approach of utilizing low m/z fragments can be applied to distinguish, identify, and quantify 13C-amino acids labeled at various positions, either in the backbone or side chain.

  18. A comparative study on genetic effects of artificial and natural habitat fragmentation on Loropetalum chinense (Hamamelidaceae) in Southeast China

    PubMed Central

    Yuan, N; Comes, H P; Cao, Y N; Guo, R; Zhang, Y H; Qiu, Y X

    2015-01-01

    Elucidating the demographic and landscape features that determine the genetic effects of habitat fragmentation has become fundamental to research in conservation and evolutionary biology. Land-bridge islands provide ideal study areas for investigating the genetic effects of habitat fragmentation at different temporal and spatial scales. In this context, we compared patterns of nuclear microsatellite variation between insular populations of a shrub of evergreen broad-leaved forest, Loropetalum chinense, from the artificially created Thousand-Island Lake (TIL) and the Holocene-dated Zhoushan Archipelago of Southeast China. Populations from the TIL region harboured higher levels of genetic diversity than those from the Zhoushan Archipelago, but these differences were not significant. There was no correlation between genetic diversity and most island features, excepting a negative effect of mainland–island distance on allelic richness and expected heterozygosity in the Zhoushan Archipelago. In general, levels of gene flow among island populations were moderate to high, and tests of alternative models of population history strongly favoured a gene flow-drift model over a pure drift model in each region. In sum, our results showed no obvious genetic effects of habitat fragmentation due to recent (artificial) or past (natural) island formation. Rather, they highlight the importance of gene flow (most likely via seed) in maintaining genetic variation and preventing inter-population differentiation in the face of habitat ‘insularization' at different temporal and spatial scales. PMID:25515015

  19. Double photoionization of SO 2 and fragmentation spectroscopy of SO 2++ studied by a photoion-photoion coincidence method

    NASA Astrophysics Data System (ADS)

    Dujardin, Gérald; Leach, Sydney; Dutuit, Odile; Guyon, Paul-Marie; Richard-Viard, Martine

    1984-08-01

    Doubly charged sulphur dioxide cations (SO 2++) are produced by photoionization with synchrotron radiation from ACO in the excitation-energy range 34-54 eV. A new photoion-photoion coincidence (PIPICO) experiment is described in which coincidences between photoion fragments originating from the dissociation of the doubly charged parent cation are counted. This PIPICO method enables us to study the fragmentation of individual electronically excited states of SO 2++ and to determine the corresponding absolute double-photoionization partial cross sections as a function of the excitation energy. A tentative assignment of the three observed α, β and γ SO 2++ states is given. The dissociation processes of the α and β states into the products SO + + O + are found to be non-statistical in nature; the γ state dissociates completely into three atomic fragments S + + O + + O. Three main observed features of the double-photoionization cross-section curves are discussed in the text: appearance potentials, linear threshold laws, and constant double-photoionization cross sections relative to the total ionization cross section at high energies.

  20. Benzyl anion transfer in the fragmentation of N-(phenylsulfonyl)-benzeneacetamides: a gas-phase intramolecular S(N)Ar reaction.

    PubMed

    Shen, Shanshan; Chai, Yunfeng; Liu, Yaqin; Li, Chang; Pan, Yuanjiang

    2015-10-28

    In this study, we report a gas-phase benzyl anion transfer via intramolecular aromatic nucleophilic substitution (SNAr) during the course of tandem mass spectrometry of deprotonated N-(phenylsulfonyl)-benzeneacetamide. Upon collisional activation, the formation of the initial ion/neutral complex ([C6H5CH2(-)/C6H5SO2NCO]), which was generated by heterolytic cleavage of the CH2-CO bond, is proposed as the key step. Subsequently, the anionic counterpart, benzyl anion, is transferred to conduct the intra-complex SNAr reaction. After losing neutral HNCO, the intermediate gives rise to product ion B at m/z 231, whose structure is confirmed by comparing the multistage spectra with those of deprotonated 2-benzylbenzenesulfinic acid and (benzylsulfonyl)benzene. In addition, intra-complex proton transfer is also observed within the complex [C6H5CH2(-)/C6H5SO2NCO] to generate product ion C at m/z 182. The INC-mediated mechanism was corroborated by theoretical calculations, isotope experiments, breakdown curve, substituent experiments, etc. This work may provide further understanding of the physicochemical properties of the gaseous benzyl anion. PMID:26309220

  1. Identification of weakly beta-hemolytic porcine spirochetes by biochemical reactions, PCR-based restriction fragment length polymorphism analysis and species-specific PCR.

    PubMed

    Ohya, Tatsuo; Araki, Hiroshi; Sueyoshi, Masuo

    2008-08-01

    We examined the usefulness of PCR-based restriction fragment length polymorphism (PCR-RFLP) and species-specific PCR combined with a newly devised rapid biochemical test using microplates for identifying weakly beta-hemolytic intestinal spirochetes (WBHIS) isolated from pigs. WBHIS strains showing atypical biochemical characteristics were decisively identified at the species level by PCR-RFLP and species-specific PCR. Identification of WBHIS at the species level in routine diagnostic work will certainly contribute to clarifying the pathogenicity of WBHIS.

  2. Synthesis and mass spectrometry studies of branched oxime ether libraries. Mapping the substitution motif via linker stability and fragmentation pattern.

    PubMed

    Nazarpack-Kandlousy, Noureddin; Nelen, Marina I; Goral, Vasiliy; Eliseev, Alexey V

    2002-01-11

    The oxime ether chemistry has recently been used as a convenient approach to preparing potentially highly diverse combinatorial libraries. The synthetically easiest way to form the libraries is convergent, i.e., via reaction of a branched scaffold containing two or more aminooxy linker groups, with a variety of carbonyl substituents. We show here that such reactions between aldehydes and ketones of different structure with the scaffolds containing different types of aminooxy groups can lead to the formation of virtually all expected components in the model mixtures 1-3 formed from three scaffolds (7-9) and eight substituents (R(1)-R(8)). One important problem with the branched libraries is that the libraries formed from the more complex scaffolds, such as 11, contain multiple regioisomers. The results of extensive analysis of a variety of library components by mass spectrometry presented here show that the differences in the MS-MS fragmentation energies for different linkers yield regiochemical information essential for identification of individual library components. PMID:11777439

  3. Fragmentation of Allylmethylsulfide by Chemical Ionization: Dependence on Humidity and Inhibiting Role of Water

    PubMed Central

    2013-01-01

    We report on a previously unknown reaction mechanism involving water in the fragmentation reaction following chemical ionization. This result stems from a study presented here on the humidity-dependent and energy-dependent endoergic fragmentation of allyl methyl sulfide (AMS) upon protonation in a proton transfer reaction-mass spectrometer (PTR-MS). The fragmentation pathways were studied with experimental (PTR-MS) and quantum chemical methods (polarizable continuum model (PCM), microhydration, studied at the MP2/6-311+G(3df,2p)//MP2/6-31G(d,p) level of theory). We report in detail on the energy profiles, reaction mechanisms, and proton affinities (G4MP2 calculations). In the discovered reaction mechanism, water reduces the fragmentation of protonated species in chemical ionization. It does so by direct interaction with the protonated species via covalent binding (C3H5+) or via association (AMS·H+). This stabilizes intermediate complexes and thus overall increases the activation energy for fragmentation. Water thereby acts as a reusable inhibitor (anticatalyst) in chemical ionization. Moreover, according to the quantum chemical (QC) results, when water is present in abundance it has the opposite effect and enhances fragmentation. The underlying reason is a concentration-dependent change in the reaction principle from active inhibition of fragmentation to solvation, which then enhances fragmentation. This amphoteric behavior of water is found for the fragmentation of C3H5+ to C3H3+, and similarly for the fragmentation of AMS·H+ to C3H5+. The results support humidity-dependent quantification efforts for PTR-MS and chemical ionization mass spectrometry (CIMS). Moreover, the results should allow for a better understanding of ion-chemistry in the presence of water. PMID:23682687

  4. Study of Anomalous Nuclear Projectile Fragments in CR-39 Etched Track Detectors

    NASA Astrophysics Data System (ADS)

    Tincknell, Mark Leslie

    This report describes three years of experimental investigation into the phenomenon of anomalously short mean free paths (mfp's) of relativistic nuclear projectile fragments (Anomalous Projectile Fragments, or "Anomalons"). The experimental data were obtained through manual microscopic measurements of etched nuclear tracks in CR-39 plastic. There are five chapters in this report. The first introduces the subject, and extensively reviews and evaluates the experimental history of the effect. The second chapter describes the background physics and methods used. The third chapter examines in detail the statistical techniques used by almost all modern anomalon experiments. Many useful expressions are given and several mfp estimators are compared. The conventional methods are shown to have acceptably small biases. The fourth chapter discusses several experiments performed and analyzed in 1982-1983, mostly with an Ar beam exposure. These experiments found the mfp's of several primary nuclei, established that fragment nuclei are integrally charged, and confirmed the anomalon effect in a medium other than nuclear emulsion. The secondary mfp's were found to be depressed by (TURN)15% in the first 2 cm after the primary interactions, at the (TURN)95-99% confidence level (C.L.). The parameterized abundance of anomalons was (TURN)3.6%, with an anomalous mfp of (TURN)1 cm. The fifth chapter presents the results from experiments conducted in 1983-1984 with an Fe beam. A larger and more sophisticated repeat experiment obtained a weak and oddly-behaved anomalon effect, and was marginally consistent with a null result. The secondary mfp's in the 0.6 (LESSTHEQ) x (LESSTHEQ) 1.1 cm interval beyond the primary interactions were (TURN)2.5(sigma) low; all other points, including 0.1 (LESSTHEQ) x (LESSTHEQ) 0.6cm, were consistent with normal. The total mfp depression in the first cm was (TURN)10%, significant at the (TURN)90 -95% C.L. The tertiary mfp's were consistent with the secondaries

  5. Inertial confinement fusion reaction chamber and power conversion system study

    SciTech Connect

    Maya, I.; Schultz, K.R.; Battaglia, J.M.; Buksa, J.J.; Creedson, R.L.; Erlandson, O.D.; Levine, H.E.; Roelant, D.F.; Sanchez, H.W.; Schrader, S.A.

    1984-09-01

    GA Technologies has developed a conceptual ICF reactor system based on the Cascade rotating-bed reaction chamber concept. Unique features of the system design include the use of low activation SiC in a reaction chamber constructed of box-shaped tiles held together in compression by prestressing tendons to the vacuum chamber. Circulating Li/sub 2/O granules serve as the tritium breeding and energy transport material, cascading down the sides of the reaction chamber to the power conversion system. The total tritium inventory of the system is 6 kg; tritium recovery is accomplished directly from the granules via the vacuum system. A system for centrifugal throw transport of the hot Li/sub 2/O granules from the reaction chamber to the power conversion system has been developed. A number of issues were evaluated during the course of this study. These include the response of first-layer granules to the intense microexplosion surface heat flux, cost effective fabrication of Li/sub 2/O granules, tritium inventory and recovery issues, the thermodynamics of solids-flow options, vacuum versus helium-medium heat transfer, and the tradeoffs of capital cost versus efficiency for alternate heat exchange and power conversion system option. The resultant design options appear to be economically competitive, safe, and environmentally attractive.

  6. Heterogeneous reactions in a stratospheric box model: A sensitivity study

    NASA Astrophysics Data System (ADS)

    Danilin, Michael Y.; McConnell, John C.

    1994-12-01

    Recent laboratory data concerning the reactions of HCl and HOx on/in sulfuric acid aerosol (Hanson et al., 1994), N2O5 and ClONO2 hydrolysis on the frozen aerosol (Hanson and Ravishankara, 1993a) and the temperature dependence of the HNO3 absorption cross section (Burkholder et al., 1993) indicate that a reevaluation of the role of heterogeneous reactions in the chemical balance of the stratosphere is required. A chemical module prepared for a three-dimensional (3-D) global chemistry transport model (CTM) and a general circulation model (GCM) has been used to carry out a sensitivity study of the effects of heterogeneous reactions on/in the sulfate aerosol and on the polar stratospheric cloud (PSC) particles. We present here results for the latitudes 60°S, 70°S and 75°S at the 50-mbar level. Our findings indicate that (1) the new values of the HNO3 cross sections result in lower mixing ratios for NOx and make ozone more vulnerable to catalytic destruction by ClOx; (2) the effect of the heterogeneous reactions OH + HNO3(a) → H2O + NO3 and HO2 +HO2(a) → H2O2 + O2 are small in comparison with the same gas phase reactions and play a negligible role for the ozone balance; (3) the HCl reactions in the sulfuric acid aerosol at 60°S and 70°S increase the chlorine activation up to 0.53 parts per billion by volume (ppbv) and 0.72 ppbv, respectively, for liquid aerosol and up to 0.87 ppbv for frozen aerosol at 70°S for volcanic conditions and this results in considerable ozone depletion at these latitudes; (4) studying the ozone "hole" phenomenon, we have considered the different initial ratios of ClONO2/HCl, of N2O5, galactic cosmic rays (GCRs), and longer lifetimes for the PSC. We have speculated an existence of the reaction N2O5 + HCl(a) → ClNO2 + HNO3.

  7. Fragmentation function measurements at Belle

    SciTech Connect

    Seidl, Ralf; Vossen, Anselm; Leitgab, Martin; Grosse-Perdekamp, Matthias; Giordano, Francesca; Ogawa, Akio

    2011-12-14

    The precision measurement of fragmentation functions is an important requirement to study the spin structure of the nucleon. Unpolarized fragmentation functions at reasonably low scale and high fractional energy are necessary to complement the measurements mostly performed at LEP in order to obtain high enough precision for measurements at semi-inclusive DIS experiments and at RHIC. Those can be obtained from the abundant data collected with the Belle detector at the e{sup +}e{sup -} collider KEKB. In addition one can cleanly measure the transversely polarized fragmentation functions such as the Collins fragmentation function and the interference fragmentation functions. Both have been obtained with great precision at Belle.

  8. Membrane effects of N-terminal fragment of apolipoprotein A-I: a fluorescent probe study.

    PubMed

    Trusova, Valeriya; Gorbenko, Galyna; Girych, Mykhailo; Adachi, Emi; Mizuguchi, Chiharu; Sood, Rohit; Kinnunen, Paavo; Saito, Hiroyuki

    2015-03-01

    The binding of monomeric and aggregated variants of 1-83 N-terminal fragment of apolipoprotein A-I with substitution mutations G26R, G26R/W@8, G26R/W@50 and G26R/W@72 to the model lipid membranes composed of phosphatidylcholine and its mixture with cholesterol has been investigated using fluorescent probes pyrene and Laurdan. Examination of pyrene spectral behavior did not reveal any marked influence of apoA-I mutants on the hydrocarbon region of lipid bilayer. In contrast, probing the membrane effects by Laurdan revealed decrease in the probe generalized polarization in the presence of aggregated proteins. suggesting that oligomeric and fibrillar apoA-I species induce increase in hydration degree and reduction of lipid packing density in the membrane interfacial region. These findings may shed light on molecular details of amyloid cytotoxicity.

  9. Deexcitation processes in nuclear reactions: The study of hot hadronic matter. Annual progress report

    SciTech Connect

    Porile, N.T.

    1993-12-01

    The research program involved continuing analysis of Fermilab E-735, search for quark-gluon plasma (QGP) in {bar p}-p collisions; experiments on multi-fragmentation using reverse kinematics at the Bevalac; continuing study of target fragments produced in the interaction of copper with intermediate-energy heavy ions; and detector R&D for the STAR detector at RHIC.

  10. Study on astrophysical reactions using low-energy RI beams

    NASA Astrophysics Data System (ADS)

    Yamaguchi, Hidetoshi

    2009-10-01

    In recent years, low-energy RI beams can be produced in a good intensity and they have been used for studying many astrophysical reactions. One of the facilities producing low-energy RI beams is CRIB (CNS Radio-Isotope Beam separator) [1,2], an RI-beam separator of Center for Nuclear Study, University of Tokyo. Taking CRIB as an example, recent improvements on the RI-beam production and experimental results on astrophysical studies are presented. Several experimental approaches have been taken for the studies on astrophysical reactions.The feature of each method are discussed based on real measurements performed at CRIB. One is the direct method, applied for measurements of reactions such as (α,p) [3]. Another is the measurement of proton/alpha resonance scattering using the thick target method in inverse kinematics, by which we can obtain information on the resonances relevant in astrophysical reactions [4,5]. A recent fruitful result was from a measurement of proton resonance scattering using a ^7Be beam [5]. The energy level structure of ^8B, revealed by the experiment, is especially of interest as it is related with the ^7Be(p,γ) ^8B reaction, responsible for the production of ^8B neutrinos in the sun. We successfully determined parameters of resonances in ^8B below 6.7 MeV, which may affect the ^7Be(p,γ)^8B reaction rate at the solar temparature. Indirect methods, such as ANC and the Trojan Horse Method, were also used in some of the measurements.[4pt] [1] S. Kubono et al., Eur. Phys. J. A13 (2002) 217.[0pt] [2] Y. Yanagisawa et al., Nucl. Instrum. Meth. Phys. Res., Sect. A 539 (2005) 74.[0pt] [3] M. Notani et al., Nucl. Phys. A 764 (2004) 113c.[0pt] [4] T. Teranishi et al., Phys. Lett. B 650 (2007) 129.[0pt] [5] H. Yamaguchi et al., Phys. Lett. B 672 (2009) 230.

  11. Crossed-beam studies of the dynamics of radical reactions

    SciTech Connect

    Liu, K.

    1993-12-01

    The objective of this program is to characterize the detailed dynamics of elementary radical reactions and to provide a better understanding of radical reactivity in general. The radical beam is typically generated by a laser photolysis method. After colliding with the reacting molecule in a crossed-beam apparatus, the reaction product state distribution is interrogated by laser spectroscopic techniques. Several radicals of combustion significance, such as O, CH, OH, CN and NCO have been successfully generated and their collisional behavior at the state-to-state integral cross section level of detail has been studied in this manner. During the past year, the detection system has been converted from LIF to REMPI schemes, and the emphasis of this program shifted to investigate the product angular distributions. Both inelastic and reactive processes have been studied.

  12. Studies of the quenching phenomenon in delayed contact hypersensitivity reactions.

    PubMed

    Basketter, D A; Allenby, C F

    1991-09-01

    Studies in guinea pig and man have shown that eugenol can quench non-specifically contact urticarial responses, whereas limonene seems largely ineffective. In a comprehensive series of studies, there was little evidence of quenching of delayed contact hypersensitivity reactions to cinnamic aldehyde or citral, including in 'pre-quenched' material supplied by a perfume/flavour company, and in a similar mixture prepared in this laboratory, in the guinea pig model. In addition, there was no evidence of the quenching by eugenol of allergic reactions to cinnamic aldehyde in a panel of human subjects with a proven history of cinnamic-aldehyde-induced allergic contact dermatitis. Overall, the results lend little credibility to earlier literature reports of quenching phenomena in delayed contact hypersensitivity responses.

  13. Computational studies of polysiloxanes : oxidation potentials and decomposition reactions.

    SciTech Connect

    Assary, R. S.; Curtiss, L. A.; Redfern, P. C.; Zhang, Z.; Amine, K.

    2011-06-23

    Silicon-containing solvents have tremendous potential for application as electrolytes for electrical energy storage devices such as lithium-ion (air) batteries and supercapacitors. Quantum chemical methods were employed to investigate trends in oxidation potentials and decomposition reactions of a series of polysiloxanes. Various electron-donating and -withdrawing substituents can be used to tune the oxidation potential in shorter chain siloxanes but not in longer ones. Decomposition reactions of siloxanes in their oxidized states were investigated and compared against their carbon analogues. These studies suggest that the Si-O group provides added stability for siloxanes over their carbon analogues. Computational studies have also been performed for various disiloxanes and siloxanes with spacer groups to understand their thermochemical stability and oxidation potentials.

  14. A Nuclear Reaction Analysis study of fluorine uptake in flint

    SciTech Connect

    Jin, Jian-Yue; Weathers, D. L.; Picton, F.; Hughes, B. F.; Duggan, J. L.; McDaniel, F. D.; Matteson, S.

    1999-06-10

    Nuclear Reaction Analysis (NRA) using the {sup 19}F(p,{alpha}{gamma}){sup 16}O resonance reaction is a powerful method of fluorine depth profiling. We have used this method to study the fluorine uptake phenomenon in mineral flint, which could potentially develop into a method of dating archeological flint artifacts. Flint samples cut with a rock saw were immersed in aqueous fluoride solutions for different times for the uptake study. The results suggest that fluorine uptake is not a simple phenomenon, but rather a combination of several simultaneous processes. Fluorine surface adsorption appears to play an important role in developing the fluorine profiles. The surface adsorption was affected by several parameters such as pH value and fluorine concentration in the solution, among others. The problem of surface charging for the insulator materials during ion bombardment is also reported.

  15. Insight into the kinetics and thermodynamics of the hydride transfer reactions between quinones and lumiflavin: a density functional theory study.

    PubMed

    Reinhardt, Clorice R; Jaglinski, Tanner C; Kastenschmidt, Ashly M; Song, Eun H; Gross, Adam K; Krause, Alyssa J; Gollmar, Jonathan M; Meise, Kristin J; Stenerson, Zachary S; Weibel, Tyler J; Dison, Andrew; Finnegan, Mackenzie R; Griesi, Daniel S; Heltne, Michael D; Hughes, Tom G; Hunt, Connor D; Jansen, Kayla A; Xiong, Adam H; Hati, Sanchita; Bhattacharyya, Sudeep

    2016-09-01

    The kinetics and equilibrium of the hydride transfer reaction between lumiflavin and a number of substituted quinones was studied using density functional theory. The impact of electron withdrawing/donating substituents on the redox potentials of quinones was studied. In addition, the role of these substituents on the kinetics of the hydride transfer reaction with lumiflavin was investigated in detail under the transition state (TS) theory assumption. The hydride transfer reactions were found to be more favorable for an electron-withdrawing substituent. The activation barrier exhibited a quadratic relationship with the driving force of these reactions as derived under the formalism of modified Marcus theory. The present study found a significant extent of electron delocalization in the TS that is stabilized by enhanced electrostatic, polarization, and exchange interactions. Analysis of geometry, bond-orders, and energetics revealed a predominant parallel (Leffler-Hammond) effect on the TS. Closer scrutiny reveals that electron-withdrawing substituents, although located on the acceptor ring, reduce the N-H bond order of the donor fragment in the precursor complex. Carried out in the gas-phase, this is the first ever report of a theoretical study of flavin's hydride transfer reactions with quinones, providing an unfiltered view of the electronic effect on the nuclear reorganization of donor-acceptor complexes.

  16. Insight into the kinetics and thermodynamics of the hydride transfer reactions between quinones and lumiflavin: a density functional theory study.

    PubMed

    Reinhardt, Clorice R; Jaglinski, Tanner C; Kastenschmidt, Ashly M; Song, Eun H; Gross, Adam K; Krause, Alyssa J; Gollmar, Jonathan M; Meise, Kristin J; Stenerson, Zachary S; Weibel, Tyler J; Dison, Andrew; Finnegan, Mackenzie R; Griesi, Daniel S; Heltne, Michael D; Hughes, Tom G; Hunt, Connor D; Jansen, Kayla A; Xiong, Adam H; Hati, Sanchita; Bhattacharyya, Sudeep

    2016-09-01

    The kinetics and equilibrium of the hydride transfer reaction between lumiflavin and a number of substituted quinones was studied using density functional theory. The impact of electron withdrawing/donating substituents on the redox potentials of quinones was studied. In addition, the role of these substituents on the kinetics of the hydride transfer reaction with lumiflavin was investigated in detail under the transition state (TS) theory assumption. The hydride transfer reactions were found to be more favorable for an electron-withdrawing substituent. The activation barrier exhibited a quadratic relationship with the driving force of these reactions as derived under the formalism of modified Marcus theory. The present study found a significant extent of electron delocalization in the TS that is stabilized by enhanced electrostatic, polarization, and exchange interactions. Analysis of geometry, bond-orders, and energetics revealed a predominant parallel (Leffler-Hammond) effect on the TS. Closer scrutiny reveals that electron-withdrawing substituents, although located on the acceptor ring, reduce the N-H bond order of the donor fragment in the precursor complex. Carried out in the gas-phase, this is the first ever report of a theoretical study of flavin's hydride transfer reactions with quinones, providing an unfiltered view of the electronic effect on the nuclear reorganization of donor-acceptor complexes. PMID:27491848

  17. Reaction Studies with Exotic Nuclei in Storage Rings

    SciTech Connect

    Muenzenberg, Gottfried; Schrieder, Gerhard

    2000-12-31

    The first experiments to explore nuclear ground-state properties of exotic nuclei with heavy-ion storage rings have already proved the research potential of precision experiments with the new experimental technique. In this contribution the perspectives for reaction studies in storage rings with energetic exotic nuclei at internal targets and in a small electron -- heavy ion collider are addressed. The feasibility of such experiments is discussed.

  18. Condensed Matter Deuterium Cluster Target for Study of Pycnonuclear Reactions

    NASA Astrophysics Data System (ADS)

    Yang, Xiaoling; George, Miley

    2009-11-01

    Fusion reactions have two main classes: thermonuclear and the pycnonuclear. Thermonuclear fusion occurs in low density high temperature plasmas, and is very sensitive to the ion temperature due to Columbic repulsion effects. As the density increases, the Columbic potential barrier is depressed by increased electron screening, allowing fusion at lower temperatures. This type of nuclear reaction is termed a pycnonuclear fusion and is the basis for astrophysical fusion. Ichimarua [1] proposed a laboratory study of this process using explosive mechanical compression of H/D to metallic densities, which would be extremely difficult to implement. Instead, our recent research suggests that metallic-like H/D ``clusters'' can be formed in dislocation loops of thin Palladium foils through electrochemical processes. [2] If this technique is used as a laser compression target, the compressed cluster density would allow study of pycnonuclear reactions. This provides a means of studying astrophysical fusion process, and could also lead to an important non-cryogenic ICF target. [2] [4pt] [1] S. Ichimaru, H. Kitamura. Phys. Plasmas, 6, 2649 (1999) [0pt] [2] G. Miley and X. Yang, Deuterium Cluster Target for Ultra-High Density, 18TH TOFE, San Francisco, CA Sep. 28 -- Oct. 2, 2008

  19. Kinetic study of hydrated lime reaction with HCl.

    PubMed

    Yan, Rong; Chin, Terence; Liang, David Tee; Laursen, Karin; Ong, Wan Yean; Yao, Kaiwen; Tay, Joo Hwa

    2003-06-01

    Hydrochloride (HCl) is an acidic pollutant present in the flue gas of most municipal or hazardous waste incinerators. Hydrated lime (Ca(OH)2) is often used as a dry sorbent for injection in a spray reactor to remove HCI. However, due to the short residence time encountered, this control method has generally been found to have low conversion efficiencies which results in the high lime usage and generates large amount of fly ash as solid wastes. A fundamental study was carried outto investigate the kinetics of HCl-lime reaction under simulated flue gas conditions in order to better understand the process thereby providing a basis for an optimized lime usage and reduced fly ash production. The initial reaction rate and conversion of three limes were studied using a thermogravimetric analyzer by varying the gas flow rate, temperature (170-400 degrees C), and HCI concentrations (600-1200 mg/m3) as well as the associated particle size and surface area of the limes. The initial lime conversions were found to rely mostly on the residence time, while the ultimate lime conversions were strongly influenced by temperature and the reaction products. CaOHCI was found to be the primary product in most cases, while for one specific lime, CaCl2 was the ultimate conversion product after an extended time period. The true utilization of lime in flue gas cleanup is thus higher when CaOHCl is considered as the final product than those based on CaCl2 as the final product, which has been commonly used in previous studies. The initial reaction was controlled by diffusion of HCl in gas phase and the subsequent reaction by gaseous diffusion through the developing product layer. Increasing the HCI concentration raised the initial rate as well as conversion. However, overloading the lime with excessive HCI caused clogging at its surface and a drop in the ultimate conversion. Limes with smaller particle diameters and higher surface areas were found to be more reactive. The effect of gas

  20. Simulation Studies of Protein and Small Molecule Interactions and Reaction.

    PubMed

    Yang, L; Zhang, J; Che, X; Gao, Y Q

    2016-01-01

    Computational studies of protein and small molecule (protein-ligand/enzyme-substrate) interactions become more and more important in biological science and drug discovery. Computer modeling can provide molecular details of the processes such as conformational change, binding, and transportation of small molecules/proteins, which are not easily to be captured in experiments. In this chapter, we discussed simulation studies of both protein and small molecules from three aspects: conformation sampling, transportations of small molecules in enzymes, and enzymatic reactions involving small molecules. Both methodology developments and examples of simulation studies in this field were presented.

  1. Simulation Studies of Protein and Small Molecule Interactions and Reaction.

    PubMed

    Yang, L; Zhang, J; Che, X; Gao, Y Q

    2016-01-01

    Computational studies of protein and small molecule (protein-ligand/enzyme-substrate) interactions become more and more important in biological science and drug discovery. Computer modeling can provide molecular details of the processes such as conformational change, binding, and transportation of small molecules/proteins, which are not easily to be captured in experiments. In this chapter, we discussed simulation studies of both protein and small molecules from three aspects: conformation sampling, transportations of small molecules in enzymes, and enzymatic reactions involving small molecules. Both methodology developments and examples of simulation studies in this field were presented. PMID:27497167

  2. The fragmentations of [M-H]- anions derived from underivatised peptides. The side-chain loss of H2S from Cys. A joint experimental and theoretical study.

    PubMed

    Bilusich, Daniel; Brinkworth, Craig S; McAnoy, Andrew M; Bowie, John H

    2003-01-01

    Loss of H2S is the characteristic Cys side-chain fragmentation of the [M-H]- anions of Cys-containing peptides. A combination of experiment and theory suggests that this reaction is initiated from the Cys enolate anion as follows: RNH-(-)C(CH2SH)CONHR' Ø [RNHC(=CH2)CONHR' (HS-)] Ø [RNHC(=CH2)CO-HNR'-H]-+H2S. This process is facile. Calculations at the HF/6-31G(d)//AM1 level of theory indicate that the initial anion needs only > or =20.1 kcal mol(-1) of excess energy to effect loss of H2S. Loss of CH2S is a minor process, RNHCH(CH2SH)CON(-)-R' Ø RNHCH(CH2S-)CONHR' Ø RNH -CHCONHR+CH2S, requiring an excess energy of > or =50.2 kcal mol(-1). When Cys occupies the C-terminal end of a peptide, the major fragmentation from the [M-H]- species involves loss of (H2S+CO2). A deuterium-labelling study suggests that this could either be a charge-remote reaction (a process which occurs remote from and uninfluenced by the charged centre in the molecule), or an anionic reaction initiated from the C-terminal CO2- group. These processes have barriers requiring the starting material to have an excess energy of > or =79.6 (charge-remote) or > or =67.1 (anion-directed) kcal mol(-1), respectively, at the HF/6-31G(d)//AM1 level of theory. The corresponding losses of CH2O and H2O from the [M-H]- anions of Ser-containing peptides require > or =35.6 and > or =44.4 kcal mol(-1) of excess energy (calculated at the AM1 level of theory), explaining why loss of CH2O is the characteristic side-chain loss of Ser in the negative ion mode. PMID:14608618

  3. Chain-amplified photochemical fragmentation of N-alkoxypyridinium salts: proposed reaction of alkoxyl radicals with pyridine bases to give pyridinyl radicals.

    PubMed

    Shukla, Deepak; Adiga, Shashishekar P; Ahearn, Wendy G; Dinnocenzo, Joseph P; Farid, Samir

    2013-03-01

    Photoinduced electron transfer to N-alkoxypyridiniums, which leads to N–O bond cleavage and alkoxyl radical formation, is highly chain amplified in the presence of a pyridine base such as lutidine. Density functional theory calculations support a mechanism in which the alkoxyl radicals react with lutidine via proton-coupled electron transfer (PCET) to produce lutidinyl radicals (BH•). A strong electron donor, BH• is proposed to reduce another alkoxypyridinium cation, leading to chain amplification, with quantum yields approaching 200. Kinetic data and calculations support the formation of a second, stronger reducing agent: a hydrogen-bonded complex between BH• and another base molecule (BH•···B). Global fitting of the quantum yield data for the reactions of four pyridinium salts (4-phenyl and 4-cyano with N-methoxy and N-ethoxy substituents) led to a consistent set of kinetic parameters. The chain nature of the reaction allowed rate constants to be determined from steady-state kinetics and independently determined chain-termination rate constants. The rate constant of the reaction of CH3O• with lutidine to form BH•, k1, is ~6 × 10(6) M(–1) s(–1); that of CH3CH2O• is ~9 times larger. Reaction of CD3O• showed a deuterium isotope effect of ~6.5. Replacing lutidine by 3-chloropyridine, a weaker base, decreases k1 by a factor of ~400.

  4. Synthesis of long-chain polyketide fragments by reaction of 1,3-dioxy-1,3-dienes with allylsilanes: umpolung with sulfur dioxide.

    PubMed

    Turks, Māris; Fonquerne, Freddy; Vogel, Pierre

    2004-03-18

    [reaction: see text] In the presence of a Lewis or protic acid and at low temperature, 1,3-dioxy-1,3-dienes add to sulfur dioxide generating zwitterionic intermediates that can react with carbon nucleophiles such as allylsilanes. After a retro-ene elimination of SO(2), valuable polyketide precursors are obtained.

  5. Direct reaction experimental studies with beams of radioactive tin ions

    SciTech Connect

    Jones, K. L. Ayres, A.; Bey, A.; Burcher, S.; Cartegni, L.; Cerizza, G.; Ahn, S.; Allmond, J. M.; Beene, J. R.; Galindo-Uribarri, A.; Liang, J. F.; Nesaraja, C. D.; Pain, S. D.; Radford, D. C.; Schmitt, K. T.; Smith, M. S.; Stracener, D. W.; Varner, R. L.; Bardayan, D. W.; Baugher, T.; and others

    2015-10-15

    The tin chain of isotopes provides a unique region in which to investigate the evolution of single-particle structure, spreading from N = 50 at {sup 100}Sn, through 10 stable isotopes and the N = 82 shell closure at {sup 132}Sn out into the r-process path. Direct reactions performed on radioactive ion beams are sensitive spectroscopic tools for studying exotic nuclei. Here we present one experiment knocking out neutrons from tin isotopes that are already neutron deficient and two reactions that add a neutron to neutron-rich {sup 130}Sn. Both techniques rely on selective particle identification and the measurement of γ rays in coincidence with charged ions. We present the goals of the two experiments and the particle identification for the channels of interest. The final results will be presented in future publications.

  6. Direct Reaction Experimental Studies with Beams of Radioactive Tin Ions

    SciTech Connect

    Jones, K. L.; Ahn, S.H.; Allmond, James M; Ayres, A.; Bardayan, Daniel W; Baugher, T.; Bazin, D.; Beene, James R; Berryman, J. S.; Bey, A.; Bingham, C. R.; Cartegni, L.; Chae, K. Y.; Gade, A.; Galindo-Uribarri, Alfredo {nmn}; Garcia-Ruiz, R.F.; Grzywacz, Robert Kazimierz; Howard, Meredith E; Kozub, R. L.; Liang, J Felix; Manning, Brett M; Matos, M.; McDaniel, S.; Miller, D.; Nesaraja, Caroline D; O'Malley, Patrick; Padgett, S; Padilla-Rodal, Elizabeth; Pain, Steven D; Pittman, S. T.; Radford, David C; Ratkiewicz, Andrew J; Schmitt, Kyle; Smith, Michael Scott; Stracener, Daniel W; Stroberg, S.; Tostevin, Jeffrey A; Varner Jr, Robert L; Weisshaar, D.; Wimmer, K.

    2015-01-01

    The tin chain of isotopes provides a unique region in which to investigate the evolution of single-particle structure, spreading from N = 50 at Sn-100, through 10 stable isotopes and the N = 82 shell closure at Sn-132 out into the r-process path. Direct reactions performed on radioactive ion beams are sensitive spectroscopic tools for studying exotic nuclei. Here we present one experiment knocking out neutrons from tin isotopes that are already neutron deficient and two reactions that add a neutron to neutron-rich Sn-130. Both techniques rely on selective particle identification and the measurement of gamma rays in coincidence with charged ions. We present the goals of the two experiments and the particle identification for the channels of interest. The final results will be presented in future publications.

  7. Intramolecular anodic olefin coupling reactions: using competition studies to probe the mechanism of oxidative cyclization reactions.

    PubMed

    Xu, Hai-Chao; Moeller, Kevin D

    2010-04-16

    A competition experiment was designed so that the relative rates of anodic cyclization reactions under various electrolysis conditions can be determined. Reactions with ketene dithioacetal and enol ether-based substrates that use lithium methoxide as a base were shown to proceed through radical cation intermediates that were trapped by a sulfonamide anion. Results for the oxidative coupling of a vinyl sulfide with a sulfonamide anion using the same conditions were consistent with the reaction proceeding through a nitrogen-radical.

  8. Oxaliplatin complexes with carnosine and its derivatives: in vitro cytotoxicity, mass spectrometric and computational studies with a focus on complex fragmentation.

    PubMed

    Moustafa, Eslam M; Camp, Claire L; Youssef, Ahmed S; Amleh, Asma; Reid, Helen J; Sharp, Barry L; Shoeib, Tamer

    2013-11-01

    The complexation of the Pt-based anti-cancer drug oxaliplatin (OxPt) with biological ligands other than DNA is believed to be a major cellular sink for the drug reducing its therapeutic potential and acting as a potential cause of toxicity. In this paper, the very first hypothesis driven investigation of the role of the naturally abundant cytoplasmic dipeptide ligand β-alanyl-l-histidine dipeptide (carnosine) in OxPt detoxification is presented. In vitro studies on hepatocellular carcinoma HepG2 cells suggest that carnosine may inhibit the cytotoxic action of OxPt most likely through the formation of complexes that are less cytotoxic than OxPt alone. Evidence is provided to suggest that pre-exposure of HepG2 cells to elevated levels of carnosine appears to have a lasting effect on reducing the cytotoxicity of OxPt even after the removal of the externally added carnosine. This effect, however, is likely under kinetic control as its magnitude was shown not to vary significantly with the level of carnosine exposure within the concentration range used in this study. Various mass spectrometry techniques employing electrospray ionization and chip nanospray were employed to study the interaction of oxaliplatin with carnosine as well as two of its derivatives β-alanyl-N-methylhistidine (anserine) and N-acetylcarnosine (NAC). Evidence of complexation between OxPt and each of the three ligands examined is presented. Most species observed were unambiguously assigned and compared to their theoretical isotopic patterns. Common fragmentation products due to the collisionally-activated protonated complexes of each of the ligands examined with OxPt, [M + OxPt + H](+), where M = carnosine, anserine or NAC, were reported. Density functional calculations at the B3LYP/LANL2DZ level were used to obtain structural information and relative free energies of different isomers of the observed precursor [Carnosine + OxPt + H](+) both in the gas phase and in solution as well as to probe its

  9. Effect of bone fragment impact velocity on biomechanical parameters related to spinal cord injury: a finite element study.

    PubMed

    Khuyagbaatar, Batbayar; Kim, Kyungsoo; Hyuk Kim, Yoon

    2014-08-22

    Several experimental and computational studies have investigated the effect of bone fragment impact on the spinal cord during trauma. However, the effect of the impact velocity of a fragment generated by a burst fracture on the stress and strain inside the spinal cord has not been computationally investigated, even though spinal canal occlusion and peak pressure at various impact velocities were provided in experimental studies. These stresses and strains are known factors related to clinical symptoms or injuries. In this study, a fluid-structure interaction model of the spinal cord, dura mater, and cerebrospinal fluid was developed and validated. The von-Mises stress distribution in the cord, the longitudinal strain, the cord compression and cross-sectional area at the impact center, and the obliteration of the cerebrospinal fluid layer were analyzed for three pellet sizes at impact velocities ranging from 1.5m/s to 7.5m/s. The results indicate that stress in the cord was substantially elevated when the initial impact velocity of the pellet exceeded a threshold of 4.5m/s. Cord compression, reduction in cross-sectional area, and obliteration of the cerebrospinal fluid increased gradually as the velocity of the pellet increased, regardless of the size of the pellet. The present study provides insight into the mechanisms underlying spinal cord injury.

  10. Density Functional Theory and Reaction Kinetics Studies of the Water–Gas Shift Reaction on Pt–Re Catalysts

    SciTech Connect

    Carrasquillo-Flores, Ronald; Gallo, Jean Marcel R.; Hahn, Konstanze; Dumesic, James A.; Mavrikakis, Manos

    2013-11-05

    Periodic, self-consistent density functional theory calculations (DFT-GGA-PW91) on Pt(111) and Pt3Re(111) surfaces, reaction kinetics measurements, and microkinetic modeling are employed to study the mechanism of the water–gas shift (WGS) reaction over Pt and Pt–Re catalysts. The values of the reaction rates and reaction orders predicted by the model are in agreement with the ones experimentally determined; the calculated apparent activation energies are matched to within 6% of the experimental values. The primary reaction pathway is predicted to take place through adsorbed carboxyl (COOH) species, whereas formate (HCOO) is predicted to be a spectator species. We conclude that the clean Pt(111) is a good representation of the active site for the WGS reaction on Pt catalysts, whereas the active sites on the Pt–Re alloy catalyst likely contain partially oxidized metal ensembles.

  11. Characterizing fragmentation of the collective forests in southern China from multitemporal Landsat imagery: A case study from Kecheng district of Zhejiang province

    USGS Publications Warehouse

    Li, M.; Zhu, Z.; Vogelmann, J.E.; Xu, D.; Wen, W.; Liu, A.

    2011-01-01

    Tropical and subtropical forests provide important ecosystem goods and services including carbon sequestration and biodiversity conservation. These forests are facing increasing socioeconomic pressures and are rapidly being degraded and fragmented. This analysis focuses on the rate of change and patterns of fragmentation in a collective forest area in Zhejiang province, China, during the time period 1988-2005. The research consisted of two parts. The first was the development of general land cover maps and the identification of land cover changes by interpreting Landsat Thematic Mapper (TM) and Enhanced Thematic Mapper Plus (ETM+) time series imagery. The second part involved the computation and analysis of forest fragmentation metrics. For this portion of the study, fragmentation statistics were analyzed, and images were developed to depict forest fragmentation patterns and trends. Results revealed that there was a net loss of 7.8% in forest coverage, dropping from 66.8% in 1988 to 59.0% in 2005, primarily caused by agricultural expansion and poor forest management practices. An acceleration of forest fragmentation was also witnessed during the time intervals, which was evidenced by a decreasing trend in interior forest (57.2% in 1988, 55.0% in 1996 and 54.8% in 2005 respectively) coupled with the scales of the selected geospatial metrics. Continued forest loss and fragmentation are closely correlated with the existing political, educational, institutional and economic processes of contemporary China. To unlock the developmental potentials of the collective forests and to effectively mitigate the rate of forest loss and fragmentation, reforms of forest tenure and ecological immigration practices are recognized as a prospective alternative. The produced fragmentation maps further illustrates the importance of assessing landscape change history, especially the spatiotemporal patterns of forest fragments, when developing landscape level plans for biodiversity

  12. Preliminary X-ray crystallographic studies of mouse UPR responsive protein P58(IPK) TPR fragment.

    PubMed

    Tao, Jiahui; Wu, Yunkun; Ron, David; Sha, Bingdong

    2008-02-01

    Endoplasmic reticulum (ER) stress induces the unfolded protein response (UPR), which can promote protein folding and misfolded protein degradation and attenuate protein translation and protein translocation into the ER. P58(IPK) has been proposed to function as a molecular chaperone to maintain protein-folding homeostasis in the ER under normal and stressed conditions. P58(IPK) contains nine TPR motifs and a C-terminal J-domain within its primary sequence. To investigate the mechanism by which P58(IPK) functions to promote protein folding within the ER, a P58(IPK) TPR fragment without the C-terminal J-domain was crystallized. The crystals diffract to 2.5 A resolution using a synchrotron X-ray source. The crystals belong to space group P2(1), with unit-cell parameters a = 83.53, b = 92.75, c = 84.32 A, alpha = 90.00, beta = 119.36, gamma = 90.00 degrees. There are two P58(IPK) molecules in the asymmetric unit, which corresponds to a solvent content of approximately 60%. Structure determination by MAD methods is under way.

  13. A Case Study in Chemical Kinetics: The OH + CO Reaction.

    ERIC Educational Resources Information Center

    Weston, Ralph E., Jr.

    1988-01-01

    Reviews some important properties of the bimolecular reaction between the hydroxyl radical and carbon monoxide. Investigates the kinetics of the reaction, the temperature and pressure dependence of the rate constant, the state-to-state dynamics of the reaction, and the reverse reaction. (MVL)

  14. Nonequilibrium phenomena in N{sub 2}-cluster-surface collisions: A molecular-dynamics study of fragmentation, lateral jetting, and nonequilibrium energy distributions

    SciTech Connect

    Zimmermann, Steffen; Urbassek, Herbert M.

    2006-12-15

    Using molecular-dynamics simulation, we study the impact of (N{sub 2}){sub 2869} clusters on a flat rigid wall. We study the cluster fragmentation process, the formation of lateral jets, the energy redistribution among the resulting fragments, and the ratio of internal and translational energy of the emerging free molecules as a function of cluster impact energy in the range of 0.076-1520 meV/molecule. We find the fragmentation threshold energy to be in agreement with that found previously for (N{sub 2}){sub 13} clusters; the (scaled) number of fragments, however, increases more slowly with impact energy. Also the energy redistribution of the cluster impact energy among the internal and translational energy of the fragments is similar to that found for the small cluster. This means in particular that free molecules show a strong nonequilibrium energy partitioning in which the internal degrees of freedom are considerably less excited than the translational degrees of freedom. We also find that at impact energies above the fragmentation threshold the angular distribution of fragments is peaked parallel to the surface--i.e., the formation of lateral surface jets.

  15. An Ion Microprobe Study of a Unique Oldhamite-Pyroxenite Fragment from the Bustee Aubrite

    NASA Astrophysics Data System (ADS)

    Kurat, G.; Zinner, E.; Brandstatter, F.

    1992-07-01

    While it is widely believed that the minerals in aubrite breccias are of igneous origin (e.g., 1) bulk trace element abundances (e.g., 2) and the distribution of trace elements between phases (e.g., 3-5) are incompatible with an igneous genesis and strongly suggest a nebular origin (e.g., 6). Here we report trace element data on mineral phases in a unique rock fragment from the Bustee meteorite as well as with the N and Ti isotope compositions in osbornite. In the first characterization of Bustee, Story-Maskelyne (7) described a rock fragment consisting of oldhamite, enstatite, augite, and plagioclase in which he also first dicovered osbornite. The rock consists of large (2-3 mm) rounded oldhamite embedded in granular pyroxene (pictures given by 7 and 8). Osbornite is commonly included in oldhamite. Some metal (Si- and Cr-bearing) and a few grains of heideite and other rare sulfides are present. The REE abundances in selected minerals are shown in the figure. Surprisingly, all patterns are nearly flat. The oldhamite is strongly enriched in REE (see also 3-5) and has a positive Eu anomaly. Osbornite shows a slightly fractionated pattern with La>Lu and REE abundances of 0.5-9 x CI. Pyroxenes have the lowest REE contents at 0.2-0.3 x CI (pigeonite) and 0.03-0.08 x CI (enstatite). Isotopic compositions of Ti and N in osbornite and of Ca in oldhamite are indistinguishable from terrestrial. The distribution of REE beween mineral phases does not correspond to experimentally determined distribution coefficients (9). This and the primitive (not crystal-chemically controlled) REE abundances in all phases make it very likely that the minerals of the oldhamite-pyroxenite from Bustee were formed by condensation. The condensation sequence must have been osbornite-oldhamite- pigeonite-enstatite. As the first major phase to condense, oldhamite apparently scavenged most of the REE present in the gas. It must have been formed well below 1380 K (10) and from a slightly fractionated

  16. Peptide Fragmentation by Corona Discharge Induced Electrochemical Ionization

    PubMed Central

    Lloyd, John R.; Hess, Sonja

    2010-01-01

    Fundamental studies have greatly improved our understanding of electrospray, including the underlying electrochemical reactions. Generally regarded as disadvantageous, we have recently shown that corona discharge (CD) can be used as an effective method to create a radical cation species [M]+•, thus optimizing the electrochemical reactions that occur on the surface of the stainless steel (SS) electrospray capillary tip. This technique is known as CD initiated electrochemical ionization (CD-ECI). Here, we report on the fundamental studies using CD-ECI to induce analytically useful in-source fragmentation of a range of molecules that complex transition metals. Compounds that have been selectively fragmented using CD-ECI include enolate forming phenylglycine containing peptides, glycopeptides, nucleosides and phosphopeptides. Collision induced dissociation (CID) or other activation techniques were not necessary for CD-ECI fragmentation. A four step mechanism was proposed: 1. Complexation using either Fe in the SS capillary tip material or Cu(II) as an offline complexation reagent; 2. Electrochemical oxidation of the complexed metal and thus formation of a radical cation (e.g.; Fe - e− → Fe +•); 3. Radical fragmentation of the complexed compound. 4. Electrospray ionization of the fragmented neutrals. Fragmentation patterns resembling b- and y-type ions were observed and allowed the localization of the phosphorylation sites. PMID:20869880

  17. Formation and growth of oligomers: a Monte Carlo study of an amyloid tau fragment.

    PubMed

    Li, Da-Wei; Mohanty, Sandipan; Irbäck, Anders; Huo, Shuanghong

    2008-12-01

    Small oligomers formed early in the process of amyloid fibril formation may be the major toxic species in Alzheimer's disease. We investigate the early stages of amyloid aggregation for the tau fragment AcPHF6 (Ac-VQIVYK-NH2) using an implicit solvent all-atom model and extensive Monte Carlo simulations of 12, 24, and 36 chains. A variety of small metastable aggregates form and dissolve until an aggregate of a critical size and conformation arises. However, the stable oligomers, which are beta-sheet-rich and feature many hydrophobic contacts, are not always growth-ready. The simulations indicate instead that these supercritical oligomers spend a lengthy period in equilibrium in which considerable reorganization takes place accompanied by exchange of chains with the solution. Growth competence of the stable oligomers correlates with the alignment of the strands in the beta-sheets. The larger aggregates seen in our simulations are all composed of two twisted beta-sheets, packed against each other with hydrophobic side chains at the sheet-sheet interface. These beta-sandwiches show similarities with the proposed steric zipper structure for PHF6 fibrils but have a mixed parallel/antiparallel beta-strand organization as opposed to the parallel organization found in experiments on fibrils. Interestingly, we find that the fraction of parallel beta-sheet structure increases with aggregate size. We speculate that the reorganization of the beta-sheets into parallel ones is an important rate-limiting step in the formation of PHF6 fibrils.

  18. Reactions of atomic hydrogen with formic acid and carbon monoxide in solid parahydrogen II: Deuterated reaction studies.

    PubMed

    Wonderly, William R; Anderson, David T

    2014-09-11

    It is difficult to determine whether the measured rate constant for reaction of atomic hydrogen with formic acid reported in Part 1 reflects the H atom quantum diffusion rate or the rate constant for the tunneling reaction step. In Part 2 of this series, we present kinetic studies of the postphotolysis H atom reactions with deuterated formic acid (DCOOD) to address this ambiguity. Short duration 193 nm in situ photolysis of DCOOD trapped in solid parahydrogen results in partial depletion of the DCOOD precursor and photoproduction of primarily CO, CO2, DOCO, HCO and mobile H atoms. At 1.9 K we observe post-irradiation growth in the concentrations of DOCO and HCO that can be explained by H atom tunneling reactions with DCOOD and CO, respectively. Conducting experiments with different deuterium isotopomers of formic acid (DCOOD, DCOOH, HCOOD and HCOOH) provides strong circumstantial evidence the reaction involves H atom abstraction from the alkyl group of formic acid. Further, the anomalous temperature dependence measured for the H + HCOOH reaction in Part 1 is also observed for the analogous reactions with deuterated formic acid. The rate constants extracted for H atom reactions with DCOOD and HCOOH are equivalent to within experimental uncertainty. This lack of a kinetic isotope effect in the measured rate constant is interpreted as evidence the reactions are diffusion limited; the measured rate constant reflects the H atom diffusion rate and not the tunneling reaction rate. Whether or not H atom reactions with chemical species in solid parahydrogen are diffusion limited is one of the outstanding questions in this field, and this work makes significant strides toward showing the reaction kinetics with formic acid are diffusion limited.

  19. [Assessing dynamic patterns of forest fragmentation based on a landscape mosaic indicator: a case study of Oregon State, USA].

    PubMed

    Ren, Xin-Yu; Lü, Ying-Ying; Li, Ming-Shi

    2014-08-01

    Effectively assessing landscape pattern characteristics and predicting their dynamics have been a basic prerequisite for more reasonably regulating and managing forest landscape, and maintaining landscape security patterns. In this study, based on three U. S. National Land Cover Databases (1992, 2001 and 2006), the landscape mosaic indicator in combination with the Markov model was adopted to analyze forest fragmentation patterns and changes in the characteristics of spatial interactions between forests and other land use types in Oregon State, USA. The results showed that conversion from the development-dominated type D to the single development type DD in landscape mosaic model had the highest transition probability 0.319, indicating that urbanization has been the major force responsible for the change of regional landscape patterns. In the forest security model, the highest rates of forest loss occurred in agriculture and the developed landscape mosaic type (ad), showing that in the development and agriculture dominated landscapes, encroaching upon forests was at the highest likelihood. The areal percentage of forest over the total study area was less than 50% when reaching a steady-state distribution, with an accelerating rate of forest fragmentation, and the landscape spatial distribution tended to be a mixed landscape pattern. The Kappa coefficient between the simulated values and the observed values from the 2006 landscape mosaic model was estimated at 0.82, indicating this model had a high precision. However, the accuracy of the forest security model was poor, with a Kappa coefficient of 0.21.

  20. Quantum chemical study of penicillin: Reactions after acylation

    NASA Astrophysics Data System (ADS)

    Li, Rui; Feng, Dacheng; Zhu, Feng

    The density functional theory methods were used on the model molecules of penicillin to determine the possible reactions after their acylation on ?-lactamase, and the results were compared with sulbactam we have studied. The results show that, the acylated-enzyme tetrahedral intermediate can evolves with opening of ?-lactam ring as well as the thiazole ring; the thiazole ring-open products may be formed via ?-lactam ring-open product or from tetrahedral intermediate directly. Those products, in imine or enamine form, can tautomerize via hydrogen migration. In virtue of the water-assisted, their energy barriers are obviously reduced.

  1. Chemical reactions of As complexation by glutathione: an XAFS study

    NASA Astrophysics Data System (ADS)

    Franco, M. W.; Vasconcelos, I. F.; Modolo, L. V.; Barbosa, F. A. R.

    2016-05-01

    In this study, the chemical reactions between As(III) and As(V) with glutathione, which is a target compound in As biochemistry due to its primordial role in As immobilization and intracellular reduction, in various molar ratios were investigated using As K-edge XAFS spectroscopy. Results showed a gradual substitution of As-O bonds in the coordination of aqueous As(III) and As(V) for three As-S bonds in the As+GSH complex. Moreover, the data showed reduction of As(V) to As(III) prior or concomitant to the As+GSH complex formation.

  2. Full-dimensional and reduced-dimensional calculations of initial state-selected reaction probabilities studying the H + CH{sub 4} → H{sub 2} + CH{sub 3} reaction on a neural network PES

    SciTech Connect

    Welsch, Ralph Manthe, Uwe

    2015-02-14

    Initial state-selected reaction probabilities of the H + CH{sub 4} → H{sub 2} + CH{sub 3} reaction are calculated in full and reduced dimensionality on a recent neural network potential [X. Xu, J. Chen, and D. H. Zhang, Chin. J. Chem. Phys. 27, 373 (2014)]. The quantum dynamics calculation employs the quantum transition state concept and the multi-layer multi-configurational time-dependent Hartree approach and rigorously studies the reaction for vanishing total angular momentum (J = 0). The calculations investigate the accuracy of the neutral network potential and study the effect resulting from a reduced-dimensional treatment. Very good agreement is found between the present results obtained on the neural network potential and previous results obtained on a Shepard interpolated potential energy surface. The reduced-dimensional calculations only consider motion in eight degrees of freedom and retain the C{sub 3v} symmetry of the methyl fragment. Considering reaction starting from the vibrational ground state of methane, the reaction probabilities calculated in reduced dimensionality are moderately shifted in energy compared to the full-dimensional ones but otherwise agree rather well. Similar agreement is also found if reaction probabilities averaged over similar types of vibrational excitation of the methane reactant are considered. In contrast, significant differences between reduced and full-dimensional results are found for reaction probabilities starting specifically from symmetric stretching, asymmetric (f{sub 2}-symmetric) stretching, or e-symmetric bending excited states of methane.

  3. Quantum resolved studies of electron-stimulated reactions on adsorbate covered Pt(111) surfaces

    NASA Astrophysics Data System (ADS)

    Orlando, T. M.; Burns, A. R.; Stechel, E. B.; Jennison, D. R.

    1991-06-01

    Using laser resonance-enhanced ionisation spectroscopy, we have studied electron (6-350 eV) stimulated dissociation of NO 2 coadsorbed with up to 0.75 monolayer of atomic O on Pt(111). Several dramatic effects on NO 2 dissociation occur due to the presence of O. There is a large ( × 26) enhancement in the specific dissociation yield, a narrowing of the NO translational energy distributions, and a distinct propensity ( > 4:1 at low J) for populating the upper Ω = {3}/{2} NO spin-orbit level over the Ω = {1}/{2} level. The spin-orbit state distribution of the O( 3PJ) dissociation fragment is (5.0): (2.5): (1.0) for J = 2, 1 and 0, which is within experimental error of the statistical ( T → ∞) 2 J + 1 limit. The enhanced yield probably results from an increased excited state lifetime due to a reduction in substrate charge-transfer screening. We have also detected O( 3PJ = 2,1,0) andNO X2 Π {3}/{2}, {1}/{2}(v = 5) above an electron (6-350 eV) beam irradiated Pt(111) surface containing coadsorbed O 2 and NO at 90 K. We conclude that both O( 3PJ) andNO(v = 5) are laser-induced photodissociation fragments of NO 2desorbates. The NO 2 is probably the reaction product of a collision between an O atom (created by electron-stimulated dissociation of adsorbed O 2) and an NO(a). We correlate the 10 eV NO 2 production threshold with the dissociative ionization of the 3σ g molecular bonding orbital of O 2(a).

  4. A five-year study of cosmetic reactions.

    PubMed

    Adams, R M; Maibach, H I

    1985-12-01

    During 64 months (1977 to 1983), twelve dermatologists from various sections of the United States studied a total of 713 patients with cosmetic dermatitis out of an estimated total of 13,216 patients with contact dermatitis. The number of patients seen for all causes during this period was 281,100. An important finding was that half of the patients or physicians were unaware that a cosmetic was responsible for their dermatitis. Skin care products, hair preparations (including colors), and facial makeup were responsible for the majority of the reactions. The most important objective was identification of causative ingredients. Eighty-seven percent of the subjects had patch tests. Fragrance, preservatives (Quaternium-15, formaldehyde, imidazolidinyl urea, and parabens), p-phenylenediamine, and glyceryl monothioglycolate were the most frequently identified allergic sensitizers, in that order. In addition to the clinical data, the study permitted assessment of the frequency of cosmetic reactions, although the data may not be entirely representative of the country at large because of the special interests of the dermatologists involved.

  5. Photosynthetic reaction center of green sulfur bacteria studied by EPR

    SciTech Connect

    Nitschke, W.; Rutherford, A.W. ); Fieler, U. )

    1990-04-24

    Membrane preparations of two species of the green sulfur bacteria Chlorobium have been studied be EPR. Three signals were detected which were attributed to iron-sulfur centers acting as electron acceptors in the photosynthetic reaction center. (1) A signal from a center designated F{sub B}, was photoinduced at 4K. (2) A similar signal, F{sub A}, was photoinduced in addition to the F{sub B} signal upon a short period of illumination at 200 K. (3) Further illumination at 200 K resulted in the appearance of a broad feature at g=1.78. This is attributed to the g{sub x} component of an iron-sulfur center designated F{sub X}. The designations of these signals as F{sub B}, F{sub A}, and F{sub X} are based on their spectroscopic similarities to signals in photosystem I (PS I). The orientation dependence of these EPR signals in ordered Chlorobium membrane multilayers is remarkably similar to that of their PS I homologues. A magnetic interaction between the reduced forms of F{sub B} and F{sub A} occurs, which is also very similar to that seen in PS I. The triplet state of P{sub 840}, the primary electron donor, could be photoinduced at 4 K in samples which had been preincubated with sodium dithionite and methyl viologen and then preilluminated at 200 K. The preillumination reduces the iron-sulfur centers while the preincubation is thought to result in the inactivation of an earlier electron acceptor. Orientation studies of the triplet signal in ordered multilayers indicate that the bacteriochlorophylls which act as the primary electron donor in Chlorobium are arranged with a structural geometry almost identical with that of the special pair in purple bacteria. The Chlorobium reaction center appears to be similar in some respects to both PS I and to the purple bacterial reaction center. This is discussed with regard to the evolution of the different types of reaction centers from a common ancestor.

  6. First principle kinetic studies of zeolite-catalyzed methylation reactions.

    PubMed

    Van Speybroeck, Veronique; Van der Mynsbrugge, Jeroen; Vandichel, Matthias; Hemelsoet, Karen; Lesthaeghe, David; Ghysels, An; Marin, Guy B; Waroquier, Michel

    2011-02-01

    Methylations of ethene, propene, and butene by methanol over the acidic microporous H-ZSM-5 catalyst are studied by means of state of the art computational techniques, to derive Arrhenius plots and rate constants from first principles that can directly be compared with the experimental data. For these key elementary reactions in the methanol to hydrocarbons (MTH) process, direct kinetic data became available only recently [J. Catal.2005, 224, 115-123; J. Catal.2005, 234, 385-400]. At 350 °C, apparent activation energies of 103, 69, and 45 kJ/mol and rate constants of 2.6 × 10(-4), 4.5 × 10(-3), and 1.3 × 10(-2) mol/(g h mbar) for ethene, propene, and butene were derived, giving following relative ratios for methylation k(ethene)/k(propene)/k(butene) = 1:17:50. In this work, rate constants including pre-exponential factors are calculated which give very good agreement with the experimental data: apparent activation energies of 94, 62, and 37 kJ/mol for ethene, propene, and butene are found, and relative ratios of methylation k(ethene)/k(propene)/k(butene) = 1:23:763. The entropies of gas phase alkenes are underestimated in the harmonic oscillator approximation due to the occurrence of internal rotations. These low vibrational modes were substituted by manually constructed partition functions. Overall, the absolute reaction rates can be calculated with near chemical accuracy, and qualitative trends are very well reproduced. In addition, the proposed scheme is computationally very efficient and constitutes significant progress in kinetic modeling of reactions in heterogeneous catalysis.

  7. Kinetic Study of the Austempering Reactions in Ductile Irons

    NASA Astrophysics Data System (ADS)

    Pérez, M. J.; Cisneros, M. M.; Almanza, E.; Haro, S.

    2012-11-01

    Kinetics of the reaction that occur during the austempering heat treatment in unalloyed and alloyed ductile irons with 1Cu-0.25Mo, 1Ni-0.25Mo, and 0.7Cu-1Ni-0.25Mo, was studied. The austenitization and austempering cycles were achieved by isothermal dilatometry in cylindrical samples of 2 mm in diameter and 12 mm in length. The specimens were austenitized at 870 °C for 120 min, followed by isothermal holding for 300 min at temperatures between 270 and 420 °C. Kinetic parameters such as the order of reaction " n" and the rate of reaction " k" were calculated using the Johnson-Mehl equation while the empirical activation energy was calculated by means of the Arrhenius equation. It was found that the values of " k" decreased with the addition of Cu, Ni, and Mo as well as with the reduction of the isothermal temperature. The activation energy changes with the austempering temperature, in the range 30,348-58,250 J/mol when the heat treatment was carried out between 370 and 420 °C and 10,336-26,683 J/mol when the temperature varied from 270 to 350 °C. The microstructures in samples austempered at 370 and 315 °C were observed by transmission electron microscopy. No carbides precipitation was observed on samples heat treated at 370 °C for less than 120 min, while at 315 °C carbides of hexagonal structure ɛ(Fe2.4C) were found from the beginning of the transformation. The smallest value of activation energy and a slower kinetic transformation seem to be related with the presence of a carbide phase. Additionally, the time results obtained for transformation fractions of 0.05 and 0.95 by the dilatometry analysis were used to build the temperature-time-transformation diagrams for the irons.

  8. Radiation-sensitive novel polymeric resist materials: iterative synthesis and their EUV fragmentation studies.

    PubMed

    Satyanarayana, V S V; Kessler, Felipe; Singh, Vikram; Scheffer, Francine R; Weibel, Daniel E; Ghosh, Subrata; Gonsalves, Kenneth E

    2014-03-26

    Polymerization of (4-(methacryloyloxy)phenyl)dimethylsulfoniumtriflate (MAPDST), as a key monomer containing the radiation sensitive sulfonium functionality, with various other monomers such as methyl methacrylate (MMA), 4-carboxy styrene (STYCOOH), N-vinyl carbazole (NVK) in different molar ratios via free-radical polymerization method is described. This methodology led to the development of a small chemical library of six different radiation sensitive polymers for lithography applications. Fourier transform infrared (FT-IR) and nuclear magnetic resonance (NMR) spectroscopy identified the reaction products as MAPDST homopolymer and MAPDST-MMA, MAPDST-STYCOOH, MAPDST-NVK copolymers. Molecular weights were obtained from gel permeation chromatography and the decomposition temperature (Td) values were determined using thermogravimetric analysis (TGA). The effect of extreme ultraviolet (EUV) irradiation on a thin poly(MAPDST) film was investigated using monochromatic synchrotron excitation. These new polymeric materials were also exposed to electron-beam lithography (EBL) and extreme ultraviolet lithography (EUVL) to achieve 20-nm line patterns. PMID:24576018

  9. Surface studies of lithium-oxygen redox reactions over HOPG

    NASA Astrophysics Data System (ADS)

    Marchini, Florencia; Herrera, Santiago E.; Calvo, Ernesto J.; Williams, Federico J.

    2016-04-01

    The O2/Li2O2 electrode reaction has been studied on low surface area HOPG electrodes in 0.1 M LiPF6 in dimethyl sulfoxide (DMSO) electrolyte. Studies were performed using electrochemical cells coupled to a XPS spectrometer and to an AFM microscope. AFM images after electrochemical treatment at cathodic potentials exhibited 20 to 100 nm in height features, whereas anodic treatment showed a thin film of about 1 nm thickness deposited over the HOPG electrode. XPS spectra after electrochemical treatment showed surface species due to DMSO and LiPF6 decomposition. These findings indicate the high reactivity of oxygen reduction products towards the electrolyte and the solvent. The unwanted deposits formed under electrochemical operation cannot be completely eliminated from the surface even after applying high anodic potentials. This highlights the known loss of capacity of Li-air batteries, issue that must be overcome for successful applications.

  10. A Discrete Model to Study Reaction-Diffusion-Mechanics Systems

    PubMed Central

    Weise, Louis D.; Nash, Martyn P.; Panfilov, Alexander V.

    2011-01-01

    This article introduces a discrete reaction-diffusion-mechanics (dRDM) model to study the effects of deformation on reaction-diffusion (RD) processes. The dRDM framework employs a FitzHugh-Nagumo type RD model coupled to a mass-lattice model, that undergoes finite deformations. The dRDM model describes a material whose elastic properties are described by a generalized Hooke's law for finite deformations (Seth material). Numerically, the dRDM approach combines a finite difference approach for the RD equations with a Verlet integration scheme for the equations of the mass-lattice system. Using this framework results were reproduced on self-organized pacemaking activity that have been previously found with a continuous RD mechanics model. Mechanisms that determine the period of pacemakers and its dependency on the medium size are identified. Finally it is shown how the drift direction of pacemakers in RDM systems is related to the spatial distribution of deformation and curvature effects. PMID:21804911

  11. A discrete model to study reaction-diffusion-mechanics systems.

    PubMed

    Weise, Louis D; Nash, Martyn P; Panfilov, Alexander V

    2011-01-01

    This article introduces a discrete reaction-diffusion-mechanics (dRDM) model to study the effects of deformation on reaction-diffusion (RD) processes. The dRDM framework employs a FitzHugh-Nagumo type RD model coupled to a mass-lattice model, that undergoes finite deformations. The dRDM model describes a material whose elastic properties are described by a generalized Hooke's law for finite deformations (Seth material). Numerically, the dRDM approach combines a finite difference approach for the RD equations with a Verlet integration scheme for the equations of the mass-lattice system. Using this framework results were reproduced on self-organized pacemaking activity that have been previously found with a continuous RD mechanics model. Mechanisms that determine the period of pacemakers and its dependency on the medium size are identified. Finally it is shown how the drift direction of pacemakers in RDM systems is related to the spatial distribution of deformation and curvature effects.

  12. The human sunburn reaction: histologic and biochemical studies

    SciTech Connect

    Gilchrest, B.A.; Soter, N.A.; Stoff, J.S.; Mihm, M.C. Jr.

    1981-01-01

    The ultraviolet-induced erythema reaction was investigated histologically and biochemically in four subjects, utilizing suction blister aspirates, analyzed for histamine and prostaglandin E2 (PGE2), and Epon-embedded 1-mu skin biopsy sections from control skin and from irradiated skin at intervals for 72 hours after exposure to a Hanovia lamp. Major histologic alterations in the epidermis included dyskeratotic and vacuolated keratinocytes (sunburn cells), and disappearance of Langerhans cells. In the dermis the major changes were vascular, involving both the superficial and deep venular plexuses. Endothelial cell enlargement was first apparent within 30 minutes of irradiation, peaked at 24 hours, and persisted throughout the 72-hour study period. Mast cell degranulation and associated perivenular edema were first apparent at 1 hour and striking at the onset of erythema, 3 to 4 hours postirradiation; edema was absent and mast cells were again normal in number and granule content at 24 hours. Histamine levels rose approximately fourfold above control values immediately after the onset of erythema and returned to baseline within 24 hours. PGE2 levels were statistically elevated even before the onset of erythema and reached approximately 150% of the control value at 24 hours. These data provide the first evidence that histamine may mediate the early phase of the human sunburn reaction and increase our understanding of its complex histologic and biochemical sequelae.

  13. Space shuttle orbiter reaction control system jet interaction study

    NASA Technical Reports Server (NTRS)

    Rausch, J. R.

    1975-01-01

    The space shuttle orbiter has forward mounted and rear mounted Reaction Control Systems (RCS) which are used for orbital maneuvering and also provide control during entry and abort maneuvers in the atmosphere. The effects of interaction between the RCS jets and the flow over the vehicle in the atmosphere are studied. Test data obtained in the NASA Langley Research Center 31 inch continuous flow hypersonic tunnel at a nominal Mach number of 10.3 is analyzed. The data were obtained with a 0.01 scale force model with aft mounted RCS nozzles mounted on the sting off of the force model balance. The plume simulations were accomplished primarily using air in a cold gas simulation through scaled nozzles, however, various cold gas mixtures of Helium and Argon were also tested. The effect of number of nozzles was tested as were limited tests of combined controls. The data show that RCS nozzle exit momentum ratio is the primary correlating parameter for effects where the plume impinges on an adjacent surface and mass flow ratio is the parameter where the plume interaction is primarily with the external stream. An analytic model of aft mounted RCS units was developed in which the total reaction control moments are the sum of thrust, impingement, interaction, and cross-coupling terms.

  14. A study of the Sabatier-methanation reaction kinetics

    NASA Technical Reports Server (NTRS)

    Verostko, C. E.; Forsythe, R. K.

    1974-01-01

    The kinetics of the Sabatier methanation reaction, the reduction of carbon dioxide with hydrogen to methane and water, was investigated for 58 percent nickel on kieselguhr catalyst and 20 percent ruthenium on alumina catalyst. Differential rate data from an experimental program were correlated with a power function rate equation both for forward and reverse reactions. The kinetic parameters of activation energy, frequency rate constant and reaction order were determined for the rate equation. The values of these parameters were obtained from an Arrhenius plot of the experimental differential rate data. Also the carbon monoxide side reaction effect was measured and included in the correlation of parameters. The reaction was found to fit the rate equation experimentally within the temperature range 421 K, where the reaction effectively begins, the 800 K where the reaction rate drops and departs from the rate equation form.

  15. Fission fragment driven neutron source

    DOEpatents

    Miller, Lowell G.; Young, Robert C.; Brugger, Robert M.

    1976-01-01

    Fissionable uranium formed into a foil is bombarded with thermal neutrons in the presence of deuterium-tritium gas. The resulting fission fragments impart energy to accelerate deuterium and tritium particles which in turn provide approximately 14 MeV neutrons by the reactions t(d,n).sup.4 He and d(t,n).sup.4 He.

  16. A Study of Primary Collision Dynamics in Inverse-Kinematics Reaction of 78Kr on 40Ca at a Bombarding Energy of 10 MeV per Nucleon

    NASA Astrophysics Data System (ADS)

    Henry, Eric M.

    The CHIMERA multi-detector array at LNS Catania has been used to study the inverse-kinematics reaction of 78Kr + 40Ca at a bombarding energy of 10 A MeV. The multi-detector is capable of detecting individual products of the collision essential for the reconstruction of the collision dynamics. This is the first time CHIMERA has been used at low-energy, which offered a unique challenge for the calibration and interpretation of experimental data. Initial interrogation of the calibrated data revealed a class of selected events characterized by two coincident heavy fragments (atomic number Z>3) that together account for the majority of the total mass of the colliding system. These events are consistent with the complete fusion and subsequent binary split (fission) of a composite nucleus. The observed fission fragments are characterized by a broad A, Z distribution and are centered about symmetric fission while exhibiting relative velocities significantly higher than given by Viola systematics. Additional analysis of the kinematic relationship between the fission fragments was performed. Of note, is that the center-of-mass angular distribution (dsigma/dtheta) of the fission fragments exhibits an unexpected anisotropy inconsistent with a compound-nucleus reaction. This anisotropy is indicative of a dynamic fusion/fission-like process. The observed angular distribution features a forward-backward anisotropy most prevalent for mass-asymmetric events. Furthermore, the more massive fragment of mass-asymmetric events appears to emerge preferentially in the forward direction, along the beam axis. Analysis of the angular distribution of alpha particles emitted from these fission fragments suggests the events are associated mostly with central collisions. The observations associated with this subset of events are similar to those reported for dynamic fragmentation of projectile-like fragments, but have not before been observed for a fusion/fission-like process. Comparisons to

  17. [Reaction mechanism studies of heavy ion induced nuclear reactions]. [Dept. of Chemistry and Biochemistry, Univ. of Maryland, College Park, Maryland

    SciTech Connect

    Mignerey, A.C.

    1993-02-01

    Completed work is summarized on the topics of excitation energy division in deep-inelastic reactions and the onset of multifragmentation in La-induced reactions at E/A = 45 MeV. Magnetic fields are being calculated for the PHOBOS detector system, a two-arm multiparticle spectrometer for studying low-transverse-momentum particles produced at the Relativistic Heavy Ion Collider. The Maryland Forward Array is being developed for detection of the reaction products from very peripheral collisions; it consists of two individual units of detectors: the annular silicon detector in front and the plastic phoswich detector at back.

  18. Fine fragmentation distribution from structural reactive material casings under explosive loading

    NASA Astrophysics Data System (ADS)

    Wilson, William; Zhang, Fan; Kim, Kibong

    2015-06-01

    Structural reactive material (SRM) can be used for explosive casings to provide additional blast energy. SRM fragments can react either promptly or after impact with nearby structure. Better understanding of fine fragment distributions from SRM casings is important for optimization of initiation and reaction of the SRM fragments. Key to this is knowledge of the initial fragmentation character before it has been altered by early reaction or by subsequent impact with surrounding structure. The study must be conducted beyond critical charge diameter to minimize effects of the expansion wave on fragment sizes. The collection and analysis of fragment distribution down to 40 micron size from thick SRM casings are therefore investigated in a 1.18 m diameter, 2.1 m3 closed cylindrical chamber filled with artificially-made pure snow packed to density 0.35 g/cm3. The snow quenches early reaction of SRM fragments and soft-catches the fragments before impact with the chamber walls. A 100 g cylindrical C-4 explosive charge is used, packed in a 3.3 cm inner diameter SRM casing, with length-to-diameter ratio of L/d = 2, and casing-to-explosive mass ratio of M/C = 1.75. Three types of SRM are investigated, including a baseline of Aluminum 6061 for comparison. The cased charge is suspended in an argon filled cavity, 20 cm in diameter and 40 cm long, within the snow filed chamber.

  19. Accurate Position Calibrations for Charged Fragments

    NASA Astrophysics Data System (ADS)

    Russell, Autumn; Finck, Joseph E.; Spyrou, Artemis; Thoennessen, Michael

    2009-10-01

    The Modular Neutron Array (MoNA), located at the National Superconducting Laboratory at Michigan State University, is used in conjunction with the MSU/FSU Sweeper Magnet to study the breakup of neutron-rich nuclei. Fragmentation reactions create particle-unstable nuclei near the neutron dripline which spontaneously break up by the decay of one or two neutrons with energies that reflect the nuclear structure of unbound excited and ground states. The neutrons continue forward into MoNA where their position and time of flight are recorded, and the charged fragments' position and energy are measured by an array of detectors following the Sweeper Magnet. In such experiments the identification of the fragment of interest is done through energy loss and time-of-flight measurements using plastic scintillators. The emitted angles of the fragments are determined with the use of CRDCs. The purpose of the present work was the calibration of the CRDCs in the X and Y axis (where Z is the beam axis) using specially designed masks. This calibration was also used for the correction of the signal of the plastic scintillators, which is position dependent. The results of this work are used for the determination of the ground state of the neutron-unbound ^24N.

  20. Evaluation of a PCR-restriction fragment length polymorphism (PCR-RFLP) assay for molecular epidemiological study of Shiga toxin-producing Escherichia coli.

    PubMed

    Sugimoto, Norihiko; Shima, Kensuke; Hinenoya, Atsushi; Asakura, Masahiro; Matsuhisa, Akio; Watanabe, Haruo; Yamasaki, Shinji

    2011-07-01

    In this study, we have evaluated our recently developed polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) assay for the molecular subtyping of Shiga toxin-producing Escherichia coli (STEC). A total of 200 STEC strains including O157 (n=100), O26 (n=50), O111 (n=10), and non-O26/O111/O157 (n=40) serogroups isolated during 2005-2006 in Japan, which were identified to be clonally different by pulsed-field gel electrophoresis (PFGE) were further analyzed by the PCR-RFLP assay in comparison to PFGE. Ninety-five of O157, 48 of O26, five of O111 and 19 of non-O26/O111/O157 STEC strains yielded one to three amplicons ranging from 6.0 to 15.5 kb in size by the specific primer set targeting region V which is located in the upstream of stx genes. These strains were classified into 41 (O157), 8 (O26), 4 (O111) and 17 (non-O26/O111/O157) groups based on the RFLP patterns obtained by subsequent restriction digestion, respectively. Although the discriminatory power of PCR-RFLP assay was somewhat less than that of PFGE, it is more convenient for molecular subtyping of STEC strains especially for O157, the most important serogroup implicated in human diseases, as well as to identify the outbreak-associated isolates because of its simplicity, rapidity, ease and good reproducibility.

  1. Study on the performance of polycarboxylate-based superplasticizers synthesized by reversible addition-fragmentation chain transfer (RAFT) polymerization

    NASA Astrophysics Data System (ADS)

    Yu, Binbin; Zeng, Zhong; Ren, Qinyu; Chen, Yang; Liang, Mei; Zou, Huawei

    2016-09-01

    A series of block type polycarboxylate-based superplasticizers (PCs) with different molecular architectures were synthesized with macromonomer butenyl alkylene polyoxyethylene-polyoxypropylene ether (BAPP) and acrylic acid (AA) by reversible addition-fragmentation chain transfer (RAFT) polymerization. Fourier-Transformed Infrared (FTIR) Spectroscopy and dynamic light scattering (DLS) were applied to investigate the PCs' molecular structure. The dispersion capacity of the PCs in cement were also measured, and the results showed that the polycarboxylic dispersing agents prepared by this method were suitable for portlant cement. It was found that the PCs could affect the hydration process, which was performed through retarding the generation of ettringite in the hydrated product. Our studies with X-ray diffraction (XRD), scanning electron microscopy (SEM) and compressive strength measurement of hydrated production were all supporting this conclusion.

  2. Computational Chemistry in the Undergraduate Laboratory: A Mechanistic Study of the Wittig Reaction

    ERIC Educational Resources Information Center

    Albrecht, Birgit

    2014-01-01

    The Wittig reaction is one of the most useful reactions in organic chemistry. Despite its prominence early in the organic chemistry curriculum, the exact mechanism of this reaction is still under debate, and this controversy is often neglected in the classroom. Introducing a simple computational study of the Wittig reaction illustrates the…

  3. MCNP6 Simulation of Light and Medium Nuclei Fragmentation at Intermediate Energies

    SciTech Connect

    Mashnik, Stepan Georgievich; Kerby, Leslie Marie

    2015-08-24

    Fragmentation reactions induced on light and medium nuclei by protons and light nuclei of energies around 1 GeV/nucleon and below are studied with the Los Alamos transport code MCNP6 and with its CEM03.03 and LAQGSM03.03 event generators. CEM and LAQGSM assume that intermediate-energy fragmentation reactions on light nuclei occur generally in two stages. The first stage is the intranuclear cascade (INC), followed by the second, Fermi breakup disintegration of light excited residual nuclei produced after the INC. CEM and LAQGSM account also for coalescence of light fragments (complex particles) up to sup>4He from energetic nucleons emitted during INC. We investigate the validity and performance of MCNP6, CEM, and LAQGSM in simulating fragmentation reactions at intermediate energies and discuss possible ways of further improving these codes.

  4. MCNP6 simulation of light and medium nuclei fragmentation at intermediate energies

    NASA Astrophysics Data System (ADS)

    Mashnik, Stepan G.; Kerby, Leslie M.

    2016-05-01

    Fragmentation reactions induced on light and medium nuclei by protons and light nuclei of energies around 1 GeV/nucleon and below are studied with the Los Alamos transport code MCNP6 and with its CEM03.03 and LAQGSM03.03 event generators. CEM and LAQGSM assume that intermediate-energy fragmentation reactions on light nuclei occur generally in two stages. The first stage is the intranuclear cascade (INC), followed by the second, Fermi breakup disintegration of light excited residual nuclei produced after the INC. CEM and LAQGSM account also for coalescence of light fragments (complex particles) up to 4He from energetic nucleons emitted during INC. We investigate the validity and performance of MCNP6, CEM, and LAQGSM in simulating fragmentation reactions at intermediate energies and discuss possible ways of further improving these codes.

  5. Reaction between Chromium(III) and EDTA Ions: an Overlooked Mechanism of Case Study Reaction of Chemical Kinetics.

    PubMed

    Cerar, Janez

    2015-01-01

    Widely cited and accepted explanation of reaction mechanism of the case study reaction of chemical kinetics between Cr(III) ions and ethylenediaminetetraacetic acid (EDTA) contradicts modern chromium(III) coordination chemistry data. Absorption UV and visible light spectra were recorded during the reaction between aqueous solution of Cr(NO(3))(3) and EDTA in order to obtain new information about this reaction. Analysis of the spectra showed that only very small fraction of intermediates may be present in solution during the course of the reaction. The reaction scheme was established and according to it calculations based on a simplified model were carried out. Literature data for constants were used if known, otherwise, adjusted values of their sound estimates were applied. Reasonable agreement of the model calculations with the experimental data was obtained for pH values 3.8 and 4.5 but the model failed to reproduce measured rate of reaction at pH 5.5, probably due to the use of the oversimplified model. PMID:26454587

  6. Reaction between Chromium(III) and EDTA Ions: an Overlooked Mechanism of Case Study Reaction of Chemical Kinetics.

    PubMed

    Cerar, Janez

    2015-01-01

    Widely cited and accepted explanation of reaction mechanism of the case study reaction of chemical kinetics between Cr(III) ions and ethylenediaminetetraacetic acid (EDTA) contradicts modern chromium(III) coordination chemistry data. Absorption UV and visible light spectra were recorded during the reaction between aqueous solution of Cr(NO(3))(3) and EDTA in order to obtain new information about this reaction. Analysis of the spectra showed that only very small fraction of intermediates may be present in solution during the course of the reaction. The reaction scheme was established and according to it calculations based on a simplified model were carried out. Literature data for constants were used if known, otherwise, adjusted values of their sound estimates were applied. Reasonable agreement of the model calculations with the experimental data was obtained for pH values 3.8 and 4.5 but the model failed to reproduce measured rate of reaction at pH 5.5, probably due to the use of the oversimplified model.

  7. a Study of 97Mo from the (t, p) Reaction

    NASA Astrophysics Data System (ADS)

    Rahman, M. A.; Chowdhury, M. S.

    The 97Mo nucleus has been studied with the reaction 95Mo (t, p) 97Mo using a multichannel magnetic spectrograph. The isotopically enriched thin target 95Mo was bombarded with the 12 MeV triton beam obtained from the tandem Van de Graaff accelerator at the Atomic Weapon Research Establishment, Aldermaston. Proton spectra are obtained at 12 different angles from 5° to 87.5° at an interval of 7.5° and are detected in nuclear emulsion plates. Forty-eight levels in the energy range from 0.000 to 3.189 MeV have been observed. Absolute differential cross-sections for these levels have been measured. The angular distributions are compared with the theoretical distorted-wave Born approximation calculations to determine L and Jπ values. The nuclear properties of 97Mo are compared with previous experimental results and model predictions.

  8. Kinetic study of the reactions between chloramine disinfectants and hydrogen peroxide: temperature dependence and reaction mechanism.

    PubMed

    McKay, Garrett; Sjelin, Brittney; Chagnon, Matthew; Ishida, Kenneth P; Mezyk, Stephen P

    2013-09-01

    The temperature-dependent kinetics for the reaction between hydrogen peroxide and chloramine water disinfectants (NH2Cl, NHCl2, and NCl3) have been determined using stopped flow-UV/Vis spectrophotometry. Rate constants for the mono- and dichloramine-peroxide reaction were on the order of 10(-2)M(-1)s(-1) and 10(-5)M(-1)s(-1), respectively. The reaction of trichloramine with peroxide was negligibly slow compared to its thermal and photolytically-induced decomposition. Arrhenius expressions of ln(kH2O2-NH2Cl)=(17.3±1.5)-(51500±3700)/RT and ln(kH2O2-NHCl2)=(18.2±1.9)-(75800±5100)/RT were obtained for the mono- and dichloramine peroxide reaction over the temperature ranges 11.4-37.9 and 35.0-55.0°C, respectively. Both monochloramine and hydrogen peroxide were first-order in the rate-limiting kinetic step and concomitant measurements made using a chloride ion selective electrode showed that the chloride was produced quantitatively. These data will aid water utilities in predicting chloramine concentrations (and thus disinfection potential) throughout the water distribution system.

  9. Ortho-hydroxyl effect and proton transfer via ion-neutral complex: the fragmentation study of protonated imine resveratrol analogues in mass spectrometry.

    PubMed

    Yue, Lei; Li, Jing; Xie, Xiaodong; Guo, Cheng; Yin, Xinchi; Yin, Qi; Chen, Yinjuan; Pan, Yuanjiang; Ding, Chuanfan

    2016-07-01

    The fragmentation pathways of protonated imine resveratrol analogues in the gas-phase were investigated by electrospray ionization-tandem mass spectrometry. Benzyl cations were formed in the imine resveratrol analogues that had an ortho-hydroxyl group on the benzene ring A. The specific elimination of the quinomethane neutral, CH2  = C6 H4  = O, from the two isomeric ions [M1 + H](+) and [M3 + H](+) via the corresponding ion-neutral complexes was observed. The fragmentation pathway for the related meta-isomer, ion [M2 + H](+) and the other congeners was not observed. Accurate mass measurements and additional experiments carried out with a chlorinated analogue and the trideuterated isotopolog of M1 supported the overall interpretation of the fragmentation phenomena observed. It is very helpful for understanding the intriguing roles of ortho-hydroxyl effect and ion-neutral complexes in fragmentation reactions and enriching the knowledge of the gas-phase chemistry of the benzyl cation. Copyright © 2016 John Wiley & Sons, Ltd. PMID:27434810

  10. MCNP6 fragmentation of light nuclei at intermediate energies

    NASA Astrophysics Data System (ADS)

    Mashnik, Stepan G.; Kerby, Leslie M.

    2014-11-01

    Fragmentation reactions induced on light target nuclei by protons and light nuclei of energies around 1 GeV/nucleon and below are studied with the latest Los Alamos Monte Carlo transport code MCNP6 and with its cascade-exciton model (CEM) and Los Alamos version of the quark-gluon string model (LAQGSM) event generators, version 03.03, used as stand-alone codes. Such reactions are involved in different applications, like cosmic-ray-induced single event upsets (SEU's), radiation protection, and cancer therapy with proton and ion beams, among others; therefore, it is important that MCNP6 simulates them as well as possible. CEM and LAQGSM assume that intermediate-energy fragmentation reactions on light nuclei occur generally in two stages. The first stage is the intranuclear cascade (INC), followed by the second, Fermi breakup disintegration of light excited residual nuclei produced after the INC. Both CEM and LAQGSM account also for coalescence of light fragments (complex particles) up to 4He from energetic nucleons emitted during INC. We investigate the validity and performance of MCNP6, CEM, and LAQGSM in simulating fragmentation reactions at intermediate energies and discuss possible ways of further improving these codes.

  11. Study of Exotic Nuclear Structures via Total Reaction Cross Sections

    NASA Astrophysics Data System (ADS)

    Takechi, Maya

    2009-10-01

    Nuclear radius is one of the most basic physical quantities to study unknown exotic nuclei. A number of radii for unstable nuclei were studied through measurements of interaction cross sections (σI) at high energies, using the Glauber-type calculation (Optical-Limit approximation (OLA) of Glauber theory) to investigate halo and skin structures of exotic nuclei. On the other hand, it was indicated that reaction cross sections (σR) at intermediate energies (from several tens to hundreds of MeV/nucleon) were more sensitive to dilute nucleon density distribution owing to large nucleon-nucleon total cross sections (σNN) compared to high-energy region. Recently, we developed a new method to deduce nucleon density distributions from the energy dependences of σ R, through the precise measurements of σ R for various nuclei and some modifications of Glauber-type calculation. Using this method, we studied nucleon density distributions of light nuclei by measuring σ R for those nuclei at HIMAC (Heavy ion Medical Accelerator in CHIBA), NIRS (National Institute of Radiological Sciences). And very recently, we deduced nuclear radii of neutron-rich Ne isotopes (^28-32Ne) which are in the island-of-inversion region by measuring σI using BigRIPS at RIBF (RI Beam Factory) to study nuclear structures of those isotopes using our method. In this workshop, results of nucleon density distributions obtained at HIMAC and results of the studies of Ne isotopes at RIBF will be introduced and discussed.

  12. Specific Conjugation of the Hinge Region for Homogeneous Preparation of Antibody Fragment-Drug Conjugate: A Case Study for Doxorubicin-PEG-anti-CD20 Fab' Synthesis.

    PubMed

    Zhou, Zhan; Zhang, Jing; Zhang, Yan; Ma, Guanghui; Su, Zhiguo

    2016-01-20

    Conventional preparation strategies for antibody-drug conjugates (ADCs) result in heterogeneous products with various molecular sizes and species. In this study, we developed a homogeneous preparation strategy by site-specific conjugation of the anticancer drug with an antibody fragment. The model drug doxorubicin (DOX) was coupled to the Fab' fragment of anti-CD20 IgG at its permissive sites through a heterotelechelic PEG linker, generating an antibody fragment-drug conjugate (AFDC). Anti-CD20 IgG was digested and reduced specifically with β-mercaptoethylamine to generate the Fab' fragment with two free mercapto groups in its hinge region. Meanwhile, DOX was conjugated with α-succinimidylsuccinate ω-maleimide polyethylene glycol (NHS-PEG-MAL) to form MAL-PEG-DOX, which was subsequently linked to the free mercapto containing Fab' fragment to form a Fab'-PEG-DOX conjugate. The dual site-specific bioconjugation was achieved through the combination of highly selective reduction of IgG and introduction of heterotelechelic PEG linker. The resulting AFDC provides an utterly homogeneous product, with a definite ratio of one fragment to two drugs. Laser confocal microscopy and cell ELISA revealed that the AFDC could accumulate in the antigen-positive Daudi tumor cell. In addition, the Fab'-PEG-DOX retained appreciable targeting ability and improved antitumor activity, demonstrating an excellent therapeutic effect on the lymphoma mice model for better cure rate and significantly reduced side effects.

  13. Study of cluster structures in 10Be and 16C neutron-rich nuclei via break-up reactions

    NASA Astrophysics Data System (ADS)

    Dell'Aquila, D.; Acosta, L.; Amorini, F.; Andolina, R.; Auditore, L.; Berceanu, I.; Cardella, G.; Chatterjiee, M. B.; De Filippo, E.; Francalanza, L.; Gnoffo, B.; Grzeszczuk, A.; Lanzalone, G.; Lombardo, I.; Martorana, N.; Minniti, T.; Pagano, A.; Pagano, E. V.; Papa, M.; Pirrone, S.; Politi, G.; Pop, A.; Porto, F.; Quattrocchi, L.; Rizzo, F.; Rosato, E.; Russotto, P.; Trifirò, A.; Trimarchi, M.; Verde, G.; Vigilante, M.

    2016-05-01

    Projectile break-up reactions induced on polyethylene (CH2) target are used in order to study the spectroscopy of 10Be and 16C nuclei. For the present experiment we used 10Be and 16C beams delivered by the FRIBs facility at INFN-LNS, and the CHIMERA 4π multi-detector. 10Be and 16C structures are studied via a relative energy analysis of break-up fragments. The 4He+6He break-up channel allowed us to study the spectroscopy of 10Be; in particular we find evidence of a new state in 10Be at 13.5 MeV excitation energy. The 16C nucleus is studied via 6He-10Be correlation; we find the fingerprint of a possible state at about 20.6 MeV

  14. Comparison of T{sub z} = +-1->0 GT Transitions Studied in beta--decay and CE Reactions

    SciTech Connect

    Molina, F.; Rubio, B.; Fujita, Y.; Gelletly, W.

    2010-04-26

    Gamow-Teller (GT) transitions can be studied in both beta- decay and charge exchange(CE) reactions. If isospin is a good quantum number, then the T{sub z} = -1->0 and T{sub z} = +1->0 GT mirror transitions, are identical. Therefore, a comparison of the results from studies of beta decay and CE should shed light on this assumption. Accordingly we have studied the beta decay of the T{sub z} = -1 fp-shell nuclei, {sup 54}Ni, {sup 50}Fe, {sup 46}Cr, and {sup 42}Ti, produced in fragmentation and we have compared our results with the spectra from (3He, t) measurements on the mirror T{sub z} = +1 target nuclei studied in high resolution at RCNP, Osaka. The experiments were performed as part of the STOPPED beam RISING campaign at GSI.

  15. Direct Reactions for Nuclear Structure and Nuclear Astrophysics

    SciTech Connect

    Jones, Katherine Louise

    2014-12-18

    Direct reactions are powerful probes for studying the atomic nucleus. Modern direct reaction studies are illuminating both the fundamental nature of the nucleus and its role in nucleosynthetic processes occurring in the cosmos. This report covers experiments using knockout reactions on neutron-deficient fragmentation beams, transfer reactions on fission fragment beams, and theoretical sensitivity studies relating to the astrophysical r-process. Results from experiments on 108,106Sn at the NSCL, and on 131Sn at HRIBF are presented as well as the results from the nucleosynthesis study.

  16. Characterization of the isolated 20 kDa and 50 kDa fragments of the myosin head.

    PubMed

    Muhlrad, A; Kasprzak, A A; Ue, K; Ajtai, K; Burghardt, T P

    1986-01-30

    We have isolated two proteolytic fragments of subfragment 1 (S-1) of myosin from rabbit skeletal muscle. These fragments, identified by their molecular weights of 20 and 50 kDa, may be functional domains that, when isolated, retain their specific function. We have studied several structural and functional features of the 20 and 50 kDa fragments. Considerable secondary structure in both fragments has been observed in CD spectrum studies. Previously CD spectra showed 64% ordered structure for the 20 kDa fragment (Muhlrad and Morales, M.F. (1984) Proc. Natl. Acad. Sci. 81, 1003) and here we show 71% ordered structures for the 50 kDa fragment. Fluorescence lifetime studies of tryptophan residues in the 50 kDa fragment and 1,5-IAEDANS-labeled SH-1 in the 20 kDa fragment are used to investigate the tertiary structure of the fragments. We find the tertiary structure relating to this measurement of both fragments to be intact; however, the reaction of 1,5-IAEDANS with SH-1 on the isolated 20 kDa fragment is less specific than with S-1. Furthermore, the fragments showed a tendency to aggregate. The domain concept of S-1 was supported by the characteristic biochemical function of the isolated fragments. Both of the fragments were effective in competing with S-1 for binding to actin in acto-S-1 ATPase measurements. From these studies and in direct binding measurement the 20 kDa fragment proved to bind with higher affinity to actin than did the 50 kDa fragment.

  17. Study of the pd→pdη reaction

    NASA Astrophysics Data System (ADS)

    Upadhyay, N. J.; Khemchandani, K. P.; Jain, B. K.; Kelkar, N. G.

    2007-05-01

    A study of the pd→pdη reaction in the energy range where the recent data from Uppsala are available is done in the two-step model of η production including the final state interaction. The η-d final state interaction is incorporated through the solution of the Lippmann Schwinger equation using an elastic scattering matrix element, Tηd→ηd, which is required to be half off-shell. It is written in a factorized form, with an off-shell form factor multiplying an on-shell part given by an effective range expansion up to the fourth power in momentum. The parameters of this expansion have been taken from an existing recent relativistic Faddeev equation solution for the ηNN system corresponding to different η-N scattering amplitudes. Calculations have also been done using few body equations within a finite rank approximation to generate Tηd→ηd. The p-d final state interaction is included in the spirit of the Watson-Migdal prescription by multiplying the matrix element by the inverse of the Jost function. The η-d interaction is found to be dominant in the region of small invariant η-d mass, Mηd. The p-d interaction enhances the cross section in the whole region of Mηd, but is larger for large Mηd. We find nearly isotropic angular distributions of the proton and the deuteron in the final state. All the above observations are in agreement with the data. The production mechanism for the entire range of the existing data on the pd→pdη reaction seems to be dominated by the two-step model of η production.

  18. Modeling study on the cleavage step of the self-splicing reaction in group I introns

    NASA Technical Reports Server (NTRS)

    Setlik, R. F.; Garduno-Juarez, R.; Manchester, J. I.; Shibata, M.; Ornstein, R. L.; Rein, R.

    1993-01-01

    A three-dimensional model of the Tetrahymena thermophila group I intron is used to further explore the catalytic mechanism of the transphosphorylation reaction of the cleavage step. Based on the coordinates of the catalytic core model proposed by Michel and Westhof (Michel, F., Westhof, E. J. Mol. Biol. 216, 585-610 (1990)), we first converted their ligation step model into a model of the cleavage step by the substitution of several bases and the removal of helix P9. Next, an attempt to place a trigonal bipyramidal transition state model in the active site revealed that this modified model for the cleavage step could not accommodate the transition state due to insufficient space. A lowering of P1 helix relative to surrounding helices provided the additional space required. Simultaneously, it provided a better starting geometry to model the molecular contacts proposed by Pyle et al. (Pyle, A. M., Murphy, F. L., Cech, T. R. Nature 358, 123-128. (1992)), based on mutational studies involving the J8/7 segment. Two hydrated Mg2+ complexes were placed in the active site of the ribozyme model, using the crystal structure of the functionally similar Klenow fragment (Beese, L.S., Steitz, T.A. EMBO J. 10, 25-33 (1991)) as a guide. The presence of two metal ions in the active site of the intron differs from previous models, which incorporate one metal ion in the catalytic site to fulfill the postulated roles of Mg2+ in catalysis. The reaction profile is simulated based on a trigonal bipyramidal transition state, and the role of the hydrated Mg2+ complexes in catalysis is further explored using molecular orbital calculations.

  19. Effects of Fenton Reaction on Human Serum Albumin: An In Vitro Study

    PubMed Central

    Khosravifarsani, Meysam; Monfared, Ali Shabestani; Pouramir, Mahdi; Zabihi, Ebrahim

    2016-01-01

    Introduction Human serum albumin (HSA) is a critical protein in human blood plasma, which can be highly damaged by oxidative stress. The aim of this study was to analyze modifications of this protein after oxidation using a Fenton system. Methods In this 2015 experiment, different ratios of Fenton reagent (Fe2+/H2O2) was incubated with one concentration of human serum albumin (1mg/ml). Hence, HSA was incubated 30 min with various combinations of a Fenton system and quantified oxidation products such as carbonyl groups, fragmentations, degradations, and oxidized free thiol group using reliable techniques. Image and data analysis were carried out using ImageJ software and Excel (version 2007), respectively. Results An SDS-PAGE profile showed no cross link and aggregation. However, protein band intensity has decreased to 50% in the highest ratio of H2O2/Fe. Carbonylation assay indicated carbonyl/protein (molc/molp) ratio increased linearly in lower ratios and the values plateau at higher levels of H2O2/Fe 2+. The only free sulfhydryl group on HSA was oxidized in all ratios of the Fenton system. Conclusion To sum, the structure of HSA has been changed following treatment with Hydroxyl Radical as the main product of Fenton reaction. These data confirm the antioxidant activity of HSA. PMID:27790352

  20. A study of parton fragmentation in hadronic Z 0 decays using Λ Λ correlations

    NASA Astrophysics Data System (ADS)

    OPAL Collaboration; Abbiendi, G.; et al.

    2000-03-01

    The correlated production of Λ and Λ baryons has been studied using 4.3 million multihadronic Z0 decays recorded with the Opal detector at Lep. Lambda pairs were investigated in the full data sample and for the first time also in 2-jet and 3-jet events selected with the k⊥ algorithm. The distributions of rapidity differences from correlated Λ Λ pairs exhibit short-range, local correlations and prove to be a sensitive tool to test models, particularly for 2-jet events. The Jetset model describes the data best but some extra parameter tuning is needed to improve agreement with the experimental results in the rates and the rapidity spectra simultaneously. The recently developed modification of Jetset, the MOdified Popcorn Scenarium (Mops), and also Herwig do not give satisfactory results. This study of di-lambda production in 2- and 3-jet events supports the short-range compensation of quantum numbers.

  1. Thermal degradation reaction mechanism of xylose: A DFT study

    NASA Astrophysics Data System (ADS)

    Huang, Jinbao; He, Chao; Wu, Longqin; Tong, Hong

    2016-08-01

    The thermal degradation reaction mechanism of xylose as hemicellulose model compound was investigated by using density functional theory methods M062X with the 6-31++G(d,p) basis set. Eight possible pyrolytic reaction pathways were proposed and the standard kinetic and thermodynamic parameters in all reaction pathways were calculated at different temperatures. In reaction pathway (1), xylose is first transformed into acyclic containing-carbonyl isomer, and then the isomer further decomposes through four possible pyrolysis pathways (1-1)-(1-4). Pathways (2) and (3) depict an immediate ring-opening process through the simultaneous breaking of C-O and C-C bonds. Pathways (4)-(7) describe the pyrolysis processes of various anhydro-xyloses through a direct ring-opening process. Pathway (8) gives the evolutionary process of pyranones. The calculation results show that reaction pathways (1), (2) and (5) are the major reaction channels and reaction pathways (3), (4), and (6)-(8) are the competitive reaction channels in pyrolysis of xylose. The major products of xylose pyrolysis are low molecular products such as 2-furaldehyde, glycolaldehyde, acetaldehyde, methylglyoxal and acetone, and the main competitive products are formaldehyde, formic acid, acetic acid, CO2, CH4, acetol, pyranone, and so on.

  2. Pump-probe studies of fragmentation of a fast HD+ beam

    NASA Astrophysics Data System (ADS)

    Zohrabi, M.; Berry, Ben; Severt, T.; Jochim, Bethany; Feizollah, Peyman; Raju P., Kanaka; Rajput, Jyoti; Carnes, K. D.; Esry, B. D.; Ben-Itzhak, I.

    2016-05-01

    Studies of fast molecular ion beams in strong-field ultrafast lasers are of particular interest for benchmark molecules, like H2+,H3+and HeH+. However, the low target density of a typical ion beam puts severe limits on studies of the time evolution through the implementation of the pump-probe technique. We have recently conducted a first-of-its-kind NIR-pump - NIR-probe measurement on a few-keV HD+ beam target. Specifically, the first pulse initiates the dissociation of the HD+, while the second ionizes the molecule during its dissociation. We have observed enhancement in the ionization yield of the dissociating wave packet at about 24 and 200 fs, corresponding to internuclear distances estimated classically to be about 15 and 85 a.u., respectively. The unexpected enhancement at very large internuclear separation has not been previously observed in pump-probe studies of neutral hydrogen molecules. Supported by the Chemical Sciences, Geosciences, and Biosciences Division, Office of Basic Energy Sciences, Office of Science, U. S. Department of Energy. BJ was also supported in part by DOE-SCGF (DE-AC05-06OR23100).

  3. Fragment Screening and HIV Therapeutics

    PubMed Central

    Bauman, Joseph D.; Patel, Disha; Arnold, Eddy

    2013-01-01

    Fragment screening has proven to be a powerful alternative to traditional methods for drug discovery. Biophysical methods, such as X-ray crystallography, NMR spectroscopy, and surface plasmon resonance, are used to screen a diverse library of small molecule compounds. Although compounds identified via this approach have relatively weak affinity, they provide a good platform for lead development and are highly efficient binders with respect to their size. Fragment screening has been utilized for a wide-range of targets, including HIV-1 proteins. Here, we review the fragment screening studies targeting HIV-1 proteins using X-ray crystallography or surface plasmon resonance. These studies have successfully detected binding of novel fragments to either previously established or new sites on HIV-1 protease and reverse transcriptase. In addition, fragment screening against HIV-1 reverse transcriptase has been used as a tool to better understand the complex nature of ligand binding to a flexible target. PMID:21972022

  4. The extracellular polysaccharide of Porphyridium sp.: an NMR study of lithium-resistant oligosaccharidic fragments.

    PubMed

    Gloaguen, Vincent; Ruiz, Gaël; Morvan, Henri; Mouradi-Givernaud, Aziza; Maes, Emmanuel; Krausz, Pierre; Strecker, Gérard

    2004-01-01

    This study deals with the chemical characterization of an extracellular polysaccharide produced by the unicellular red alga Porphyridium sp. The sugar moiety of this polymer is composed of three neutral monosaccharides (Xyl, Glc, and Gal) and one uronic acid (GlcA). Proteins represent 5.5% of the dry weight of the polymer. Uronic degradation of this exopolysaccharide with lithium in ethylenediamine yielded two different oligosaccharides. The absolute configuration of the constitutive monosaccharides was chemically determined and revealed the presence of D-Xyl, D-Glc, D-, and L-Gal. The following oligosaccharide structures were established by NMR spectroscopy: [carbohydrate structure: see text].

  5. A dynamic study of fragmentation and energy loss during high velocity impact

    NASA Technical Reports Server (NTRS)

    Zee, Ralph H.

    1992-01-01

    Research conducted under this contract can be divided into two main areas: hypervelocity (in the range up to 7 km/s) and high velocity (less than 1 km/s). Work in the former was performed at NASA-MSFC using the Light Gas Gun Facility. The lower velocity studies were conducted at Auburn University using the ballistic gun. The emphasis of the project was on the hypervelocity phenomenon especially in the characterization of the debris cloud formed by the primary impact events. Special devices were made to determine the angular distributions of momentum and energy of the debris cloud as a function of impact conditions. After several iteration processes, it was decided to concentrate on the momentum effort. Prototype devices were designed, fabricated, and tested. These devices were based on the conservation of momentum. Distributions of the debris cloud formed were measured by determining the amount of momentum transferred from the debris cloud to strategically placed pendulum measurement devices. The motion of the pendula was monitored using itegrated opto-interrupters. The distribution of momentum in the debris cloud was found to be a strong function of the impact condition. Small projectiles at high velocities were observed to produce finely dispersed debris whereas large projectiles generated discrete particles in the debris. Results also show that the momentum in the forward direction was enhanced due to the impact. This phenomenon of momentum multiplication was also observed in other studies and in computer simulations. It was initially planned to determine the energy distribution using deformation energy in a rod with strain gauges. Results from preliminary studies show that this technique is acceptable but too tedious. A new technique was explored based on measuring the heating effect of the debris cloud using an IR camera. The feasibility and sensitivity was established at Auburn University. This type of energy distribution measurement method can easily be

  6. Nuclear structure and reaction studies at medium energies

    SciTech Connect

    Hoffmann, G.W.; Ray, R.L.

    1990-10-01

    This document constitutes the (1988--1991) technical progress report for the ongoing medium energy physics research program supported by the US Department of Energy through special Research Grant FG05-88ER40444. The experiments discussed are conducted at the Los Alamos National Laboratory's (LANL) Clinton P. Anderson Meson Physics Facility (LAMPF), the Alternating Gradient Synchrotron (AGS) facility of the Brookhaven National Laboratory (BNL), and at the Fermi National Accelerator Laboratory (FNAL). The overall motivation for the work discussed in this document is driven by three main objectives: (1) provide hadron-nucleon and hadron-nucleus scattering data which serve to facilitate the study of effective two-body interactions, test (and possibly determine) nuclear structure, and help study reaction mechanisms and dynamics;(2) provide unique, first-of-a-kind exploratory'' hadron-nucleus scattering data in the hope that such data will lead to discovery of new phenomena and new physics; and (3) perform precision tests of fundamental interactions, such as rare decay searches, whose observation would imply fundamental new physics.

  7. Next-generation transfer reaction studies with JENSA

    NASA Astrophysics Data System (ADS)

    Chipps, K. A.

    2015-04-01

    Next generation radioactive ion beam facilities are being planned and built across the globe, and with them an incredible new array of exotic isotopes will be available for study. To keep pace with the state of nuclear physics research, both new detector systems and new target systems are needed. The Jet Experiments in Nuclear Structure and Astrophysics (JENSA) gas jet target is one of these new target systems, designed to provide a target of light gas that is localized, dense, and pure. The JENSA gas jet target was originally constructed at Oak Ridge National Laboratory for testing and characterization, and has now moved to the ReA3 reaccelerated beam hall at the National Superconducting Cyclotron Laboratory (NSCL) at Michigan State University for use with radioactive beams. The availability of a pure, localized target of light gases will enable exceptional scattering and transfer reaction studies with these exotic beams. Some examples will be given, and future plans will be discussed. This work is supported by the US DOE Office of Science (Office of Nuclear Physics) and the NSF.

  8. Laser-induced-fluorescence studies of fragment ions: CH/sup +/ and CD/sup +/

    SciTech Connect

    O'Keefe, A.

    1981-08-01

    The dynamics of ion-molecule interactions within a mass selective rf quadrupole ion trap are studied for several ion-molecule systems. Laser induced fluorescence is used as a probe of the internal energy distributions of molecular ions under collision free conditions and under controlled collision conditions. The effects of collisions at near thermal energies (0.3 to 0.5 eV) are easily understood in terms of processes such as charge transfer and other energy transfer mechanisms. The A/sup 1/PI - X/sup 1/..sigma../sup +/ system of CH/sup +/ and CD/sup +/ has been examined under collision free conditions. The ions were produced from methane through electron impact ionization/dissociation. The observed energy distributions reflect the dynamical partitioning of dissociation exothermicity, excepting short lived electronic states. Many new transitions belonging to this electronic system have been observed and a reliable vibrational frequency for the X/sup 1/..sigma../sup +/ state has been obtained. The radiative lifetimes of CH/sup +/ and CD/sup +/ A/sup 1/PI(v = 0) states have been measured and a revised oscillator strength for the A-X transition has been derived from this data.

  9. Computational studies of gas phase reactions of carbon chain anions with N and O atoms.

    PubMed

    Yang, Zhibo; Snow, Theodore P; Bierbaum, Veronica M

    2010-10-28

    Experimental studies of gas phase reactions of carbanions with N and O atoms have been reported previously to understand ion chemistry relevant to the interstellar medium. In all cases reactions of anions with O atoms exhibit larger reaction rate constants compared to the corresponding N atom reactions. In addition, the open-shell carbon chain anions exhibit higher reactivities than the corresponding closed-shell species in N atom reactions, whereas similar reactivities were observed for both open and closed-shell anions in O atom reactions. These trends are investigated by the current theoretical study of the reactions of HC(n)(-)(n = 2, 4, and 6) and C(n)(-) (n = 2, 4-7) with N and O atoms. Our results indicate that spin-forbidden processes are the probable pathways in reactions of closed-shell anions HC(n)(-) with N atoms, and spin conversion limits the reaction efficiency. In reactions of open-shell anions C(n)(-) with N atoms, about 50% of the collisions may proceed through spin-allowed barrierless pathways, which results in relatively higher reaction efficiencies than for the closed-shell reactions. For reactions of all anions with O atoms, the spin-allowed barrierless pathways are the only channels, such that all reactions occur with very high efficiencies. This work provides a greater understanding of the influence of spin effects on the reactivities of anion reactions involving N and O atoms that may be important in the interstellar medium.

  10. a Model Study of Complex Behavior in the Belousov - Reaction.

    NASA Astrophysics Data System (ADS)

    Lindberg, David Mark

    1988-12-01

    We have studied the complex oscillatory behavior in a model of the Belousov-Zhabotinskii (BZ) reaction in a continuously-fed stirred tank reactor (CSTR). The model consisted of a set of nonlinear ordinary differential equations derived from a reduced mechanism of the chemical system. These equations were integrated numerically on a computer, which yielded the concentrations of the constituent chemicals as functions of time. In addition, solutions were tracked as functions of a single parameter, the stability of the solutions was determined, and bifurcations of the solutions were located and studied. The intent of this study was to use this BZ model to explore further a region of complex oscillatory behavior found in experimental investigations, the most thorough of which revealed an alternating periodic-chaotic (P-C) sequence of states. A P-C sequence was discovered in the model which showed the same qualitative features as the experimental sequence. In order to better understand the P-C sequence, a detailed study was conducted in the vicinity of the P-C sequence, with two experimentally accessible parameters as control variables. This study mapped out the bifurcation sets, and included examination of the dynamics of the stable periodic, unstable periodic, and chaotic oscillatory motion. Observations made from the model results revealed a rough symmetry which suggests a new way of looking at the P-C sequence. Other nonlinear phenomena uncovered in the model were boundary and interior crises, several codimension-two bifurcations, and similarities in the shapes of areas of stability for periodic orbits in two-parameter space. Each earlier model study of this complex region involved only a limited one-parameter scan and had limited success in producing agreement with experiments. In contrast, for those regions of complex behavior that have been studied experimentally, the observations agree qualitatively with our model results. Several new predictions of the model

  11. Study of enzyme adsorption and reaction kinetics for cellulose hydrolysis

    SciTech Connect

    Gilbert, I.G.

    1982-01-01

    Enzymatic hydrolysis of cellulose occurs due to the combined catalytic action of two types of cellulase components commonly referred to as C/sub 1/ and C/sub x/. However, before the hydrolysis reaction can begin, it is necessary for these enzymes to first adsorb onto the accessible surfaces of the insoluble cellulose substrate. The objective of the study was to gain a better understanding of the relationships between the adsorption of these enzyme components, the hydrolysis kinetics, the cellulosic surface area accessible to the enzymes, and the cellulose crystallinity. These relationships were investigated by passing a Trichoderma viride cellulase solution through columns of cellulose powder having different accessibility and crystallinity, and then analyzing the quantities of the different enzyme components and the hydrolysis product in the effluent. The amounts of the different cellulase components were analyzed using high-performance anion-exchange chromatography. Additional adsorption and hydrolysis experiments were done using columns of cellulose beads specially developed to provide amodel substrate for this analysis. A mathematical model has been formulated to describe the kinetics of enzyme adsorption and the resultant, initial hydrolysis rate in cellulose column. The analytical solutions obtained have been linearized into a convenient form so that the kinetic parameters of the model can be readily determined from experimental breakthrough curves.

  12. Nuclear-reaction studies via the observation of unbound outgoing systems

    SciTech Connect

    Bice, A.N.

    1982-01-01

    The mechanisms involved in the production of fast ..cap alpha..-particles in /sup 12/C induced reactions have been investigated for the /sup 12/C + /sup 208/Pb system at bombarding energies of E(/sup 12/C) = 132, 187 and 230 MeV. Absolute cross sections have been determined for the reactions /sup 208/Pb (/sup 12/C, /sup 8/Be (g.s.)), /sup 208/Pb(/sup 12/C, /sup 8/Be (2.94 MeV)) and /sup 208/Pb (/sup 12/C, /sup 12/C* ..-->.. ..cap alpha.. + /sup 8/Be) by double and triple coincidence measurements of the sequential decay ..cap alpha..-particles. Inclusive ..cap alpha..-particle production cross sections were also measured at E (/sup 12/C) = 187 MeV for comparison. It is found that the simple inelastic scattering process (/sup 12/C, /sup 12/C* ..-->.. ..cap alpha.. + /sup 8/Be) does not contribute significantly to the production of fast ..cap alpha..-particles but that the production of /sup 8/Be nuclei by projectile fragmentation is an important source of ..cap alpha..-particles. At the highest bombarding energy investigated (19 MeV/A) it appears that the /sup 12/C ..-->.. 3..cap alpha.. fragmentation reaction becomes more prominent at the expense of the /sup 12/C ..-->.. ..cap alpha.. + /sup 8/Be fragmentation channel. It is concluded that projectile spectroscopic properties and/or final state interactions are important in fragmentation reactions for these bombarding energies. In a kinematically complete experiment the direct and the sequential breakup channels of 10 MeV/A /sup 7/Li projectiles have been investigated with /sup 12/C and /sup 208/Pb targets. By appropriate arrangement of detector telescopes it was possible to define a kinematical window which allowed for the unambigious observation of both the direct (to the ..cap alpha..-t continuum) and the sequential components of a heavy-ion projectile breakup reaction. A semiclassical Monte Carlo type projectile breakup calculation was constructed which qualitatively reproduced the measured ..cap alpha

  13. Feasibility study of the Fab fragment of a monoclonal antibody against tissue factor as a diagnostic tool.

    PubMed

    Tsumura, Ryo; Sato, Ryuta; Furuya, Fumiaki; Koga, Yoshikatsu; Yamamoto, Yoshiyuki; Fujiwara, Yuki; Yasunaga, Masahiro; Matsumura, Yasuhiro

    2015-12-01

    Tissue factor (TF) is expressed strongly in various types of cancer, especially cancers that are often refractory to treatment, such as pancreatic cancer. In this study, we compared the differences in the biophysical and pharmacological properties of whole IgG and the Fab fragment of anti-human TF monoclonal antibody (1849 antibodies), in order to determine their suitability for application in the diagnosis and treatment of cancers. In the biophysical examination, we investigated the characteristics of 1849-whole IgG and 1849-Fab by SPR sensing and confocal fluorescence microscopy analysis using recombinant human TF antigen and TF-overexpressing human pancreatic cancer cell line, BxPC3, respectively. After conjugation with Alexa-Flour-647, in vivo imaging was conducted in mice bearing BxPC3 xenograft tumors. Furthermore, the distribution of the conjugates in tumors and major organs was evaluated by ex vivo study. The in vitro experiments showed that 1849 antibodies had high affinity against TF antigen. In addition, 1849-Fab showed a faster dissociation rate from the antigen than 1849-whole IgG. In mice, 1849-Fab-Alexa-Flour-647 showed rapid renal clearance and faster tumor accumulation, achieving a high contrast signal over nearby normal tissues in the early phase and enhanced tumor penetration after administration. On the other hand, 1849-whole IgG-Alexa-Flour-647 showed slow clearance from the blood and sustained high tumor accumulation. These results suggest that 1849-Fab may be a useful tool for pancreatic cancer diagnosis.

  14. Simplex and duplex polymerase chain reaction analysis of Herculex RW (59122) maize based on one reference molecule including separated fragments of 5' integration site and endogenous gene.

    PubMed

    Li, Xiang; Yang, Litao; Zhang, Jianzhong; Wang, Shu; Shen, Kailin; Pan, Liangwen; Zhang, Dabing

    2009-01-01

    Reference molecules, as positive controls and calibrators, have been recently developed in genetically modified organism analysis as a potential substitute for reference materials derived from plant raw materials. In this study, a novel reference molecule p59122, including the revealed 5' integration sequence of maize Herculex RW (59122), was constructed that was suitable for simplex and duplex event-specific qualitative and quantitative PCR detections. The LOD values were 10 copies both for simplex and duplex qualitative PCR when p59122 was used as the calibrator. These values were comparable to those of using genomic DNA samples with 0.01 and 0.05%, approximately 5 and 25 hyploid genomic DNA copies, respectively. The absolute LOD and LOQ values were confirmed to be as low as 10 and 25 copies of p59122 DNA both in simplex and duplex quantitative systems. Furthermore, ideal quantification data with low bias, SD and RSD values were obtained from the practical samples analyses in simplex and duplex real-time PCR systems using the reference molecule p59122 as a calibrator. All these results suggested that the developed reference molecule p59122 and the qualitative and quantitative PCR detection methods are suitable for identification and quantification of GM maize 59122 and its derived products. PMID:19916386

  15. Simplex and duplex polymerase chain reaction analysis of Herculex RW (59122) maize based on one reference molecule including separated fragments of 5' integration site and endogenous gene.

    PubMed

    Li, Xiang; Yang, Litao; Zhang, Jianzhong; Wang, Shu; Shen, Kailin; Pan, Liangwen; Zhang, Dabing

    2009-01-01

    Reference molecules, as positive controls and calibrators, have been recently developed in genetically modified organism analysis as a potential substitute for reference materials derived from plant raw materials. In this study, a novel reference molecule p59122, including the revealed 5' integration sequence of maize Herculex RW (59122), was constructed that was suitable for simplex and duplex event-specific qualitative and quantitative PCR detections. The LOD values were 10 copies both for simplex and duplex qualitative PCR when p59122 was used as the calibrator. These values were comparable to those of using genomic DNA samples with 0.01 and 0.05%, approximately 5 and 25 hyploid genomic DNA copies, respectively. The absolute LOD and LOQ values were confirmed to be as low as 10 and 25 copies of p59122 DNA both in simplex and duplex quantitative systems. Furthermore, ideal quantification data with low bias, SD and RSD values were obtained from the practical samples analyses in simplex and duplex real-time PCR systems using the reference molecule p59122 as a calibrator. All these results suggested that the developed reference molecule p59122 and the qualitative and quantitative PCR detection methods are suitable for identification and quantification of GM maize 59122 and its derived products.

  16. Fragmentation of cancer cells

    NASA Astrophysics Data System (ADS)

    Vanapalli, Siva; Kamyabi, Nabiollah

    Tumor cells have to travel through blood capillaries to be able to metastasize and colonize in distant organs. Among the numerous cells that are shed by the primary tumor, very few survive in circulation. In vivo studies have shown that tumor cells can undergo breakup at microcapillary junctions affecting their survival. It is currently unclear what hydrodynamic and biomechanical factors contribute to fragmentation and moreover how different are the breakup dynamics of highly and weakly metastatic cells. In this study, we use microfluidics to investigate flow-induced breakup of prostate and breast cancer cells. We observe several different modes of breakup of cancer cells, which have striking similarities with breakup of viscous drops. We quantify the breakup time and find that highly metastatic cancer cells take longer to breakup than lowly metastatic cells suggesting that tumor cells may dynamically modify their deformability to avoid fragmentation. We also identify the role that cytoskeleton and membrane plays in the breakup process. Our study highlights the important role that tumor cell fragmentation plays in cancer metastasis. Cancer Prevention and Research Institute of Texas.

  17. Fractals and fragmentation

    NASA Technical Reports Server (NTRS)

    Turcotte, D. L.

    1986-01-01

    The use of renormalization group techniques on fragmentation problems is examined. The equations which represent fractals and the size-frequency distributions of fragments are presented. Method for calculating the size distributions of asteriods and meteorites are described; the frequency-mass distribution for these interplanetary objects are due to fragmentation. The application of two renormalization group models to fragmentation is analyzed. It is observed that the models yield a fractal behavior for fragmentation; however, different values for the fractal dimension are produced . It is concluded that fragmentation is a scale invariant process and that the fractal dimension is a measure of the fragility of the fragmented material.

  18. IS PROTOSTELLAR HEATING SUFFICIENT TO HALT FRAGMENTATION? A CASE STUDY OF THE MASSIVE PROTOCLUSTER G8.68-0.37

    SciTech Connect

    Longmore, S. N.; Pillai, T.; Keto, E.; Zhang, Q.; Qiu, K.

    2011-01-10

    If star formation proceeds by thermal fragmentation and the subsequent gravitational collapse of the individual fragments, how is it possible to form fragments massive enough for O and B stars in a typical star-forming molecular cloud where the Jeans mass is about 1 M{sub sun} at the typical densities (10{sup 4} cm{sup -3}) and temperatures (10 K)? We test the hypothesis that a first generation of low-mass stars may heat the gas enough that subsequent thermal fragmentation results in fragments {>=}10 M{sub sun}, sufficient to form B stars. We combine ATCA and Submillimeter Array observations of the massive star-forming region G8.68-0.37 with radiative transfer modeling to derive the present-day conditions in the region and use this to infer the conditions in the past, at the time of core formation. Assuming that the current mass/separation of the observed cores equals the fragmentation Jeans mass/length and the region's average density has not changed requires the gas temperature to have been 100 K at the time of fragmentation. The postulated first generation of low-mass stars would still be around today, but the number required to heat the cloud exceeds the limits imposed by the observations. Several lines of evidence suggest the observed cores in the region should eventually form O stars yet none have sufficient raw material. Even if feedback may have suppressed fragmentation, it was not sufficient to halt it to this extent. To develop into O stars, the cores must obtain additional mass from outside their observationally defined boundaries. The observations suggest that they are currently fed via infall from the very massive reservoir ({approx}1500 M{sub sun}) of gas in the larger parsec scale cloud around the star-forming cores. This suggests that massive stars do not form in the collapse of individual massive fragments, but rather in smaller fragments that themselves continue to gain mass by accretion from larger scales.

  19. {sup 4}He fragments from the {sup 14}N + {sup 12}C collision at 35 MeV/nucleon and clustering in colliding nuclei

    SciTech Connect

    Takemoto, H.; Horiuchi, H.; Engel, A.; Ono, A.

    1996-07-01

    In order to study effects of clustering of colliding nuclei in the fragmentation process, the fragmentation of the {sup 14}N+{sup 12}C reaction at 35 MeV/nucleon is analyzed by antisymmetrized molecular dynamics. It is found that {sup 4}He fragments from {sup 12}C fragmentation are much more abundant than those from {sup 14}N fragmentation. Characters of {sup 4}He fragments from {sup 12}C fragmentation are investigated and it is found that this abundance in {sup 12}C fragmentation results from the three-alpha breakup in a short time scale where the excited states with excitation energy 7{endash}15 MeV play an important role. {copyright} {ital 1996 The American Physical Society.}

  20. Neutron-induced reactions in the hohlraum to study reaction in flight neutrons

    NASA Astrophysics Data System (ADS)

    Boswell, M. S.; Elliott, S. R.; Guiseppe, V.; Kidd, M.; Rundberg, B.; Tybo, J.

    2013-04-01

    We are currently developing the physics necessary to measure the Reaction In Flight (RIF) neutron flux from a NIF capsule. A measurement of the RIF neutron flux from a NIF capsule could be used to deduce the stopping power in the cold fuel of the NIF capsule. A foil irradiated at the Omega laser at LLE was counted at the LANL low-background counting facility at WIPP. The estimated production rate of 195Au was just below our experimental sensitivity. We have made several improvements to our counting facility in recent months. These improvements are designed to increase our sensitivity, and include installing two new low-background detectors, and taking steps to reduce noise in the signals.

  1. Fragmentation study of rutin, a naturally occurring flavone glycoside cationized with different alkali metal ions, using post-source decay matrix-assisted laser desorption/ionization mass spectrometry.

    PubMed

    Kéki, S; Deák, G; Zsuga, M

    2001-12-01

    A post-source decay matrix-assisted laser desorption/ionization mass spectrometric (PSD-MALDI-MS) study of rutin, a naturally occurring flavone glycoside cationized with different alkali metal ions, is reported. The fragmentations of rutin were performed by selecting the [R + Cat]+ peaks for PSD, where R represents a rutin molecule and Cat an alkali metal ion (Li+, Na+, K+). The PSD-MALDI mass spectra showed, depending on Cat, different fragmentation patterns with respect to both the quality and quantity of the fragment ions formed. The intensity of fragmentation decreased in the order Li+ > Na+ > K+. The fragmentation mechanism and an explanation for the observed differences are suggested.

  2. Non-enzymatic model glycation reactions--a comprehensive study of the reactivity of a modified arginine with aldehydic and diketonic dicarbonyl compounds by electrospray mass spectrometry.

    PubMed

    Saraiva, Marco A; Borges, Carlos M; Florêncio, M Helena

    2006-06-01

    Non-enzymatic glycation (Maillard reaction) of long-lived proteins is a major contributor to the pathology of diabetes, and possibly aging and Alzheimer's disease. Among the amino residues in proteins arginine plays an important role, and its modification by sugar moieties generates the so-called advanced glycation end products (AGEs). Moreover, alpha-dicarbonyl compounds have been found as the main participants in those modifications. Four alpha-dicarbonyl compounds, aldehydic and ketonic, were reacted with the modified amino acid N(alpha)-acetyl-L-arginine (AcArg), in an attempt to establish structure/activity relationships for the reactivity of alpha-dicarbonyls with the amine compound. Electrospray ionization mass spectrometry (ESI-MS), combined with tandem mass spectrometry (MS/MS), was used to identify and characterize reagents, intermediates and reaction products. The fragmentation patterns of precursor ions showed similarities in all reaction systems studied, in which fragmentation of the amino acid residue prevails, especially for the dehydrated and/or multiple dehydrated precursor ions. For the non-hydrated ion species, fragmentation of the arginyl guanidino group was mainly observed. Specific information regarding the nature of the ions formed, in which the dicarbonyl electrophile character played an important role, was obtained. As an example, singly and doubly hydrated acetyl-argpyrimidine ions were detected for the methylglyoxal reaction only. For symmetrical dicarbonyls, glyoxal and diacetyl, the importance of steric contributions with respect to the energetic ones is discussed. Furthermore, the dehydrated acetyl-tetrahydropyrimidine ions for methylglyoxal and phenylglyoxal reactions revealed fragment ion compositions including the protonated molecules of acetyl-argpyrimidine, -hydroimidazolone and -5-methylimidazolone. An explanation for the acetyl-argpyrimidine formation from the acetyl-hydroimidazolone formation reaction is proposed. Aspects such

  3. High temperature chemical kinetic study of the H2-CO-CO2-NO reaction system

    NASA Technical Reports Server (NTRS)

    Jachimowski, C. J.

    1975-01-01

    An experimental study of the kinetics of the H2-CO-CO2-NO reaction system was made behind incident shock waves at temperatures of 2460 and 2950 K. The overall rate of the reaction was measured by monitoring radiation from the CO + O yields CO2 + h upoilon reaction. Correlation of these data with a detailed reaction mechanism showed that the high-temperature rate of the reaction N + OH yields NO + H can be described by the low-temperature (320 K) rate coefficient. Catalytic dissociation of molecular hydrogen was an important reaction under the tests conditions.

  4. Protein fragment bimolecular fluorescence complementation analyses for the in vivo study of protein-protein interactions and cellular protein complex localizations

    PubMed Central

    Waadt, Rainer; Schlücking, Kathrin; Schroeder, Julian I.; Kudla, Jörg

    2014-01-01

    Summary The analyses of protein-protein interactions is crucial for understanding cellular processes including signal transduction, protein trafficking and movement. Protein fragment complementation assays are based on the reconstitution of protein function when non-active protein fragments are brought together by interacting proteins that were genetically fused to these protein fragments. Bimolecular fluorescence complementation (BiFC) relies on the reconstitution of fluorescent proteins and enables both the analysis of protein-protein interactions and the visualization of protein complex formations in vivo. Transient expression of proteins is a convenient approach to study protein functions in planta or in other organisms, and minimizes the need for time-consuming generation of stably expressing transgenic organisms. Here we describe protocols for BiFC analyses in Nicotiana benthamiana and Arabidopsis thaliana leaves transiently transformed by Agrobacterium infiltration. Further we discuss different BiFC applications and provide examples for proper BiFC analyses in planta. PMID:24057390

  5. The structure of Abeta42 C-terminal fragments probed by a combined experimental and theoretical study.

    PubMed

    Wu, Chun; Murray, Megan M; Bernstein, Summer L; Condron, Margaret M; Bitan, Gal; Shea, Joan-Emma; Bowers, Michael T

    2009-03-27

    The C-terminus of amyloid beta-protein (Abeta) 42 plays an important role in this protein's oligomerization and may therefore be a good therapeutic target for the treatment of Alzheimer's disease. Certain C-terminal fragments (CTFs) of Abeta42 have been shown to disrupt oligomerization and to strongly inhibit Abeta42-induced neurotoxicity. Here we study the structures of selected CTFs [Abeta(x-42); x=29-31, 39] using replica exchange molecular dynamics simulations and ion mobility mass spectrometry. Our simulations in explicit solvent reveal that the CTFs adopt a metastable beta-structure: beta-hairpin for Abeta(x-42) (x=29-31) and extended beta-strand for Abeta(39-42). The beta-hairpin of Abeta(30-42) is converted into a turn-coil conformation when the last two hydrophobic residues are removed, suggesting that I41 and A42 are critical in stabilizing the beta-hairpin in Abeta42-derived CTFs. The importance of solvent in determining the structure of the CTFs is further highlighted in ion mobility mass spectrometry experiments and solvent-free replica exchange molecular dynamics simulations. A comparison between structures with solvent and structures without solvent reveals that hydrophobic interactions are critical for the formation of beta-hairpin. The possible role played by the CTFs in disrupting oligomerization is discussed.

  6. Usefulness of restriction fragment length polymorphism and spoligotyping for epidemiological studies of Mycobacterium bovis in Madagascar: description of new genotypes.

    PubMed

    Rasolofo Razanamparany, Voahangy; Quirin, René; Rapaoliarijaona, Andriampenomaka; Rakotoaritahina, Hugues; Vololonirina, Elie Jeanne; Rasolonavalona, Tiana; Ferdinand, Séverine; Sola, Christophe; Rastogi, Nalin; Ramarokoto, Herimanana; Chanteau, Suzanne

    2006-04-16

    Tuberculosis is highly prevalent in cattle in Madagascar. An epidemiological study based on genotyping of Mycobacterium bovis and its transmission to humans was carried out. The restriction fragment length polymorphism (IS6110 and DR markers) and spoligotyping were used to assess the genetic diversity of strains from different regions of Madagascar. One of these strains was isolated from goat, the other strains were isolated from zebu cattle. Nine IS6110 profiles, 20 DR profiles and 12 spoligotypes were obtained. About 90% of all isolates gave a single IS6110 band at about 1.8 kb. Most strains had the same spoligotype. M. bovis strains commonly lack spacers 39-43, and all Malagasy strains also lacked spacers 3-5, 8-10 and 16. This pattern has not been reported elsewhere. DR was the most discriminatory of the three markers. The patterns obtained with the three markers were combined to identify 34 different genotypes, one of which was found in 35% of the strains. No region-specific M. bovis genotype was identified, but the genotyping of 18 M. bovis strains isolated from patients showed that the human and bovine strains were identical, suggesting possible human contamination from zebu cattle.

  7. Experimental study of nuclear fragmentation of 200 and 400 MeV/u (12)C ions in water for applications in particle therapy.

    PubMed

    Haettner, E; Iwase, H; Krämer, M; Kraft, G; Schardt, D

    2013-12-01

    Carbon ion beams in the energy range of about 100-450 MeV/u offer excellent conditions for tumour therapy, in particular for the treatment of deep-seated radio-resistant tumours. Their depth-dose distribution is characterized by a low dose in the entrance channel, small lateral beam spread and an elevated biological effectiveness in the Bragg peak region. In comparison to protons the radiation field of heavier ions stopping in tissue is however more complex due to nuclear fragmentation reactions occurring along their stopping path. This results in an attenuation of the primary beam flux and a build-up of lower-Z fragments with longer ranges causing the characteristic dose tail beyond the Bragg peak. In the present work the characteristics of secondary charged particles at various depths of water were investigated experimentally using (12)C ion beams of 200 and 400 MeV/u delivered by the heavy-ion synchrotron SIS-18 at GSI Darmstadt. The nuclear charge Zf of secondary fragments was identified by combining energy loss and time-of-flight (TOF) measurements. Energy spectra and yields were recorded at lab angles of 0° - 10° and at seven different water depths corresponding to the entrance channel, the Bragg peak region and the tail of the Bragg curve.

  8. Experimental study of nuclear fragmentation of 200 and 400 MeV/u 12C ions in water for applications in particle therapy

    NASA Astrophysics Data System (ADS)

    Haettner, E.; Iwase, H.; Krämer, M.; Kraft, G.; Schardt, D.

    2013-12-01

    Carbon ion beams in the energy range of about 100-450 MeV/u offer excellent conditions for tumour therapy, in particular for the treatment of deep-seated radio-resistant tumours. Their depth-dose distribution is characterized by a low dose in the entrance channel, small lateral beam spread and an elevated biological effectiveness in the Bragg peak region. In comparison to protons the radiation field of heavier ions stopping in tissue is however more complex due to nuclear fragmentation reactions occurring along their stopping path. This results in an attenuation of the primary beam flux and a build-up of lower-Z fragments with longer ranges causing the characteristic dose tail beyond the Bragg peak. In the present work the characteristics of secondary charged particles at various depths of water were investigated experimentally using 12C ion beams of 200 and 400 MeV/u delivered by the heavy-ion synchrotron SIS-18 at GSI Darmstadt. The nuclear charge Zf of secondary fragments was identified by combining energy loss and time-of-flight (TOF) measurements. Energy spectra and yields were recorded at lab angles of 0° - 10° and at seven different water depths corresponding to the entrance channel, the Bragg peak region and the tail of the Bragg curve.

  9. A prospective study of adverse drug reactions in hospitalized children

    PubMed Central

    Martínez-Mir, Inocencia; García-López, Mercedes; Palop, Vicente; Ferrer, José M; Rubio, Elena; Morales-Olivas, Francisco J

    1999-01-01

    Aims There are few publications of adverse drug reactions (ADRs) among paediatric patients, though ADR incidence is usually stated to be higher during the first year of life and in male patients. We have carried out a prospective study to assess the extent, pattern and profile risk for ADRs in hospitalized patients between 1 and 24 months of age. Methods An intensive events monitoring scheme was used. A total of 512 successive admissions to two medical paediatric wards (47 beds) were analysed. The hospital records were screened daily during two periods (summer, 105 days and winter, 99 days), and adverse clinical events observed were recorded. Results A total of 282 events were detected; of these, 112 were considered to be manifestations of ADRs. The cumulative incidence was 16.6%, no differences being observed between periods. Although there were no differences between patients under and over 12 months of age, risk was found to be significantly higher among girls compared with boys (RR = 1.66, 95% CI 1.03–2.52). The gastro-intestinal system was most frequently affected. The therapeutic group most commonly implicated was anti-infective drugs and vaccines (41.5%). The ADRs were mild or moderate in over 90% of cases. A consistent relationship was noted between the number of drugs administered and the incidence of ADRs. Conclusions Hospitalized patients exhibited an ADR risk profile that included female sex and the number of drugs administered. No particular age predisposition was observed. The most commonly prescribed drugs are those most often implicated in ADRs in paediatric patients. PMID:10383547

  10. Recent advances in crossed-beam studies of bimolecular reactions.

    PubMed

    Liu, Kopin

    2006-10-01

    A critical overview of the recent progress in crossed-beam reactive scattering is presented. This review is not intended to be an exhaustive nor a comprehensive one, but rather a critical assessment of what we have been learning about bimolecular reaction dynamics using crossed molecular beams since year 2000. Particular emphasis is placed on the information content encoded in the product angular distribution-the trait of a typical molecular beam scattering experiment-and how the information can help in answering fundamental questions about chemical reactivity. We will start with simple reactions by highlighting a few benchmark three-atom reactions, and then move on progressively to the more complex chemical systems and with more sophisticated types of measurements. Understanding what cause the experimental observations is more than computationally simulating the results. The give and take between experiment and theory in unraveling the physical picture of the underlying dynamics is illustrated throughout this review.

  11. Habitat Fragmentation in Arid Zones: A Case Study of Linaria nigricans Under Land Use Changes (SE Spain)

    NASA Astrophysics Data System (ADS)

    Peñas, Julio; Benito, Blas; Lorite, Juan; Ballesteros, Miguel; Cañadas, Eva María; Martinez-Ortega, Montserrat

    2011-07-01

    Habitat fragmentation due to human activities is one of the most important causes of biodiversity loss. In Mediterranean areas the species have co-evolved with traditional farming, which has recently been replaced for more severe and aggressive practices. We use a methodological approach that enables the evaluation of the impact that agriculture and land use changes have for the conservation of sensitive species. As model species, we selected Linaria nigricans, a critically endangered plant from arid and semiarid ecosystems in south-eastern Spain. A chronosequence of the evolution of the suitable habitat for the species over more than 50 years has been reconstructed and several geometrical fragmentation indices have been calculated. A new index called fragmentation cadence (FC) is proposed to quantify the historical evolution of habitat fragmentation regardless of the habitat size. The application of this index has provided objective forecasting of the changes of each remnant population of L. nigricans. The results indicate that greenhouses and construction activities (mainly for tourist purposes) exert a strong impact on the populations of this endangered species. The habitat depletion showed peaks that constitute the destruction of 85% of the initial area in only 20 years for some populations of L. nigricans. According to the forecast established by the model, a rapid extinction could take place and some populations may disappear as early as the year 2030. Fragmentation-cadence analysis can help identify population units of primary concern for its conservation, by means of the adoption of improved management and regulatory measures.

  12. Study of the {pi}(1800) resonance in diffractive reactions

    SciTech Connect

    Bernikov, E.B.; Bityukov, S.I.; Borisov, G.V.; Gouz, Yu.P.; Dorofeev, V.A.; Dzheladin, R.I.; Ekimov, A.V.; Ivanyushenkov, Yu.M.; Kachaev, I.A.; Karyukhin, A.N.

    1994-09-01

    The results of the VES experiment obtained in 1992 and 1993 are presented. The PWA has been performed for the reactions {pi}{sup {minus}}N {yields} {pi}{sup +}{pi}{sup {minus}}{pi}{sup {minus}}N and {pi}{sup {minus}}N {yields} K{sup +}K{sup {minus}}{pi}{sup {minus}}N. The resonance at m = 1.8 GeV with J{sup PC} = 0{sup {minus}+} is clearly seen in both reactions. 15 refs., 6 figs.

  13. Shell effects in fission, quasifission and multinucleon transfer reaction

    NASA Astrophysics Data System (ADS)

    Kozulin, E. M.; Knyazheva, G. N.; Itkis, I. M.; Kozulina, N. I.; Loktev, T. A.; Novikov, K. V.; Harca, I.

    2014-05-01

    Results of the study of mass-energy distributions of binary fragments for a wide range of nuclei with Z= 82-122 produced in reactions of ions located between 22Ne and 136Xe at energies close and below the Coulomb barrier are reported. The role of the shell effects, the influence of the entrance channel asymmetry and the deformations of colliding nuclei on the mechanism of the fusion-fission, quasifission and multinucleon transfer reactions are discussed. The observed peculiarities of the mass and energy distributions of reaction fragments are determined by the shell structure of the formed fragments. Special attention is paid on the symmetric fragment features in order to clarify the origin of these fragments (fission or quasifission). The influence of shell effects on the fragment yield in quasifission and multinucleon transfer reactions is considered. It is noted that the major part of the asymmetric quasifission fragments peaks around the region of the Z=82 and N=126 (double magic lead) and Z=28 and N=50 shells; moreover the maximum of the yield of the quasifission component is a mixing between all these shells. Hence, shell effects are everywhere present and determine the basic characteristics of fragment mass distributions.

  14. Fission studies of secondary beams from relativistic uranium projectiles: The proton even-odd effect in fission fragment charge yields

    SciTech Connect

    Junghans, A. R.; Benlliure, J.; Schmidt, K.-H.; Voss, B.; Boeckstiegel, C.; Clerc, H.-G.; Grewe, A.; Heinz, A.; Jong, M. de; Mueller, J.; Steinhaeuser, S.; Pfuetzner, M.

    1999-09-02

    Nuclear-charge yields of fragments produced by fission of neutron-deficient isotopes of uranium, protactinium, actinium, and radium have been measured. These radioactive isotopes were produced as secondary beams, and electromagnetic fission was induced in a lead target with an average excitation energy around 11 MeV. The local even-odd effect in symmetric and in asymmetric fission of thorium isotopes is found to be independent of Z{sup 2}/A. The charge yields of the fission fragments of the odd-Z fissioning protactinium and actinium show a pronounced even-odd effect. In asymmetric fission the unpaired proton predominantly sticks to the heavy fragment. A statistical model based on the single-particle level density at the Fermi energy is able to reproduce the overall trend of the local even-odd effects both in even-Z and odd-Z fissioning systems.

  15. Mechanism study on mitochondrial fragmentation under oxidative stress caused by high-fluence low-power laser irradiation

    NASA Astrophysics Data System (ADS)

    Wu, Shengnan; Zhou, Feifan; Xing, Da

    2012-03-01

    Mitochondria are dynamic organelles that undergo continual fusion and fission to maintain their morphology and functions, but the mechanism involved is still not clear. Here, we investigated the effect of mitochondrial oxidative stress triggered by high-fluence low-power laser irradiation (HF-LPLI) on mitochondrial dynamics in human lung adenocarcinoma cells (ASTC-a-1). Upon HF-LPLI-triggered oxidative stress, mitochondria displayed a fragmented structure, which was abolished by exposure to dehydroascorbic acid (DHA), a reactive oxygen species scavenger, indicating that oxidative stress can induce mitochondrial fragmentation. Mitochondrial translocation of the profission protein dynamin-related protein 1 (Drp1) was observed following HF-LPLI, demonstrating apoptosis-related activation of Drp1. Notably, DHA pre-treatment prevented HF-LPLI-induced Drp1 activation. We conclude that mitochondrial oxidative stress through activation of Drp1 causes mitochondrial fragmentation.

  16. Pulse radiolysis studies on reactions of hydroxyl radicals with selenocystine derivatives.

    PubMed

    Mishra, B; Kumbhare, L B; Jain, V K; Priyadarsini, K I

    2008-04-10

    Reactions of hydroxyl radicals (*OH) with selenocystine (SeCys) and two of its analogues, diselenodipropionic acid (SeP) and selenocystamine (SeA), have been studied in aqueous solutions at pHs of 1, 7, and 10 using the pulse radiolysis technique coupled with absorption detection. All of these diselenides react with *OH radicals with rate constants of approximately 10(10) M(-1) s(-1), producing diselenide radical cations ( approximately 1-5 micros after the pulse), with an absorption maximum at 560 nm, by elimination of H(2)O or OH(-) from hydroxyl radical adducts. Assignment of the 560 nm band to the diselenide radical cation was made by comparing the transient spectra with those produced upon reaction of diselenides with specific one-electron oxidants, Cl(2)(*-) (pH 1) and Br(2)(*-) radicals (pHs of 7 and 10). SeP having a carboxylic acid functionality showed quantitative conversion of hydroxyl radical adducts to radical cations. The compounds SeCys and SeA, having an amino functional group, in addition to the radical cations, produced a new transient with lambda(max) at 460 nm, at later time scales ( approximately 20-40 micros after the pulse). The rate and yield of formation of the 460 nm band increased with increasing concentrations of either SeCys or SeA. In analogy with similar studies reported for analogous disulfides, the 460 nm transient absorption band has been assigned to a triselenide radical adduct. The one-electron reduction potentials of the compounds were estimated to be 0.96, 1.3, and 1.6 V versus NHE, respectively, for SeP, SeCys, and SeA at pH 7. From these studies, it has been concluded that the electron-donating carboxylic acid group decreases the reduction potential and facilitates quantitative conversion of hydroxyl radical adducts to radical cations, while the electron-withdrawing NH(3)(+) group not only increases the reduction potential but also leads to fragmentation of the hydroxyl radical adduct to selenyl radicals, which are converted

  17. Theoretical Studies of Chemical Reactions following Electronic Excitation

    NASA Technical Reports Server (NTRS)

    Chaban, Galina M.

    2003-01-01

    The use of multi-configurational wave functions is demonstrated for several processes: tautomerization reactions in the ground and excited states of the DNA base adenine, dissociation of glycine molecule after electronic excitation, and decomposition/deformation of novel rare gas molecules HRgF. These processes involve bond brealung/formation and require multi-configurational approaches that include dynamic correlation.

  18. Penicillin Hydrolysis: A Kinetic Study of a Multistep, Multiproduct Reaction.

    ERIC Educational Resources Information Center

    McCarrick, Thomas A.; McLafferty, Fred W.

    1984-01-01

    Background, procedures used, and typical results are provided for an experiment in which students carry out the necessary measurements on the acid-catalysis of penicillin in two hours. By applying kinetic theory to the data obtained, the reaction pathways for the hydrolysis of potassium benzyl penicillin are elucidated. (JN)

  19. Surface Reactions Studied by Synchrotron Based Photoelectron Spectroscopy

    SciTech Connect

    Hrbek, J.

    1998-11-03

    The goal of this article is to illustrate the use of synchrotron radiation for investigating surface chemical reactions by photoelectron spectroscopy. A brief introduction and background information is followed by examples of layer resolved spectroscopy, oxidation and sulfidation of metallic, semiconducting and oxide surfaces.

  20. Rheological studies on the reaction of zein with polyethylenemaleic anhydride

    Technology Transfer Automated Retrieval System (TEKTRAN)

    There continues to be interest in developing solvent-resistant articles from biobased renewable materials to successfully complete with petro-chemical products. It was previously shown that reaction of zein with polyethylenemaleic anhydride (PEMA) provides articles that are solvent-resistant. The ge...

  1. Single-collision studies of energy transfer and chemical reaction

    SciTech Connect

    Valentini, J.J.

    1993-12-01

    The research focus in this group is state-to-state dynamics of reaction and energy transfer in collisions of free radicals such as H, OH, and CH{sub 3} with H{sub 2}, alkanes, alcohols and other hydrogen-containing molecules. The motivation for the work is the desire to provide a detailed understanding of the chemical dynamics of prototype reactions that are important in the production and utilization of energy sources, most importantly in combustion. The work is primarily experimental, but with an important and growing theoretical/computational component. The focus of this research program is now on reactions in which at least one of the reactants and one of the products is polyatomic. The objective is to determine how the high dimensionality of the reactants and products differentiates such reactions from atom + diatom reactions of the same kinematics and energetics. The experiments use highly time-resolved laser spectroscopic methods to prepare reactant states and analyze the states of the products on a single-collision time scale. The primary spectroscopic tool for product state analysis is coherent anti-Stokes Raman scattering (CARS) spectroscopy. CARS is used because of its generality and because the extraction of quantum state populations from CARS spectra is straightforward. The combination of the generality and easy analysis of CARS makes possible absolute cross section measurements (both state-to-state and total), a particularly valuable capability for characterizing reactive and inelastic collisions. Reactant free radicals are produced by laser photolysis of appropriate precursors. For reactant vibrational excitation stimulated Raman techniques are being developed and implemented.

  2. A selected ion flow tube study of the reactions of NO + and O + 2 ions with some organic molecules: The potential for trace gas analysis of air

    NASA Astrophysics Data System (ADS)

    Španěl, Patrik; Smith, David

    1996-02-01

    A study has been carried out using our selected ion flow tube apparatus of the reactions of NO+ and O+2 ions in their vibronic ground states with ten organic species: the hydrocarbons, benzene, toluene, isoprene, cyclopropane, and n-pentane; the oxygen-containing organics, methanol, ethanol, acetaldehyde, acetone, and diethyl ether. The major objectives of this work are, on the one hand, to fully understand the processes involved in these reactions and, on the other hand, to explore the potential of NO+ and O+2 as chemical ionization agents for the analysis of trace gases in air and on human breath. Amongst the NO+ reactions, charge transfer, hydride-ion transfer, and termolecular association occur, and the measured rate coefficients, k, for the reactions vary from immeasurably small to the maximum value, collisional rate coefficient, kc. The O+2 reactions are all fast, in each case the k being equal to or an appreciable fraction of kc, and charge transfer producing the parent organic ion or dissociative charge transfer resulting in two or three fragments of the parent ion are the reaction processes that occur. We conclude from these studies, and from previous studies, that NO+ ions and O+2 ions can be used to great effect as chemical ionization agents for trace gas analysis, especially in combination with H3O+ ions which we now routinely use for this purpose.

  3. Experimental study of neutron-rich nuclei near the N = 82 closed shell using the 4096Zr +50124Sn reaction with GASP and PRISMA-CLARA arrays

    NASA Astrophysics Data System (ADS)

    Rodríguez, W.; Torres, D. A.; Cristancho, F.; Medina, N. H.; Chapman, R.; Smith, J. F.; Mengoni, D.; Truesdale, V.; Grocutt, L.; Mulholland, K.; Kumar, V.; Hadinia, B.; Labiche, M.; Liang, X.; O'Donell, D.; Ollier, J.; Orlandi, R.; Smith, J. F.; Spohr, K. M.; Wady, P.; Wang, Z. M.; Gadea, A.; Ur, C. A.; Lenzi, S. M.; Capponi, L.; Michelangnoli, C.; Bazzacco, D.; Beghini, S.; Mǎrginean, R.; Mengoni, D.; Montagnoli, G.; Recchia, F.; Scarlassara, F.; Lunardi, S.; Kröll, T.; Napoli, D. R.; Corradi, L.; Fioretto, E.; de Angelis, G.; Mǎrginean, N.; Sahin, E.; Stefanini, A. M.; Valiente-Dobon, J. J.; Vedova, F. D.; Axiotis, M.; Martinez, T.; Szilner, S.; Freeman, S. J.; Smith, A. G.; Jones, G.; Thompson, N.; Pollarolo, G.

    2014-11-01

    In this contribution an experimental study of the deep-inelastic reaction 4096Zr +50124Sn at 530 MeV, using the GASP and PRISMA-CLARA arrays, is presented. The experiments populate a wealth of projectile-like and target-like binary fragments, in a large neutron-rich region around N ≥ 50 and Z ≈ 40. Preliminary results on the study of the yrast and near-yrast states for 95Nb will be shown, along with a comparison of the experimental yields obtained in the experiments.

  4. Gas chromatographic-mass spectrometric fragmentation study of phytoestrogens as their trimethylsilyl derivatives: Identification in soy milk and wastewater samples

    USGS Publications Warehouse

    Ferrer, I.; Barber, L.B.; Thurman, E.M.

    2009-01-01

    An analytical method for the identification of eight plant phytoestrogens (biochanin A, coumestrol, daidzein, equol, formononetin, glycitein, genistein and prunetin) in soy products and wastewater samples was developed using gas chromatography coupled with ion trap mass spectrometry (GC/MS-MS). The phytoestrogens were derivatized as their trimethylsilyl ethers with trimethylchlorosilane (TMCS) and N,O-bis(trimethylsilyl)trifluoroacetamide (BSTFA). The phytoestrogens were isolated from all samples with liquid-liquid extraction using ethyl acetate. Daidzein-d4 and genistein-d4 labeled standards were used as internal standards before extraction and derivatization. The fragmentation patterns of the phytoestrogens were investigated by isolating and fragmenting the precursor ions in the ion-trap and a typical fragmentation involved the loss of a methyl and a carbonyl group. Two characteristic fragment ions for each analyte were chosen for identification and confirmation. The developed methodology was applied to the identification and confirmation of phytoestrogens in soy milk, in wastewater effluent from a soy-milk processing plant, and in wastewater (influent and effluent) from a treatment plant. Detected concentrations of genistein ranged from 50,000 ??g/L and 2000 ??g/L in soy milk and in wastewater from a soy-plant, respectively, to 20 ??g/L and <1 ??g/L for influent and effluent from a wastewater treatment plant, respectively. ?? 2009 Elsevier B.V.

  5. Space station structural dynamics/reaction control system interaction study

    NASA Technical Reports Server (NTRS)

    Pinnamaneni, M.; Murray, J.

    1987-01-01

    The performance of the Reaction Control System is impacted by the extreme flexibility of the space station structure. The method used to analyze the periodic thrust profile of a simple form of phase plane logic is presented. The results illustrate the effect on flexible body response of the type of phase plane logic utilized and the choice of control parameters: cycle period and attitude deadband.

  6. A study of switchgrass pyrolysis: Product variability and reaction kinetics

    NASA Astrophysics Data System (ADS)

    Bovee, Jonathan Matthew

    Samples of the same cultivar of cave-in-rock switchgrass were harvested from plots in Frankenmuth, Roger City, Cass County, and Grand Valley, Michigan. It was determined that variation exists, between locations, among the pyrolytic compounds which can lead to variability in bio-oil and increased processing costs at bio-refineries to make hydrocarbon fuels. Washed and extractives-free switchgrass samples, which contain a lower alkali and alkaline earth metals content than untreated samples, were shown to produce lower amounts of acids, esters, furans, ketones, phenolics, and saccharides and also larger amounts of aldehydes upon pyrolysis. Although the minerals catalyzed pyrolytic reactions, there was no evidence indicating their effect on reducing the production of anhydrosugars, specifically levoglucosan. To further link minerals present in the biomass to a catalytic pathway, mathematic models were employed to determine the kinetic parameters of the switchgrass. While the calculated activation energies of switchgrass, using the FWO and KAS methods, were 227.7 and 217.8 kJ/mol, correspondingly, it was concluded that the activation energies for the switchgrass hemicellulose and cellulose peaks were 115.5 and 158.2 kJ/mol, respectively, using a modified model-fitting method. The minerals that effect the production of small molecules and levoglucosan also have an observable catalytic effect on switchgrass reaction rate, which may be quantifiable through the use of reaction kinetics so as to determine activation energy.

  7. Simulation studies in biochemical signaling and enzyme reactions

    NASA Astrophysics Data System (ADS)

    Nelatury, Sudarshan R.; Vagula, Mary C.

    2014-06-01

    Biochemical pathways characterize various biochemical reaction schemes that involve a set of species and the manner in which they are connected. Determination of schematics that represent these pathways is an important task in understanding metabolism and signal transduction. Examples of these Pathways are: DNA and protein synthesis, and production of several macro-molecules essential for cell survival. A sustained feedback mechanism arises in gene expression and production of mRNA that lead to protein synthesis if the protein so synthesized serves as a transcription factor and becomes a repressor of the gene expression. The cellular regulations are carried out through biochemical networks consisting of reactions and regulatory proteins. Systems biology is a relatively new area that attempts to describe the biochemical pathways analytically and develop reliable mathematical models for the pathways. A complete understanding of chemical reaction kinetics is prohibitively hard thanks to the nonlinear and highly complex mechanisms that regulate protein formation, but attempting to numerically solve some of the governing differential equations seems to offer significant insight about their biochemical picture. To validate these models, one can perform simple experiments in the lab. This paper introduces fundamental ideas in biochemical signaling and attempts to take first steps into the understanding of biochemical oscillations. Initially, the two-pool model of calcium is used to describe the dynamics behind the oscillations. Later we present some elementary results showing biochemical oscillations arising from solving differential equations of Elowitz and Leibler using MATLAB software.

  8. Hydrogen storage reactions on titanium decorated carbon nanocones theoretical study

    NASA Astrophysics Data System (ADS)

    Shalabi, A. S.; Taha, H. O.; Soliman, K. A.; Abeld Aal, S.

    2014-12-01

    Hydrogen storage reactions on Ti decorated carbon nanocones (CNC) are investigated by using the state of the art density functional theory calculations. The single Ti atom prefers to bind at the bridge site between two hexagonal rings, and can bind up to 6 hydrogen molecules with average adsorption energies of -1.73, -0.74, -0.57, -0.45, -0.42, and -0.35 eV per hydrogen molecule. No evidence for metal clustering in the ideal circumstances, and the hydrogen storage capacity is expected to be as large as 14.34 wt%. Two types of interactions are recognized. While the interaction of 2H2 with Ti-CNC is irreversible at 532 K, the interaction of 3H2 with Ti-CNC is reversible at 392 K. Further characterizations of the former two reactions are considered in terms of projected densities of states, simulated infrared and proton magnetic resonance spectra, electrophilicity, and statistical thermodynamic stability. The free energy of the highest hydrogen storage capacity reaction between 6H2 and Ti-CNC meets the ultimate targets of department of energy at (233.15 K) and (11.843 atm) with surface coverage (0.941) and (direct/inverse) rate constants ratio (1.35).

  9. QGP and Modified Jet Fragmentation

    SciTech Connect

    Wang, Xin-Nian

    2005-04-18

    Recent progresses in the study of jet modification in hotmedium and their consequences in high-energy heavy-ion collisions are reviewed. In particular, I will discuss energy loss for propagating heavy quarks and the resulting modified fragmentation function. Medium modification of the parton fragmentation function due to quark recombination are formulated within finite temperature field theory and their implication on the search for deconfined quark-gluon plasma is also discussed.

  10. Low-energy nuclear reaction studies with RI beams in nuclear astrophysics

    NASA Astrophysics Data System (ADS)

    Kubono, S.; Teranishi, T.; Kato, S.

    2003-07-01

    After a brief discussion on the recent development in nuclear astrophysics, two reaction studies of typical astrophysical reactions at low energies where nuclear reactions play the main contributions to the nucleosynthesis in the universe, are discussed. One is the proton capture reaction, 11C(p, γ)12N, studied by the direct method using a 11C beam produced with a new low-energy RIB separator CRIB at CNS, Japan. The second one is the 13C(α, n)16O rearrangement reaction, which is believed to be the main neutron source for the s-process at low temperatures, investigated by an indirect method using the direct α-transfer reaction 13C(6Li, d)17O. Detailed investigations are suggested on the nuclear reactions relevant.

  11. FURTHER STUDIES ON THE OPHTHALMO-TUBERCULIN REACTION IN CATTLE.

    PubMed

    McCampbell, E F

    1908-09-01

    Our conclusions differ in a few points from those of our first work on this subject. We are able to sum up our observations in this series of experiments as follows: 1. The ophthalmo-tuberculin test is of limited value in the diagnosis of tuberculosis in cattle. In some cases the reaction is very slight (hyperaemia). In others more pronounced congestion with profuse exudates are noted. Accuracy of observation is important. We are inclined to rely primarily on the results of the first instillation of tuberculin. Second instillations in a few instances elicit reaction in non-tubercular animals. 2. In the majority of animals tested the reaction increased in its intensity with each subsequent instillation of tuberculin. This fact indicates the development of a local hypersusceptibility or anaphylaxis associated with a partial immunity; von Pirquet calls this condition "allergie" (9). 3. It is possible in some cases to create a condition of "allergie" in healthy cattle, when spaced instillations of tuberculin are made. It is evident, therefore, that the result of the first instillation of tuberculin should be made the only basis of diagnosis. Rosenau and Anderson (II) have recently called attention to this point in regard to the human subject. 4. When repeated instillations of tuberculin are made on the conjunctiva at short intervals (twenty-four hours, etc.) a local immunity results (No. 3D et al.). If the instillations are separated two weeks or more anaphylaxis results. 5. We, therefore, hold that if tuberculin (0.1 cubic centimeter) is carefully instilled into the conjunctival sac and if careful comparison of the instilled eye with the opposite eye shows that a reaction of varying intensity results in from ten to twelve hours after the first instillation, a tubercular lesion is present. 6. In our first report (7) we were inclined to believe that subcutaneous tubercular injection given previous to the ocular test would slightly inhibit it. We have since become

  12. Systematic study of the fragmentation of low-lying dipole strength in odd-A rare earth nuclei investigated in nuclear resonance fluorescence experiments

    NASA Astrophysics Data System (ADS)

    Nord, A.; Schiller, A.; Eckert, T.; Beck, O.; Besserer, J.; von Brentano, P.; Fischer, R.; Herzberg, R.-D.; Jäger, D.; Kneissl, U.; Margraf, J.; Maser, H.; Pietralla, N.; Pitz, H. H.; Rittner, M.; Zilges, A.

    1996-11-01

    Nuclear resonance fluorescence experiments were performed on the rare earth nuclei 155Gd and 159Tb to study the fragmentation of the M1 scissors mode in odd deformed nuclei and to establish a kind of systematics. Using the bremsstrahlung photon beam of the Stuttgart Dynamitron (end point energy 4.1 MeV) and high resolution Ge-γ spectrometers detailed information was obtained on excitation energies, decay widths, transition probabilities, and branching ratios. The results are compared to those observed recently for the neighboring odd nuclei 161,163Dy and 157Gd. Whereas in the odd Dy isotopes the dipole strength is rather concentrated, both Gd isotopes show a strong fragmentation of the strength into about 25 (155Gd) and 90 transitions (157Gd) in the energy range 2-4 MeV. The nucleus 159Tb linking the odd Dy and Gd isotopes exhibits an intermediate strength fragmentation. In general the observed total strength in the odd nuclei is reduced by a factor of 2-3 as compared to their neighboring even-even isotopes. The different fragmentation behavior of the dipole strengths in the odd Dy and Gd isotopes is unexplained up to now.

  13. Fragmentation of drying paint layers

    NASA Astrophysics Data System (ADS)

    Bakos, Katinka; Dombi, András; Járai-Szabó, Ferenc; Néda, Zoltán

    2013-11-01

    Fragmentation of thin layers of drying granular materials on a frictional surface are studied both by experiments and computer simulations. Besides a qualitative description of the fragmentation phenomenon, the dependence of the average fragment size as a function of the layer thickness is thoroughly investigated. Experiments are done using a special nail polish, which forms characteristic crack structures during drying. In order to control the layer thickness, we diluted the nail polish in acetone and evaporated in a controlled manner different volumes of this solution on glass surfaces. During the evaporation process we managed to get an instable paint layer, which formed cracks as it dried out. In order to understand the obtained structures a previously developed spring-block model was implemented in a three-dimensional version. The experimental and simulation results proved to be in excellent qualitative and quantitative agreement. An earlier suggested scaling relation between the average fragment size and the layer thickness is reconfirmed.

  14. Chemical reactions studied at ultra-low temperature in liquid helium clusters

    NASA Astrophysics Data System (ADS)

    Huisken, Friedrich; Krasnokutski, Serge A.

    2012-11-01

    Low-temperature reaction rates are important ingredients for astrophysical reaction networks modeling the formation of interstellar matter in molecular clouds. Unfortunately, such data is difficult to obtain by experimental means. In an attempt to study low-temperature reactions of astrophysical interest, we have investigated relevant reactions at ultralow temperature in liquid helium droplets. Being prepared by supersonic expansion of helium gas at high pressure through a nozzle into a vacuum, large helium clusters in the form of liquid droplets constitute nano-sized reaction vessels for the study of chemical reactions at ultra-low temperature. If the normal isotope 4He is used, the helium droplets are superfluid and characterized by a constant temperature of 0.37 K. Here we present results obtained for Mg, Al, and Si reacting with O2. Mass spectrometry was employed to characterize the reaction products. As it may be difficult to distinguish between reactions occurring in the helium droplets before they are ionized and ion-molecule reactions taking place after the ionization, additional techniques were applied to ensure that the reactions actually occurred in the helium droplets. This information was provided by measuring the chemiluminescence light emitted by the products, the evaporation of helium atoms by the release of the reaction heat, or by laser-spectroscopic identification of the reactants and products.

  15. Chemical reactions studied at ultra-low temperature in liquid helium clusters

    SciTech Connect

    Huisken, Friedrich; Krasnokutski, Serge A.

    2012-11-27

    Low-temperature reaction rates are important ingredients for astrophysical reaction networks modeling the formation of interstellar matter in molecular clouds. Unfortunately, such data is difficult to obtain by experimental means. In an attempt to study low-temperature reactions of astrophysical interest, we have investigated relevant reactions at ultralow temperature in liquid helium droplets. Being prepared by supersonic expansion of helium gas at high pressure through a nozzle into a vacuum, large helium clusters in the form of liquid droplets constitute nano-sized reaction vessels for the study of chemical reactions at ultra-low temperature. If the normal isotope {sup 4}He is used, the helium droplets are superfluid and characterized by a constant temperature of 0.37 K. Here we present results obtained for Mg, Al, and Si reacting with O{sub 2}. Mass spectrometry was employed to characterize the reaction products. As it may be difficult to distinguish between reactions occurring in the helium droplets before they are ionized and ion-molecule reactions taking place after the ionization, additional techniques were applied to ensure that the reactions actually occurred in the helium droplets. This information was provided by measuring the chemiluminescence light emitted by the products, the evaporation of helium atoms by the release of the reaction heat, or by laser-spectroscopic identification of the reactants and products.

  16. THE MECHANISM OF THE ABDERHALDEN REACTION : STUDIES ON IMMUNITY. I.

    PubMed

    Bronfenbrenner, J

    1915-03-01

    1. The Abderhalden reaction is specific. 2. The properties of serum on which it depends develop in experimental animals simultaneously with antibodies during the process of immunization. 3. It is impossible to observe by direct methods the presence of digesting ferments in the blood of immune animals. 4. The Abderhalden test may be resolved into two phases. A dialyzable substance appears in the second phase and is the result of the autodigestion of serum. 5. The autodigestion of serum in the Abderhalden test is due to the removal of antitrypsin from the serum by the sensitized substratum.

  17. Study of redox reactions to split water and carbon dioxide

    NASA Astrophysics Data System (ADS)

    Arifin, Darwin

    The development of carbon-neutral, environmentally-sustainable energy carrier is a technological imperative necessary to mitigate the impact of anthropogenic carbon dioxide on earth's climate. One compelling approach rapidly gaining international attention is the conversion of solar energy into renewable fuels, such as H2 or CO, via a two-step thermochemical cycle driven by concentrated solar power. In accordance with the increased interest in this process, there is a need to better understand the gas splitting chemistry on the metal oxide intermediates encountered in such solar-driven processes. Here we measured the H2 and CO production rates during oxidation by H2O and CO2 in a stagnation flow reactor. Redox cycles were performed over various metal oxide chemistries such as hercynite and ceria based materials that are thermally reduced by laser irradiation. In addition to cycle capacity evaluation, reaction kinetics intrinsic to the materials were extracted using a model-based analytical approach to account for the effects of mixing and dispersion in the reactor. Investigation of the "hercynite chemistry" with raman spectroscopy verifies that, at the surface, the cycle proceeds by stabilizing the reduced and oxidized moieties in two different compounds, which allows the thermal reduction reaction to occur to a greater extent at a temperature 150 °C lower than a similarly prepared CoFe2O4-coated m-ZrO2. Investigation of the ceria cycle shows that the water splitting reaction, in the range of 750 - 950 °C and 20 - 40 vol.% H2O, can best be described by a first-order kinetic model with low apparent activation energy (29 kJ/mol). The carbon dioxide splitting reaction, in the range of 650 - 875 °C and 10 - 40 vol.% CO2, is a more complex surface-mediated phenomena that is controlled by a temperature-dependent surface site blocking mechanism involving adsorbed carbon. Moreover, we find that lattice substitution of ceria with zirconium can increase H2 production by

  18. Ion-molecule reaction dynamics: Velocity map imaging studies of N+ and O+ with CD3OD

    NASA Astrophysics Data System (ADS)

    Pei, Linsen; Farrar, James M.

    2015-08-01

    We present a study of the charge transfer reactions of the atomic ions N+and O+ with methanol in the collision energy range from ˜2 to 4 eV. Charge transfer is driven primarily by energy resonance, although the widths of the product kinetic energy distributions suggest that significant interchange between relative translation and product vibration occurs. Charge transfer with CD3OD is more exoergic for N+, and the nascent parent ion products appear to be formed in excited B ˜ and C ˜ electronic states, and fragment to CD2OD+ by internal conversion and vibrational relaxation to the ground electronic state. The internal excitation imparted to the parent ion is sufficient to result in loss of one or two D atoms from the carbon atom. The less exoergic charge transfer reaction of O+ forms nascent parent ions in the excited A ˜ state, and internal conversion to the ground state only results in ejection of single D atom. Selected isotopomers of methanol were employed to identify reaction products, demonstrating that deuterium atom loss from nascent parent ions occurs by C-D bond cleavage. Comparison of the kinetic energy distributions for charge transfer to form CD3OD+ and CD2OD+ by D atom loss with the known dynamics for hydride abstraction from a carbon atom provides strong evidence that the D loss products are formed by dissociative charge transfer rather than hydride (deuteride) transfer. Isotopic labeling also demonstrates that chemical reaction in the N+ + CD3OD system to form NO+ + CD4 does not occur in the energy range of these experiments, contrary to earlier speculation in the literature.

  19. Complex fragment emission at low and high excitation energy

    SciTech Connect

    Moretto, L.G.

    1986-08-01

    Complex fragment emission has been certified as a compound nucleus process at low energies. An extension of the measurements to heavy ion reactions up to 50 MeV/u shows that most complex fragments are emitted by highly excited compound nuclei formed in incomplete fusion reactions. 12 refs., 26 figs.

  20. Molecular Beam Studies of Hot Atom Chemical Reactions: Reactive Scattering of Energetic Deuterium Atoms

    DOE R&D Accomplishments Database

    Continetti, R. E.; Balko, B. A.; Lee, Y. T.

    1989-02-01

    A brief review of the application of the crossed molecular beams technique to the study of hot atom chemical reactions in the last twenty years is given. Specific emphasis is placed on recent advances in the use of photolytically produced energetic deuterium atoms in the study of the fundamental elementary reactions D + H{sub 2} -> DH + H and the substitution reaction D + C{sub 2}H{sub 2} -> C{sub 2}HD + H. Recent advances in uv laser and pulsed molecular beam techniques have made the detailed study of hydrogen atom reactions under single collision conditions possible.