Health safety nets can break cycles of poverty and disease: a stochastic ecological model

PubMed Central

Pluciński, Mateusz M.; Ngonghala, Calistus N.; Bonds, Matthew H.

2011-01-01

The persistence of extreme poverty is increasingly attributed to dynamic interactions between biophysical processes and economics, though there remains a dearth of integrated theoretical frameworks that can inform policy. Here, we present a stochastic model of disease-driven poverty traps. Whereas deterministic models can result in poverty traps that can only be broken by substantial external changes to the initial conditions, in the stochastic model there is always some probability that a population will leave or enter a poverty trap. We show that a ‘safety net’, defined as an externally enforced minimum level of health or economic conditions, can guarantee ultimate escape from a poverty trap, even if the safety net is set within the basin of attraction of the poverty trap, and even if the safety net is only in the form of a public health measure. Whereas the deterministic model implies that small improvements in initial conditions near the poverty-trap equilibrium are futile, the stochastic model suggests that the impact of changes in the location of the safety net on the rate of development may be strongest near the poverty-trap equilibrium. PMID:21593026

Homotropic Cooperativity from the Activation Pathway of the Allosteric Ligand-Responsive Regulatory Protein TRAP†

PubMed Central

Kleckner, Ian R.; McElroy, Craig A.; Kuzmic, Petr; Gollnick, Paul; Foster, Mark P.

2014-01-01

The trp RNA-binding Attenuation Protein (TRAP) assembles into an 11-fold symmetric ring that regulates transcription and translation of trp-mRNA in bacilli via heterotropic allosteric activation by the amino acid tryptophan (Trp). Whereas nuclear magnetic resonance studies have revealed that Trp-induced activation coincides with both μs-ms rigidification and local structural changes in TRAP, the pathway of binding of the 11 Trp ligands to the TRAP ring remains unclear. Moreover, because each of eleven bound Trp molecules is completely surrounded by protein, its release requires flexibility of Trp-bound (holo) TRAP. Here, we used stopped-flow fluorescence to study the kinetics of Trp binding by Bacillus stearothermophilus TRAP over a range of temperatures and we observed well-separated kinetic steps. These data were analyzed using non-linear least-squares fitting of several two- and three-step models. We found that a model with two binding steps best describes the data, although the structural equivalence of the binding sites in TRAP implies a fundamental change in the time-dependent structure of the TRAP rings upon Trp binding. Application of the two binding step model reveals that Trp binding is much slower than the diffusion limit, suggesting a gating mechanism that depends on the dynamics of apo TRAP. These data also reveal that Trp dissociation from the second binding mode is much slower than after the first Trp binding mode, revealing insight into the mechanism for positive homotropic allostery, or cooperativity. Temperature dependent analyses reveal that both binding modes imbue increases in bondedness and order toward a more compressed active state. These results provide insight into mechanisms of cooperative TRAP activation, and underscore the importance of protein dynamics for ligand binding, ligand release, protein activation, and allostery. PMID:24224873

Occupancy models for monitoring marine fish: a bayesian hierarchical approach to model imperfect detection with a novel gear combination.

PubMed

Coggins, Lewis G; Bacheler, Nathan M; Gwinn, Daniel C

2014-01-01

Occupancy models using incidence data collected repeatedly at sites across the range of a population are increasingly employed to infer patterns and processes influencing population distribution and dynamics. While such work is common in terrestrial systems, fewer examples exist in marine applications. This disparity likely exists because the replicate samples required by these models to account for imperfect detection are often impractical to obtain when surveying aquatic organisms, particularly fishes. We employ simultaneous sampling using fish traps and novel underwater camera observations to generate the requisite replicate samples for occupancy models of red snapper, a reef fish species. Since the replicate samples are collected simultaneously by multiple sampling devices, many typical problems encountered when obtaining replicate observations are avoided. Our results suggest that augmenting traditional fish trap sampling with camera observations not only doubled the probability of detecting red snapper in reef habitats off the Southeast coast of the United States, but supplied the necessary observations to infer factors influencing population distribution and abundance while accounting for imperfect detection. We found that detection probabilities tended to be higher for camera traps than traditional fish traps. Furthermore, camera trap detections were influenced by the current direction and turbidity of the water, indicating that collecting data on these variables is important for future monitoring. These models indicate that the distribution and abundance of this species is more heavily influenced by latitude and depth than by micro-scale reef characteristics lending credence to previous characterizations of red snapper as a reef habitat generalist. This study demonstrates the utility of simultaneous sampling devices, including camera traps, in aquatic environments to inform occupancy models and account for imperfect detection when describing factors influencing fish population distribution and dynamics.

Occupancy Models for Monitoring Marine Fish: A Bayesian Hierarchical Approach to Model Imperfect Detection with a Novel Gear Combination

PubMed Central

Coggins, Lewis G.; Bacheler, Nathan M.; Gwinn, Daniel C.

2014-01-01

Occupancy models using incidence data collected repeatedly at sites across the range of a population are increasingly employed to infer patterns and processes influencing population distribution and dynamics. While such work is common in terrestrial systems, fewer examples exist in marine applications. This disparity likely exists because the replicate samples required by these models to account for imperfect detection are often impractical to obtain when surveying aquatic organisms, particularly fishes. We employ simultaneous sampling using fish traps and novel underwater camera observations to generate the requisite replicate samples for occupancy models of red snapper, a reef fish species. Since the replicate samples are collected simultaneously by multiple sampling devices, many typical problems encountered when obtaining replicate observations are avoided. Our results suggest that augmenting traditional fish trap sampling with camera observations not only doubled the probability of detecting red snapper in reef habitats off the Southeast coast of the United States, but supplied the necessary observations to infer factors influencing population distribution and abundance while accounting for imperfect detection. We found that detection probabilities tended to be higher for camera traps than traditional fish traps. Furthermore, camera trap detections were influenced by the current direction and turbidity of the water, indicating that collecting data on these variables is important for future monitoring. These models indicate that the distribution and abundance of this species is more heavily influenced by latitude and depth than by micro-scale reef characteristics lending credence to previous characterizations of red snapper as a reef habitat generalist. This study demonstrates the utility of simultaneous sampling devices, including camera traps, in aquatic environments to inform occupancy models and account for imperfect detection when describing factors influencing fish population distribution and dynamics. PMID:25255325

Dynamics of primary and secondary microbubbles created by laser-induced breakdown of an optically trapped nanoparticle

PubMed Central

Arita, Y.; Antkowiak, M.; Venugopalan, V.; Gunn-Moore, F. J.; Dholakia, K.

2012-01-01

Laser-induced breakdown of an optically trapped nanoparticle is a unique system for studying cavitation dynamics. It offers additional degrees of freedom, namely the nanoparticle material, its size, and the relative position between the laser focus and the center of the optically trapped nanoparticle. We quantify the spatial and temporal dynamics of the cavitation and secondary bubbles created in this system and use hydrodynamic modeling to quantify the observed dynamic shear stress of the expanding bubble. In the final stage of bubble collapse, we visualize the formation of multiple submicrometer secondary bubbles around the toroidal bubble on the substrate. We show that the pattern of the secondary bubbles typically has its circular symmetry broken along an axis whose unique angle rotates over time. This is a result of vorticity along the jet towards the boundary upon bubble collapse near solid boundaries. PMID:22400669

Understanding the Venus flytrap through mathematical modelling.

PubMed

Lehtinen, Sami

2018-05-07

Among carnivorous plants, the Venus flytrap is of particular interest for the rapid movement of its snap-traps and hypothesised prey selection, where small prey are allowed to escape from the traps. In this paper, we provide the first mathematical cost-benefit model for carnivory in the Venus flytrap. Specifically, we analyse the dynamics of prey capture; the costs and benefits of capturing and digesting its prey; and optimisation of trap size and prey selection. We fit the model to available data, making predictions regarding trap behaviour. In particular, we predict that non-prey sources, such as raindrops or wind, cause a large proportion of trap closures; only few trap closures result in a meal; most of the captured prey are allowed to escape; the closure mechanism of a trap is triggered about once every two days; and a trap has to wait more than a month for a meal. We also find that prey capture of traps of the Venus flytrap follows the Beddington-DeAngelis functional response. These predictions indicate that the Venus flytrap is highly selective in its prey capture. Copyright © 2018 The Author(s). Published by Elsevier Ltd.. All rights reserved.

The Low Earth Orbit validation of a dynamic and anisotropic trapped radiation model through ISS measurements

NASA Astrophysics Data System (ADS)

Badavi, Francis F.; Nealy, John E.; Wilson, John W.

2011-10-01

The International Space Station (ISS) provides the proving ground for future long duration human activities in space. Ionizing radiation measurements in ISS form the ideal tool for the experimental validation of radiation environmental models, nuclear transport code algorithms and nuclear reaction cross sections. Indeed, prior measurements on the Space Transportation System (STS; Shuttle) have provided vital information impacting both the environmental models and the nuclear transport code development by requiring dynamic models of the Low Earth Orbit (LEO) environment. Previous studies using Computer Aided Design (CAD) models of the evolving ISS configurations with Thermo-Luminescent Detector (TLD) area monitors, demonstrated that computational dosimetry requires environmental models with accurate non-isotropic as well as dynamic behavior, detailed information on rack loading, and an accurate six degree of freedom (DOF) description of ISS trajectory and orientation. It is imperative that we understand ISS exposures dynamically for crew career planning, and insure that the regulatory requirements of keeping exposure as low as reasonably achievable (ALARA) are adequately implemented. This is especially true as ISS nears some form of completion with increasing complexity, resulting in a larger drag coefficient, and requiring operation at higher altitudes with increased exposure rates. In this paper ISS environmental model is configured for 11A (circa mid 2005), and uses non-isotropic and dynamic geomagnetic transmission and trapped proton models. ISS 11A and LEO model validations are important steps in preparation for the design and validation for the next generation manned vehicles. While the described cutoff rigidity, trapped proton and electron formalisms as coded in a package named GEORAD (GEOmagnetic RADiation) and a web interface named OLTARIS (On-line Tool for the Assessment of Radiation in Space) are applicable to the LEO, Medium Earth Orbit (MEO) and Geosynchronous Earth Orbit (GEO) at quiet solar periods, in this report, the validation of the models using available measurements are limited to STS and ISS nominal operational altitudes (300-400 km) range at LEO where the dominant fields within the vehicle are the trapped proton and attenuated Galactic Cosmic Ray (GCR) ions. The described formalism applies to trapped electron at LEO, MEO and GEO as well. Due to the scarcity of available electron measurements, the trapped electron capabilities of the GEORAD are not discussed in this report, but are accessible through OLTARIS web interface. GEORAD and OLTARIS interests are in the study of long term effects (i.e. a meaningful portion of solar cycle). Therefore, GEORAD does not incorporate any short term external field contribution due to solar activity. Finally, we apply these environmental models to selected target points within ISS 6A (circa early 2001), 7A (circa late 2001), and 11A during its passage through the South Atlantic Anomaly (SAA) to assess the validity of the environmental models at ISS altitudes.

Statistical Modeling of an Optically Trapped Cilium

NASA Astrophysics Data System (ADS)

Flaherty, Justin; Resnick, Andrew

We explore, analytically and experimentally, the stochastic dynamics of a biologically significant slender microcantilever, the primary cilium, held within an optical trap. Primary cilia are cellular organelles, present on most vertebrate cells, hypothesized to function as a fluid flow sensor. The mechanical properties of a cilium remain incompletely characterized. Optical trapping is an ideal method to probe the mechanical response of a cilium due to the spatial localization and non-contact nature of the applied force. However, analysis of an optically trapped cilium is complicated both by the geometry of a cilium and boundary conditions. Here, we present experimentally measured mean-squared displacement data of trapped cilia where the trapping force is oppositely directed to the elastic restoring force of the ciliary axoneme, analytical modeling results deriving the mean-squared displacement of a trapped cilium using the Langevin approach, and apply our analytical results to the experimental data. We demonstrate that mechanical properties of the cilium can be accurately determined and efficiently extracted from the data using our model. It is hoped that improved measurements will result in deeper understanding of the biological function of cellular flow sensing by this organelle.

Conditions for order and chaos in the dynamics of a trapped Bose-Einstein condensate in coordinate and energy space

NASA Astrophysics Data System (ADS)

Sakhel, Roger R.; Sakhel, Asaad R.; Ghassib, Humam B.; Balaz, Antun

2016-03-01

We investigate numerically conditions for order and chaos in the dynamics of an interacting Bose-Einstein condensate (BEC) confined by an external trap cut off by a hard-wall box potential. The BEC is stirred by a laser to induce excitations manifesting as irregular spatial and energy oscillations of the trapped cloud. Adding laser stirring to the external trap results in an effective time-varying trapping frequency in connection with the dynamically changing combined external+laser potential trap. The resulting dynamics are analyzed by plotting their trajectories in coordinate phase space and in energy space. The Lyapunov exponents are computed to confirm the existence of chaos in the latter space. Quantum effects and trap anharmonicity are demonstrated to generate chaos in energy space, thus confirming its presence and implicating either quantum effects or trap anharmonicity as its generator. The presence of chaos in energy space does not necessarily translate into chaos in coordinate space. In general, a dynamic trapping frequency is found to promote chaos in a trapped BEC. An apparent means to suppress chaos in a trapped BEC is achieved by increasing the characteristic scale of the external trap with respect to the condensate size.

Predator-prey interactions of nematode-trapping fungi and nematodes: both sides of the coin.

PubMed

Vidal-Diez de Ulzurrun, Guillermo; Hsueh, Yen-Ping

2018-05-01

Nematode-trapping fungi develop complex trapping devices to capture and consume nematodes. The dynamics of these organisms is especially important given the pathogenicity of nematodes and, consequently, the potential application of nematode-trapping fungi as biocontrol agents. Furthermore, both the nematodes and nematode-trapping fungi can be easily grown in laboratories, making them a unique manipulatable predator-prey system to study their coevolution. Several different aspects of these fungi have been studied, such as their genetics and the different factors triggering trap formation. In this review, we use the nematode-trapping fungus Arthrobotrys oligospora (which forms adhesive nets) as a model to describe the trapping process. We divide this process into several stages; namely attraction, recognition, trap formation, adhesion, penetration, and digestion. We summarize the latest findings in the field and current knowledge on the interactions between nematodes and nematode-trapping fungi, representing both sides of the predator-prey interaction.

Trapping Dynamics in Photosystem I-Light Harvesting Complex I of Higher Plants Is Governed by the Competition Between Excited State Diffusion from Low Energy States and Photochemical Charge Separation.

PubMed

Molotokaite, Egle; Remelli, William; Casazza, Anna Paola; Zucchelli, Giuseppe; Polli, Dario; Cerullo, Giulio; Santabarbara, Stefano

2017-10-26

The dynamics of excited state equilibration and primary photochemical trapping have been investigated in the photosystem I-light harvesting complex I isolated from spinach, by the complementary time-resolved fluorescence and transient absorption approaches. The combined analysis of the experimental data indicates that the excited state decay is described by lifetimes in the ranges of 12-16 ps, 32-36 ps, and 64-77 ps, for both detection methods, whereas faster components, having lifetimes of 550-780 fs and 4.2-5.2 ps, are resolved only by transient absorption. A unified model capable of describing both the fluorescence and the absorption dynamics has been developed. From this model it appears that the majority of excited state equilibration between the bulk of the antenna pigments and the reaction center occurs in less than 2 ps, that the primary charge separated state is populated in ∼4 ps, and that the charge stabilization by electron transfer is completed in ∼70 ps. Energy equilibration dynamics associated with the long wavelength absorbing/emitting forms harbored by the PSI external antenna are also characterized by a time mean lifetime of ∼75 ps, thus overlapping with radical pair charge stabilization reactions. Even in the presence of a kinetic bottleneck for energy equilibration, the excited state dynamics are shown to be principally trap-limited. However, direct excitation of the low energy chlorophyll forms is predicted to lengthen significantly (∼2-folds) the average trapping time.

Eco-evolutionary feedbacks, adaptive dynamics and evolutionary rescue theory

PubMed Central

Ferriere, Regis; Legendre, Stéphane

2013-01-01

Adaptive dynamics theory has been devised to account for feedbacks between ecological and evolutionary processes. Doing so opens new dimensions to and raises new challenges about evolutionary rescue. Adaptive dynamics theory predicts that successive trait substitutions driven by eco-evolutionary feedbacks can gradually erode population size or growth rate, thus potentially raising the extinction risk. Even a single trait substitution can suffice to degrade population viability drastically at once and cause ‘evolutionary suicide’. In a changing environment, a population may track a viable evolutionary attractor that leads to evolutionary suicide, a phenomenon called ‘evolutionary trapping’. Evolutionary trapping and suicide are commonly observed in adaptive dynamics models in which the smooth variation of traits causes catastrophic changes in ecological state. In the face of trapping and suicide, evolutionary rescue requires that the population overcome evolutionary threats generated by the adaptive process itself. Evolutionary repellors play an important role in determining how variation in environmental conditions correlates with the occurrence of evolutionary trapping and suicide, and what evolutionary pathways rescue may follow. In contrast with standard predictions of evolutionary rescue theory, low genetic variation may attenuate the threat of evolutionary suicide and small population sizes may facilitate escape from evolutionary traps. PMID:23209163

Non-contact fiber-optical trapping of motile bacteria: dynamics observation and energy estimation

PubMed Central

Xin, Hongbao; Liu, Qingyuan; Li, Baojun

2014-01-01

The dynamics and energy conversion of bacteria are strongly associated with bacterial activities, such as survival, spreading of bacterial diseases and their pathogenesis. Although different discoveries have been reported on trapped bacteria (i.e. immobilized bacteria), the investigation on the dynamics and energy conversion of motile bacteria in the process of trapping is highly desirable. Here, we report a non-contact optical trapping of motile bacteria using a modified tapered optical fiber. Using Escherichia coli as an example, both single and multiple motile bacteria have been trapped and manipulated in a non-contact manner. Bacterial dynamics has been observed and bacterial energy has been estimated in the trapping process. This non-contact optical trapping provides a new opportunity for better understanding the bacterial dynamics and energy conversion at the single cell level. PMID:25300713

Normal-metal quasiparticle traps for superconducting qubits

NASA Astrophysics Data System (ADS)

Riwar, R.-P.; Hosseinkhani, A.; Burkhart, L. D.; Gao, Y. Y.; Schoelkopf, R. J.; Glazman, L. I.; Catelani, G.

2016-09-01

The presence of quasiparticles in superconducting qubits emerges as an intrinsic constraint on their coherence. While it is difficult to prevent the generation of quasiparticles, keeping them away from active elements of the qubit provides a viable way of improving the device performance. Here we develop theoretically and validate experimentally a model for the effect of a single small trap on the dynamics of the excess quasiparticles injected in a transmon-type qubit. The model allows one to evaluate the time it takes to evacuate the injected quasiparticles from the transmon as a function of trap parameters. With the increase of the trap size, this time decreases monotonically, saturating at the level determined by the quasiparticles diffusion constant and the qubit geometry. We determine the characteristic trap size needed for the relaxation time to approach that saturation value.

A Monte Carlo model of hot electron trapping and detrapping in SiO2

NASA Astrophysics Data System (ADS)

Kamocsai, R. L.; Porod, W.

1991-02-01

High-field stressing and oxide degradation of SiO2 are studied using a microscopic model of electron heating and charge trapping and detrapping. Hot electrons lead to a charge buildup in the oxide according to the dynamic trapping-detrapping model by Nissan-Cohen and co-workers [Y. Nissan-Cohen, J. Shappir, D. Frohman-Bentchkowsky, J. Appl. Phys. 58, 2252 (1985)]. Detrapping events are modeled as trap-to-band impact ionization processes initiated by high energy conduction electrons. The detailed electronic distribution function obtained from Monte Carlo transport simulations is utilized for the determination of the detrapping rates. We apply our microscopic model to the calculation of the flat-band voltage shift in silicon dioxide as a function of the electric field, and we show that our model is able to reproduce the experimental results. We also compare these results to the predictions of the empirical trapping-detrapping model which assumes a heuristic detrapping cross section. Our microscopic theory accounts for the nonlocal nature of impact ionization which leads to a dark space close to the injecting cathode, which is unaccounted for in the empirical model.

Theory on the mechanism of site-specific DNA-protein interactions in the presence of traps

NASA Astrophysics Data System (ADS)

Niranjani, G.; Murugan, R.

2016-08-01

The speed of site-specific binding of transcription factor (TFs) proteins with genomic DNA seems to be strongly retarded by the randomly occurring sequence traps. Traps are those DNA sequences sharing significant similarity with the original specific binding sites (SBSs). It is an intriguing question how the naturally occurring TFs and their SBSs are designed to manage the retarding effects of such randomly occurring traps. We develop a simple random walk model on the site-specific binding of TFs with genomic DNA in the presence of sequence traps. Our dynamical model predicts that (a) the retarding effects of traps will be minimum when the traps are arranged around the SBS such that there is a negative correlation between the binding strength of TFs with traps and the distance of traps from the SBS and (b) the retarding effects of sequence traps can be appeased by the condensed conformational state of DNA. Our computational analysis results on the distribution of sequence traps around the putative binding sites of various TFs in mouse and human genome clearly agree well the theoretical predictions. We propose that the distribution of traps can be used as an additional metric to efficiently identify the SBSs of TFs on genomic DNA.

Experimental Trapped-ion Quantum Simulation of the Kibble-Zurek dynamics in momentum space

PubMed Central

Cui, Jin-Ming; Huang, Yun-Feng; Wang, Zhao; Cao, Dong-Yang; Wang, Jian; Lv, Wei-Min; Luo, Le; del Campo, Adolfo; Han, Yong-Jian; Li, Chuan-Feng; Guo, Guang-Can

2016-01-01

The Kibble-Zurek mechanism is the paradigm to account for the nonadiabatic dynamics of a system across a continuous phase transition. Its study in the quantum regime is hindered by the requisite of ground state cooling. We report the experimental quantum simulation of critical dynamics in the transverse-field Ising model by a set of Landau-Zener crossings in pseudo-momentum space, that can be probed with high accuracy using a single trapped ion. We test the Kibble-Zurek mechanism in the quantum regime in the momentum space and find the measured scaling of excitations is in accordance with the theoretical prediction. PMID:27633087

Quantum Dynamics of H2 Trapped within Organic Clathrate Cages

NASA Astrophysics Data System (ADS)

Strobel, Timothy A.; Ramirez-Cuesta, Anibal J.; Daemen, Luke L.; Bhadram, Venkata S.; Jenkins, Timothy A.; Brown, Craig M.; Cheng, Yongqiang

2018-03-01

The rotational and translational dynamics of molecular hydrogen trapped within β -hydroquinone clathrate (H2 @β -HQ)—a practical example of a quantum particle trapped within an anisotropic confining potential—were investigated using inelastic neutron scattering and Raman spectroscopy. High-resolution vibrational spectra, including those collected from the VISION spectrometer at Oak Ridge National Laboratory, indicate relatively strong attractive interaction between guest and host with a strikingly large splitting of rotational energy levels compared with similar guest-host systems. Unlike related molecular systems in which confined H2 exhibits nearly free rotation, the behavior of H2 @β -HQ is explained using a two-dimensional (2D) hindered rotor model with barrier height more than 2 times the rotational constant (-16.2 meV ).

CO2 Capillary-Trapping Processes in Deep Saline Aquifers

NASA Astrophysics Data System (ADS)

Gershenzon, Naum I.; Soltanian, Mohamadreza; Ritzi, Robert W., Jr.; Dominic, David F.

2014-05-01

The idea of reducing the Earth's greenhouse effect by sequestration of CO2 into the Earth's crust has been discussed and evaluated for more than two decades. Deep saline aquifers are the primary candidate formations for realization of this idea. Evaluation of reservoir capacity and the risk of CO2 leakage require a detailed modeling of the migration and distribution of CO2 in the subsurface structure. There is a finite risk that structural (or hydrodynamic) trapping by caprock may be compromised (e.g. by improperly abandoned wells, stratigraphic discontinuities, faults, etc.). Therefore, other trapping mechanisms (capillary trapping, dissolution, and mineralization) must be considered. Capillary trapping may be very important in providing a "secondary-seal", and is the focus of our investigation. The physical mechanism of CO2 trapping in porous media by capillary trapping incorporates three related processes, i.e. residual trapping, trapping due to hysteresis of the relative permeability, and trapping due to hysteresis of the capillary pressure. Additionally CO2 may be trapped in heterogeneous media due to difference in capillary pressure entry points for different materials. The amount of CO2 trapped by these processes is a complicated nonlinear function of the spatial distribution of permeability, permeability anisotropy, capillary pressure, relative permeability of brine and CO2, permeability hysteresis and residual gas saturation (as well as the rate, total amount and placement of injected CO2). Geological heterogeneities essentially affect the dynamics of a CO2 plume in subsurface environments. Recent studies have led to new conceptual and quantitative models for sedimentary architecture in fluvial deposits over a range of scales that are relevant to the performance of some deep saline reservoirs [1, 2]. We investigated how the dynamics of a CO2 plume, during and after injection, is influenced by the hierarchical and multi-scale stratal architecture in such reservoirs. The results strongly suggest that representing these small scales features, and representing how they are organized within a hierarchy of larger-scale features, is critical to understanding capillary trapping processes. References [1] Bridge, J.S. (2006), Fluvial facies models: Recent developments, in Facies Models Revisited, SEPM Spec. Publ., 84, edited by H. W. Posamentier and R. G. Walker, pp. 85-170, Soc. for Sediment. Geol. (SEPM), Tulsa, Okla [2] Ramanathan, R., A. Guin, R.W. Ritzi, D.F. Dominic, V.L. Freedman, T.D. Scheibe, and I.A. Lunt (2010), Simulating the heterogeneity in channel belt deposits: Part 1. A geometric-based methodology and code, Water Resources Research, v. 46, W04515.

Interfacial dynamic surface traps of lead sulfide (PbS) nanocrystals: test-platform for interfacial charge carrier traps at the organic/inorganic functional interface

NASA Astrophysics Data System (ADS)

Kim, Youngjun; Ko, Hyungduk; Park, Byoungnam

2018-04-01

Nanocrystal (NC) size and ligand dependent dynamic trap formation of lead sulfide (PbS) NCs in contact with an organic semiconductor were investigated using a pentacene/PbS field effect transistor (FET). We used a bilayer pentacene/PbS FET to extract information of the surface traps of PbS NCs at the pentacene/PbS interface through the field effect-induced charge carrier density measurement in the threshold and subthreshold regions. PbS size and ligand dependent trap properties were elucidated by the time domain and threshold voltage measurements in which threshold voltage shift occurs by carrier charging and discharging in the trap states of PbS NCs. The observed threshold voltage shift is interpreted in context of electron trapping through dynamic trap formation associated with PbS NCs. To the best of our knowledge, this is the first demonstration of the presence of interfacial dynamic trap density of PbS NC in contact with an organic semiconductor (pentacene). We found that the dynamic trap density of the PbS NC is size dependent and the carrier residence time in the specific trap sites is more sensitive to NC size variation than to NC ligand exchange. The probing method presented in the study offers a means to investigate the interfacial surface traps at the organic-inorganic hetero-junction, otherwise understanding of the buried surface traps at the functional interface would be elusive.

Stable thermophoretic trapping of generic particles at low pressures

NASA Astrophysics Data System (ADS)

Fung, Frankie; Usatyuk, Mykhaylo; DeSalvo, B. J.; Chin, Cheng

2017-01-01

We demonstrate levitation and three-dimensionally stable trapping of a wide variety of particles in a vacuum through thermophoretic force in the presence of a strong temperature gradient. Typical sizes of the trapped particles are between 10 μm and 1 mm at a pressure between 1 and 10 Torr. The trapping stability is provided radially by the increasing temperature field and vertically by the transition from the free molecule to hydrodynamic behavior of thermophoresis as the particles ascend. To determine the levitation force and test various theoretical models, we examine the levitation heights of spherical polyethylene spheres under various conditions. A good agreement with two theoretical models is concluded. Our system offers a platform to discover various thermophoretic phenomena and to simulate dynamics of interacting many-body systems in a microgravity environment.

Analytic model of electron self-injection in a plasma wakefield accelerator in the strongly nonlinear bubble regime

NASA Astrophysics Data System (ADS)

Yi, Sunghwan; Khudik, Vladimir; Shvets, Gennady

2012-10-01

We study self-injection into a plasma wakefield accelerator in the blowout (or bubble) regime, where the bubble evolves due to background density inhomogeneities. To explore trapping, we generalize an analytic model for the wakefields inside the bubble [1] to derive expressions for the fields outside. With this extended model, we show that a return current in the bubble sheath layer plays an important role in determining the trapped electron trajectories. We explore an injection mechanism where bubble growth due to a background density downramp causes reduction of the electron Hamiltonian in the co-moving frame, trapping the particle in the dynamically deepening potential well [2]. Model calculations agree quantitatively with PIC simulations on the bubble expansion rate required for trapping, as well as the range of impact parameters for which electrons are trapped. This is an improvement over our previous work [3] using a simplified spherical bubble model, which ignored the fields outside of the bubble and hence overestimated the expansion rate required for trapping. [4pt] [1] W. Lu et al., Phys. Plasmas 13, 056709 (2006).[0pt] [2] S. Kalmykov et al., Phys. Rev. Lett 103, 135004 (2009).[0pt] [3] S.A. Yi et al., Plasma Phys. Contr. Fus. 53, 014012 (2011).

Overview of the High Performance Antiproton Trap (HiPAT) Experiment

NASA Technical Reports Server (NTRS)

Martin, James; Chakrabarti, Suman; Pearson, Boise; Sims, W. Herbert; Lewis, Raymond; Fant, Wallace; Rodgers, Stephen (Technical Monitor)

2002-01-01

A general overview of the High Performance Antiproton Trap (HiPAT) Experiment is presented. The topics include: 1) Why Antimatter? 2) HiPAT Applicability; 3) Approach-Goals; 4) HiPAT General Layout; 5) Sizing For Containment; 6) Laboratory Operations; 7) Vacuum System Cleaning; 8) Ion Production Via Electron Gun; 9) Particle Capture Via Ion Sources; 10) Ion Beam Steering/Focusing; 11) Ideal Ion Stacking Sequence; 12) Setup For Dynamic Capture; 13) Dynamic Capture of H(+) Ions; 14) Dynamic Capture; 15) Radio Frequency Particle Detection; 16) Radio Frequency Antenna Modeling; and 17) R.F. Stabilization-Low Frequencies. A short presentation of propulsion applications of Antimatter is also given. This paper is in viewgraph form.

Rotational dynamics of a diatomic molecular ion in a Paul trap

DOE Office of Scientific and Technical Information (OSTI.GOV)

Hashemloo, A.; Dion, C. M., E-mail: claude.dion@umu.se

We present models for a heteronuclear diatomic molecular ion in a linear Paul trap in a rigid-rotor approximation, one purely classical and the other where the center-of-mass motion is treated classically, while rotational motion is quantized. We study the rotational dynamics and their influence on the motion of the center-of-mass, in the presence of the coupling between the permanent dipole moment of the ion and the trapping electric field. We show that the presence of the permanent dipole moment affects the trajectory of the ion and that it departs from the Mathieu equation solution found for atomic ions. For themore » case of quantum rotations, we also evidence the effect of the above-mentioned coupling on the rotational states of the ion.« less

Dynamic trapping near a quantum critical point

NASA Astrophysics Data System (ADS)

Kolodrubetz, Michael; Katz, Emanuel; Polkovnikov, Anatoli

2015-02-01

The study of dynamics in closed quantum systems has been revitalized by the emergence of experimental systems that are well-isolated from their environment. In this paper, we consider the closed-system dynamics of an archetypal model: spins driven across a second-order quantum critical point, which are traditionally described by the Kibble-Zurek mechanism. Imbuing the driving field with Newtonian dynamics, we find that the full closed system exhibits a robust new phenomenon—dynamic critical trapping—in which the system is self-trapped near the critical point due to efficient absorption of field kinetic energy by heating the quantum spins. We quantify limits in which this phenomenon can be observed and generalize these results by developing a Kibble-Zurek scaling theory that incorporates the dynamic field. Our findings can potentially be interesting in the context of early universe physics, where the role of the driving field is played by the inflaton or a modulus field.

CO2 storage capacity estimates from fluid dynamics (Invited)

NASA Astrophysics Data System (ADS)

Juanes, R.; MacMinn, C. W.; Szulczewski, M.

2009-12-01

We study a sharp-interface mathematical model for the post-injection migration of a plume of CO2 in a deep saline aquifer under the influence of natural groundwater flow, aquifer slope, gravity override, and capillary trapping. The model leads to a nonlinear advection-diffusion equation, where the diffusive term describes the upward spreading of the CO2 against the caprock. We find that the advective terms dominate the flow dynamics even for moderate gravity override. We solve the model analytically in the hyperbolic limit, accounting rigorously for the injection period—using the true end-of-injection plume shape as an initial condition. We extend the model by incorporating the effect of CO2 dissolution into the brine, which—we find—is dominated by convective mixing. This mechanism enters the model as a nonlinear sink term. From a linear stability analysis, we propose a simple estimate of the convective dissolution flux. We then obtain semi-analytic estimates of the maximum plume migration distance and migration time for complete trapping. Our analytical model can be used to estimate the storage capacity (from capillary and dissolution trapping) at the geologic basin scale, and we apply the model to various target formations in the United States. Schematic of the migration of a CO2 plume at the geologic basin scale. During injection, the CO2 forms a plume that is subject to gravity override. At the end of the injection, all the CO2 is mobile. During the post-injection period, the CO2 migrates updip and also driven by regional groundwater flow. At the back end of the plume, where water displaces CO2, the plume leaves a wake or residual CO2 due to capillary trapping. At the bottom of the moving plume, CO2 dissolves into the brine—a process dominated by convective mixing. These two mechanisms—capillary trapping and convective dissolution—reduce the size of the mobile plume as it migrates. In this communication, we present an analytical model that predicts the migration distance and time for complete trapping. This is used to estimate storage capacity of geologic formations at the basin scale.

Minimum-variance Brownian motion control of an optically trapped probe.

PubMed

Huang, Yanan; Zhang, Zhipeng; Menq, Chia-Hsiang

2009-10-20

This paper presents a theoretical and experimental investigation of the Brownian motion control of an optically trapped probe. The Langevin equation is employed to describe the motion of the probe experiencing random thermal force and optical trapping force. Since active feedback control is applied to suppress the probe's Brownian motion, actuator dynamics and measurement delay are included in the equation. The equation of motion is simplified to a first-order linear differential equation and transformed to a discrete model for the purpose of controller design and data analysis. The derived model is experimentally verified by comparing the model prediction to the measured response of a 1.87 microm trapped probe subject to proportional control. It is then employed to design the optimal controller that minimizes the variance of the probe's Brownian motion. Theoretical analysis is derived to evaluate the control performance of a specific optical trap. Both experiment and simulation are used to validate the design as well as theoretical analysis, and to illustrate the performance envelope of the active control. Moreover, adaptive minimum variance control is implemented to maintain the optimal performance in the case in which the system is time varying when operating the actively controlled optical trap in a complex environment.

Single-molecule dynamics in nanofabricated traps

NASA Astrophysics Data System (ADS)

Cohen, Adam

2009-03-01

The Anti-Brownian Electrokinetic trap (ABEL trap) provides a means to immobilize a single fluorescent molecule in solution, without surface attachment chemistry. The ABEL trap works by tracking the Brownian motion of a single molecule, and applying feedback electric fields to induce an electrokinetic motion that approximately cancels the Brownian motion. We present a new design for the ABEL trap that allows smaller molecules to be trapped and more information to be extracted from the dynamics of a single molecule than was previously possible. In particular, we present strategies for extracting dynamically fluctuating mobilities and diffusion coefficients, as a means to probe dynamic changes in molecular charge and shape. If one trapped molecule is good, many trapped molecules are better. An array of single molecules in solution, each immobilized without surface attachment chemistry, provides an ideal test-bed for single-molecule analyses of intramolecular dynamics and intermolecular interactions. We present a technology for creating such an array, using a fused silica plate with nanofabricated dimples and a removable cover for sealing single molecules within the dimples. With this device one can watch the shape fluctuations of single molecules of DNA or study cooperative interactions in weakly associating protein complexes.

Sediment dynamics and their potential influence on insular-slope mesophotic coral ecosystems

NASA Astrophysics Data System (ADS)

Sherman, C.; Schmidt, W.; Appeldoorn, R.; Hutchinson, Y.; Ruiz, H.; Nemeth, M.; Bejarano, I.; Motta, J. J. Cruz; Xu, H.

2016-10-01

Although sediment dynamics exert a fundamental control on the character and distribution of reefs, data on sediment dynamics in mesophotic systems are scarce. In this study, sediment traps and benthic photo-transects were used to document spatial and temporal patterns of suspended-sediment and bed-load dynamics at two geomorphically distinct mesophotic coral ecosystems (MCEs) on the upper insular slope of southwest Puerto Rico. Trap accumulation rates of suspended sediment were relatively low and spatiotemporally uniform, averaging <1 mg cm-2 d-1 and never exceeding 3 mg cm-2 d-1 over the sampled period. In contrast, trap accumulation rates of downslope bed-load movement were orders of magnitude higher than suspended-sediment accumulation rates and highly variable, by orders of magnitude, both spatially and temporally. Percent sand cover within photo-transects varied over time from 10% to more than 40% providing further evidence of downslope sediment movement. In general, the more exposed, lower gradient site had higher rates of downslope sediment movement, higher sand cover and lower coral cover than the more sheltered and steep site that exhibited lower rates of downslope sediment movement, lower sand cover and higher coral cover. In most cases, trap accumulation rates of suspended sediment and bed load varied together and peaks in trap accumulation rates correspond to peaks in SWAN-modeled wave-orbital velocities, suggesting that surface waves may influence sediment dynamics even in mesophotic settings. Though variable, off-shelf transport of sediment is a continuous process occurring even during non-storm conditions. Continuous downslope sediment movement in conjunction with degree of exposure to prevailing seas and slope geomorphology are proposed to exert an important influence on the character and distribution of insular-slope MCEs.

Verification of geomechanical integrity and prediction of long-term mineral trapping for the Ketzin CO2 storage pilot site

NASA Astrophysics Data System (ADS)

Kempka, Thomas; De Lucia, Marco; Kühn, Michael

2014-05-01

Static and dynamic numerical modelling generally accompany the entire CO2 storage site life cycle. Thereto, it is required to match the employed models with field observations on a regular basis in order to predict future site behaviour. We investigated the coupled processes at the Ketzin CO2 storage pilot site [1] using a model coupling concept focusing on the temporal relevance of processes involved (hydraulic, chemical and mechanical) at given time-scales (site operation, abandonment and long-term stabilization). For that purpose, long-term dynamic multi-phase flow simulations [2], [3] established the basis for all simulations discussed in the following. Hereby, pressure changes resulting in geomechanical effects are largest during site operation, whereas geochemical reactions are governed by slow kinetics resulting in a long-term stabilization. To account for mechanical integrity, which may be mainly affected during site operation, we incorporated a regional-scale coupled hydro-mechanical model. Our simulation results show maximum ground surface displacements of about 4 mm, whereas shear and tensile failure are not observed. Consequently, the CO2 storage operation at the Ketzin pilot site does not compromise reservoir, caprock and fault integrity. Chemical processes responsible for mineral trapping are expected to mainly occur during long-term stabilization at the Ketzin pilot site [4]. Hence, our previous assessment [3] was extended by integrating two long-term mineral trapping scenarios. Thereby, mineral trapping contributes to the trapping mechanisms with 11.7 % after 16,000 years of simulation in our conservative and with 30.9 % in our maximum reactivity scenarios. Dynamic flow simulations indicate that only 0.2 % of the CO2 injected (about 67,270 t CO2 in total) is in gaseous state, but structurally trapped after 16,000 years. Depending on the studied long-term scenario, CO2 dissolution is the dominating trapping mechanism with 68.9 % and 88.1 %, respectively. We verified the mechanical integrity of the storage system during site operation and predicted the trapping mechanisms for the Ketzin pilot site based on a time-dependent integration of relevant processes for a time period of 16,000 years. Supported by our coupled modelling results, we conclude that CO2 storage at the Ketzin site is safe and reliable on the pilot scale. References [1] Martens, S., Kempka, T., Liebscher, A., Lüth, S., Möller, F., Myrttinen, A., Norden, B., Schmidt-Hattenberger, C., Zimmer, M., Kühn, M. Europe's longest-operating on-shore CO2 storage site at Ketzin, Germany: a progress report after three years of injection. Environmental Earth Sciences 2012 67(2): 323-334. [2] Kempka, T., Kühn, M. Numerical simulations of CO2 arrival times and reservoir pressure coincide with observations from the Ketzin pilot site, Germany. Environmental Earth Sciences 2013 70(8): 3675-3685. [3] Kempka, T., Klein, E., De Lucia, M., Tillner, E., Kühn, M. Assessment of Long-term CO2 Trapping Mechanisms at the Ketzin Pilot Site (Germany) by Coupled Numerical Modelling. Energy Procedia 2013 37: 5419-5426. [4] Klein, E., De Lucia, M., Kempka, T., Kühn, M. Evaluation of long-term mineral trapping at the Ketzin pilot site for CO2 storage: An integrative approach using geochemical modelling and reservoir simulation. International Journal of Greenhouse Gas Control 2013 19: 720-730.

Squishy nanotraps: hybrid cellulose nanocrystal-zirconium metallogels for controlled trapping of biomacromolecules.

PubMed

Sheikhi, A; van de Ven, T G M

2017-08-11

A brick-and-mortar-like ultrasoft nanocomposite metallogel is formed by crosslinking cellulose nanocrystals (CNC) with ammonium zirconium carbonate (AZC) to trap and reconfigure dextran, a model biomacromolecule. The bricks (CNC) reinforce the metallogel, compete with dextran in reacting with AZC, and decouple long-time dextran dynamics from network formation, while the mortar (AZC) imparts bimodality to the dextran diffusion.

Computational Modeling of Blood Flow in the TrapEase Inferior Vena Cava Filter

DOE Office of Scientific and Technical Information (OSTI.GOV)

Singer, M A; Henshaw, W D; Wang, S L

To evaluate the flow hemodynamics of the TrapEase vena cava filter using three dimensional computational fluid dynamics, including simulated thrombi of multiple shapes, sizes, and trapping positions. The study was performed to identify potential areas of recirculation and stagnation and areas in which trapped thrombi may influence intrafilter thrombosis. Computer models of the TrapEase filter, thrombi (volumes ranging from 0.25mL to 2mL, 3 different shapes), and a 23mm diameter cava were constructed. The hemodynamics of steady-state flow at Reynolds number 600 was examined for the unoccluded and partially occluded filter. Axial velocity contours and wall shear stresses were computed. Flowmore » in the unoccluded TrapEase filter experienced minimal disruption, except near the superior and inferior tips where low velocity flow was observed. For spherical thrombi in the superior trapping position, stagnant and recirculating flow was observed downstream of the thrombus; the volume of stagnant flow and the peak wall shear stress increased monotonically with thrombus volume. For inferiorly trapped spherical thrombi, marked disruption to the flow was observed along the cava wall ipsilateral to the thrombus and in the interior of the filter. Spherically shaped thrombus produced a lower peak wall shear stress than conically shaped thrombus and a larger peak stress than ellipsoidal thrombus. We have designed and constructed a computer model of the flow hemodynamics of the TrapEase IVC filter with varying shapes, sizes, and positions of thrombi. The computer model offers several advantages over in vitro techniques including: improved resolution, ease of evaluating different thrombus sizes and shapes, and easy adaptation for new filter designs and flow parameters. Results from the model also support a previously reported finding from photochromic experiments that suggest the inferior trapping position of the TrapEase IVC filter leads to an intra-filter region of recirculating/stagnant flow with very low shear stress that may be thrombogenic.« less

Dynamics in multiple-well Bose-Einstein condensates

NASA Astrophysics Data System (ADS)

Nigro, M.; Capuzzi, P.; Cataldo, H. M.; Jezek, D. M.

2018-01-01

We study the dynamics of three-dimensional weakly linked Bose-Einstein condensates using a multimode model with an effective interaction parameter. The system is confined by a ring-shaped four-well trapping potential. By constructing a two-mode Hamiltonian in a reduced highly symmetric phase space, we examine the periodic orbits and calculate their time periods both in the self-trapping and Josephson regimes. The dynamics in the vicinity of the reduced phase space is investigated by means of a Floquet multiplier analysis, finding regions of different linear stability and analyzing their implications on the exact dynamics. The numerical exploration in an extended region of the phase space demonstrates that two-mode tools can also be useful for performing a partition of the space in different regimes. Comparisons with Gross-Pitaevskii simulations confirm these findings and emphasize the importance of properly determining the effective on-site interaction parameter governing the multimode dynamics.

NH2- in a cold ion trap with He buffer gas: Ab initio quantum modeling of the interaction potential and of state-changing multichannel dynamics

NASA Astrophysics Data System (ADS)

Hernández Vera, Mario; Yurtsever, Ersin; Wester, Roland; Gianturco, Franco A.

2018-05-01

We present an extensive range of accurate ab initio calculations, which map in detail the spatial electronic potential energy surface that describes the interaction between the molecular anion NH2 - (1A1) in its ground electronic state and the He atom. The time-independent close-coupling method is employed to generate the corresponding rotationally inelastic cross sections, and then the state-changing rates over a range of temperatures from 10 to 30 K, which is expected to realistically represent the experimental trapping conditions for this ion in a radio frequency ion trap filled with helium buffer gas. The overall evolutionary kinetics of the rotational level population involving the molecular anion in the cold trap is also modelled during a photodetachment experiment and analyzed using the computed rates. The present results clearly indicate the possibility of selectively detecting differences in behavior between the ortho- and para-anions undergoing photodetachment in the trap.

Nematode-Trapping Fungi.

PubMed

Jiang, Xiangzhi; Xiang, Meichun; Liu, Xingzhong

2017-01-01

Nematode-trapping fungi are a unique and intriguing group of carnivorous microorganisms that can trap and digest nematodes by means of specialized trapping structures. They can develop diverse trapping devices, such as adhesive hyphae, adhesive knobs, adhesive networks, constricting rings, and nonconstricting rings. Nematode-trapping fungi have been found in all regions of the world, from the tropics to Antarctica, from terrestrial to aquatic ecosystems. They play an important ecological role in regulating nematode dynamics in soil. Molecular phylogenetic studies have shown that the majority of nematode-trapping fungi belong to a monophyletic group in the order Orbiliales (Ascomycota). Nematode-trapping fungi serve as an excellent model system for understanding fungal evolution and interaction between fungi and nematodes. With the development of molecular techniques and genome sequencing, their evolutionary origins and divergence, and the mechanisms underlying fungus-nematode interactions have been well studied. In recent decades, an increasing concern about the environmental hazards of using chemical nematicides has led to the application of these biological control agents as a rapidly developing component of crop protection.

Two-dimensional dynamics of a trapped active Brownian particle in a shear flow

NASA Astrophysics Data System (ADS)

Li, Yunyun; Marchesoni, Fabio; Debnath, Tanwi; Ghosh, Pulak K.

2017-12-01

We model the two-dimensional dynamics of a pointlike artificial microswimmer diffusing in a harmonic trap subject to the shear flow of a highly viscous medium. The particle is driven simultaneously by the linear restoring force of the trap, the drag force exerted by the flow, and the torque due to the shear gradient. For a Couette flow, elliptical orbits in the noiseless regime, and the correlation functions between the particle's displacements parallel and orthogonal to the flow are computed analytically. The effects of thermal fluctuations (translational) and self-propulsion fluctuations (angular) are treated separately. Finally, we discuss how to extend our approach to the diffusion of a microswimmer in a Poiseuille flow. These results provide an accurate reference solution to investigate, both numerically and experimentally, hydrodynamics corrections to the diffusion of active matter in confined geometries.

Dynamic analysis of trapping and escaping in dual beam optical trap

NASA Astrophysics Data System (ADS)

Li, Wenqiang; Hu, Huizhu; Su, Heming; Li, Zhenggang; Shen, Yu

2016-10-01

In this paper, we simulate the dynamic movement of a dielectric sphere in optical trap. This dynamic analysis can be used to calibrate optical forces, increase trapping efficiency and measure viscous coefficient of surrounding medium. Since an accurate dynamic analysis is based on a detailed force calculation, we calculate all forces a sphere receives. We get the forces of dual-beam gradient radiation pressure on a micron-sized dielectric sphere in the ray optics regime and utilize Einstein-Ornstein-Uhlenbeck to deal with its Brownian motion forces. Hydrodynamic viscous force also exists when the sphere moves in liquid. Forces from buoyance and gravity are also taken into consideration. Then we simulate trajectory of a sphere when it is subject to all these forces in a dual optical trap. From our dynamic analysis, the sphere can be trapped at an equilibrium point in static water, although it permanently fluctuates around the equilibrium point due to thermal effects. We go a step further to analyze the effects of misalignment of two optical traps. Trapping and escaping phenomena of the sphere in flowing water are also simulated. In flowing water, the sphere is dragged away from the equilibrium point. This dragging distance increases with the decrease of optical power, which results in escaping of the sphere with optical power below a threshold. In both trapping and escaping process we calculate the forces and position of the sphere. Finally, we analyze a trapping region in dual optical tweezers.

Exact mapping of the 2+1 Dirac oscillator onto the Jaynes-Cummings model: Ion-trap experimental proposal

DOE Office of Scientific and Technical Information (OSTI.GOV)

Bermudez, A.; Martin-Delgado, M. A.; Solano, E.

2007-10-15

We study the dynamics of the 2+1 Dirac oscillator exactly and find spin oscillations due to a Zitterbewegung of purely relativistic origin. We find an exact mapping of this quantum-relativistic system onto a Jaynes-Cummings model, describing the interaction of a two-level atom with a quantized single-mode field. This equivalence allows us to map a series of quantum optical phenomena onto the relativistic oscillator and vice versa. We make a realistic experimental proposal, in reach with current technology, for studying the equivalence of both models using a single trapped ion.

Trapping of quantum particles and light beams by switchable potential wells

NASA Astrophysics Data System (ADS)

Sonkin, Eduard; Malomed, Boris A.; Granot, Er'El; Marchewka, Avi

2010-09-01

We consider basic dynamical effects in settings based on a pair of local potential traps that may be effectively switched on and off, or suddenly displaced, by means of appropriate control mechanisms, such as scanning tunneling microscopy or photo-switchable quantum dots. The same models, based on the linear Schrödinger equation with time-dependent trapping potentials, apply to the description of optical planar systems designed for the switching of trapped light beams. The analysis is carried out in the analytical form, using exact solutions of the Schrödinger equation. The first dynamical problem considered in this work is the retention of a particle released from a trap which was suddenly turned off, while another local trap was switched on at a distance—immediately or with a delay. In this case, we demonstrate that the maximum of the retention rate is achieved at a specific finite value of the strength of the new trap, and at a finite value of the temporal delay, depending on the distance between the two traps. Another problem is retrapping of the bound particle when the addition of the second trap transforms the single-well setting into a double-well potential (DWP). In that case, we find probabilities for the retrapping into the ground or first excited state of the DWP. We also analyze effects entailed by the application of a kick to a bound particle, the most interesting one being a kick-induced transition between the DWP’s ground and excited states. In the latter case, the largest transition probability is achieved at a particular strength of the kick.

Solutal Convection in Porous Media

NASA Astrophysics Data System (ADS)

Liang, Y.; Wen, B.; DiCarlo, D. A.; Hesse, M. A.

2017-12-01

Atmospheric CO2 is one important component of greenhouse gases, which can greatly affect the temperature of the Earth. There are four trapping mechanisms for CO2sequestration, including structural & stratigraphic trapping, residual trapping, dissolution trapping and mineral trapping. Leakage potential is a serious problem for its storage efficiency, and dissolution trapping is a method that can prevent such leakages effectively. Convective dissolution trapping process can be simplified to an interesting physical problem: in porous media, dissolution can initiate convection, and then its dynamics can be affected by the continuous convection conversely. However, it is difficult to detect whether the convective dissolution may take place, as well as how fast and in what pattern it may take place. Previous studies have established a model and related scaling (Rayleigh number and Sherwood number) to describe this physical problem. To testify this model with a large range of Rayleigh numbers, we conducted a series of convective dissolution experiments in porous media. In addition, this large experimental assembly can allow us to quantify relation between wavenumber of the convective motion and the controlling factors of the system for the first time. The result of our laboratory experiments are revolutionary: On one hand, it shows that previous scaling of the convective dissolution becomes invalid once the permeability is large enough; On the other hand, the relation between wavenumber and Rayleigh number demonstrates an opposite trend against the classic model. According to our experimental results, we propose a new model to describe the solutal convection in porous media, and our model can describe and explain our experimental observations. Also, simulation work has been conducted to confirm our model. In the future, our model and relevant knowledge can be unscaled to industrial applications which are relevant to convective dissolution process.

Stable thermophoretic trapping of generic particles at low pressures

NASA Astrophysics Data System (ADS)

Fung, Long Fung Frankie

2017-04-01

We demonstrate levitation and three-dimensionally stable trapping of a wide variety of particles in medium vacuum through thermophoresis. Typical sizes of the trapped particles are between 10 μm and 1 mm; air pressure is between 1 and 10 Torr. We describe the experimental setup used to produce the temperature gradient, as well as our procedure for introducing particles into the experimental setup. To determine the levitation force and test various theoretical models, we examine the levitation heights of spherical polyethylene spheres under various conditions. A good agreement with two theoretical models is concluded. Our system offers a platform to discover various thermophoretic phenomena and to simulate dynamics of interacting many-body systems in a microgravity environment. NSF MRSEC Grant No. DMR-1420709.

An efficient, self-orienting, vertical-array, sand trap

NASA Astrophysics Data System (ADS)

Hilton, Michael; Nickling, Bill; Wakes, Sarah; Sherman, Douglas; Konlechner, Teresa; Jermy, Mark; Geoghegan, Patrick

2017-04-01

There remains a need for an efficient, low-cost, portable, passive sand trap, which can provide estimates of vertical sand flux over topography and within vegetation and which self-orients into the wind. We present a design for a stacked vertical trap that has been modelled (computational fluid dynamics, CFD) and evaluated in the field and in the wind tunnel. The 'swinging' trap orients to within 10° of the flow in the wind tunnel at 8 m s-1, and more rapidly in the field, where natural variability in wind direction accelerates orientation. The CFD analysis indicates flow is steered into the trap during incident wind flow. The trap has a low profile and there is only a small decrease in mass flow rate for multiple traps, poles and rows of poles. The efficiency of the trap was evaluated against an isokinetic sampler and found to be greater than 95%. The centre pole is a key element of the design, minimally decreasing trap efficiency. Finally, field comparisons with the trap of Sherman et al. (2014) yielded comparable estimates of vertical sand flux. The trap described in this paper provides accurate estimates of sand transport in a wide range of field conditions.

Computer simulation on the collision-sticking dynamics of two colloidal particles in an optical trap.

PubMed

Xu, Shenghua; Sun, Zhiwei

2007-04-14

Collisions of a particle pair induced by optical tweezers have been employed to study colloidal stability. In order to deepen insights regarding the collision-sticking dynamics of a particle pair in the optical trap that were observed in experimental approaches at the particle level, the authors carry out a Brownian dynamics simulation. In the simulation, various contributing factors, including the Derjaguin-Landau-Verwey-Overbeek interaction of particles, hydrodynamic interactions, optical trapping forces on the two particles, and the Brownian motion, were all taken into account. The simulation reproduces the tendencies of the accumulated sticking probability during the trapping duration for the trapped particle pair described in our previous study and provides an explanation for why the two entangled particles in the trap experience two different statuses.

A temperature dependent study on charge dynamics in organic molecular device: Effect of shallow traps on space charge limited behavior

NASA Astrophysics Data System (ADS)

Mukherjee, A. K.; Kavala, A. K.

2014-04-01

Shallow traps play a significant role in influencing charge dynamics through organic molecular thin films, such as pentacene. Sandwich cells of pentacene capped by gold electrodes are an excellent specimen to study the nature of underlying charge dynamics. In this paper, self-consistent numerical simulation of I-V characteristics is performed at various temperatures. The results have revealed negative value of Poole Frenkel coefficient. The location of trap energy level is found to be located at 0.24 eV above the highest occupied molecular orbit (HOMO) level of pentacene. Other physical parameters related to trap levels, such as density of states due to traps and effective carrier density due to traps, have also been estimated in this study.

The use (and misuse) of sediment traps in coral reef environments: theory, observations, and suggested protocols

NASA Astrophysics Data System (ADS)

Storlazzi, C. D.; Field, M. E.; Bothner, M. H.

2011-03-01

Sediment traps are commonly used as standard tools for monitoring "sedimentation" in coral reef environments. In much of the literature where sediment traps were used to measure the effects of "sedimentation" on corals, it is clear from deployment descriptions and interpretations of the resulting data that information derived from sediment traps has frequently been misinterpreted or misapplied. Despite their widespread use in this setting, sediment traps do not provide quantitative information about "sedimentation" on coral surfaces. Traps can provide useful information about the relative magnitude of sediment dynamics if trap deployment standards are used. This conclusion is based first on a brief review of the state of knowledge of sediment trap dynamics, which has primarily focused on traps deployed high above the seabed in relatively deep water, followed by our understanding of near-bed sediment dynamics in shallow-water environments that characterize coral reefs. This overview is followed by the first synthesis of near-bed sediment trap data collected with concurrent hydrodynamic information in coral reef environments. This collective information is utilized to develop nine protocols for using sediment traps in coral reef environments, which focus on trap parameters that researchers can control such as trap height ( H), trap mouth diameter ( D), the height of the trap mouth above the substrate ( z o ), and the spacing between traps. The hydrodynamic behavior of sediment traps and the limitations of data derived from these traps should be forefront when interpreting sediment trap data to infer sediment transport processes in coral reef environments.

The use (and misuse) of sediment traps in coral reef environments: Theory, observations, and suggested protocols

USGS Publications Warehouse

Storlazzi, C.D.; Field, M.E.; Bothner, Michael H.

2011-01-01

Sediment traps are commonly used as standard tools for monitoring “sedimentation” in coral reef environments. In much of the literature where sediment traps were used to measure the effects of “sedimentation” on corals, it is clear from deployment descriptions and interpretations of the resulting data that information derived from sediment traps has frequently been misinterpreted or misapplied. Despite their widespread use in this setting, sediment traps do not provide quantitative information about “sedimentation” on coral surfaces. Traps can provide useful information about the relative magnitude of sediment dynamics if trap deployment standards are used. This conclusion is based first on a brief review of the state of knowledge of sediment trap dynamics, which has primarily focused on traps deployed high above the seabed in relatively deep water, followed by our understanding of near-bed sediment dynamics in shallow-water environments that characterize coral reefs. This overview is followed by the first synthesis of near-bed sediment trap data collected with concurrent hydrodynamic information in coral reef environments. This collective information is utilized to develop nine protocols for using sediment traps in coral reef environments, which focus on trap parameters that researchers can control such as trap height (H), trap mouth diameter (D), the height of the trap mouth above the substrate (z o ), and the spacing between traps. The hydrodynamic behavior of sediment traps and the limitations of data derived from these traps should be forefront when interpreting sediment trap data to infer sediment transport processes in coral reef environments.

Comparison of Brownian-dynamics-based estimates of polymer tension with direct force measurements.

PubMed

Arsenault, Mark E; Purohit, Prashant K; Goldman, Yale E; Shuman, Henry; Bau, Haim H

2010-11-01

With the aid of brownian dynamics models, it is possible to estimate polymer tension by monitoring polymers' transverse thermal fluctuations. To assess the precision of the approach, brownian dynamics-based tension estimates were compared with the force applied to rhodamine-phalloidin labeled actin filaments bound to polymer beads and suspended between two optical traps. The transverse thermal fluctuations of each filament were monitored with a CCD camera, and the images were analyzed to obtain the filament's transverse displacement variance as a function of position along the filament, the filament's tension, and the camera's exposure time. A linear Brownian dynamics model was used to estimate the filament's tension. The estimated force was compared and agreed within 30% (when the tension <0.1 pN ) and 70% (when the tension <1 pN ) with the applied trap force. In addition, the paper presents concise asymptotic expressions for the mechanical compliance of a system consisting of a filament attached tangentially to bead handles (dumbbell system). The techniques described here can be used for noncontact estimates of polymers' and fibers' tension.

Fast shuttling of a particle under weak spring-constant noise of the moving trap

NASA Astrophysics Data System (ADS)

Lu, Xiao-Jing; Ruschhaupt, A.; Muga, J. G.

2018-05-01

We investigate the excitation of a quantum particle shuttled in a harmonic trap with weak spring-constant colored noise. The Ornstein-Uhlenbeck model for the noise correlation function describes a wide range of possible noises, in particular for short correlation times the white-noise limit examined by Lu et al. [Phys. Rev. A 89, 063414 (2014)], 10.1103/PhysRevA.89.063414 and, by averaging over correlation times, "1 /f flicker noise." We find expressions for the excitation energy in terms of static (independent of trap motion) and dynamical sensitivities, with opposite behavior with respect to shuttling time, and demonstrate that the excitation can be reduced by proper process timing and design of the trap trajectory.

Analysis of the impact of trap-neuter-return programs on populations of feral cats.

PubMed

Foley, Patrick; Foley, Janet E; Levy, Julie K; Paik, Terry

2005-12-01

To evaluate 2 county trap-neuter-return (TNR) programs for feral cat population management via mathematical modeling. Theoretical population model. Feral cats assessed from 1992 to 2003 in San Diego County, California (n = 14,452), and from 1998 to 2004 in Alachua County, Florida (11,822). Data were analyzed with a mathematical Ricker model to describe population dynamics of the feral cats and modifications to the dynamics that occurred as a result of the TNR programs. In both counties, results of analyses did not indicate a consistent reduction in per capita growth, the population multiplier, or the proportion of female cats that were pregnant. Success of feral cat management programs that use TNR can be monitored with an easily collected set of data and statistical analyses facilitated by population modeling techniques. Results may be used to suggest possible future monitoring and modification of TNR programs, which could result in greater success controlling and reducing feral cat populations.

A Simple Treatment of the Liquidity Trap for Intermediate Macroeconomics Courses

ERIC Educational Resources Information Center

Buttet, Sebastien; Roy, Udayan

2014-01-01

Several leading undergraduate intermediate macroeconomics textbooks now include a simple reduced-form New Keynesian model of short-run dynamics (alongside the IS-LM model). Unfortunately, there is no accompanying description of how the zero lower bound on nominal interest rates affects the model. In this article, the authors show how the…

Time-resolved, nonequilibrium carrier dynamics in Si-on-glass thin films for photovoltaic cells

DOE PAGES

Serafini, John; Akbas, Yunus; Crandall, Lucas; ...

2016-03-02

Here, a femtosecond pump–probe spectroscopy method was used to characterize the growth process and transport properties of amorphous silicon-on-glass, thin films, intended as absorbers for photovoltaic cells. We collected normalized transmissivity change (ΔT/T) waveforms and interpreted them using a comprehensive three-rate equation electron trapping and recombination model. Optically excited ~300–500 nm thick Si films exhibited a bi-exponential carrier relaxation with the characteristic times varying from picoseconds to nanoseconds depending on the film growth process. From our comprehensive trapping model, we could determine that for doped and intrinsic films with very low hydrogen dilution the dominant relaxation mode was carrier trapping;more » while for intrinsic films with large hydrogen content and some texture, it was the standard electron–phonon cooling. In both cases, the initial nonequilibrium relaxation was followed by Shockley–Read–Hall recombination. An excellent fit between the model and the ΔT/T experimental transients was obtained and a correlation between the Si film growth process, its hydrogen content, and the associated trap concentration was demonstrated.« less

Effects of temperature and surface orientation on migration behaviours of helium atoms near tungsten surfaces

NASA Astrophysics Data System (ADS)

Wang, Xiaoshuang; Wu, Zhangwen; Hou, Qing

2015-10-01

Molecular dynamics simulations were performed to study the dependence of migration behaviours of single helium atoms near tungsten surfaces on the surface orientation and temperature. For W{100} and W{110} surfaces, He atoms can quickly escape out near the surface without accumulation even at a temperature of 400 K. The behaviours of helium atoms can be well-described by the theory of continuous diffusion of particles in a semi-infinite medium. For a W{111} surface, the situation is complex. Different types of trap mutations occur within the neighbouring region of the W{111} surface. The trap mutations hinder the escape of He atoms, resulting in their accumulation. The probability of a He atom escaping into vacuum from a trap mutation depends on the type of the trap mutation, and the occurrence probabilities of the different types of trap mutations are dependent on the temperature. This finding suggests that the escape rate of He atoms on the W{111} surface does not show a monotonic dependence on temperature. For instance, the escape rate at T = 1500 K is lower than the rate at T = 1100 K. Our results are useful for understanding the structural evolution and He release on tungsten surfaces and for designing models in other simulation methods beyond molecular dynamics.

Diagnosis of colorectal cancer using Raman spectroscopy of laser-trapped single living epithelial cells

NASA Astrophysics Data System (ADS)

Chen, Kun; Qin, Yejun; Zheng, Feng; Sun, Menghong; Shi, Daren

2006-07-01

A single-cell diagnostic technique for epithelial cancers is developed by utilizing laser trapping and Raman spectroscopy to differentiate cancerous and normal epithelial cells. Single-cell suspensions were prepared from surgically removed human colorectal tissues following standard primary culture protocols and examined in a near-infrared laser-trapping Raman spectroscopy system, where living epithelial cells were investigated one by one. A diagnostic model was built on the spectral data obtained from 8 patients and validated by the data from 2 new patients. Our technique has potential applications from epithelial cancer diagnosis to the study of cell dynamics of carcinogenesis.

Multipole electrodynamic ion trap geometries for microparticle confinement under standard ambient temperature and pressure conditions

DOE Office of Scientific and Technical Information (OSTI.GOV)

Mihalcea, Bogdan M., E-mail: bogdan.mihalcea@inflpr.ro; Vişan, Gina T.; Ganciu, Mihai

2016-03-21

Trapping of microparticles and aerosols is of great interest for physics and chemistry. We report microparticle trapping in case of multipole linear Paul trap geometries, operating under standard ambient temperature and pressure conditions. An 8- and 12-electrode linear trap geometries have been designed and tested with an aim to achieve trapping for larger number of particles and to study microparticle dynamical stability in electrodynamic fields. We report emergence of planar and volume ordered structures of microparticles, depending on the a.c. trapping frequency and particle specific charge ratio. The electric potential within the trap is mapped using the electrolytic tank method.more » Particle dynamics is simulated using a stochastic Langevin equation. We emphasize extended regions of stable trapping with respect to quadrupole traps, as well as good agreement between experiment and numerical simulations.« less

Dynamical traps in Wang-Landau sampling of continuous systems: Mechanism and solution

NASA Astrophysics Data System (ADS)

Koh, Yang Wei; Sim, Adelene Y. L.; Lee, Hwee Kuan

2015-08-01

We study the mechanism behind dynamical trappings experienced during Wang-Landau sampling of continuous systems reported by several authors. Trapping is caused by the random walker coming close to a local energy extremum, although the mechanism is different from that of the critical slowing-down encountered in conventional molecular dynamics or Monte Carlo simulations. When trapped, the random walker misses the entire or even several stages of Wang-Landau modification factor reduction, leading to inadequate sampling of the configuration space and a rough density of states, even though the modification factor has been reduced to very small values. Trapping is dependent on specific systems, the choice of energy bins, and the Monte Carlo step size, making it highly unpredictable. A general, simple, and effective solution is proposed where the configurations of multiple parallel Wang-Landau trajectories are interswapped to prevent trapping. We also explain why swapping frees the random walker from such traps. The efficacy of the proposed algorithm is demonstrated.

From transistor to trapped-ion computers for quantum chemistry.

PubMed

Yung, M-H; Casanova, J; Mezzacapo, A; McClean, J; Lamata, L; Aspuru-Guzik, A; Solano, E

2014-01-07

Over the last few decades, quantum chemistry has progressed through the development of computational methods based on modern digital computers. However, these methods can hardly fulfill the exponentially-growing resource requirements when applied to large quantum systems. As pointed out by Feynman, this restriction is intrinsic to all computational models based on classical physics. Recently, the rapid advancement of trapped-ion technologies has opened new possibilities for quantum control and quantum simulations. Here, we present an efficient toolkit that exploits both the internal and motional degrees of freedom of trapped ions for solving problems in quantum chemistry, including molecular electronic structure, molecular dynamics, and vibronic coupling. We focus on applications that go beyond the capacity of classical computers, but may be realizable on state-of-the-art trapped-ion systems. These results allow us to envision a new paradigm of quantum chemistry that shifts from the current transistor to a near-future trapped-ion-based technology.

From transistor to trapped-ion computers for quantum chemistry

PubMed Central

Yung, M.-H.; Casanova, J.; Mezzacapo, A.; McClean, J.; Lamata, L.; Aspuru-Guzik, A.; Solano, E.

2014-01-01

Over the last few decades, quantum chemistry has progressed through the development of computational methods based on modern digital computers. However, these methods can hardly fulfill the exponentially-growing resource requirements when applied to large quantum systems. As pointed out by Feynman, this restriction is intrinsic to all computational models based on classical physics. Recently, the rapid advancement of trapped-ion technologies has opened new possibilities for quantum control and quantum simulations. Here, we present an efficient toolkit that exploits both the internal and motional degrees of freedom of trapped ions for solving problems in quantum chemistry, including molecular electronic structure, molecular dynamics, and vibronic coupling. We focus on applications that go beyond the capacity of classical computers, but may be realizable on state-of-the-art trapped-ion systems. These results allow us to envision a new paradigm of quantum chemistry that shifts from the current transistor to a near-future trapped-ion-based technology. PMID:24395054

The photoexcitation of crystalline ice and amorphous solid water: A molecular dynamics study of outcomes at 11 K and 125 K.

PubMed

Crouse, J; Loock, H-P; Cann, N M

2015-07-21

Photoexcitation of crystalline ice Ih and amorphous solid water at 7-9 eV is examined using molecular dynamics simulations and a fully flexible water model. The probabilities of photofragment desorption, trapping, and recombination are examined for crystalline ice at 11 K and at 125 K and for amorphous solid water at 11 K. For 11 K crystalline ice, a fully rigid water model is also employed for comparison. The kinetic energy of desorbed H atoms and the distance travelled by trapped fragments are correlated to the location and the local environment of the photoexcited water molecule. In all cases, H atom desorption is found to be the most likely outcome in the top bilayer while trapping of all photofragments is most probable deeper in the solid where the likelihood for recombination of the fragments into H2O molecules also rises. Trajectory analysis indicates that the local hydrogen bonding network in amorphous solid water is more easily distorted by a photodissociation event compared to crystalline ice. Also, simulations indicate that desorption of OH radicals and H2O molecules are more probable in amorphous solid water. The kinetic energy distributions for desorbed H atoms show a peak at high energy in crystalline ice, arising from photoexcited water molecules in the top monolayer. This peak is less pronounced in amorphous solid water. H atoms that are trapped may be displaced by up to ∼10 water cages, but migrate on average 3 water cages. Trapped OH fragments tend to stay near the original solvent cage.

Understanding Democracy and Development Traps Using a Data-Driven Approach.

PubMed

Ranganathan, Shyam; Nicolis, Stamatios C; Spaiser, Viktoria; Sumpter, David J T

2015-03-01

Methods from machine learning and data science are becoming increasingly important in the social sciences, providing powerful new ways of identifying statistical relationships in large data sets. However, these relationships do not necessarily offer an understanding of the processes underlying the data. To address this problem, we have developed a method for fitting nonlinear dynamical systems models to data related to social change. Here, we use this method to investigate how countries become trapped at low levels of socioeconomic development. We identify two types of traps. The first is a democracy trap, where countries with low levels of economic growth and/or citizen education fail to develop democracy. The second trap is in terms of cultural values, where countries with low levels of democracy and/or life expectancy fail to develop emancipative values. We show that many key developing countries, including India and Egypt, lie near the border of these development traps, and we investigate the time taken for these nations to transition toward higher democracy and socioeconomic well-being.

Understanding Democracy and Development Traps Using a Data-Driven Approach

PubMed Central

Ranganathan, Shyam; Nicolis, Stamatios C.; Spaiser, Viktoria; Sumpter, David J.T.

2015-01-01

Abstract Methods from machine learning and data science are becoming increasingly important in the social sciences, providing powerful new ways of identifying statistical relationships in large data sets. However, these relationships do not necessarily offer an understanding of the processes underlying the data. To address this problem, we have developed a method for fitting nonlinear dynamical systems models to data related to social change. Here, we use this method to investigate how countries become trapped at low levels of socioeconomic development. We identify two types of traps. The first is a democracy trap, where countries with low levels of economic growth and/or citizen education fail to develop democracy. The second trap is in terms of cultural values, where countries with low levels of democracy and/or life expectancy fail to develop emancipative values. We show that many key developing countries, including India and Egypt, lie near the border of these development traps, and we investigate the time taken for these nations to transition toward higher democracy and socioeconomic well-being. PMID:26487983

Silica nano-particle super-hydrophobic surfaces: the effects of surface morphology and trapped air pockets on hydrodynamic drainage forces.

PubMed

Chan, Derek Y C; Uddin, Md Hemayet; Cho, Kwun L; Liaw, Irving I; Lamb, Robert N; Stevens, Geoffrey W; Grieser, Franz; Dagastine, Raymond R

2009-01-01

We used atomic force microscopy to study dynamic forces between a rigid silica sphere (radius approximately 45 microm) and a silica nano-particle super-hydrophobic surface (SNP-SHS) in aqueous electrolyte, in the presence and absence of surfactant. Characterization of the SNP-SHS surface in air showed a surface roughness of up to two microns. When in contact with an aqueous phase, the SNP-SHS traps large, soft and stable air pockets in the surface interstices. The inherent roughness of the SNP-SHS together with the trapped air pockets are responsible for the superior hydrophobic properties of SNP-SHS such as high equilibrium contact angle (> 140 degrees) of water sessile drops on these surfaces and low hydrodynamic friction as observed in force measurements. We also observed that added surfactants adsorbed at the surface of air pockets magnified hydrodynamic interactions involving the SNP-SHS. The dynamic forces between the same silica sphere and a laterally smooth mica surface showed that the fitted Navier slip lengths using the Reynolds lubrication model were an order of magnitude larger than the length scale of the sphere surface roughness. The surface roughness and the lateral heterogeneity of the SNP-SHS hindered attempts to characterize the dynamic response using the Reynolds lubrication model even when augmented with a Navier slip boundary.

On-chip dynamic stress control for cancer cell evolution study

NASA Astrophysics Data System (ADS)

Liu, Liyu; Austin, Robert

2010-03-01

The growth and spreading of cancer in host organisms is an evolutionary process. Cells accumulate mutations that help them adapt to changing environments and to obtain survival fitness. However, all cancer--promoting mutations do not occur at once. Cancer cells face selective environmental pressures that drive their evolution in stages. In traditional cancer studies, environmental stress is usually homogenous in space and difficult to change in time. Here, we propose a microfluidic chip employing embedded dynamic traps to generate dynamic heterogeneous microenvironments for cancer cells in evolution studies. Based on polydimethylsiloxane (PDMS) flexible diaphragms, these traps are able to enclose and shield cancer cells or expose them to external environmental stress. Digital controls for each trap determine the nutrition, antibiotics, CO2/O2 conditions, and temperatures to which trapped cells are subjected. Thus, the stress applied to cells can be varied in intensity and duration in each trap independently. The chip can also output cells from specific traps for sequencing and other biological analysis. Hence our design simultaneously monitors and analyzes cell evolution behaviors under dynamic stresses.

Tracer diffusion in a sea of polymers with binding zones: mobile vs. frozen traps.

PubMed

Samanta, Nairhita; Chakrabarti, Rajarshi

2016-10-19

We use molecular dynamics simulations to investigate the tracer diffusion in a sea of polymers with specific binding zones for the tracer. These binding zones act as traps. Our simulations show that the tracer can undergo normal yet non-Gaussian diffusion under certain circumstances, e.g., when the polymers with traps are frozen in space and the volume fraction and the binding strength of the traps are moderate. In this case, as the tracer moves, it experiences a heterogeneous environment and exhibits confined continuous time random walk (CTRW) like motion resulting in a non-Gaussian behavior. Also the long time dynamics becomes subdiffusive as the number or the binding strength of the traps increases. However, if the polymers are mobile then the tracer dynamics is Gaussian but could be normal or subdiffusive depending on the number and the binding strength of the traps. In addition, with increasing binding strength and number of polymer traps, the probability of the tracer being trapped increases. On the other hand, removing the binding zones does not result in trapping, even at comparatively high crowding. Our simulations also show that the trapping probability increases with the increasing size of the tracer and for a bigger tracer with the frozen polymer background the dynamics is only weakly non-Gaussian but highly subdiffusive. Our observations are in the same spirit as found in many recent experiments on tracer diffusion in polymeric materials and question the validity of using Gaussian theory to describe diffusion in a crowded environment in general.

Characterization of Defects in Scaled Mis Dielectrics with Variable Frequency Charge Pumping

NASA Astrophysics Data System (ADS)

Paulsen, Ronald Eugene

1995-01-01

Historically, the interface trap has been extensively investigated to determine the effects on device performance. Recently, much attention has been paid to trapping in near-interface oxide traps. Performance of high precision analog circuitry is affected by charge trapping in near-interface oxide traps which produces hysteresis, charge redistribution errors, and dielectric relaxation effects. In addition, the performance of low power digital circuitry, with reduced noise margins, may be drastically affected by the threshold voltage shifts associated with charge trapping in near -interface oxide traps. Since near-interface oxide traps may substantially alter the performance of devices, complete characterization of these defects is necessary. In this dissertation a new characterization technique, variable frequency charge pumping, is introduced which allows charge trapped at the interface to be distinguished from the charge trapped within the oxide. The new experimental technique is an extension of the charge pumping technique to low frequencies such that tunneling may occur from interface traps to near-interface oxide traps. A generalized charge pumping model, based on Shockley-Read-Hall statistics and trap-to-trap tunneling theory, has been developed which allows a more complete characterization of near-interface oxide traps. A pair of coupled differential equations governing the rate of change of occupied interface and near-interface oxide traps have been developed. Due to the experimental conditions in the charge pumping technique the equations may be decoupled, leading to an equation governing the rate of change of occupied interface traps and an equation governing the rate of change of occcupied near-interface oxide traps. Solving the interface trap equation and applying non-steady state charge dynamics leads to an interface trap component of the charge pumping current. In addition, solution to the near-interface oxide trap equation leads to an additional oxide trap component to the charge pumping current. Numerical simulations have been performed to support the analytical development of the generalized charge pumping model. By varying the frequency of the applied charge pumping waveform and monitoring the charge recombined per cycle, the contributions from interface traps may be separated from the contributions of the near-interface oxide traps. The generalized charge pumping model allows characterization of the density and spatial distribution of near-interface oxide traps from this variable frequency charge pumping technique. Characterization of interface and near-interface oxide trap generation has been performed on devices exposed to ionizing radiation, hot electron injection, and high -field/Fowler-Nordheim stressing. Finally, using SONOS nonvolatile memory devices, a framework has been established for experimentally determining not only the spatial distribution of near-interface oxide traps, but also the energetic distribution. An experimental approach, based on tri-level charge pumping, is discussed which allows the energetic distribution of near-interface oxide traps to be determined.

Ultra-fast underwater suction traps.

PubMed

Vincent, Olivier; Weisskopf, Carmen; Poppinga, Simon; Masselter, Tom; Speck, Thomas; Joyeux, Marc; Quilliet, Catherine; Marmottant, Philippe

2011-10-07

Carnivorous aquatic Utricularia species catch small prey animals using millimetre-sized underwater suction traps, which have fascinated scientists since Darwin's early work on carnivorous plants. Suction takes place after mechanical triggering and is owing to a release of stored elastic energy in the trap body accompanied by a very fast opening and closing of a trapdoor, which otherwise closes the trap entrance watertight. The exceptional trapping speed--far above human visual perception--impeded profound investigations until now. Using high-speed video imaging and special microscopy techniques, we obtained fully time-resolved recordings of the door movement. We found that this unique trapping mechanism conducts suction in less than a millisecond and therefore ranks among the fastest plant movements known. Fluid acceleration reaches very high values, leaving little chance for prey animals to escape. We discovered that the door deformation is morphologically predetermined, and actually performs a buckling/unbuckling process, including a complete trapdoor curvature inversion. This process, which we predict using dynamical simulations and simple theoretical models, is highly reproducible: the traps are autonomously repetitive as they fire spontaneously after 5-20 h and reset actively to their ready-to-catch condition.

The electro-mechanical effect from charge dynamics on polymeric insulation lifetime

DOE Office of Scientific and Technical Information (OSTI.GOV)

Alghamdi, H., E-mail: haalghamdi@nu.edu.sa; Faculty of Engineering, Najran University, Najran, P.O.Box 1988; Chen, G.

For polymeric material used as electrical insulation, the presence of space charges could be the consequence of material degradations that are thermally activated but increased by the application of an electric field. The dynamics of space charge, therefore, can be potentially used to characterize the material. In this direction, a new aging model in which parameters have clear physical meanings has been developed and applied to the material to extrapolate the lifetime. The kinetic equation has been established based on charge trapping and detrapping of the injected charge from the electrodes. The local electromechanical energy stored in the region surroundingmore » the trap is able to reduce the trap-depth with a value related to the electric field. At a level where the internal electric field exceeds the detrapping field in the material, an electron can be efficiently detrapped and the released energy from detrapping process can cause a weak bond or chain scission i.e. material degradation. The model has been applied to the electro-thermally aged low density polyethylene film samples, showing well fitted result, as well as interesting relationships between parameter estimates and insulation morphology.« less

Dynamic trapping of a polarization rotation vector soliton in a fiber laser.

PubMed

Liu, Meng; Luo, Ai-Ping; Luo, Zhi-Chao; Xu, Wen-Cheng

2017-01-15

Ultrafast fiber laser, as a dissipative nonlinear optical system, plays an important role in investigating various nonlinear phenomena and soliton dynamics. Vector features of solitons, including polarization locked and polarization rotation vector solitons (PRVSs), are interesting nonlinear dynamics in ultrafast fiber lasers. Herein, we experimentally reveal the trapping characteristics of PRVSs for the first time, to the best of our best knowledge. We show that, for the conventional soliton trapping in the ultrafast fiber laser, the soliton central wavelengths of the two polarization components are constant at the laser output port. However, it is found that the dynamic trapping can be observed for the PRVS. That is, the peak frequencies along the two orthogonal polarization directions are dynamically alternating, depending on the relative intensities of the two polarization components. The obtained results would further unveil the physical mechanism of PRVSs.

Optical and magnetic measurements of gyroscopically stabilized graphene nanoplatelets levitated in an ion trap

NASA Astrophysics Data System (ADS)

Nagornykh, Pavel; Coppock, Joyce E.; Murphy, Jacob P. J.; Kane, B. E.

2017-07-01

Using optical measurements, we demonstrate that the rotation of micron-scale graphene nanoplatelets levitated in a quadrupole ion trap in high vacuum can be frequency-locked to an applied radiofrequency electric field Erf. Over time, frequency-locking stabilizes the nanoplatelet so that its axis of rotation is normal to the nanoplatelet and perpendicular to Erf. We observe that residual slow dynamics of the direction of the axis of rotation in the plane normal to Erf is determined by an applied magnetic field. We present a simple model that accurately describes our observations. From our data and model, we can infer both a diamagnetic polarizability and a magnetic moment proportional to the frequency of rotation, which we compare to theoretical values. Our results establish that trapping technologies have applications for materials measurements at the nanoscale.

Paul trap simulator experiment to model intense-beam propagation in alternating-gradient transport systems.

PubMed

Gilson, Erik P; Davidson, Ronald C; Efthimion, Philip C; Majeski, Richard

2004-04-16

The results presented here demonstrate that the Paul trap simulator experiment (PTSX) simulates the propagation of intense charged particle beams over distances of many kilometers through magnetic alternating-gradient (AG) transport systems by making use of the similarity between the transverse dynamics of particles in the two systems. Plasmas have been trapped that correspond to normalized intensity parameters s=omega(2)(p)(0)/2omega(2)(q)

Modeling of long range frequency sweeping for energetic particle modes

NASA Astrophysics Data System (ADS)

Nyqvist, R. M.; Breizman, B. N.

2013-04-01

Long range frequency sweeping events are simulated numerically within a one-dimensional, electrostatic bump-on-tail model with fast particle sources and collisions. The numerical solution accounts for fast particle trapping and detrapping in an evolving wave field with a fixed wavelength, and it includes three distinct collisions operators: Drag (dynamical friction on the background electrons), Krook-type collisions, and velocity space diffusion. The effects of particle trapping and diffusion on the evolution of holes and clumps are investigated, and the occurrence of non-monotonic (hooked) frequency sweeping and asymptotically steady holes is discussed. The presented solution constitutes a step towards predictive modeling of frequency sweeping events in more realistic geometries.

THREE-DIMENSIONAL MODELING OF COHESIVE SEDIMENT TRANSPORT IN A PARTIALLY STRATIFIED MICRO-TIDAL ESTUARY TO ASSESS EFFECTIVENESS OF SEDIMENT TRAPS

EPA Science Inventory

The three-dimensional (3D) finite difference model Environmental Fluid Dynamics Code (EFDC) was used to simulate the hydrodynamics and sediment transport in a partially stratified micro-tidal estuary. The estuary modeled consisted of a 16-km reach of the St. Johns River, Florida,...

Trapping dynamics of xenon on Pt(111)

NASA Astrophysics Data System (ADS)

Arumainayagam, Christopher R.; Madix, Robert J.; Mcmaster, Mark C.; Suzawa, Valerie M.; Tully, John C.

1990-02-01

The dynamics of Xe trapping on Pt(111) was studied using supersonic atomic beam techniques. Initial trapping probabilities ( S0) were measured directly as a function of incident translational energy ( EinT) and angle of incidence (θ i) at a surface temperature ( Tins) 95 K. The initial trapping probability decreases smoothly with increasing ET cosθ i;, rather than ET cos 2θ i, suggesting participation of parallel momentum in the trapping process. Accordingly, the measured initial trapping probability falls off more slowly with increasing incident translational energy than predicted by one-dimensional theories. This finding is in near agreement with previous mean translational energy measurements for Xe desorbing near the Pt(111) surface normal, assuming detailed balance applies. Three-dimensional stochastic classical trajectory calculations presented herein also exhibit the importance of tangential momentum in trapping and satisfactorily reproduce the experimental initial trapping probabilities.

Magnus force effect in optical manipulation

DOE Office of Scientific and Technical Information (OSTI.GOV)

Cipparrone, Gabriella; Pagliusi, Pasquale; Istituto per i Processi Chimici e Fisici, Consiglio Nazionale delle Ricerche, Ponte P. Bucci, Cubo 33B, I-87036 Rende

2011-07-15

The effect of the Magnus force in optical micromanipulation has been observed. An ad hoc experiment has been designed based on a one-dimensional optical trap that carries angular momentum. The observed particle dynamics reveals the occurrence of this hydrodynamic force, which is neglected in the common approach. Its measured value is larger than the one predicted by the existing theoretical models for micrometric particles and low Reynolds number, showing that the Magnus force can contribute to unconventional optohydrodynamic trapping and manipulation.

Poverty, Disease, and the Ecology of Complex Systems

PubMed Central

Pluciński, Mateusz M.; Murray, Megan B.; Farmer, Paul E.; Barrett, Christopher B.; Keenan, Donald C.

2014-01-01

Understanding why some human populations remain persistently poor remains a significant challenge for both the social and natural sciences. The extremely poor are generally reliant on their immediate natural resource base for subsistence and suffer high rates of mortality due to parasitic and infectious diseases. Economists have developed a range of models to explain persistent poverty, often characterized as poverty traps, but these rarely account for complex biophysical processes. In this Essay, we argue that by coupling insights from ecology and economics, we can begin to model and understand the complex dynamics that underlie the generation and maintenance of poverty traps, which can then be used to inform analyses and possible intervention policies. To illustrate the utility of this approach, we present a simple coupled model of infectious diseases and economic growth, where poverty traps emerge from nonlinear relationships determined by the number of pathogens in the system. These nonlinearities are comparable to those often incorporated into poverty trap models in the economics literature, but, importantly, here the mechanism is anchored in core ecological principles. Coupled models of this sort could be usefully developed in many economically important biophysical systems—such as agriculture, fisheries, nutrition, and land use change—to serve as foundations for deeper explorations of how fundamental ecological processes influence structural poverty and economic development. PMID:24690902

Poverty, disease, and the ecology of complex systems.

PubMed

Ngonghala, Calistus N; Pluciński, Mateusz M; Murray, Megan B; Farmer, Paul E; Barrett, Christopher B; Keenan, Donald C; Bonds, Matthew H

2014-04-01

Understanding why some human populations remain persistently poor remains a significant challenge for both the social and natural sciences. The extremely poor are generally reliant on their immediate natural resource base for subsistence and suffer high rates of mortality due to parasitic and infectious diseases. Economists have developed a range of models to explain persistent poverty, often characterized as poverty traps, but these rarely account for complex biophysical processes. In this Essay, we argue that by coupling insights from ecology and economics, we can begin to model and understand the complex dynamics that underlie the generation and maintenance of poverty traps, which can then be used to inform analyses and possible intervention policies. To illustrate the utility of this approach, we present a simple coupled model of infectious diseases and economic growth, where poverty traps emerge from nonlinear relationships determined by the number of pathogens in the system. These nonlinearities are comparable to those often incorporated into poverty trap models in the economics literature, but, importantly, here the mechanism is anchored in core ecological principles. Coupled models of this sort could be usefully developed in many economically important biophysical systems--such as agriculture, fisheries, nutrition, and land use change--to serve as foundations for deeper explorations of how fundamental ecological processes influence structural poverty and economic development.

Microscopic modeling of gas-surface scattering. I. A combined molecular dynamics-rate equation approach

NASA Astrophysics Data System (ADS)

Filinov, A.; Bonitz, M.; Loffhagen, D.

2018-06-01

A combination of first principle molecular dynamics (MD) simulations with a rate equation model (MD-RE approach) is presented to study the trapping and the scattering of rare gas atoms from metal surfaces. The temporal evolution of the atom fractions that are either adsorbed or scattered into the continuum is investigated in detail. We demonstrate that for this description one has to consider trapped, quasi-trapped and scattering states, and present an energetic definition of these states. The rate equations contain the transition probabilities between the states. We demonstrate how these rate equations can be derived from kinetic theory. Moreover, we present a rigorous way to determine the transition probabilities from a microscopic analysis of the particle trajectories generated by MD simulations. Once the system reaches quasi-equilibrium, the rates converge to stationary values, and the subsequent thermal adsorption/desorption dynamics is completely described by the rate equations without the need to perform further time-consuming MD simulations. As a proof of concept of our approach, MD simulations for argon atoms interacting with a platinum (111) surface are presented. A detailed deterministic trajectory analysis is performed, and the transition rates are constructed. The dependence of the rates on the incidence conditions and the lattice temperature is analyzed. Based on this example, we analyze the time scale of the gas-surface system to approach the quasi-stationary state. The MD-RE model has great relevance for the plasma-surface modeling as it makes an extension of accurate simulations to long, experimentally relevant time scales possible. Its application to the computation of atomic sticking probabilities is given in the second part (paper II).

Exciton transport in π-conjugated polymers with conjugation defects.

PubMed

Meng, Ruixuan; Li, Yuan; Li, Chong; Gao, Kun; Yin, Sun; Wang, Luxia

2017-09-20

In π-conjugated polymers for photovoltaic applications, intrinsic conjugation defects are known to play crucial roles in impacting exciton transport after photoexcitation. However, the understanding of the associated microscopic processes still remains limited. Here, we present a theoretical investigation of the effects of different conjugation defects on the dynamics of exciton transport in two linearly coupled poly(p-phenylene vinylene) (PPV) molecules. The model system is constructed by employing an extended version of the Su-Schrieffer-Heeger model and the exciton behaviors are simulated by means of a quantum nonadiabatic dynamics. We identify two types of conjugation defects, i.e., weakening conjugation and strengthening conjugation, which are demonstrated to play different roles in impacting the dynamics of exciton transport in the system. The weakening conjugation acts as an energy well inclined to trap a moving exciton, while the strengthening conjugation acts as an energy barrier inclined to block the exciton. We also systematically simulate both intrachain and interchain dynamics of exciton transport, and find that an exciton could experience a "short-time delaying", "trapping", "blocking", or "hopping" process, which is determined by the defect type, strength, and position. These findings provide a microscopic understanding of how the exciton transport dynamics can be impacted by conjugation defects in an actual polymer system.

Reactivating dynamics for the susceptible-infected-susceptible model: a simple method to simulate the absorbing phase

NASA Astrophysics Data System (ADS)

Macedo-Filho, A.; Alves, G. A.; Costa Filho, R. N.; Alves, T. F. A.

2018-04-01

We investigated the susceptible-infected-susceptible model on a square lattice in the presence of a conjugated field based on recently proposed reactivating dynamics. Reactivating dynamics consists of reactivating the infection by adding one infected site, chosen randomly when the infection dies out, avoiding the dynamics being trapped in the absorbing state. We show that the reactivating dynamics can be interpreted as the usual dynamics performed in the presence of an effective conjugated field, named the reactivating field. The reactivating field scales as the inverse of the lattice number of vertices n, which vanishes at the thermodynamic limit and does not affect any scaling properties including ones related to the conjugated field.

Quantum Stat Mech in a Programmable Spin Chain of Trapped Ions

NASA Astrophysics Data System (ADS)

Monroe, Christopher

2017-04-01

Trapped atomic ions are a versatile and very clean platform for the quantum programming of interacting spin models and the study of quantum nonequilibrium phenomena. When spin-dependent optical dipole forces are applied to a collection of trapped ions, an effective long-range quantum magnetic interaction arises, with reconfigurable and tunable graphs. Following earlier work on many-body spectroscopy and quench dynamics, we have recently studied many body non-thermalization processes in this system. Frustrated Hamiltonian dynamics can lead to prethermalization, and by adding programmable disorder between the sites, we have observed the phenomenon of many body localization (MBL). Finally, by applying a periodically driven Floquet Hamiltonian tempered by MBL, we report the observation of a discrete ``time crystal'' in the stable appearance of a subharmonic response of the system to the periodic drive. This work is supported by the ARO Atomic Physics Program, the AFOSR MURI on Quantum Measurement and Verification, the IARPA LogiQ Program, and the NSF Physics Frontier Center at JQI.

Worthy of their name: how floods drive outbreaks of two major floodwater mosquitoes (Diptera: Culicidae).

PubMed

Berec, Ludĕk; Gelbic, Ivan; Sebesta, Oldrich

2014-01-01

An understanding of how climate variables drive seasonal dynamics of mosquito populations is critical to mitigating negative impacts of potential outbreaks, including both nuisance effects and risk of mosquito-borne infectious disease. Here, we identify climate variables most affecting seasonal dynamics of two major floodwater mosquitoes, Aedes vexans (Meigen, 1830) and Aedes sticticus (Meigen, 1838) (Diptera: Culicidae), along the lower courses of the Dyje River, at the border between the Czech Republic and Austria. Monthly trap counts of both floodwater mosquitoes varied both across sites and years. Despite this variability, both models used to fit the observed data at all sites (and especially that for Ae. sticticus) and site-specific models fitted the observed data quite well. The most important climate variables we identified-temperature and especially flooding-were driving seasonal dynamics of both Aedes species. We suggest that flooding determines seasonal peaks in the monthly mosquito trap counts while temperature modulates seasonality in these counts. Hence, floodwater mosquitoes indeed appear worthy of their name. Moreover, the climate variables we considered for modeling were able reasonably to predict mosquito trap counts in the month ahead. Our study can help in planning flood management; timely notification of people, given that these mosquitoes are a real nuisance in this region; public health policy management to mitigate risk from such mosquito-borne diseases as that caused in humans by the Tahyna virus; and anticipating negative consequences of climate change, which are expected only to worsen unless floods, or the mosquitoes themselves, are satisfactorily managed.

Digital Quantum Simulation of Minimal AdS/CFT.

PubMed

García-Álvarez, L; Egusquiza, I L; Lamata, L; Del Campo, A; Sonner, J; Solano, E

2017-07-28

We propose the digital quantum simulation of a minimal AdS/CFT model in controllable quantum platforms. We consider the Sachdev-Ye-Kitaev model describing interacting Majorana fermions with randomly distributed all-to-all couplings, encoding nonlocal fermionic operators onto qubits to efficiently implement their dynamics via digital techniques. Moreover, we also give a method for probing nonequilibrium dynamics and the scrambling of information. Finally, our approach serves as a protocol for reproducing a simplified low-dimensional model of quantum gravity in advanced quantum platforms as trapped ions and superconducting circuits.

Digital Quantum Simulation of Minimal AdS /CFT

NASA Astrophysics Data System (ADS)

García-Álvarez, L.; Egusquiza, I. L.; Lamata, L.; del Campo, A.; Sonner, J.; Solano, E.

2017-07-01

We propose the digital quantum simulation of a minimal AdS /CFT model in controllable quantum platforms. We consider the Sachdev-Ye-Kitaev model describing interacting Majorana fermions with randomly distributed all-to-all couplings, encoding nonlocal fermionic operators onto qubits to efficiently implement their dynamics via digital techniques. Moreover, we also give a method for probing nonequilibrium dynamics and the scrambling of information. Finally, our approach serves as a protocol for reproducing a simplified low-dimensional model of quantum gravity in advanced quantum platforms as trapped ions and superconducting circuits.

Optical pumping of deep traps in AlGaN/GaN-on-Si HEMTs using an on-chip Schottky-on-heterojunction light-emitting diode

DOE Office of Scientific and Technical Information (OSTI.GOV)

Li, Baikui; Tang, Xi; Chen, Kevin J., E-mail: eekjchen@ust.hk

2015-03-02

In this work, by using an on-chip integrated Schottky-on-heterojunction light-emitting diode (SoH-LED) which is seamlessly integrated with the AlGaN/GaN high electron mobility transistor (HEMT), we studied the effect of on-chip light illumination on the de-trapping processes of electrons from both surface and bulk traps. Surface trapping was generated by applying OFF-state drain bias stress, while bulk trapping was generated by applying positive substrate bias stress. The de-trapping processes of surface and/or bulk traps were monitored by measuring the recovery of dynamic on-resistance R{sub on} and/or threshold voltage V{sub th} of the HEMT. The results show that the recovery processes ofmore » both dynamic R{sub on} and threshold voltage V{sub th} of the HEMT can be accelerated by the on-chip SoH-LED light illumination, demonstrating the potentiality of on-chip hybrid opto-HEMTs to minimize the influences of traps during dynamic operation of AlGaN/GaN power HEMTs.« less

Avoiding verisimilitude when modelling ecological responses to climate change: the influence of weather conditions on trapping efficiency in European badgers (Meles meles).

PubMed

Noonan, Michael J; Rahman, M Abidur; Newman, Chris; Buesching, Christina D; Macdonald, David W

2015-10-01

The signal for climate change effects can be abstruse; consequently, interpretations of evidence must avoid verisimilitude, or else misattribution of causality could compromise policy decisions. Examining climatic effects on wild animal population dynamics requires ability to trap, observe or photograph and to recapture study individuals consistently. In this regard, we use 19 years of data (1994-2012), detailing the life histories on 1179 individual European badgers over 3288 (re-) trapping events, to test whether trapping efficiency was associated with season, weather variables (both contemporaneous and time lagged), body-condition index (BCI) and trapping efficiency (TE). PCA factor loadings demonstrated that TE was affected significantly by temperature and precipitation, as well as time lags in these variables. From multi-model inference, BCI was the principal driver of TE, where badgers in good condition were less likely to be trapped. Our analyses exposed that this was enacted mechanistically via weather variables driving BCI, affecting TE. Notably, the very conditions that militated for poor trapping success have been associated with actual survival and population abundance benefits in badgers. Using these findings to parameterize simulations, projecting best-/worst-case scenario weather conditions and BCI resulted in 8.6% ± 4.9 SD difference in seasonal TE, leading to a potential 55.0% population abundance under-estimation under the worst-case scenario; 38.6% over-estimation under the best case. Interestingly, simulations revealed that while any single trapping session might prove misrepresentative of the true population abundance, due to weather effects, prolonging capture-mark-recapture studies under sub-optimal conditions decreased the accuracy of population estimates significantly. We also use these projection scenarios to explore how weather could impact government-led trapping of badgers in the UK, in relation to TB management. We conclude that population monitoring must be calibrated against the likelihood that weather conditions could be altering trap success directly, and therefore biasing model design. © 2015 John Wiley & Sons Ltd.

State-dependent fluorescence of neutral atoms in optical potentials

NASA Astrophysics Data System (ADS)

Martinez-Dorantes, M.; Alt, W.; Gallego, J.; Ghosh, S.; Ratschbacher, L.; Meschede, D.

2018-02-01

Recently we have demonstrated scalable, nondestructive, and high-fidelity detection of the internal state of 87Rb neutral atoms in optical dipole traps using state-dependent fluorescence imaging [M. Martinez-Dorantes, W. Alt, J. Gallego, S. Ghosh, L. Ratschbacher, Y. Völzke, and D. Meschede, Phys. Rev. Lett. 119, 180503 (2017), 10.1103/PhysRevLett.119.180503]. In this paper we provide experimental procedures and interpretations to overcome the detrimental effects of heating-induced trap losses and state leakage. We present models for the dynamics of optically trapped atoms during state-dependent fluorescence imaging and verify our results by comparing Monte Carlo simulations with experimental data. Our systematic study of dipole force fluctuations heating in optical traps during near-resonant illumination shows that off-resonant light is preferable for state detection in tightly confining optical potentials.

A resolved two-way coupled CFD/6-DOF approach for predicting embolus transport and the embolus-trapping efficiency of IVC filters.

PubMed

Aycock, Kenneth I; Campbell, Robert L; Manning, Keefe B; Craven, Brent A

2017-06-01

Inferior vena cava (IVC) filters are medical devices designed to provide a mechanical barrier to the passage of emboli from the deep veins of the legs to the heart and lungs. Despite decades of development and clinical use, IVC filters still fail to prevent the passage of all hazardous emboli. The objective of this study is to (1) develop a resolved two-way computational model of embolus transport, (2) provide verification and validation evidence for the model, and (3) demonstrate the ability of the model to predict the embolus-trapping efficiency of an IVC filter. Our model couples computational fluid dynamics simulations of blood flow to six-degree-of-freedom simulations of embolus transport and resolves the interactions between rigid, spherical emboli and the blood flow using an immersed boundary method. Following model development and numerical verification and validation of the computational approach against benchmark data from the literature, embolus transport simulations are performed in an idealized IVC geometry. Centered and tilted filter orientations are considered using a nonlinear finite element-based virtual filter placement procedure. A total of 2048 coupled CFD/6-DOF simulations are performed to predict the embolus-trapping statistics of the filter. The simulations predict that the embolus-trapping efficiency of the IVC filter increases with increasing embolus diameter and increasing embolus-to-blood density ratio. Tilted filter placement is found to decrease the embolus-trapping efficiency compared with centered filter placement. Multiple embolus-trapping locations are predicted for the IVC filter, and the trapping locations are predicted to shift upstream and toward the vessel wall with increasing embolus diameter. Simulations of the injection of successive emboli into the IVC are also performed and reveal that the embolus-trapping efficiency decreases with increasing thrombus load in the IVC filter. In future work, the computational tool could be used to investigate IVC filter design improvements, the effect of patient anatomy on embolus transport and IVC filter embolus-trapping efficiency, and, with further development and validation, optimal filter selection and placement on a patient-specific basis.

Maximization of permanent trapping of CO{sub 2} and co-contaminants in the highest-porosity formations of the Rock Springs Uplift (Southwest Wyoming): experimentation and multi-scale modeling

DOE Office of Scientific and Technical Information (OSTI.GOV)

Piri, Mohammad

2014-03-31

Under this project, a multidisciplinary team of researchers at the University of Wyoming combined state-of-the-art experimental studies, numerical pore- and reservoir-scale modeling, and high performance computing to investigate trapping mechanisms relevant to geologic storage of mixed scCO{sub 2} in deep saline aquifers. The research included investigations in three fundamental areas: (i) the experimental determination of two-phase flow relative permeability functions, relative permeability hysteresis, and residual trapping under reservoir conditions for mixed scCO{sub 2}-­brine systems; (ii) improved understanding of permanent trapping mechanisms; (iii) scientifically correct, fine grid numerical simulations of CO{sub 2} storage in deep saline aquifers taking into account themore » underlying rock heterogeneity. The specific activities included: (1) Measurement of reservoir-­conditions drainage and imbibition relative permeabilities, irreducible brine and residual mixed scCO{sub 2} saturations, and relative permeability scanning curves (hysteresis) in rock samples from RSU; (2) Characterization of wettability through measurements of contact angles and interfacial tensions under reservoir conditions; (3) Development of physically-­based dynamic core-­scale pore network model; (4) Development of new, improved high-­performance modules for the UW-­team simulator to provide new capabilities to the existing model to include hysteresis in the relative permeability functions, geomechanical deformation and an equilibrium calculation (Both pore-­ and core-­scale models were rigorously validated against well-­characterized core-­ flooding experiments); and (5) An analysis of long term permanent trapping of mixed scCO{sub 2} through high-­resolution numerical experiments and analytical solutions. The analysis takes into account formation heterogeneity, capillary trapping, and relative permeability hysteresis.« less

Dynamic water behaviour due to one trapped air pocket in a laboratory pipeline apparatus

NASA Astrophysics Data System (ADS)

Bergant, A.; Karadžić, U.; Tijsseling, A.

2016-11-01

Trapped air pockets may cause severe operational problems in hydropower and water supply systems. A locally isolated air pocket creates distinct amplitude, shape and timing of pressure pulses. This paper investigates dynamic behaviour of a single trapped air pocket. The air pocket is incorporated as a boundary condition into the discrete gas cavity model (DGCM). DGCM allows small gas cavities to form at computational sections in the method of characteristics (MOC). The growth of the pocket and gas cavities is described by the water hammer compatibility equation(s), the continuity equation for the cavity volume, and the equation of state of an ideal gas. Isentropic behaviour is assumed for the trapped gas pocket and an isothermal bath for small gas cavities. Experimental investigations have been performed in a laboratory pipeline apparatus. The apparatus consists of an upstream end high-pressure tank, a horizontal steel pipeline (total length 55.37 m, inner diameter 18 mm), four valve units positioned along the pipeline including the end points, and a downstream end tank. A trapped air pocket is captured between two ball valves at the downstream end of the pipeline. The transient event is initiated by rapid opening of the upstream end valve; the downstream end valve stays closed during the event. Predicted and measured results for a few typical cases are compared and discussed.

The photoexcitation of crystalline ice and amorphous solid water: A molecular dynamics study of outcomes at 11 K and 125 K

DOE Office of Scientific and Technical Information (OSTI.GOV)

Crouse, J.; Loock, H.-P., E-mail: hploock@chem.queensu.ca; Cann, N. M., E-mail: ncann@chem.queensu.ca

2015-07-21

Photoexcitation of crystalline ice Ih and amorphous solid water at 7-9 eV is examined using molecular dynamics simulations and a fully flexible water model. The probabilities of photofragment desorption, trapping, and recombination are examined for crystalline ice at 11 K and at 125 K and for amorphous solid water at 11 K. For 11 K crystalline ice, a fully rigid water model is also employed for comparison. The kinetic energy of desorbed H atoms and the distance travelled by trapped fragments are correlated to the location and the local environment of the photoexcited water molecule. In all cases, H atommore » desorption is found to be the most likely outcome in the top bilayer while trapping of all photofragments is most probable deeper in the solid where the likelihood for recombination of the fragments into H{sub 2}O molecules also rises. Trajectory analysis indicates that the local hydrogen bonding network in amorphous solid water is more easily distorted by a photodissociation event compared to crystalline ice. Also, simulations indicate that desorption of OH radicals and H{sub 2}O molecules are more probable in amorphous solid water. The kinetic energy distributions for desorbed H atoms show a peak at high energy in crystalline ice, arising from photoexcited water molecules in the top monolayer. This peak is less pronounced in amorphous solid water. H atoms that are trapped may be displaced by up to ∼10 water cages, but migrate on average 3 water cages. Trapped OH fragments tend to stay near the original solvent cage.« less

Formation of contour optical traps using a four-channel liquid crystal focusing device

DOE Office of Scientific and Technical Information (OSTI.GOV)

Korobtsov, A V; Kotova, S P; Losevsky, N N

2014-12-31

The capabilities and specific features of the formation and dynamic control of so-called contour optical traps using a fourchannel liquid crystal modulator are studied theoretically and experimentally. Circular, elliptical and C-shaped traps are formed. Trapping and confinement of absorbing micro-objects by the formed traps are demonstrated. (optical traps)

A molecular dynamics simulation study on trapping ions in a nanoscale Paul trap

DOE Office of Scientific and Technical Information (OSTI.GOV)

Zhao, Xiongce; Krstic, Predrag S

2008-01-01

We found by molecular dynamics simulations that a low energy ion can be trapped effectively in a nanoscale Paul trap in both vacuum and in aqueous environment when appropriate AC/DC electric fields are applied to the system. Using the negatively charged chlorine ion as an example, we show that the trapped ion oscillates around the center of the nanotrap with the amplitude dependent on the parameters of the system and applied voltage. Successful trapping of the ion within nanoseconds requires electric bias of GHz frequency, in the range of hundreds of mV. The oscillations are damped in the aqueous environment,more » but polarization of the water molecules requires application of the higher voltage biases to reach the improved stability of the trapping. Application of a supplemental DC driving field along the trap axis can effectively drive the ion off the trap center and out of the trap, opening a possibility of studying DNA and other biological molecules using embedded probes while achieving a full control of their translocation and localization in the trap.« less

Controlling spin flips of molecules in an electromagnetic trap

NASA Astrophysics Data System (ADS)

Reens, David; Wu, Hao; Langen, Tim; Ye, Jun

2017-12-01

Doubly dipolar molecules exhibit complex internal spin dynamics when electric and magnetic fields are both applied. Near magnetic trap minima, these spin dynamics lead to enhancements in Majorana spin-flip transitions by many orders of magnitude relative to atoms and are thus an important obstacle for progress in molecule trapping and cooling. We conclusively demonstrate and address this with OH molecules in a trap geometry where spin-flip losses can be tuned from over 200 s-1 to below our 2 s-1 vacuum-limited loss rate with only a simple external bias coil and with minimal impact on trap depth and gradient.

Sub-diffusion and trapped dynamics of neutral and charged probes in DNA-protein coacervates

NASA Astrophysics Data System (ADS)

Arfin, Najmul; Yadav, Avinash Chand; Bohidar, H. B.

2013-11-01

The physical mechanism leading to the formation of large intermolecular DNA-protein complexes has been studied. Our study aims to explain the occurrence of fast coacervation dynamics at the charge neutralization point, followed by the appearance of smaller complexes and slower coacervation dynamics as the complex experiences overcharging. Furthermore, the electrostatic potential and probe mobility was investigated to mimic the transport of DNA / DNA-protein complex in a DNA-protein complex coacervate medium [N. Arfin and H. B. Bohidar, J. Phys. Chem. B 116, 13192 (2012)] by assigning neutral, negative, or positive charge to the probe particle. The mobility of the neutral probe was maximal at low matrix concentrations and showed random walk behavior, while its mobility ceased at the jamming concentration of c = 0.6, showing sub-diffusion and trapped dynamics. The positively charged probe showed sub-diffusive random walk followed by trapped dynamics, while the negatively charged probe showed trapping with occasional hopping dynamics at much lower concentrations. Sub-diffusion of the probe was observed in all cases under consideration, where the electrostatic interaction was used exclusively as the dominant force involved in the dynamics. For neutral and positive probes, the mean square displacement ⟨R2⟩ exhibits a scaling with time as ⟨R2⟩ ˜ tα, distinguishing random walk and trapped dynamics at α = 0.64 ± 0.04 at c = 0.12 and c = 0.6, respectively. In addition, the same scaling factors with the exponent β = 0.64 ± 0.04 can be used to distinguish random walk and trapped dynamics for the neutral and positive probes using the relation between the number of distinct sites visited by the probe, S(t), which follows the scaling, S(t) ˜ tβ/ln (t). Our results established the occurrence of a hierarchy of diffusion dynamics experienced by a probe in a dense medium that is either charged or neutral.

Ecohydrological implications of aeolian sediment trapping by sparse vegetation in drylands

USGS Publications Warehouse

Gonzales, Howell B.; Ravi, Sujith; Li, Junran; Sankey, Joel B.

2018-01-01

Aeolian processes are important drivers of ecosystem dynamics in drylands, and important feedbacks exist among aeolian – hydrological processes and vegetation. The trapping of wind-borne sediments by vegetation may result in changes in soil properties beneath the vegetation, which, in turn, can alter hydrological and biogeochemical processes. Despite the relevance of aeolian transport to ecosystem dynamics, the interactions between aeolian transport and vegetation in shaping dryland landscapes where sediment distribution is altered by relatively rapid changes in vegetation composition such as shrub encroachment, is not well understood. Here, we used a computational fluid dynamics (CFD) modeling framework to investigate the sediment trapping efficiencies of vegetation canopies commonly found in a shrub-grass ecotone in the Chihuahuan Desert (New Mexico, USA) and related the results to spatial heterogeneity in soil texture and infiltration measured in the field. A CFD open-source software package was used to simulate aeolian sediment movement through three-dimensional architectural depictions of Creosote shrub (Larrea tridentata) and Black Grama grass (Bouteloua eriopoda) vegetation types. The vegetation structures were created using a computer-aided design software (Blender), with inherent canopy porosities, which were derived using LIDAR (Light Detection and Ranging) measurements of plant canopies. Results show that considerable heterogeneity in infiltration and soil grain size distribution exist between the microsites, with higher infiltration and coarser soil texture under shrubs. Numerical simulations also indicate that the differential trapping of canopies might contribute to the observed heterogeneity in soil texture. In the early stages of encroachment, the shrub canopies, by trapping coarser particles more efficiently, might maintain higher infiltration rates leading to faster development of the microsites (among other factors) with enhanced ecological productivity, which might provide positive feedbacks to shrub encroachment.

Regions of tunneling dynamics for few bosons in an optical lattice subjected to a quench of the imposed harmonic trap

NASA Astrophysics Data System (ADS)

Mistakidis, Simeon; Koutentakis, Georgios; Schmelcher, Peter; Theory Group of Fundamental Processes in Quantum Physics Team

2016-05-01

Recent experimental advances have introduced an interplay in the trapping length scales of the lattice and the harmonic confinement. This fact motivates the investigation to prepare atomic gases at certain quantum states by utilizing a composite atomic trap consisting of a lattice potential that is embedded inside an overlying harmonic trap. In the present work, we examine how frequency modulations of the overlying harmonic trap stimulate the dynamics of an 1D few-boson gas. The gas is initially prepared at a highly confined state, and the subsequent dynamics induced by a quench of the harmonic trap frequency to a lower value is examined. It is shown that a non-interacting gas always diffuses to the outer sites. In contrast the response of the interacting system is more involved and is dominated by a resonance, which is induced by the bifurcation of the low-lying eigenstates. Our study reveals that the position of the resonance depends both on the atom number and the interaction coupling, manifesting its many body nature. The corresponding mean field treatment as well as the single-band approximation have been found to be inadequate for the description of the tunneling dynamics in the interacting case. Deutsche Forschungsgemeinschaft, SFB 925 ``Light induced dynamics and control of correlated quantum systems''.

Analysis of inner and outer zone: OGO-1 and OGO-2 electron spectrometer and ion chamber data

NASA Technical Reports Server (NTRS)

Pfitzer, K. A.

1972-01-01

The dynamic processes governing the acceleration and loss of electrons in the radiation zones are investigated. The radial diffusion coefficient was determined for a McIlwain parameter between 1.6 and 2.2 for electrons having a first adiabatic invariant of 12 MeV/gauss. The coefficient is larger than earlier values and suggests that there exists a lower limit to the fluxes in the inner zone. The agreement between observed and calculated magnetic fields and particle fluxes is improved by using solar wind pressure as input to the magnetic field models. Changes in the plasma pressure can cause apparent local time asymmetries in particle flux. A comparison of the magnetic field models with observed location of the trapping boundary also indicates the need for including distributed currents within the magnetosphere. The high latitude trapping boundary is only weakly dependent on A sub p, and the trapping boundary data are improved by including in the models a stand-off distance which varies with the plasma pressure.

Stability of aerosol droplets in Bessel beam optical traps under constant and pulsed external forces

NASA Astrophysics Data System (ADS)

David, Grégory; Esat, Kıvanç; Hartweg, Sebastian; Cremer, Johannes; Chasovskikh, Egor; Signorell, Ruth

2015-04-01

We report on the dynamics of aerosol droplets in optical traps under the influence of additional constant and pulsed external forces. Experimental results are compared with simulations of the three-dimensional droplet dynamics for two types of optical traps, the counter-propagating Bessel beam (CPBB) trap and the quadruple Bessel beam (QBB) trap. Under the influence of a constant gas flow (constant external force), the QBB trap is found to be more stable compared with the CPBB trap. By contrast, under pulsed laser excitation with laser pulse durations of nanoseconds (pulsed external force), the type of trap is of minor importance for the droplet stability. It typically needs pulsed laser forces that are several orders of magnitude higher than the optical forces to induce escape of the droplet from the trap. If the droplet strongly absorbs the pulsed laser light, these escape forces can be strongly reduced. The lower stability of absorbing droplets is a result of secondary thermal processes that cause droplet escape.

Stability of aerosol droplets in Bessel beam optical traps under constant and pulsed external forces.

PubMed

David, Grégory; Esat, Kıvanç; Hartweg, Sebastian; Cremer, Johannes; Chasovskikh, Egor; Signorell, Ruth

2015-04-21

We report on the dynamics of aerosol droplets in optical traps under the influence of additional constant and pulsed external forces. Experimental results are compared with simulations of the three-dimensional droplet dynamics for two types of optical traps, the counter-propagating Bessel beam (CPBB) trap and the quadruple Bessel beam (QBB) trap. Under the influence of a constant gas flow (constant external force), the QBB trap is found to be more stable compared with the CPBB trap. By contrast, under pulsed laser excitation with laser pulse durations of nanoseconds (pulsed external force), the type of trap is of minor importance for the droplet stability. It typically needs pulsed laser forces that are several orders of magnitude higher than the optical forces to induce escape of the droplet from the trap. If the droplet strongly absorbs the pulsed laser light, these escape forces can be strongly reduced. The lower stability of absorbing droplets is a result of secondary thermal processes that cause droplet escape.

Molecular dynamics in an optical trap of glutamate receptors labeled with quantum-dots on living neurons

NASA Astrophysics Data System (ADS)

Kishimoto, Tatsunori; Maezawa, Yasuyo; Kudoh, Suguru N.; Taguchi, Takahisa; Hosokawa, Chie

2017-04-01

Molecular dynamics of glutamate receptor, which is major neurotransmitter receptor at excitatory synapse located on neuron, is essential for synaptic plasticity in the complex neuronal networks. Here we studied molecular dynamics in an optical trap of AMPA-type glutamate receptor (AMPAR) labeled with quantum-dot (QD) on living neuronal cells with fluorescence imaging and fluorescence correlation spectroscopy (FCS). When a 1064-nm laser beam for optical trapping was focused on QD-AMPARs located on neuronal cells, the fluorescence intensity of QD-AMPARs gradually increased at the focal spot. Using single-particle tracking of QD-AMPARs on neurons, the average diffusion coefficient decreased in an optical trap. Moreover, the decay time obtained from FCS analysis increased with the laser power and the initial assembling state of AMPARs depended on culturing day, suggesting that the motion of QD-AMPAR was constrained in an optical trap.

Microscopic motion of particles flowing through a porous medium

NASA Astrophysics Data System (ADS)

Lee, Jysoo; Koplik, Joel

1999-01-01

Stokesian dynamics simulations are used to study the microscopic motion of particles suspended in fluids passing through porous media. Model porous media with fixed spherical particles are constructed, and mobile ones move through this fixed bed under the action of an ambient velocity field. The pore scale motion of individual suspended particles at pore junctions are first considered. The relative particle flux into different possible directions exiting from a single pore, for two- and three-dimensional model porous media is found to approximately equal the corresponding fractional channel width or area. Next the waiting time distribution for particles which are delayed in a junction due to a stagnation point caused by a flow bifurcation is considered. The waiting times are found to be controlled by two-particle interactions, and the distributions take the same form in model porous media as in two-particle systems. A simple theoretical estimate of the waiting time is consistent with the simulations. It is found that perturbing such a slow-moving particle by another nearby one leads to rather complicated behavior. Finally, the stability of geometrically trapped particles is studied. For simple model traps, it is found that particles passing nearby can "relaunch" the trapped particle through its hydrodynamic interaction, although the conditions for relaunching depend sensitively on the details of the trap and its surroundings.

Ultrafast Hole Trapping and Relaxation Dynamics in p-Type CuS Nanodisks

DOE PAGES

Ludwig, John; An, Li; Pattengale, Brian; ...

2015-06-22

CuS nanocrystals are potential materials for developing low-cost solar energy conversion devices. Understanding the underlying dynamics of photoinduced carriers in CuS nanocrystals is essential to improve their performance in these devices. In this work, we investigated the photoinduced hole dynamics in CuS nanodisks (NDs) using the combination of transient optical (OTA) and X-ray (XTA) absorption spectroscopy. OTA results show that the broad transient absorption in the visible region is attributed to the photoinduced hot and trapped holes. The hole trapping process occurs on a subpicosecond time scale, followed by carrier recombination (~100 ps). The nature of the hole trapping sites,more » revealed by XTA, is characteristic of S or organic ligands on the surface of CuS NDs. Lastly, these results not only suggest the possibility to control the hole dynamics by tuning the surface chemistry of CuS but also represent the first time observation of hole dynamics in semiconductor nanocrystals using XTA.« less

Efficient energy transfer in light-harvesting systems: Quantum-classical comparison, flux network, and robustness analysis

DOE Office of Scientific and Technical Information (OSTI.GOV)

Wu Jianlan; Department of Chemistry, Massachusetts Institute of Technology, 77 Massachusetts Ave., Cambridge, Massachusetts 02139; Liu Fan

2012-11-07

Following the calculation of optimal energy transfer in thermal environment in our first paper [J. L. Wu, F. Liu, Y. Shen, J. S. Cao, and R. J. Silbey, New J. Phys. 12, 105012 (2010)], full quantum dynamics and leading-order 'classical' hopping kinetics are compared in the seven-site Fenna-Matthews-Olson (FMO) protein complex. The difference between these two dynamic descriptions is due to higher-order quantum corrections. Two thermal bath models, classical white noise (the Haken-Strobl-Reineker (HSR) model) and quantum Debye model, are considered. In the seven-site FMO model, we observe that higher-order corrections lead to negligible changes in the trapping time ormore » in energy transfer efficiency around the optimal and physiological conditions (2% in the HSR model and 0.1% in the quantum Debye model for the initial site at BChl 1). However, using the concept of integrated flux, we can identify significant differences in branching probabilities of the energy transfer network between hopping kinetics and quantum dynamics (26% in the HSR model and 32% in the quantum Debye model for the initial site at BChl 1). This observation indicates that the quantum coherence can significantly change the distribution of energy transfer pathways in the flux network with the efficiency nearly the same. The quantum-classical comparison of the average trapping time with the removal of the bottleneck site, BChl 4, demonstrates the robustness of the efficient energy transfer by the mechanism of multi-site quantum coherence. To reconcile with the latest eight-site FMO model which is also investigated in the third paper [J. Moix, J. L. Wu, P. F. Huo, D. F. Coker, and J. S. Cao, J. Phys. Chem. Lett. 2, 3045 (2011)], the quantum-classical comparison with the flux network analysis is summarized in Appendix C. The eight-site FMO model yields similar trapping time and network structure as the seven-site FMO model but leads to a more disperse distribution of energy transfer pathways.« less

Experimental nonlinear dynamical studies in cesium magneto-optical trap using time-series analysis

DOE Office of Scientific and Technical Information (OSTI.GOV)

Anwar, M., E-mail: mamalik2000@gmail.com; Islam, R.; Faisal, M.

2015-03-30

A magneto-optical trap of neutral atoms is essentially a dissipative quantum system. The fast thermal atoms continuously dissipate their energy to the environment via spontaneous emissions during the cooling. The atoms are, therefore, strongly coupled with the vacuum reservoir and the laser field. The vacuum fluctuations as well as the field fluctuations are imparted to the atoms as random photon recoils. Consequently, the external and internal dynamics of atoms becomes stochastic. In this paper, we have investigated the stochastic dynamics of the atoms in a magneto-optical trap during the loading process. The time series analysis of the fluorescence signal showsmore » that the dynamics of the atoms evolves, like all dissipative systems, from deterministic to the chaotic regime. The subsequent disappearance and revival of chaos was attributed to chaos synchronization between spatially different atoms in the magneto-optical trap.« less

Light desorption from an yttrium neutralizer for Rb and Fr magneto-optical trap loading

DOE Office of Scientific and Technical Information (OSTI.GOV)

Coppolaro, V.; Papi, N.; Khanbekyan, A.

2014-10-07

We present here the first evidence of photodesorption induced by low-intensity non-resonant light from an yttrium thin foil, which works as a neutralizer for Rb and Fr ions beam. Neutral atoms are suddenly ejected from the metal surface in a pulsed regime upon illumination with a broadband flash light and then released in the free volume of a pyrex cells. Here atoms are captured by a Magneto-Optical Trap (MOT), which is effectively loaded by the photodesorption. Loading times of the order of the flash rise time are measured. Desorption is also obtained in the continuous regime, by exploiting CW visiblemore » illumination of the metallic neutralizer surface. We demonstrate that at lower CW light intensities vacuum conditions are not perturbed by the photodesorption and hence the MOT dynamics remains unaffected, while the trap population increases thanks to the incoming desorbed atoms flux. Even with the Y foil at room temperature and hence with no trapped atoms, upon visible illumination, the number of trapped atoms reaches 10{sup 5}. The experimental data are then analyzed by means of an analytical rate equation model, which allows the analysis of this phenomenon and its dynamics and allows the determination of critical experimental parameters and the test of the procedure in the framework of radioactive Francium trapping. In this view, together with an extensive investigation of the phenomenon with {sup 85}Rb, the first demonstration of the photodesorption-aided loading of a {sup 210}Fr MOT is shown.« less

Influence of trap location on the efficiency of trapping in dendrimers and regular hyperbranched polymers.

PubMed

Lin, Yuan; Zhang, Zhongzhi

2013-03-07

The trapping process in polymer systems constitutes a fundamental mechanism for various other dynamical processes taking place in these systems. In this paper, we study the trapping problem in two representative polymer networks, Cayley trees and Vicsek fractals, which separately model dendrimers and regular hyperbranched polymers. Our goal is to explore the impact of trap location on the efficiency of trapping in these two important polymer systems, with the efficiency being measured by the average trapping time (ATT) that is the average of source-to-trap mean first-passage time over every staring point in the whole networks. For Cayley trees, we derive an exact analytic formula for the ATT to an arbitrary trap node, based on which we further obtain the explicit expression of ATT for the case that the trap is uniformly distributed. For Vicsek fractals, we provide the closed-form solution for ATT to a peripheral node farthest from the central node, as well as the numerical solutions for the case when the trap is placed on other nodes. Moreover, we derive the exact formula for the ATT corresponding to the trapping problem when the trap has a uniform distribution over all nodes. Our results show that the influence of trap location on the trapping efficiency is completely different for the two polymer networks. In Cayley trees, the leading scaling of ATT increases with the shortest distance between the trap and the central node, implying that trap's position has an essential impact on the trapping efficiency; while in Vicsek fractals, the effect of location of the trap is negligible, since the dominant behavior of ATT is identical, respective of the location where the trap is placed. We also present that for all cases of trapping problems being studied, the trapping process is more efficient in Cayley trees than in Vicsek fractals. We demonstrate that all differences related to trapping in the two polymer systems are rooted in their underlying topological structures.

Formation Ages of the Apollo 16 Regolith Breccias: Implications for Accessing the Bombardment History of the Moon

NASA Technical Reports Server (NTRS)

Joy, K. H.; Kring, D. A.; Bogard, D. D.; Zolensky, M. E.; McKay, D. S.

2010-01-01

Regolith breccias are lithified samples of the regolith that have been fused together by impact shock and thermal metamorphism. In lunar regolith samples, the ratio of trapped 40Ar/36Ar is a useful indicator of antiquity and can be used to model the closure age/lifithication event of the regolith (i.e. the apparent time when Ar became trapped [1]), thus providing an important insight into specific times when that regolith was interacting with the the dynamic inner solar system space environment [2-4].

Scanning dimensional measurement using laser-trapped microsphere with optical standing-wave scale

NASA Astrophysics Data System (ADS)

Michihata, Masaki; Ueda, Shin-ichi; Takahashi, Satoru; Takamasu, Kiyoshi; Takaya, Yasuhiro

2017-06-01

We propose a laser trapping-based scanning dimensional measurement method for free-form surfaces. We previously developed a laser trapping-based microprobe for three-dimensional coordinate metrology. This probe performs two types of measurements: a tactile coordinate and a scanning measurement in the same coordinate system. The proposed scanning measurement exploits optical interference. A standing-wave field is generated between the laser-trapped microsphere and the measured surface because of the interference from the retroreflected light. The standing-wave field produces an effective length scale, and the trapped microsphere acts as a sensor to read this scale. A horizontal scan of the trapped microsphere produces a phase shift of the standing wave according to the surface topography. This shift can be measured from the change in the microsphere position. The dynamics of the trapped microsphere within the standing-wave field was estimated using a harmonic model, from which the measured surface can be reconstructed. A spherical lens was measured experimentally, yielding a radius of curvature of 2.59 mm, in agreement with the nominal specification (2.60 mm). The difference between the measured points and a spherical fitted curve was 96 nm, which demonstrates the scanning function of the laser trapping-based microprobe for free-form surfaces.

Progress towards a rapidly rotating ultracold Fermi gas

NASA Astrophysics Data System (ADS)

Hu, Ming-Guang; van de Graaff, Michael; Cornell, Eric; Jin, Deborah

2015-05-01

We are designing an experiment with the goal of creating a rapidly rotating ultracold Fermi gas, which is promising system in which to study quantum Hall physics. We propose to use selective evaporation of a gas that has been initialized with a modest rotation rate to increase the angular momentum per particle in order to reach rapid rotation. We have performed simulations of this evaporation process for a model optical trap potential. Achieving rapid rotation will require a very smooth, very harmonic, and dynamically variable optical trap. We plan to use a setup consisting of two acousto-optical modulators to ``paint'' an optical dipole trapping potential that can be made smooth, radially symmetric, and harmonic. This project is supported by NSF, NIST, NASA.

Investigation of diocotron modes in toroidally trapped electron plasmas using non-destructive method

NASA Astrophysics Data System (ADS)

Lachhvani, Lavkesh; Pahari, Sambaran; Sengupta, Sudip; Yeole, Yogesh G.; Bajpai, Manu; Chattopadhyay, P. K.

2017-10-01

Experiments with trapped electron plasmas in a SMall Aspect Ratio Toroidal device (SMARTEX-C) have demonstrated a flute-like mode represented by oscillations on capacitive (wall) probes. Although analogous to diocotron mode observed in linear electron traps, the mode evolution in toroids can have interesting consequences due to the presence of in-homogeneous magnetic field. In SMARTEX-C, the probe signals are observed to undergo transition from small, near-sinusoidal oscillations to large amplitude, non-linear "double-peaked" oscillations. To interpret the wall probe signal and bring forth the dynamics, an expression for the induced current on the probe for an oscillating charge is derived, utilizing Green's Reciprocation Theorem. Equilibrium position, poloidal velocity of the charge cloud, and charge content of the cloud, required to compute the induced current, are estimated from the experiments. Signal through capacitive probes is thereby computed numerically for possible charge cloud trajectories. In order to correlate with experiments, starting with an intuitive guess of the trajectory, the model is evolved and tweaked to arrive at a signal consistent with experimentally observed probe signals. A possible vortex like dynamics is predicted, hitherto unexplored in toroidal geometries, for a limited set of experimental observations from SMARTEX-C. Though heuristic, a useful interpretation of capacitive probe data in terms of charge cloud dynamics is obtained.

Simulation of Space Charge Dynamic in Polyethylene Under DC Continuous Electrical Stress

NASA Astrophysics Data System (ADS)

Boukhari, Hamed; Rogti, Fatiha

2016-10-01

The space charge dynamic plays a very important role in the aging and breakdown of polymeric insulation materials under high voltage. This is due to the intensification of the local electric field and the attendant chemical-mechanical effects in the vicinity around the trapped charge. In this paper, we have investigated the space charge dynamic in low-density polyethylene under high direct-current voltage, which is evaluated by experimental conditions. The evaluation is on the basis of simulation using a bipolar charge transport model consisting of charge injection, transports, trapping, detrapping, and recombination phenomena. The theoretical formulation of the physical problem is based on the Poisson, the continuity, and the transport equations. Numerical results provide temporal and local distributions of the electric field, the space charge density for the different kinds of charges (net charge density, mobile and trapped of electron density, mobile hole density), conduction and displacement current densities, and the external current. The result shows the appearance of the negative packet-like space charge with a large amount of the bulk under the dc electric field of 100 kV/mm, and the induced distortion of the electric field is largely near to the anode, about 39% higher than the initial electric field applied.

Stability of aerosol droplets in Bessel beam optical traps under constant and pulsed external forces

DOE Office of Scientific and Technical Information (OSTI.GOV)

David, Grégory; Esat, Kıvanç; Hartweg, Sebastian

We report on the dynamics of aerosol droplets in optical traps under the influence of additional constant and pulsed external forces. Experimental results are compared with simulations of the three-dimensional droplet dynamics for two types of optical traps, the counter-propagating Bessel beam (CPBB) trap and the quadruple Bessel beam (QBB) trap. Under the influence of a constant gas flow (constant external force), the QBB trap is found to be more stable compared with the CPBB trap. By contrast, under pulsed laser excitation with laser pulse durations of nanoseconds (pulsed external force), the type of trap is of minor importance formore » the droplet stability. It typically needs pulsed laser forces that are several orders of magnitude higher than the optical forces to induce escape of the droplet from the trap. If the droplet strongly absorbs the pulsed laser light, these escape forces can be strongly reduced. The lower stability of absorbing droplets is a result of secondary thermal processes that cause droplet escape.« less

Molecular Dynamics Simulation of Hydrogen Trapping on Sigma 5 Tungsten Grain Boundaries

NASA Astrophysics Data System (ADS)

Al-Shalash, Aws Mohammed Taha

Tungsten as a plasma facing material is the predominant contender for future Tokamak reactor environments. The interaction between the plasma particles and tungsten is crucial to be studied for successful usage and design of tungsten in the plasma facing components ensuring the reliability and longevity of the fusion reactors. The bombardment of the sigma 5 polycrystalline tungsten was modeled using the molecular dynamics simulation through the large-scale atomic/molecular massively parallel simulator (LAMMPS) code and Tersoff type interatomic potential. By simulating the operational conditions of the Tokamak reactors, the hydrogen trapping rate, implantation distribution, and bubble formation was investigated at various temperatures (300-1200 K) and various hydrogen incident energy (20-100 eV). The substrate's temperature increases the deflected H atoms, and increases the penetration depth for the ones that go through. As well, the lower temperature tungsten substrates retain more H atoms. Increasing the bombarded hydrogen's energy increases the trapping and retention rate and the depth of penetration. Another experiments were conducted to determine whether the Sigma5 grain boundary's (GB) location affects the trapping profiles in H. The findings are ranges from small effect on deflection rates at low H energies to no effect at high H energies. However, there is a considerable effect on shifting the trapping depth profile upward toward the surface when raising the GB closer to the surface. Hydrogen atoms are highly mobile on tungsten substrate, yet no bubble formation was witnessed.

Effect of environment and fallow period on Cosmopolites sordidus population dynamics at the landscape scale.

PubMed

Duyck, P-F; Dortel, E; Vinatier, F; Gaujoux, E; Carval, D; Tixier, P

2012-10-01

Understanding how the population dynamics of insect pests are affected by environmental factors and agricultural practices is important for pest management. To investigate how the abundance of the banana weevil, Cosmopolites sordidus (Coleoptera: Curculionidae), is related to environmental factors and the length of the fallow period in Martinique, we developed an extensive data set (18,130 observations of weevil abundance obtained with pheromone traps plus associated environmental data) and analysed it with generalized mixed-effects models. At the island scale, C. sordidus abundance was positively related to mean temperature and negatively related to mean rainfall but was not related to soil type. The number of insects trapped was highest during the driest months of the year. Abundance of C. sordidus decreased as the duration of the preceding fallow period increased. The latter finding is inconsistent with the view that fallow-generated decomposing banana tissue is an important resource for larvae that leads to an increase in the pest population. The results are consistent with the view that fallows, in association with pheromone traps, are effective for the control of the banana weevil.

Validation of the new trapped environment AE9/AP9/SPM at low Earth orbit

NASA Astrophysics Data System (ADS)

Badavi, Francis F.

2014-09-01

The completion of the international space station (ISS) in 2011 has provided the space research community an ideal proving ground for future long duration human activities in space. Ionizing radiation measurements in ISS form the ideal tool for the validation of radiation environmental models, nuclear transport codes and nuclear reaction cross sections. Indeed, prior measurements on the space transportation system (STS; shuttle) provided vital information impacting both the environmental models and the nuclear transport code developments by indicating the need for an improved dynamic model of the low Earth orbit (LEO) trapped environment. Additional studies using thermo-luminescent detector (TLD), tissue equivalent proportional counter (TEPC) area monitors, and computer aided design (CAD) model of earlier ISS configurations, confirmed STS observations that, as input, computational dosimetry requires an environmental model with dynamic and directional (anisotropic) behavior, as well as an accurate six degree of freedom (DOF) definition of the vehicle attitude and orientation along the orbit of ISS. At LEO, a vehicle encounters exposure from trapped particles and attenuated galactic cosmic rays (GCR). Within the trapped field, a challenge arises from properly estimating the amount of exposure acquired. There exist a number of models to define the intensities of the trapped particles during the solar quiet and active times. At active times, solar energetic particles (SEP) generated by solar flare or coronal mass ejection (CME) also contribute to the exposure at high northern and southern latitudes. Among the more established trapped models are the historic and popular AE8/AP8, dating back to the 1980s, the historic and less popular CRRES electron/proton, dating back to 1990s and the recently released AE9/AP9/SPM. The AE9/AP9/SPM model is a major improvement over the older AE8/AP8 and CRRES models. This model is derived from numerous measurements acquired over four solar cycles dating back to the 1970s, roughly representing 40 years of data collection. In contrast, the older AE8/AP8 and CRRES models were limited to only a few months of measurements taken during the prior solar minima and maxima. The dual goal of this paper is to first validate the AE8/AP8 and AE9/AP9/SPM trapped models against ISS dosemetric measurements for a silicon based detector, to assess the improvements in the AE9/AP9/SPM model as compared to AE8/AP8 model. The validation is done at selected target points within ISS-6A configuration during its passage through the south Atlantic anomaly (SAA). For such validation, only the isotropic spectrum of either model is needed. As a second goal, the isotropic spectra of both trapped models are re-casted into anisotropic spectra by modulating them with a measurement derived angular formalism which is applicable to trapped protons. Since at LEO electrons have minimal exposure contribution, the paper ignores the AE8 and AE9 component of the models and presents the angular validation of AP8 and AP9 against measurements from the compact environment anomaly sensor (CEASE) science instrument package, flown onboard the tri-service experiment-5 (TSX-5) satellite during the period of June 2000-July 2006. The spin stabilized satellite was flown in a 410 × 1710 km, 69° inclination orbit, allowing it to be exposed to a broad range of LEO regime. Particular emphasize is put on the validation of proton flux profiles at differential 40 MeV and integral >40 MeV, in the vicinity of SAA where protons exhibit east-west (EW) anisotropy and have a relatively narrow pitch angle distribution. Within SAA, the EW anisotropy results in different level of exposure to each side of CEASE instrument package, allowing the extraction of anisotropic proton spectra from the measurements. While the magnitude of the EW effect at LEO depends on a multitude of factors such as trapped proton energy, orientation of the spacecraft along the velocity vector and altitude of the spacecraft, for this part, the paper draws quantitative conclusions on the combined effect of proton pitch angle and EW anomaly.

Spatio-temporal dynamics of turbulence trapped in geodesic acoustic modes

NASA Astrophysics Data System (ADS)

Sasaki, M.; Kobayashi, T.; Itoh, K.; Kasuya, N.; Kosuga, Y.; Fujisawa, A.; Itoh, S.-I.

2018-01-01

The spatio-temporal dynamics of turbulence with the interaction of geodesic acoustic modes (GAMs) are investigated, focusing on the phase-space structure of turbulence, where the phase-space consists of real-space and wavenumber-space. Based on the wave-kinetic framework, the coupling equation between the GAM and the turbulence is numerically solved. The turbulence trapped by the GAM velocity field is obtained. Due to the trapping effect, the turbulence intensity increases where the second derivative of the GAM velocity (curvature of the GAM) is negative. While, in the positive-curvature region, the turbulence is suppressed. Since the trapped turbulence propagates with the GAMs, this relationship is sustained spatially and temporally. The dynamics of the turbulence in the wavenumber spectrum are converted in the evolution of the frequency spectrum, and the simulation result is compared with the experimental observation in JFT-2M tokamak, where the similar patterns are obtained. The turbulence trapping effect is a key to understand the spatial structure of the turbulence in the presence of sheared flows.

NMR signals within the generalized Langevin model for fractional Brownian motion

NASA Astrophysics Data System (ADS)

Lisý, Vladimír; Tóthová, Jana

2018-03-01

The methods of Nuclear Magnetic Resonance belong to the best developed and often used tools for studying random motion of particles in different systems, including soft biological tissues. In the long-time limit the current mathematical description of the experiments allows proper interpretation of measurements of normal and anomalous diffusion. The shorter-time dynamics is however correctly considered only in a few works that do not go beyond the standard memoryless Langevin description of the Brownian motion (BM). In the present work, the attenuation function S (t) for an ensemble of spin-bearing particles in a magnetic-field gradient, expressed in a form applicable for any kind of stationary stochastic dynamics of spins with or without a memory, is calculated in the frame of the model of fractional BM. The solution of the model for particles trapped in a harmonic potential is obtained in an exceedingly simple way and used for the calculation of S (t). In the limit of free particles coupled to a fractal heat bath, the results compare favorably with experiments acquired in human neuronal tissues. The effect of the trap is demonstrated by introducing a simple model for the generalized diffusion coefficient of the particle.

Artificial Experience: Situation Awareness Training in Nursing

ERIC Educational Resources Information Center

Hinton, Janine E.

2011-01-01

The quasi-experimental research study developed and tested an education process to reduce and trap medication errors. The study was framed by Endsley's (1995a) model of situation awareness in dynamic decision making. Situation awareness improvement strategies were practiced during high-fidelity clinical simulations. Harmful medication errors occur…

Coherent structural trapping through wave packet dispersion during photoinduced spin state switching

DOE Office of Scientific and Technical Information (OSTI.GOV)

Lemke, Henrik T.; Kjær, Kasper S.; Hartsock, Robert

The description of ultrafast nonadiabatic chemical dynamics during molecular photo-transformations remains challenging because electronic and nuclear configurations impact each other and cannot be treated independently. Here we gain experimental insights, beyond the Born–Oppenheimer approximation, into the light-induced spin-state trapping dynamics of the prototypical [Fe(bpy)3]2+ compound by time-resolved X-ray absorption spectroscopy at sub-30-femtosecond resolution and high signal-to-noise ratio. The electronic decay from the initial optically excited electronic state towards the high spin state is distinguished from the structural trapping dynamics, which launches a coherent oscillating wave packet (265 fs period), clearly identified as molecular breathing. Throughout the structural trapping, the dispersionmore » of the wave packet along the reaction coordinate reveals details of intramolecular vibronic coupling before a slower vibrational energy dissipation to the solution environment. These findings illustrate how modern time-resolved X-ray absorption spectroscopy can provide key information to unravel dynamic details of photo-functional molecules.« less

Dynamically stable multiply quantized vortices in dilute Bose-Einstein condensates

DOE Office of Scientific and Technical Information (OSTI.GOV)

Huhtamaeki, J. A. M.; Virtanen, S. M. M.; Moettoenen, M.

2006-12-15

Multiquantum vortices in dilute atomic Bose-Einstein condensates confined in long cigar-shaped traps are known to be both energetically and dynamically unstable. They tend to split into single-quantum vortices even in the ultralow temperature limit with vanishingly weak dissipation, which has also been confirmed in the recent experiments [Y. Shin et al., Phys. Rev. Lett. 93, 160406 (2004)] utilizing the so-called topological phase engineering method to create multiquantum vortices. We study the stability properties of multiquantum vortices in different trap geometries by solving the Bogoliubov excitation spectra for such states. We find that there are regions in the trap asymmetry andmore » condensate interaction strength plane in which the splitting instability of multiquantum vortices is suppressed, and hence they are dynamically stable. For example, the doubly quantized vortex can be made dynamically stable even in spherical traps within a wide range of interaction strength values. We expect that this suppression of vortex-splitting instability can be experimentally verified.« less

Coherent structural trapping through wave packet dispersion during photoinduced spin state switching

DOE PAGES

Lemke, Henrik T.; Kjær, Kasper S.; Hartsock, Robert; ...

2017-05-24

The description of ultrafast nonadiabatic chemical dynamics during molecular photo-transformations remains challenging because electronic and nuclear configurations impact each other and cannot be treated independently. Here we gain experimental insights, beyond the Born–Oppenheimer approximation, into the light-induced spin-state trapping dynamics of the prototypical [Fe(bpy)3]2+ compound by time-resolved X-ray absorption spectroscopy at sub-30-femtosecond resolution and high signal-to-noise ratio. The electronic decay from the initial optically excited electronic state towards the high spin state is distinguished from the structural trapping dynamics, which launches a coherent oscillating wave packet (265 fs period), clearly identified as molecular breathing. Throughout the structural trapping, the dispersionmore » of the wave packet along the reaction coordinate reveals details of intramolecular vibronic coupling before a slower vibrational energy dissipation to the solution environment. These findings illustrate how modern time-resolved X-ray absorption spectroscopy can provide key information to unravel dynamic details of photo-functional molecules.« less

Coherent structural trapping through wave packet dispersion during photoinduced spin state switching

NASA Astrophysics Data System (ADS)

Lemke, Henrik T.; Kjær, Kasper S.; Hartsock, Robert; van Driel, Tim B.; Chollet, Matthieu; Glownia, James M.; Song, Sanghoon; Zhu, Diling; Pace, Elisabetta; Matar, Samir F.; Nielsen, Martin M.; Benfatto, Maurizio; Gaffney, Kelly J.; Collet, Eric; Cammarata, Marco

2017-05-01

The description of ultrafast nonadiabatic chemical dynamics during molecular photo-transformations remains challenging because electronic and nuclear configurations impact each other and cannot be treated independently. Here we gain experimental insights, beyond the Born-Oppenheimer approximation, into the light-induced spin-state trapping dynamics of the prototypical [Fe(bpy)3]2+ compound by time-resolved X-ray absorption spectroscopy at sub-30-femtosecond resolution and high signal-to-noise ratio. The electronic decay from the initial optically excited electronic state towards the high spin state is distinguished from the structural trapping dynamics, which launches a coherent oscillating wave packet (265 fs period), clearly identified as molecular breathing. Throughout the structural trapping, the dispersion of the wave packet along the reaction coordinate reveals details of intramolecular vibronic coupling before a slower vibrational energy dissipation to the solution environment. These findings illustrate how modern time-resolved X-ray absorption spectroscopy can provide key information to unravel dynamic details of photo-functional molecules.

Watching conformational- and photo-dynamics of single fluorescent proteins in solution.

PubMed

Goldsmith, Randall H; Moerner, W E

2010-03-01

Observing the dynamics of single biomolecules over prolonged time periods is difficult to achieve without significantly altering the molecule through immobilization. It can, however, be accomplished using the Anti-Brownian ELectrokinetic (ABEL) Trap, which allows extended investigation of solution-phase biomolecules - without immobilization -through real-time electrokinetic feedback. Here we apply the ABEL trap to study an important photosynthetic antenna protein, Allophycocyanin (APC). The technique allows the observation of single molecules of solution-phase APC for more than one second. We observe a complex relationship between fluorescence intensity and lifetime that cannot be explained by simple static kinetic models. Light-induced conformational changes are shown to occur and evidence is obtained for fluctuations in the spontaneous emission lifetime, which is typically assumed to be constant. Our methods provide a new window into the dynamics of fluorescent proteins and the observations are relevant for the interpretation of in vivo single-molecule imaging experiments, bacterial photosynthetic regulation, and biomaterials for solar energy harvesting.

Watching conformational- and photo-dynamics of single fluorescent proteins in solution

PubMed Central

Goldsmith, Randall H.

2010-01-01

Observing the dynamics of single biomolecules over prolonged time periods is difficult to achieve without significantly altering the molecule through immobilization. It can, however, be accomplished using the Anti-Brownian ELectrokinetic (ABEL) Trap, which allows extended investigation of solution-phase biomolecules - without immobilization -through real-time electrokinetic feedback. Here we apply the ABEL trap to study an important photosynthetic antenna protein, Allophycocyanin (APC). The technique allows the observation of single molecules of solution-phase APC for more than one second. We observe a complex relationship between fluorescence intensity and lifetime that cannot be explained by simple static kinetic models. Light-induced conformational changes are shown to occur and evidence is obtained for fluctuations in the spontaneous emission lifetime, which is typically assumed to be constant. Our methods provide a new window into the dynamics of fluorescent proteins and the observations are relevant for the interpretation of in vivo single-molecule imaging experiments, bacterial photosynthetic regulation, and biomaterials for solar energy harvesting. PMID:20625479

Dynamical analysis of relaxation luminescence in ZnS:Er3+ thin film devices

NASA Astrophysics Data System (ADS)

Wang, Yu-Jiang; Wu, Chen-Xu; Chen, Mou-Zhi; Huang, Mei-Chun

2003-06-01

The relaxation luminescence of ZnS:Er3+ thin film devices fabricated by thermal evaporation with two boats is studied. The dynamical processes of the luminescence of Er3+ in ZnS are described in terms of a resonant energy transfer model, assuming that the probability of collision excitation of injected electrons with luminescence centers is expressed as a Gaussian function. It is found that the frequency distribution depends on the Lorentzian function by considering the emission from excited states as a damped oscillator. Taking into consideration the energy storing effect of traps, an expression is obtained to describe a profile that contains multiple relaxation luminescence peaks using the convolution theorem. Fitting of experimental results shows that the relaxation characteristics of the electroluminescence are related to the carriers captured by bulk traps as well as by interface states. The numerical calculation carried out agrees well with the dynamical characteristics of relaxation luminescence obtained by experiments.

Effects of surface and interface traps on exciton and multi-exciton dynamics in core/shell quantum dots

NASA Astrophysics Data System (ADS)

Bozio, Renato; Righetto, Marcello; Minotto, Alessandro

2017-08-01

Exciton interactions and dynamics are the most important factors determining the exceptional photophysical properties of semiconductor quantum dots (QDs). In particular, best performances have been obtained for ingeniously engineered core/shell QDs. We have studied two factors entering in the exciton decay dynamics with adverse effects for the luminescence efficiency: exciton trapping at surface and interface traps, and non-radiative Auger recombination in QDs carrying either net charges or multiple excitons. In this work, we present a detailed study into the optical absorption, fluorescence dynamics and quantum yield, as well as ultrafast transient absorption properties of CdSe/CdS, CdSe/Cd0.5Zn0.5S, and CdSe/ZnS QDs as a function of shell thickness. It turns out that de-trapping processes play a pivotal role in determining steady state emission properties. By studying the excitation dependent photoluminescence quantum yields (PLQY) in different CdSe/CdxZn1-xS (x = 0, 0.5, 1) QDs, we demonstrate the different role played by hot and cold carrier trapping rates in determining fluorescence quantum yields. Finally, the use of global analysis allows us untangling the complex ultrafast transient absorption signals. Smoothing of interface potential, together with effective surface passivation, appear to be crucial factors in slowing down both Auger-based and exciton trapping recombination processes.

Nonlinear Dynamics of Multi-Component Bose-Einstein Condensates ---Anti-Gravity Transport and Vortex Chaos---

NASA Astrophysics Data System (ADS)

Nakamura, K.

Bose-Einstein condensate(BEC) provides a nice stage when the nonlinearSchrödinger equation plays a vital role. We study the dynamics of multi-component repulsive BEC in 2 dimensions with harmonic traps by using the nonlinear Schrödinger (or Gross-Pitaevskii) equation. Firstly we consider a driven two-component BEC with each component trapped in different vertical positions. The appropriate tuning of the oscillation frequency of the magnetic field leads to a striking anti-gravity transport of BEC. This phenomenon is a manifestation of macroscopic non-adiabatic tunneling in a system with two internal(electronic) degrees of freedom. The dynamics splits into a fast complex spatio-temporal oscillation of each condensate wavefunctions together with a slow levitation of the total center of mass. Secondly, we examine the three-component repulsive BEC in 2 dimensions in a harmonic trap in the absence of magnetic field, and construct a model of conservative chaos based on a picture of vortex molecules. We obtain an effective nonlinear dynamics for three vortex cores, which represents three charged particles under the uniform magnetic field with the repulsive inter-particle potential quadratic in the inter-vortex distance r_{ij} on short scale and logarithmic in r_{ij} on large scale. The vortices here acquire the inertia in marked contrast to the standard theory of point vortices since Onsager. We then explore ``the chaos in the three-body problem" in the context of vortices with inertia.

Quantum Bose-Hubbard model with an evolving graph as a toy model for emergent spacetime

NASA Astrophysics Data System (ADS)

Hamma, Alioscia; Markopoulou, Fotini; Lloyd, Seth; Caravelli, Francesco; Severini, Simone; Markström, Klas

2010-05-01

We present a toy model for interacting matter and geometry that explores quantum dynamics in a spin system as a precursor to a quantum theory of gravity. The model has no a priori geometric properties; instead, locality is inferred from the more fundamental notion of interaction between the matter degrees of freedom. The interaction terms are themselves quantum degrees of freedom so that the structure of interactions and hence the resulting local and causal structures are dynamical. The system is a Hubbard model where the graph of the interactions is a set of quantum evolving variables. We show entanglement between spatial and matter degrees of freedom. We study numerically the quantum system and analyze its entanglement dynamics. We analyze the asymptotic behavior of the classical model. Finally, we discuss analogues of trapped surfaces and gravitational attraction in this simple model.

Harnessing Thermoresponsive Aptamers and Gels To Trap and Release Nanoparticles

NASA Astrophysics Data System (ADS)

Liu, Ya; Kuksenok, Olga; He, Ximin; Aizenberg, Michael; Aizenberg, Joanna; Balazs, Anna

We use computational modeling to design a device that can controllably trap and release particles in solution in response to variations in temperature. The system exploits the thermoresponsive properties of end-grafted fibers and the underlying gel substrate. The fibers mimic the temperature-dependent behavior of biological aptamers, which form a hairpin structure at low temperatures (T) and unfold at higher T, consequently losing their binding affinity. The gel substrate exhibits a lower critical solution temperature and thus, expands at low tempertures and contracts at higher T. By developing a new dissipative particle dynamics simulation, we examine the behavior of this hybrid system in a flowing fluid that contains buoyant nanoparticles. Our findings provide guidelines for creating fluidic devices that are effective at purifying contaminated solutions or trapping cells for biological assays.

Analytical model of secondary electron emission yield in electron beam irradiated insulators.

PubMed

Ghorbel, N; Kallel, A; Damamme, G

2018-06-12

The study of secondary electron emission (SEE) yield as a function of the kinetic energy of the incident primary electron beam and its evolution with charge accumulation inside insulators is a source of valuable information (even though an indirect one) on charge transport and trapping phenomena. We will show that this evolution is essentially due, in plane geometry conditions (achieved using a defocused electron beam), to the electric field effect (due to the accumulation of trapped charges in the bulk) in the escape zone of secondary electrons and not to modifications of trapping cross sections, which only have side effects. We propose an analytical model including the main basic phenomena underlying the space charge dynamics. It will be observed that such a model makes it possible to reproduce both qualitatively and quantitatively the measurement of SEE evolution as well as to provide helpful indications concerning charge transport (more precisely, the ratios between the mobility and diffusion coefficient with the thermal velocity of the charge carrier). Copyright © 2018 Elsevier Ltd. All rights reserved.

The influence of interfacial defects on fast charge trapping in nanocrystalline oxide-semiconductor thin film transistors

NASA Astrophysics Data System (ADS)

Kim, Taeho; Hur, Jihyun; Jeon, Sanghun

2016-05-01

Defects in oxide semiconductors not only influence the initial device performance but also affect device reliability. The front channel is the major carrier transport region during the transistor turn-on stage, therefore an understanding of defects located in the vicinity of the interface is very important. In this study, we investigated the dynamics of charge transport in a nanocrystalline hafnium-indium-zinc-oxide thin-film transistor (TFT) by short pulse I-V, transient current and 1/f noise measurement methods. We found that the fast charging behavior of the tested device stems from defects located in both the front channel and the interface, following a multi-trapping mechanism. We found that a silicon-nitride stacked hafnium-indium-zinc-oxide TFT is vulnerable to interfacial charge trapping compared with silicon-oxide counterpart, causing significant mobility degradation and threshold voltage instability. The 1/f noise measurement data indicate that the carrier transport in a silicon-nitride stacked TFT device is governed by trapping/de-trapping processes via defects in the interface, while the silicon-oxide device follows the mobility fluctuation model.

Measurements of trap dynamics of cold OH molecules using resonance-enhanced multiphoton ionization

NASA Astrophysics Data System (ADS)

Gray, John M.; Bossert, Jason A.; Shyur, Yomay; Lewandowski, H. J.

2017-08-01

Trapping cold, chemically important molecules with electromagnetic fields is a useful technique to study small molecules and their interactions. Traps provide long interaction times, which are needed to precisely examine these low-density molecular samples. However, the trapping fields lead to nonuniform molecular density distributions in these systems. Therefore, it is important to be able to experimentally characterize the spatial density distribution in the trap. Ionizing molecules at different locations in the trap using resonance-enhanced multiphoton ionization (REMPI) and detecting the resulting ions can be used to probe the density distribution even at the low density present in these experiments because of the extremely high efficiency of detection. Until recently, one of the most chemically important molecules, OH, did not have a convenient REMPI scheme identified. Here, we use a newly developed 1 +1' REMPI scheme to detect trapped cold OH molecules. We use this capability to measure the trap dynamics of the central density of the cloud and the density distribution. These types of measurements can be used to optimize loading of molecules into traps, as well as to help characterize the energy distribution, which is critical knowledge for interpreting molecular collision experiments.

Modeling ecological traps for the control of feral pigs

PubMed Central

Dexter, Nick; McLeod, Steven R

2015-01-01

Ecological traps are habitat sinks that are preferred by dispersing animals but have higher mortality or reduced fecundity compared to source habitats. Theory suggests that if mortality rates are sufficiently high, then ecological traps can result in extinction. An ecological trap may be created when pest animals are controlled in one area, but not in another area of equal habitat quality, and when there is density-dependent immigration from the high-density uncontrolled area to the low-density controlled area. We used a logistic population model to explore how varying the proportion of habitat controlled, control mortality rate, and strength of density-dependent immigration for feral pigs could affect the long-term population abundance and time to extinction. Increasing control mortality, the proportion of habitat controlled and the strength of density-dependent immigration decreased abundance both within and outside the area controlled. At higher levels of these parameters, extinction was achieved for feral pigs. We extended the analysis with a more complex stochastic, interactive model of feral pig dynamics in the Australian rangelands to examine how the same variables as the logistic model affected long-term abundance in the controlled and uncontrolled area and time to extinction. Compared to the logistic model of feral pig dynamics, the stochastic interactive model predicted lower abundances and extinction at lower control mortalities and proportions of habitat controlled. To improve the realism of the stochastic interactive model, we substituted fixed mortality rates with a density-dependent control mortality function, empirically derived from helicopter shooting exercises in Australia. Compared to the stochastic interactive model with fixed mortality rates, the model with the density-dependent control mortality function did not predict as substantial decline in abundance in controlled or uncontrolled areas or extinction for any combination of variables. These models demonstrate that pest eradication is theoretically possible without the pest being controlled throughout its range because of density-dependent immigration into the area controlled. The stronger the density-dependent immigration, the better the overall control in controlled and uncontrolled habitat combined. However, the stronger the density-dependent immigration, the poorer the control in the area controlled. For feral pigs, incorporating environmental stochasticity improves the prospects for eradication, but adding a realistic density-dependent control function eliminates these prospects. PMID:26045954

Combining Jaynes-Cummings and anti-Jaynes-Cummings dynamics in a trapped-ion system driven by a laser

DOE Office of Scientific and Technical Information (OSTI.GOV)

Rodriguez-Lara, B.M.; Moya-Cessa, H.; Klimov, A.B.

2005-02-01

We show that, if one combines the Jaynes-Cummings and anti-Jaynes-Cummings dynamics in a trapped-ion system driven by a laser, additional series of collapses and revivals of the vibrational state of the ion can be generated.

Quantum simulation of ultrafast dynamics using trapped ultracold atoms.

PubMed

Senaratne, Ruwan; Rajagopal, Shankari V; Shimasaki, Toshihiko; Dotti, Peter E; Fujiwara, Kurt M; Singh, Kevin; Geiger, Zachary A; Weld, David M

2018-05-25

Ultrafast electronic dynamics are typically studied using pulsed lasers. Here we demonstrate a complementary experimental approach: quantum simulation of ultrafast dynamics using trapped ultracold atoms. Counter-intuitively, this technique emulates some of the fastest processes in atomic physics with some of the slowest, leading to a temporal magnification factor of up to 12 orders of magnitude. In these experiments, time-varying forces on neutral atoms in the ground state of a tunable optical trap emulate the electric fields of a pulsed laser acting on bound charged particles. We demonstrate the correspondence with ultrafast science by a sequence of experiments: nonlinear spectroscopy of a many-body bound state, control of the excitation spectrum by potential shaping, observation of sub-cycle unbinding dynamics during strong few-cycle pulses, and direct measurement of carrier-envelope phase dependence of the response to an ultrafast-equivalent pulse. These results establish cold-atom quantum simulation as a complementary tool for studying ultrafast dynamics.

Comparison of CO2 trapping in highly heterogeneous reservoirs with Brooks-Corey and van Genuchten capillary pressure curves

NASA Astrophysics Data System (ADS)

Gershenzon, Naum; Soltanian, Mohamadreza; Ritzi, Robert, Jr.; Dominic, David

2015-04-01

Geological heterogeneities essentially affect the dynamics of a CO2 plume in subsurface environments. Recent studies have led to new conceptual and quantitative models for sedimentary architecture in fluvial deposits over a range of scales that are relevant to the performance of some deep saline reservoirs [1, 2]. Previously we showed how the dynamics of a CO2 plume, during and after injection, is influenced by the hierarchical and multi-scale stratal architecture in such reservoirs [3]. The results strongly suggest that representing these small scales (few cm in vertical direction and few meters in horizontal direction) features and representing how they are organized within a hierarchy of larger-scale features, is critical to understanding capillary trapping processes. The results also demonstrated the importance of using separate capillary pressure and relative permeability relationships for different textural facies types. Here we present the result of simulation of CO2 trapping in deep saline aquifers using two different conventional approaches, i.e. Brooks-Corey and van Genuchten, to capillary pressure. We showed that capillary trapping as well as dissolution rates are very different for the Brooks-Corey and van Genuchten approaches if reservoir consists from various species with different capillary pressure and relative permeability curves. We also found a dramatic difference in simulation time; using the van Genuchten approach improves convergence and thus reduces calculation time by one-two orders of magnitude. [1] Bridge, J.S. (2006), Fluvial facies models: Recent developments, in Facies Models Revisited, SEPM Spec. Publ., 84, edited by H. W. Posamentier and R. G. Walker, pp. 85-170, Soc. for Sediment. Geol. (SEPM), Tulsa, Okla [2] Ramanathan, R., A. Guin, R.W. Ritzi, D.F. Dominic, V.L. Freedman, T.D. Scheibe, and I.A. Lunt (2010), Simulating the heterogeneity in channel belt deposits: Part 1. A geometric-based methodology and code, Water Resources Research, v. 46, W04515. [3] Gershenzon N.I., M. Soltanian, R.W. Ritzi Jr., and D.F. Dominic (2014) Influence of small scale heterogeneity on CO2 trapping processes in deep saline aquifers, Energy Procedia, 59, 166 - 173.

Ultrafast photocarrier dynamics related to defect states of Si1-xGex nanowires measured by optical pump-THz probe spectroscopy.

PubMed

Bae, Jung Min; Lee, Woo-Jung; Jung, Seonghoon; Ma, Jin Won; Jeong, Kwang-Sik; Oh, Seung Hoon; Kim, Seongsin M; Suh, Dongchan; Song, Woobin; Kim, Sunjung; Park, Jaehun; Cho, Mann-Ho

2017-06-14

Slightly tapered Si 1-x Ge x nanowires (NWs) (x = 0.29-0.84) were synthesized via a vapor-liquid-solid procedure using Au as a catalyst. We measured the optically excited carrier dynamics of Si 1-x Ge x NWs as a function of Ge content using optical pump-THz probe spectroscopy. The measured -ΔT/T 0 signals of Si 1-x Ge x NWs were converted into conductivity in the THz region. We developed a fitting formula to apply to indirect semiconductors such as Si 1-x Ge x , which explains the temporal population of photo-excited carriers in the band structure and the relationship between the trapping time and the defect states on an ultrafast time scale. From the fitting results, we extracted intra- and inter-valley transition times and trapping times of electrons and holes of Si 1-x Ge x NWs as a function of Ge content. On the basis of theoretical reports, we suggest a physical model to interpret the trapping times related to the species of interface defect states located at the oxide/NW: substoichiometric oxide states of Si(Ge) 0+,1+,2+ , but not Si(Ge) 3+ , could function as defect states capturing photo-excited electrons or holes and could determine the different trapping times of electrons and holes depending on negatively or neutrally charged states.

Towards a New Framework for Interpreting Relations Between Mantle Dynamics and Processes at the Earth's Surface: A Case Study Involving the Deccan Traps

NASA Astrophysics Data System (ADS)

Glisovic, P.; Forte, A. M.

2017-12-01

An outstanding challenge in modern geodynamics is the utilization of mantle convection models and geophysical data to successfully explain geological events and processes that alter Earth's biosphere, climate, and surface. A key challenge in this modelling is the determination of the initial (and unknown) configuration of mantle heterogeneity in the geological past. The first step in addressing this challenge is recognizing that seismic tomography is our most powerful tool for mapping the present-day, internal structure of the mantle. We, therefore, implemented a new back-and-forth iterative method for time-reversed, tomography-based convection modelling to reconstruct Earth's internal 3-D structure and dynamics over the Cenozoic [Glisovic & Forte 2016 (JGR)]. This backward convection modelling also includes another key input - the depth variation of mantle viscosity inferred from joint inversions of the global convection-related observables and a suite of glacial isostatic adjustments (GIA) data [Mitrovica & Forte 2004 (EPSL), Forte et al. 2010 (EPSL)]. This state-of-the-art, time-reversed convection model is able to show that massive outpourings of basalt in west-central India, known as the Deccan Traps, about 65 million years ago can be directly linked to the presence of two different deep-mantle hotspots: Réunion and Comores [Glisovic & Forte 2017 (Science)]. This work constitutes case study showing how time-reversed convection modelling provides a new framework for interpreting the relations between mantle dynamics and changing paleogeography and it provides a roadmap for a new series of studies that will elucidate these linkages.

Kinetic simulations and reduced modeling of longitudinal sideband instabilities in non-linear electron plasma waves

DOE PAGES

Brunner, S.; Berger, R. L.; Cohen, B. I.; ...

2014-10-01

Kinetic Vlasov simulations of one-dimensional finite amplitude Electron Plasma Waves are performed in a multi-wavelength long system. A systematic study of the most unstable linear sideband mode, in particular its growth rate γ and quasi- wavenumber δk, is carried out by scanning the amplitude and wavenumber of the initial wave. Simulation results are successfully compared against numerical and analytical solutions to the reduced model by Kruer et al. [Phys. Rev. Lett. 23, 838 (1969)] for the Trapped Particle Instability (TPI). A model recently suggested by Dodin et al. [Phys. Rev. Lett. 110, 215006 (2013)], which in addition to the TPImore » accounts for the so-called Negative Mass Instability because of a more detailed representation of the trapped particle dynamics, is also studied and compared with simulations.« less

Kolmogorov Turbulence Defeated by Anderson Localization for a Bose-Einstein Condensate in a Sinai-Oscillator Trap

NASA Astrophysics Data System (ADS)

Ermann, Leonardo; Vergini, Eduardo; Shepelyansky, Dima L.

2017-08-01

We study the dynamics of a Bose-Einstein condensate in a Sinai-oscillator trap under a monochromatic driving force. Such a trap is formed by a harmonic potential and a repulsive disk located in the center vicinity corresponding to the first experiments of condensate formation by Ketterle and co-workers in 1995. We allow that the external driving allows us to model the regime of weak wave turbulence with the Kolmogorov energy flow from low to high energies. We show that in a certain regime of weak driving and weak nonlinearity such a turbulent energy flow is defeated by the Anderson localization that leads to localization of energy on low energy modes. This is in a drastic contrast to the random phase approximation leading to energy flow to high modes. A critical threshold is determined above which the turbulent flow to high energies becomes possible. We argue that this phenomenon can be studied with ultracold atoms in magneto-optical traps.

Kolmogorov Turbulence Defeated by Anderson Localization for a Bose-Einstein Condensate in a Sinai-Oscillator Trap.

PubMed

Ermann, Leonardo; Vergini, Eduardo; Shepelyansky, Dima L

2017-08-04

We study the dynamics of a Bose-Einstein condensate in a Sinai-oscillator trap under a monochromatic driving force. Such a trap is formed by a harmonic potential and a repulsive disk located in the center vicinity corresponding to the first experiments of condensate formation by Ketterle and co-workers in 1995. We allow that the external driving allows us to model the regime of weak wave turbulence with the Kolmogorov energy flow from low to high energies. We show that in a certain regime of weak driving and weak nonlinearity such a turbulent energy flow is defeated by the Anderson localization that leads to localization of energy on low energy modes. This is in a drastic contrast to the random phase approximation leading to energy flow to high modes. A critical threshold is determined above which the turbulent flow to high energies becomes possible. We argue that this phenomenon can be studied with ultracold atoms in magneto-optical traps.

The GOL-NB program: further steps in multiple-mirror confinement research

NASA Astrophysics Data System (ADS)

Postupaev, V. V.; Batkin, V. I.; Beklemishev, A. D.; Burdakov, A. V.; Burmasov, V. S.; Chernoshtanov, I. S.; Gorbovsky, A. I.; Ivanov, I. A.; Kuklin, K. N.; Mekler, K. I.; Rovenskikh, A. F.; Sidorov, E. N.; Yurov, D. V.

2017-03-01

Physical and technical details of the GOL-NB project are presented. GOL-NB is a medium-scale multiple-mirror trap that is under development in the Budker Institute, Novosibirsk, Russia. This device will be created in several years as a deep conversion of the existing GOL-3 facility. It will consist of a central trap with two 0.75 MW neutral beams, two multiple-mirror solenoids, two expander tanks and a plasma gun that creates the start plasma. The central trap with the neutral beam injection-heated plasma is a compact gas-dynamic system. The multiple-mirror sections should decrease the power and particle losses along the magnetic field. The confinement improvement factor depends on plasma parameters and on the magnetic configuration in the multiple mirrors. The main physical task of GOL-NB is direct demonstration of the performance of multiple-mirror sections that will change equilibrium plasma parameters in the central trap. In this paper we discuss results of the scenario modeling and progress in the hardware.

Post-Markovian dynamics of quantum correlations: entanglement versus discord

NASA Astrophysics Data System (ADS)

Mohammadi, Hamidreza

2017-02-01

Dynamics of an open two-qubit system is investigated in the post-Markovian regime, where the environments have a short-term memory. Each qubit is coupled to separate environment which is held in its own temperature. The inter-qubit interaction is modeled by XY-Heisenberg model in the presence of spin-orbit interaction and inhomogeneous magnetic field. The dynamical behavior of entanglement and discord has been considered. The results show that quantum discord is more robust than quantum entanglement, during the evolution. Also the asymmetric feature of quantum discord can be monitored by introducing the asymmetries due to inhomogeneity of magnetic field and temperature difference between the reservoirs. By employing proper parameters of the model, it is possible to maintain nonvanishing quantum correlation at high degree of temperature. The results can provide a useful recipe for studying dynamical behavior of two-qubit systems such as trapped spin electrons in coupled quantum dots.

Electron trapping in evolving coronal structures during a large gradual hard X-ray/radio burst

NASA Technical Reports Server (NTRS)

Bruggmann, G.; Vilmer, N.; Klein, K.-L.; Kane, S. R.

1994-01-01

Gradual hard X-ray/radio bursts are characterized by their long duration, smooth time profile, time delays between peaks at different hard X-ray energies and microwaves, and radiation from extended sources in the low and middle corona. Their characteristic properties have been ascribed to the dynamic evolution of the accelerated electrons in coronal magnetic traps or to the separate acceleration of high-energy electrons in a 'second step' process. The information available so far was drawn from quality considerations of time profiles or even only from the common occurrence of emissions in different spectral ranges. This paper presents model computations of the temporal evolution of hard X-ray and microwave spectra, together with a qualitative discussion of radio lightcurves over a wide spectral range, and metric imaging observations. The basis hypothesis investigated is that the peculiar 'gradual' features can be related to the dynamical evolution of electrons injected over an extended time interval in a coronal trap, with electrons up to relativistic energies being injected simultaneously. The analyzed event (26 April. 1981) is particularly challenging to this hypothesis because of the long time delays between peaks at different X-ray energies and microwave frequencies. The observations are shown to be consistent with the hypothesis, provided that the electrons lose their energy by Coulomb collisions and possibly betatron deceleration. The access of the electrons to different coronal structures varies in the course of the event. The evolution and likely destabilization of part of the coronal plasma-magnetic field configuration is of crucial influence in determining the access to these structures and possibly the dynamical evolution of the trapped electrons through betatron deceleration in the late phase of the event.

Capillary trapping of particles in thin-film flows

NASA Astrophysics Data System (ADS)

Dressaire, Emilie; Gomez, Michael; Colnet, Benedicte; Sauret, Alban

2017-11-01

When a thin layer of suspension flows over a substrate, some particles remain trapped on the solid surface. When the thickness of the liquid layer is comparable to the particle size, the particles deform the liquid interface, which leads to local interactions. These effects modify the transport of particles and the dynamics of the liquid films. Here, we characterize how capillary interactions affect the transport and deposition of non-Brownian particles moving in thin liquid films and the resulting loss of transported material. We focus on gravitational drainage flows, in which the film thickness becomes comparable to the particle size. Depending on the concentration of particles, we find that the drainage dynamics exhibits behavior that cannot be captured with a continuum model, due to the deposition of particles on the substrate. ANR-16-CE30-0009 & CNRS-PICS-07242 & ACS-PRF 55845-ND9.

Catch and Release: Orbital Symmetry Guided Reaction Dynamics from a Freed “Tension Trapped Transition State”

DOE PAGES

Wang, Junpeng; Ong, Mitchell T.; Kouznetsova, Tatiana B.; ...

2015-08-31

The dynamics of reactions at or in the immediate vicinity of transition states are critical to reaction rates and product distributions, but direct experimental probes of those dynamics are rare. In this paper, s-trans, s-trans 1,3-diradicaloid transition states are trapped by tension along the backbone of purely cis-substituted gem-difluorocyclopropanated polybutadiene using the extensional forces generated by pulsed sonication of dilute polymer solutions. Once released, the branching ratio between symmetry-allowed disrotatory ring closing (of which the trapped diradicaloid structure is the transition state) and symmetry-forbidden conrotatory ring closing (whose transition state is nearby) can be inferred. Finally, net conrotatory ring closingmore » occurred in 5.0 ± 0.5% of the released transition states, in excellent agreement with ab initio molecular dynamics simulations.« less

A dynamic Monte Carlo study of anomalous current voltage behaviour in organic solar cells

DOE Office of Scientific and Technical Information (OSTI.GOV)

Feron, K., E-mail: Krishna.Feron@csiro.au; Fell, C. J.; CSIRO Energy Flagship, Newcastle, NSW 2300

2014-12-07

We present a dynamic Monte Carlo (DMC) study of s-shaped current-voltage (I-V) behaviour in organic solar cells. This anomalous behaviour causes a substantial decrease in fill factor and thus power conversion efficiency. We show that this s-shaped behaviour is induced by charge traps that are located at the electrode interface rather than in the bulk of the active layer, and that the anomaly becomes more pronounced with increasing trap depth or density. Furthermore, the s-shape anomaly is correlated with interface recombination, but not bulk recombination, thus highlighting the importance of controlling the electrode interface. While thermal annealing is known tomore » remove the s-shape anomaly, the reason has been not clear, since these treatments induce multiple simultaneous changes to the organic solar cell structure. The DMC modelling indicates that it is the removal of aluminium clusters at the electrode, which act as charge traps, that removes the anomalous I-V behaviour. Finally, this work shows that the s-shape becomes less pronounced with increasing electron-hole recombination rate; suggesting that efficient organic photovoltaic material systems are more susceptible to these electrode interface effects.« less

The distribution of cosmic rays in the galaxy and their dynamics as deduced from recent gamma ray observations. [noting maximum in toroidal region between 4 and 5 kpc from galactic center

NASA Technical Reports Server (NTRS)

Puget, J. L.; Stecker, F. W.

1974-01-01

Data from SAS-2 on the galactic gamma ray line flux as a function of longitude is examined. It is shown that the gamma ray emissivity varies with galactocentric distance and is about an order of magnitude higher than the local value in a toroidal region between 4 and 5 kpc from the galactic center. This enhancement is accounted for in part by first-order Fermi acceleration, compression, and trapping of cosmic rays consistent with present ideas of galactic dynamics and galactic structure theory. Calculations indicate that cosmic rays in the 4 to 5 kpc region are trapped and accelerated over a mean time of the order of a few million years or about 2 to 4 times the assumed trapping time in the solar region of the galaxy on the assumption that only an increased cosmic ray flux is responsible for the observed emission. Cosmic ray nucleons, cosmic ray electrons, and ionized hydrogen gas were found to have a strikingly similar distribution in the galaxy according to both the observational data and the theoretical model discussed.

On the rate of black hole binary mergers in galactic nuclei due to dynamical hardening

NASA Astrophysics Data System (ADS)

Leigh, N. W. C.; Geller, A. M.; McKernan, B.; Ford, K. E. S.; Mac Low, M.-M.; Bellovary, J.; Haiman, Z.; Lyra, W.; Samsing, J.; O'Dowd, M.; Kocsis, B.; Endlich, S.

2018-03-01

We assess the contribution of dynamical hardening by direct three-body scattering interactions to the rate of stellar-mass black hole binary (BHB) mergers in galactic nuclei. We derive an analytic model for the single-binary encounter rate in a nucleus with spherical and disc components hosting a super-massive black hole (SMBH). We determine the total number of encounters NGW needed to harden a BHB to the point that inspiral due to gravitational wave emission occurs before the next three-body scattering event. This is done independently for both the spherical and disc components. Using a Monte Carlo approach, we refine our calculations for NGW to include gravitational wave emission between scattering events. For astrophysically plausible models, we find that typically NGW ≲ 10. We find two separate regimes for the efficient dynamical hardening of BHBs: (1) spherical star clusters with high central densities, low-velocity dispersions, and no significant Keplerian component and (2) migration traps in discs around SMBHs lacking any significant spherical stellar component in the vicinity of the migration trap, which is expected due to effective orbital inclination reduction of any spherical population by the disc. We also find a weak correlation between the ratio of the second-order velocity moment to velocity dispersion in galactic nuclei and the rate of BHB mergers, where this ratio is a proxy for the ratio between the rotation- and dispersion-supported components. Because discs enforce planar interactions that are efficient in hardening BHBs, particularly in migration traps, they have high merger rates that can contribute significantly to the rate of BHB mergers detected by the advanced Laser Interferometer Gravitational-Wave Observatory.

Estimating In Situ Zooplankton Non-Predation Mortality in an Oligo-Mesotrophic Lake from Sediment Trap Data: Caveats and Reality Check

PubMed Central

Dubovskaya, Olga P.; Tang, Kam W.; Gladyshev, Michail I.; Kirillin, Georgiy; Buseva, Zhanna; Kasprzak, Peter; Tolomeev, Aleksandr P.; Grossart, Hans-Peter

2015-01-01

Background Mortality is a main driver in zooplankton population biology but it is poorly constrained in models that describe zooplankton population dynamics, food web interactions and nutrient dynamics. Mortality due to non-predation factors is often ignored even though anecdotal evidence of non-predation mass mortality of zooplankton has been reported repeatedly. One way to estimate non-predation mortality rate is to measure the removal rate of carcasses, for which sinking is the primary removal mechanism especially in quiescent shallow water bodies. Objectives and Results We used sediment traps to quantify in situ carcass sinking velocity and non-predation mortality rate on eight consecutive days in 2013 for the cladoceran Bosmina longirostris in the oligo-mesotrophic Lake Stechlin; the outcomes were compared against estimates derived from in vitro carcass sinking velocity measurements and an empirical model correcting in vitro sinking velocity for turbulence resuspension and microbial decomposition of carcasses. Our results show that the latter two approaches produced unrealistically high mortality rates of 0.58-1.04 d-1, whereas the sediment trap approach, when used properly, yielded a mortality rate estimate of 0.015 d-1, which is more consistent with concurrent population abundance data and comparable to physiological death rate from the literature. Ecological implications Zooplankton carcasses may be exposed to water column microbes for days before entering the benthos; therefore, non-predation mortality affects not only zooplankton population dynamics but also microbial and benthic food webs. This would be particularly important for carbon and nitrogen cycles in systems where recurring mid-summer decline of zooplankton population due to non-predation mortality is observed. PMID:26146995

Confinement of active systems: trapping, swim pressure, and explosions

NASA Astrophysics Data System (ADS)

Takatori, Sho; de Dier, Raf; Vermant, Jan; Brady, John

2015-11-01

We analyze the run-and-tumble dynamics and motion of living bacteria and self-propelled Janus motors confined in an acoustic trap. Since standard optical tweezers are far too weak, we developed an acoustic trap strong enough to confine swimmers over distances large compared to the swimmers' size and run length. The external trap behaves as an ``osmotic barrier'' that confines the swimmers inside the trapping region, analogous to semipermeable membranes that confine passive Brownian particles inside a boundary. From the swimmers' restricted motion inside the trap, we calculate the unique swim pressure generated by active systems originating from the force required to confine them by boundaries. We apply a strong trap to collect the swimmers into a close-packed active crystal and then turn off the trap which causes the crystal to ``explode'' due to an imbalance of the active pressure. We corroborate all experimental results with Brownian dynamics simulations and analytical theory. ST is supported by a Gates Millennium Scholars fellowship and a NSF Fellowship No. DGE-1144469. RDD is supported by a doctoral fellowship of the fund for scientific research (FWO-Vlaanderen). This work is also supported by NSF Grant CBET 1437570.

The hummingbird tongue is a fluid trap, not a capillary tube

PubMed Central

Rico-Guevara, Alejandro; Rubega, Margaret A.

2011-01-01

Hummingbird tongues pick up a liquid, calorie-dense food that cannot be grasped, a physical challenge that has long inspired the study of nectar-transport mechanics. Existing biophysical models predict optimal hummingbird foraging on the basis of equations that assume that fluid rises through the tongue in the same way as through capillary tubes. We demonstrate that the hummingbird tongue does not function like a pair of tiny, static tubes drawing up floral nectar via capillary action. Instead, we show that the tongue tip is a dynamic liquid-trapping device that changes configuration and shape dramatically as it moves in and out of fluids. We also show that the tongue–fluid interactions are identical in both living and dead birds, demonstrating that this mechanism is a function of the tongue structure itself, and therefore highly efficient because no energy expenditure by the bird is required to drive the opening and closing of the trap. Our results rule out previous conclusions from capillarity-based models of nectar feeding and highlight the necessity of developing a new biophysical model for nectar intake in hummingbirds. Our findings have ramifications for the study of feeding mechanics in other nectarivorous birds, and for the understanding of the evolution of nectarivory in general. We propose a conceptual mechanical explanation for this unique fluid-trapping capacity, with far-reaching practical applications (e.g., biomimetics). PMID:21536916

The hummingbird tongue is a fluid trap, not a capillary tube.

PubMed

Rico-Guevara, Alejandro; Rubega, Margaret A

2011-06-07

Hummingbird tongues pick up a liquid, calorie-dense food that cannot be grasped, a physical challenge that has long inspired the study of nectar-transport mechanics. Existing biophysical models predict optimal hummingbird foraging on the basis of equations that assume that fluid rises through the tongue in the same way as through capillary tubes. We demonstrate that the hummingbird tongue does not function like a pair of tiny, static tubes drawing up floral nectar via capillary action. Instead, we show that the tongue tip is a dynamic liquid-trapping device that changes configuration and shape dramatically as it moves in and out of fluids. We also show that the tongue-fluid interactions are identical in both living and dead birds, demonstrating that this mechanism is a function of the tongue structure itself, and therefore highly efficient because no energy expenditure by the bird is required to drive the opening and closing of the trap. Our results rule out previous conclusions from capillarity-based models of nectar feeding and highlight the necessity of developing a new biophysical model for nectar intake in hummingbirds. Our findings have ramifications for the study of feeding mechanics in other nectarivorous birds, and for the understanding of the evolution of nectarivory in general. We propose a conceptual mechanical explanation for this unique fluid-trapping capacity, with far-reaching practical applications (e.g., biomimetics).

Comparative efficiency of two models of CO2 traps in the collection of free-living stages of ixodides.

PubMed

Guedes, Elizângela; de Azevedo Prata, Márcia Cristina; dos Reis, Eder Sebastião; Cançado, Paulo Henrique Duarte; Leite, Romário Cerqueira

2012-12-01

Traps using carbon dioxide (CO(2)) as a chemical attractant are known to be effective when capturing nymphs and adults of some free-living tick species such as Amblyomma cajennense and Amblyomma parvum. Despite the fact that the main source of CO(2) is dry ice, the chemical trap which uses 20 % lactic acid (C(3)H(6)O(3)) and calcium carbonate (CaCO(3)) has been tested as an alternative source of CO(2) whenever it is difficult to obtain dry ice. The objective of this paper was to test and compare the efficiency of these two models of traps during the study of population dynamics of A. cajennense and Amblyomma dubitatum in Coronel Pacheco, Minas Gerais, Brazil. Within the period comprising May 2006 to April 2008, eight CO(2) traps, of which four were dry ice and four chemical, were put in the pasture every 14 days at preestablished areas over a 1.0-m(2) white cotton flannel cloth with a capture dispositive which constituted of double-sided adhesive tapes fixed onto the four corners of the flannels. On every collection day, a cotton flannel without any chemical attractant was placed in the same area of the pasture to become an instrument to control the traps' capture efficiency. After 1 h, the white flannels were collected and placed in plastic bags for later identification and counting of the ticks. A total of 2,133 nymphs of Amblyomma sp., 328 adults of A. cajennense, and 292 adults of A. dubitatum were collected. Out of this total, the dry ice traps captured 1,087 nymphs (51 %), 188 A. cajennense (58.2 %), and 151 A. dubitatum (53 %), while the chemical traps captured 1,016 nymphs (47.6 %), 133 A. cajennense (41 %), and 133 A. dubitatum (46.5 %); 30 nymphs (1.4 %), 7 A. cajennense (0.8 %), and 8 A. dubitatum (0.5 %) were found on the control flannel. The capture potentials of ticks, nymphs, and adults, by the two models of traps tested, were statistically similar (p > 0.05). These results confirm the efficiency of the chemical trap enabling its use in areas of either difficult access or too distant from a dry ice supplier as is the case of forest areas where studies about ixodological fauna are generally carried out.

The historical dynamics of social-ecological traps.

PubMed

Boonstra, Wiebren J; de Boer, Florianne W

2014-04-01

Environmental degradation is a typical unintended outcome of collective human behavior. Hardin's metaphor of the "tragedy of the commons" has become a conceived wisdom that captures the social dynamics leading to environmental degradation. Recently, "traps" has gained currency as an alternative concept to explain the rigidity of social and ecological processes that produce environmental degradation and livelihood impoverishment. The trap metaphor is, however, a great deal more complex compared to Hardin's insight. This paper takes stock of studies using the trap metaphor. It argues that the concept includes time and history in the analysis, but only as background conditions and not as a factor of causality. From a historical-sociological perspective this is remarkable since social-ecological traps are clearly path-dependent processes, which are causally produced through a conjunction of events. To prove this point the paper conceptualizes social-ecological traps as a process instead of a condition, and systematically compares history and timing in one classic and three recent studies of social-ecological traps. Based on this comparison it concludes that conjunction of social and environmental events contributes profoundly to the production of trap processes. The paper further discusses the implications of this conclusion for policy intervention and outlines how future research might generalize insights from historical-sociological studies of traps.

Approaching a flat boundary with a block copolymer coated emulsion drop: late stage drainage dynamics

NASA Astrophysics Data System (ADS)

Rozairo, Damith; Croll, Andrew

Understanding the dynamics of the formation and drainage of the thin fluid film that becomes trapped by a deformable droplet as it approaches another object is crucial to the advancement of many industrial and biomedical applications. Adding amphiphilic diblock copolymers, which are becoming more commonly used in drug delivery and oil recovery, only add to the complexity. Despite their increased use, little is known about how long polymer chains fill an emulsion drop's interface or how the molecules influence hydrodynamic processes. We study the drainage dynamics of a thin water film trapped between mica and a diblock copolymer saturated oil droplet. Specifically, we examine several different polystyrene-b-poly(ethylene oxide) (PS-PEO) molecules self-assembled at a toluene-water interface using laser scanning confocal microscopy. Our experiments reveal that the molecular details of the polymer chains deeply influence the drainage times, indicating that they are not acting as a 'simple' surfactant. The presence of the chains creates a much slower dynamic as fluid is forced to drain through an effective polymer brush, the brush itself determined by chain packing at the interface. We present a simple model which accounts for the basic physics of the interface.

Measurement and control of quasiparticle dynamics in a superconducting qubit.

PubMed

Wang, C; Gao, Y Y; Pop, I M; Vool, U; Axline, C; Brecht, T; Heeres, R W; Frunzio, L; Devoret, M H; Catelani, G; Glazman, L I; Schoelkopf, R J

2014-12-18

Superconducting circuits have attracted growing interest in recent years as a promising candidate for fault-tolerant quantum information processing. Extensive efforts have always been taken to completely shield these circuits from external magnetic fields to protect the integrity of the superconductivity. Here we show vortices can improve the performance of superconducting qubits by reducing the lifetimes of detrimental single-electron-like excitations known as quasiparticles. Using a contactless injection technique with unprecedented dynamic range, we quantitatively distinguish between recombination and trapping mechanisms in controlling the dynamics of residual quasiparticle, and show quantized changes in quasiparticle trapping rate because of individual vortices. These results highlight the prominent role of quasiparticle trapping in future development of superconducting qubits, and provide a powerful characterization tool along the way.

Experimental validation of the AVIVET trap, a tool to quantitatively monitor the dynamics of Dermanyssus gallinae populations in laying hens.

PubMed

Lammers, G A; Bronneberg, R G G; Vernooij, J C M; Stegeman, J A

2017-06-01

Dermanyssus gallinae (D.gallinae) infestation causes economic losses due to impaired health and production of hens and costs of parasite control across the world. Moreover, infestations are associated with reduced welfare of hens and may cause itching in humans. To effectively implement control methods it is crucially important to have high quality information about the D.gallinae populations in poultry houses in space and time. At present no validated tool is available to quantitatively monitor the dynamics of all four stages of D.gallinae (i.e., eggs, larvae, nymphs, and adults) in poultry houses.This article describes the experimental validation of the AVIVET trap, a device to quantitatively monitor dynamics of D.gallinae infestations. We used the device to study D.gallinae in fully equipped cages with two white specific pathogen free Leghorn laying hens experimentally exposed to three different infestation levels of D.gallinae (low to high).The AVIVET trap was successfully able to detect D.gallinae at high (5,000 D.gallinae), medium (2,500 D.gallinae), and low (50 D.gallinae) level of D.gallinae infestation. The linear equation Y = 10∧10∧(0.47 + 1.21X) with Y = log10 (Total number of D.gallinae nymphs and adults) in the cage and X = log10 (Total number of D.gallinae nymphs and adults) in the AVIVET trap explained 93.8% of the variation.The weight of D.gallinae in the AVIVET trap also appears to be a reliable parameter for quantifying D.gallinae infestation in a poultry house. The weight of D.gallinae in the AVIVET trap correlates 99.6% (P < 0.000) to the counted number of all stages of D.gallinae in the trap (i.e., eggs, larvae, nymphs, and adults) indicating that the trap is highly specific.From this experiment it can be concluded that the AVIVET trap is promising as quantitative tool for monitoring D.gallinae dynamics in a poultry house. © 2016 Poultry Science Association Inc.

Gas separation and bubble behavior at a woven screen

NASA Astrophysics Data System (ADS)

Conrath, Michael; Dreyer, Michael E.

Gas-liquid two phase flows are widespread and in many applications the separation of both phases is necessary. Chemical reactors, water treatment devices or gas-free delivery of liquids like propellant are only some of them. We study the performance of a woven metal screen in respect to its phase separation behavior under static and dynamic conditions. Beside hydraulic screen resistance and static bubble point, our study also comprises the bubble detachment from the screen upon gas breakthrough. Since a woven screen is essentially an array of identical pores, analogies to bubble detachment from a needle can be established. While the bubble point poses an upper limit for pressurized gas at a wetted screen to preclude gas breakthrough, the necessary pressure for growing bubbles to detach from the screen pores a lower limit when breakthrough is already in progress. Based on that inside, the dynamic bubble point effects were constituted that relate to a trapped bubble at such a screen in liquid flow. A trapped is caused to break through the screen by the flow-induced pressure drop across it. Our model includes axially symmetric bubble shapes, degree of coverage of the screen and bubble pressurization due to hydraulic losses in the rest of the circuit. We have built an experiment that consists of a Dutch Twilled woven screen made of stainless steel in a vertical acrylic glass tube. The liquid is silicon oil SF0.65. The screen is suspended perpendicular to the liquid flow which is forced through it at variable flow rate. Controlled injection of air from a needle allows us to examine the ability of the screen to separate gas and liquid along the former mentioned effects. We present experimental data on static bubble point and detachment pressure for breakthrough at different gas supply rates that suggest a useful criterion for reliable static bubble point measurements. Results for the dynamic bubble point are presented that include i) screen pressure drop for different trapped bubble volumes, liquid flow rates and flow-induced compression, ii) typical breakthrough of a trapped bubble at rising liquid flow rate and iii) steady gas supply in steady liquid flow. It shows that our model can explain the experimental observations. One of the interesting findings for the dynamic bubble point is that hydraulic losses in the rest of the circuit will shift the breakthrough of gas to higher liquid flow rates.

Towards Non-Equilibrium Dynamics with Trapped Ions

NASA Astrophysics Data System (ADS)

Silbert, Ariel; Jubin, Sierra; Doret, Charlie

2016-05-01

Atomic systems are superbly suited to the study of non-equilibrium dynamics. These systems' exquisite isolation from environmental perturbations leads to long relaxation times that enable exploration of far-from-equilibrium phenomena. One example of particular relevance to experiments in trapped ion quantum information processing, metrology, and precision spectroscopy is the approach to thermal equilibrium of sympathetically cooled linear ion chains. Suitable manipulation of experimental parameters permits exploration of the quantum-to-classical crossover between ballistic transport and diffusive, Fourier's Law conduction, a topic of interest not only to the trapped ion community but also for the development of microelectronic devices and other nanoscale structures. We present progress towards trapping chains of multiple co-trapped calcium isotopes geared towards measuring thermal equilibration and discuss plans for future experiments in non-equilibrium statistical mechanics. This work is supported by Cottrell College Science Award from the Research Corporation for Science Advancement and by Williams College.

Stable structures of microparticles in the electrodynamic trap created by the corona discharge

NASA Astrophysics Data System (ADS)

Vladimirov, V. I.; Deputatova, L. V.; Filinov, V. S.; Lapitsky, D. S.; Pecherkin, V. Ya; Syrovatka, R. A.; Vasilyak, L. M.; Petrov, O. F.

2018-01-01

For the first time the stable structures of microparticles in a dynamic linear trap with corona electrodes have been obtained. The possibility for capturing and confining of microparticles in a linear electrodynamic trap with corona electrodes at atmospheric pressure has been studied experimentally. The corona discharge on the electrodes of the trap was generated by an alternating electric field.

Nonlinear dynamics of resonant electrons interacting with coherent Langmuir waves

NASA Astrophysics Data System (ADS)

Tobita, Miwa; Omura, Yoshiharu

2018-03-01

We study the nonlinear dynamics of resonant particles interacting with coherent waves in space plasmas. Magnetospheric plasma waves such as whistler-mode chorus, electromagnetic ion cyclotron waves, and hiss emissions contain coherent wave structures with various discrete frequencies. Although these waves are electromagnetic, their interaction with resonant particles can be approximated by equations of motion for a charged particle in a one-dimensional electrostatic wave. The equations are expressed in the form of nonlinear pendulum equations. We perform test particle simulations of electrons in an electrostatic model with Langmuir waves and a non-oscillatory electric field. We solve equations of motion and study the dynamics of particles with different values of inhomogeneity factor S defined as a ratio of the non-oscillatory electric field intensity to the wave amplitude. The simulation results demonstrate deceleration/acceleration, thermalization, and trapping of particles through resonance with a single wave, two waves, and multiple waves. For two-wave and multiple-wave cases, we describe the wave-particle interaction as either coherent or incoherent based on the probability of nonlinear trapping.

A stochastic thermostat algorithm for coarse-grained thermomechanical modeling of large-scale soft matters: Theory and application to microfilaments

DOE Office of Scientific and Technical Information (OSTI.GOV)

Li, Tong; Gu, YuanTong, E-mail: yuantong.gu@qut.edu.au

As all-atom molecular dynamics method is limited by its enormous computational cost, various coarse-grained strategies have been developed to extend the length scale of soft matters in the modeling of mechanical behaviors. However, the classical thermostat algorithm in highly coarse-grained molecular dynamics method would underestimate the thermodynamic behaviors of soft matters (e.g. microfilaments in cells), which can weaken the ability of materials to overcome local energy traps in granular modeling. Based on all-atom molecular dynamics modeling of microfilament fragments (G-actin clusters), a new stochastic thermostat algorithm is developed to retain the representation of thermodynamic properties of microfilaments at extra coarse-grainedmore » level. The accuracy of this stochastic thermostat algorithm is validated by all-atom MD simulation. This new stochastic thermostat algorithm provides an efficient way to investigate the thermomechanical properties of large-scale soft matters.« less

Ion Dynamic Capture Experiments With The High Performance Antiproton Trap (HiPAT)

NASA Technical Reports Server (NTRS)

Martin, James; Lewis, Raymond; Chakrabarti, Suman; Sims, William H.; Pearson, J. Boise; Fant, Wallace E.

2002-01-01

To take the first step towards using the energy produced from the matter-antimatter annihilation for propulsion applications, the NASA Marshall Space Flight Center (MSFC) Propulsion Research Center (PRC) has initiated a research activity examining the storage of low energy antiprotons. The High Performance Antiproton Trap (HiPAT) is an electromagnetic system (Penning-Malmberg design) consisting of a 4 Tesla superconductor, a high voltage electrode confinement system, and an ultra high vacuum test section. It has been designed with an ultimate goal of maintaining 10(exp 12) charged particles with a half-life of 18 days. Currently, this system is being evaluated experimentally using normal matter ions that are cheap to produce, relatively easy to handle, and provide a good indication of overall trap behavior (with the exception of assessing annihilation losses). The ions are produced via a positive hydrogen ion source and transported to HiPAT in a beam line equipped with electrostatic optics. The optics serve to both focus and gate the incoming ions, providing microsecond-timed beam pulses that are dynamically captured by cycling the HiPAT forward containment field like a "trap door". Initial dynamic capture experiments have been successfully performed with beam energy and currents set to 1.9 kV and 23 micro-amps, respectively. At these settings up to 2x10(exp 9) ions have been trapped during a single dynamic cycle.

WATER-TRAPPED WORLDS

DOE Office of Scientific and Technical Information (OSTI.GOV)

Menou, Kristen

2013-09-01

Although tidally locked habitable planets orbiting nearby M-dwarf stars are among the best astronomical targets to search for extrasolar life, they may also be deficient in volatiles and water. Climate models for this class of planets show atmospheric transport of water from the dayside to the nightside, where it is precipitated as snow and trapped as ice. Since ice only slowly flows back to the dayside upon accumulation, the resulting hydrological cycle can trap a large amount of water in the form of nightside ice. Using ice sheet dynamical and thermodynamical constraints, I illustrate how planets with less than aboutmore » a quarter the Earth's oceans could trap most of their surface water on the nightside. This would leave their dayside, where habitable conditions are met, potentially dry. The amount and distribution of residual liquid water on the dayside depend on a variety of geophysical factors, including the efficiency of rock weathering at regulating atmospheric CO{sub 2} as dayside ocean basins dry up. Water-trapped worlds with dry daysides may offer similar advantages as land planets for habitability, by contrast with worlds where more abundant water freely flows around the globe.« less

Hierarchical modeling and inference in ecology: The analysis of data from populations, metapopulations and communities

USGS Publications Warehouse

Royle, J. Andrew; Dorazio, Robert M.

2008-01-01

A guide to data collection, modeling and inference strategies for biological survey data using Bayesian and classical statistical methods. This book describes a general and flexible framework for modeling and inference in ecological systems based on hierarchical models, with a strict focus on the use of probability models and parametric inference. Hierarchical models represent a paradigm shift in the application of statistics to ecological inference problems because they combine explicit models of ecological system structure or dynamics with models of how ecological systems are observed. The principles of hierarchical modeling are developed and applied to problems in population, metapopulation, community, and metacommunity systems. The book provides the first synthetic treatment of many recent methodological advances in ecological modeling and unifies disparate methods and procedures. The authors apply principles of hierarchical modeling to ecological problems, including * occurrence or occupancy models for estimating species distribution * abundance models based on many sampling protocols, including distance sampling * capture-recapture models with individual effects * spatial capture-recapture models based on camera trapping and related methods * population and metapopulation dynamic models * models of biodiversity, community structure and dynamics.

Bose-Fermi mapping and a multibranch spin-chain model for strongly interacting quantum gases in one dimension: Dynamics and collective excitations

NASA Astrophysics Data System (ADS)

Yang, Li; Pu, Han

2016-09-01

We show that the wave function in one spatial sector x1

Exact mapping between different dynamics of isotropically trapped quantum gases

NASA Astrophysics Data System (ADS)

Wamba, Etienne; Pelster, Axel; Anglin, James R.

2016-05-01

Experiments on trapped quantum gases can probe challenging regimes of quantum many-body dynamics, where strong interactions or non-equilibrium states prevent exact theoretical treatment. In this talk, we present a class of exact mappings between all the observables of different experiments, under the experimentally attainable conditions that the gas particles interact via a homogeneously scaling two-body potential which is in general time-dependent, and are confined in an isotropic harmonic trap. We express our result through an identity relating second-quantized field operators in the Heisenberg picture of quantum mechanics which makes it general. It applies to arbitrary measurements on possibly multi-component Bose or Fermi gases in arbitrary initial quantum states, no matter how highly excited or far from equilibrium. We use an example to show how the results of two different and currently feasible experiments can be mapped onto each other by our spacetime transformation. DAMOP sorting category: 6.11 Nonlinear dynamics and out-of-equilibrium trapped gases EW acknowledge the financial support from the Alexander von Humboldt foundation.

Ultrafast carrier dynamics of titanic acid nanotubes investigated by transient absorption spectroscopy.

PubMed

Wang, Li; Zhao, Hui; Pan, Lin Yun; Weng, Yu Xiang; Nakato, Yoshihiro; Tamai, Naoto

2010-12-01

Carrier dynamics of titanic acid nanotubes (phase of H2Ti2O5.H2O) deposited on a quartz plate was examined by visible/near-IR transient absorption spectroscopy with an ultraviolet excitation. The carrier dynamics of titanic acid nanotubes follows the fast trapping process which attributed to the intrinsic tubular structure, the relaxation of shallow trapped carriers and the recombination as a second-order kinetic process. Transient absorption of titanic acid nanotubes was dominated by the absorption of surface-trapped holes in visible region around 500 nm, which was proved by the faster decay dynamics in the presence of polyvinyl alcohol as a hole-scavenger. However, the slow relaxation of free carriers was much more pronounced in the TiO2 single crystals, as compared with the transient absorption spectra of titanic acid nanotubes under the similar excitation.

Response of the Higgs amplitude mode of superfluid Bose gases in a three-dimensional optical lattice

NASA Astrophysics Data System (ADS)

Nagao, Kazuma; Takahashi, Yoshiro; Danshita, Ippei

2018-04-01

We study the Higgs mode of superfluid Bose gases in a three-dimensional optical lattice, which emerges near the quantum phase transition to the Mott insulator at commensurate fillings. Specifically, we consider responses of the Higgs mode to temporal modulations of the onsite interaction and the hopping energy. In order to calculate the response functions including the effects of quantum and thermal fluctuations, we map the Bose-Hubbard model onto an effective pseudospin-1 model and use a perturbative expansion based on the imaginary-time Green's function theory. We also include the effects of an inhomogeneous trapping potential by means of a local density approximation. We find that the response function for the hopping modulation is equal to that for the interaction modulation within our approximation. At the unit filling rate and in the absence of a trapping potential, we show that the Higgs mode can exist as a sharp resonance peak in the dynamical susceptibilities at typical temperatures. However, the resonance peak is significantly broadened due to the trapping potential when the modulations are applied globally to the entire system. We suggest that the Higgs mode can be detected as a sharp resonance peak by partial modulations around the trap center.

Rotational dynamics and heating of trapped nanovaterite particles

NASA Astrophysics Data System (ADS)

Arita, Yoshihiko; Richards, Joseph M.; Mazilu, Michael; Spalding, Gabriel C.; Skelton Spesyvtseva, Susan E.; Craig, Derek; Dholakia, Kishan

2017-04-01

We synthesize, optically trap, and rotate individual nanovaterite crystals with a mean particle radius of 423 nm. Rotation rates of up to 4.9 kHz in heavy water are recorded [1]. Laser-induced heating due to residual absorption of the nanovaterite particle results in the superlinear behavior of the rotation rate as a function of trap power. A finite element method based on the Navier-Stokes model for the system allows us to determine the residual optical absorption coefficient for a trapped nanovaterite particle. This is further confirmed by the theoretical model. Our data reveal that the nanoparticle experiences a different Stokes drag torque or force depending on whether we consider rotational or translational motion, which is in a good agreement with the theoretical prediction of the rotational hot Brownian motion [2]. The data allow us to determine the correction factors for the local viscosity for both the rotational and translational motion of the nanoparticle. The use of nanovaterite particles opens up new studies for levitated optomechanics in vacuum [3-6] as well as microrheological properties of cells or biological media [7]. For these latter studies, nanovaterite offers prospects of microviscosity measurements in ultrasmall volumes and, due to its size, potentially simpler uptake by cellular media [8].

SAMPEX/PET model of the low altitude trapped proton environment

NASA Astrophysics Data System (ADS)

Heynderickx, D.; Looper, M. D.; Blake, J. B.

The low-altitude trapped proton population exhibits strong time variations related to geomagnetic secular variation and neutral atmosphere conditions. The flux measurements of the Proton Electron Telescope (PET) onboard the polar satellite SAMPEX constitute an adequate data set to distinguish different time scales and to characterise the respective variations. As a first step towards building a dynamic model of the low altitude proton environment we binned the 1995-1996 PET data into a model map with functional dependencies of the proton fluxes on the F10.7 solar radio flux and on the time of year to represent variations on the time scale of the solar cycle and seasonal variations. Now, a full solar cycle of SAMPEX/PET data is available, so that the preliminary model could be extended. The secular variation of the geomagnetic field is included in the model, as it is constructed using Kaufmann's K=I √{B} instead of McIlwain's L as a map coordinate.

1/f oscillations in a model of moth populations oriented by diffusive pheromones

NASA Astrophysics Data System (ADS)

Barbosa, L. A.; Martins, M. L.; Lima, E. R.

2005-01-01

An individual-based model for the population dynamics of Spodoptera frugiperda in a homogeneous environment is proposed. The model involves moths feeding plants, mating through an anemotaxis search (i.e., oriented by odor dispersed in a current of air), and dying due to resource competition or at a maximum age. As observed in the laboratory, the females release pheromones at exponentially distributed time intervals, and it is assumed that the ranges of the male flights follow a power-law distribution. Computer simulations of the model reveal the central role of anemotaxis search for the persistence of moth population. Such stationary populations are exponentially distributed in age, exhibit random temporal fluctuations with 1/f spectrum, and self-organize in disordered spatial patterns with long-range correlations. In addition, the model results demonstrate that pest control through pheromone mass trapping is effective only if the amounts of pheromone released by the traps decay much slower than the exponential distribution for calling female.

Regulation of DNA conformations and dynamics in flows with hybrid field microfluidics.

PubMed

Ren, Fangfang; Zu, Yingbo; Kumar Rajagopalan, Kartik; Wang, Shengnian

2012-01-01

Visualizing single DNA dynamics in flow provides a wealth of physical insights in biophysics and complex flow study. However, large signal fluctuations, generated from diversified conformations, deformation history dependent dynamics and flow induced stochastic tumbling, often frustrate its wide adoption in single molecule and polymer flow study. We use a hybrid field microfluidic (HFM) approach, in which an electric field is imposed at desired locations and appropriate moments to balance the flow stress on charged molecules, to effectively regulate the initial conformations and the deformation dynamics of macromolecules in flow. With λ-DNA and a steady laminar shear flow as the model system, we herein studied the performance of HFM on regulating DNA trapping, relaxation, coil-stretch transition, and accumulation. DNA molecules were found to get captured in the focused planes when motions caused by flow, and the electric field were balanced. The trapped macromolecules relaxed in two different routes while eventually became more uniform in size and globule conformations. When removing the electric field, the sudden stretching dynamics of DNA molecules exhibited a more pronounced extension overshoot in their transient response under a true step function of flow stress while similar behaviors to what other pioneering work in steady shear flow. Such regulation strategies could be useful to control the conformations of other important macromolecules (e.g., proteins) and help better reveal their molecular dynamics.

Comparison of catch per unit effort among four minnow trap models in the three-spined stickleback (Gasterosteus aculeatus) fishery.

PubMed

Budria, Alexandre; DeFaveri, Jacquelin; Merilä, Juha

2015-12-21

Minnow traps are commonly used in the stickleback (Gasterostidae) fishery, but the potential differences in catch per unit effort (CPUE) among different minnow trap models are little studied. We compared the CPUE of four different minnow trap models in field experiments conducted with three-spined sticklebacks (Gasterosteus aculeatus). Marked (up to 26 fold) differences in median CPUE among different trap models were observed. Metallic uncoated traps yielded the largest CPUE (2.8 fish/h), followed by metallic black nylon-coated traps (1.3 fish/h). Collapsible canvas traps yielded substantially lower CPUEs (black: 0.7 fish/h; red: 0.1 fish/h) than the metallic traps. Laboratory trials further revealed significant differences in escape probabilities among the different trap models. While the differences in escape probability can explain at least part of the differences in CPUE among the trap models (e.g. high escape rate and low CPUE in red canvas traps), discrepancies between model-specific CPUEs and escape rates suggests that variation in entrance rate also contributes to the differences in CPUE. In general, and in accordance with earlier data on nine-spined stickleback (Pungitius pungitius) trapping, the results suggest that uncoated metallic (Gee-type) traps are superior to the other commonly used minnow trap models in stickleback fisheries.

Comparison of catch per unit effort among four minnow trap models in the three-spined stickleback (Gasterosteus aculeatus) fishery

PubMed Central

Budria, Alexandre; DeFaveri, Jacquelin; Merilä, Juha

2015-01-01

Minnow traps are commonly used in the stickleback (Gasterostidae) fishery, but the potential differences in catch per unit effort (CPUE) among different minnow trap models are little studied. We compared the CPUE of four different minnow trap models in field experiments conducted with three-spined sticklebacks (Gasterosteus aculeatus). Marked (up to 26 fold) differences in median CPUE among different trap models were observed. Metallic uncoated traps yielded the largest CPUE (2.8 fish/h), followed by metallic black nylon-coated traps (1.3 fish/h). Collapsible canvas traps yielded substantially lower CPUEs (black: 0.7 fish/h; red: 0.1 fish/h) than the metallic traps. Laboratory trials further revealed significant differences in escape probabilities among the different trap models. While the differences in escape probability can explain at least part of the differences in CPUE among the trap models (e.g. high escape rate and low CPUE in red canvas traps), discrepancies between model-specific CPUEs and escape rates suggests that variation in entrance rate also contributes to the differences in CPUE. In general, and in accordance with earlier data on nine-spined stickleback (Pungitius pungitius) trapping, the results suggest that uncoated metallic (Gee-type) traps are superior to the other commonly used minnow trap models in stickleback fisheries. PMID:26685761

Design Optimization of Vena Cava Filters: An application to dual filtration devices

DOE Office of Scientific and Technical Information (OSTI.GOV)

Singer, M A; Wang, S L; Diachin, D P

Pulmonary embolism (PE) is a significant medical problem that results in over 300,000 fatalities per year. A common preventative treatment for PE is the insertion of a metallic filter into the inferior vena cava that traps thrombi before they reach the lungs. The goal of this work is to use methods of mathematical modeling and design optimization to determine the configuration of trapped thrombi that minimizes the hemodynamic disruption. The resulting configuration has implications for constructing an optimally designed vena cava filter. Computational fluid dynamics is coupled with a nonlinear optimization algorithm to determine the optimal configuration of trapped modelmore » thrombus in the inferior vena cava. The location and shape of the thrombus are parameterized, and an objective function, based on wall shear stresses, determines the worthiness of a given configuration. The methods are fully automated and demonstrate the capabilities of a design optimization framework that is broadly applicable. Changes to thrombus location and shape alter the velocity contours and wall shear stress profiles significantly. For vena cava filters that trap two thrombi simultaneously, the undesirable flow dynamics past one thrombus can be mitigated by leveraging the flow past the other thrombus. Streamlining the shape of thrombus trapped along the cava wall reduces the disruption to the flow, but increases the area exposed to abnormal wall shear stress. Computer-based design optimization is a useful tool for developing vena cava filters. Characterizing and parameterizing the design requirements and constraints is essential for constructing devices that address clinical complications. In addition, formulating a well-defined objective function that quantifies clinical risks and benefits is needed for designing devices that are clinically viable.« less

Nest survival of piping plovers at a dynamic reservoir indicates an ecological trap for a threatened population

USGS Publications Warehouse

Anteau, Michael J.; Shaffer, Terry L.; Sherfy, Mark H.; Sovada, Marsha A.; Stucker, Jennifer H.; Wiltermuth, Mark T.

2012-01-01

In the past 60 years, reservoirs have reshaped riverine ecosystems and transformed breeding habitats used by the threatened piping plover (Charadrius melodus; hereafter plover). Currently, 29% of the Northern Great Plains plover population nests at reservoirs that might function as ecological traps because reservoirs have more diverse habitat features and greater dynamics in water levels than habitats historically used by breeding plovers. We examined factors influencing daily survival rates (DSR) of 346 plover nests at Lake Sakakawea (SAK; reservoir) during 2006–2009 by evaluating multiple a priori models, and we used our best model to hindcast nest success of plovers during 1985–2009. Our observed and hindcast estimates of nest success were low compared to published estimates. Previous findings indicate that plovers prefer nest sites that are low relative to water level. We found that elevation of nests above the water level had a strong positive correlation with DSR because water levels of SAK typically increased throughout the nesting period. Habitat characteristics on the reservoir differ from those that shaped nest-site selection for plovers. Accordingly, extraordinary nest loss occurs there in many years, largely due to inundation of nests, and based on low fledging rates those losses were not compensated by potential changes in chick survival. Therefore, our example supports the concept of ecological traps in birds because it addresses quantitative assessments of habitat preference and productivity over 25 years (since species listing) and affects a large portion of the population.

Impact of cool-down conditions at Tc on the superconducting rf cavity quality factor

NASA Astrophysics Data System (ADS)

Vogt, J.-M.; Kugeler, O.; Knobloch, J.

2013-10-01

Many next-generation, high-gradient accelerator applications, from energy-recovery linacs to accelerator-driven systems (ADS) rely on continuous wave (CW) operation for which superconducting radio-frequency (SRF) systems are the enabling technology. However, while SRF cavities dissipate little power, they must be cooled by liquid helium and for many CW accelerators the complexity as well as the investment and operating costs of the cryoplant can prove to be prohibitive. We investigated ways to reduce the dynamic losses by improving the residual resistance (Rres) of niobium cavities. Both the material treatment and the magnetic shielding are known to have an impact. In addition, we found that Rres can be reduced significantly when the cool-down conditions during the superconducting phase transition of the niobium are optimized. We believe that not only do the cool-down conditions impact the level to which external magnetic flux is trapped in the cavity but also that thermoelectric currents are generated which in turn create additional flux that can be trapped. Therefore, we investigated the generation of flux and the dynamics of flux trapping and release in a simple model niobium-titanium system that mimics an SRF cavity in its helium tank. We indeed found that thermal gradients along the system during the superconducting transition can generate a thermoelectric current and magnetic flux, which subsequently can be trapped. These effects may explain the observed variation of the cavity’s Rres with cool-down conditions.

Auto- and cross-power spectral analysis of dual trap optical tweezer experiments using Bayesian inference.

PubMed

von Hansen, Yann; Mehlich, Alexander; Pelz, Benjamin; Rief, Matthias; Netz, Roland R

2012-09-01

The thermal fluctuations of micron-sized beads in dual trap optical tweezer experiments contain complete dynamic information about the viscoelastic properties of the embedding medium and-if present-macromolecular constructs connecting the two beads. To quantitatively interpret the spectral properties of the measured signals, a detailed understanding of the instrumental characteristics is required. To this end, we present a theoretical description of the signal processing in a typical dual trap optical tweezer experiment accounting for polarization crosstalk and instrumental noise and discuss the effect of finite statistics. To infer the unknown parameters from experimental data, a maximum likelihood method based on the statistical properties of the stochastic signals is derived. In a first step, the method can be used for calibration purposes: We propose a scheme involving three consecutive measurements (both traps empty, first one occupied and second empty, and vice versa), by which all instrumental and physical parameters of the setup are determined. We test our approach for a simple model system, namely a pair of unconnected, but hydrodynamically interacting spheres. The comparison to theoretical predictions based on instantaneous as well as retarded hydrodynamics emphasizes the importance of hydrodynamic retardation effects due to vorticity diffusion in the fluid. For more complex experimental scenarios, where macromolecular constructs are tethered between the two beads, the same maximum likelihood method in conjunction with dynamic deconvolution theory will in a second step allow one to determine the viscoelastic properties of the tethered element connecting the two beads.

Trapped ion system for sympathetic cooling and non-equilibrium dynamics

NASA Astrophysics Data System (ADS)

Doret, Charlie; Jubin, Sierra; Stevenson, Sarah

2017-04-01

Atomic systems are superbly suited to the study of non-equilibrium dynamics. These systems' exquisite isolation from environmental perturbations leads to long relaxation times that enable exploration of far-from-equilibrium phenomena. We present progress towards trapping chains of multiple co-trapped calcium isotopes geared towards measuring thermal equilibration and sympathetic cooling rates. We also discuss plans for future experiments in non-equilibrium statistical mechanics, including exploration of the quantum-to-classical crossover between ballistic transport and diffusive, Fourier's Law conduction. This work is supported by Cottrell College Science Award from the Research Corporation for Science Advancement and by Williams College.

When environmentally persistent pathogens transform good habitat into ecological traps.

PubMed

Leach, Clinton B; Webb, Colleen T; Cross, Paul C

2016-03-01

Habitat quality plays an important role in the dynamics and stability of wildlife metapopulations. However, the benefits of high-quality habitat may be modulated by the presence of an environmentally persistent pathogen. In some cases, the presence of environmental pathogen reservoirs on high-quality habitat may lead to the creation of ecological traps, wherein host individuals preferentially colonize high-quality habitat, but are then exposed to increased infection risk and disease-induced mortality. We explored this possibility through the development of a stochastic patch occupancy model, where we varied the pathogen's virulence, transmission rate and environmental persistence as well as the distribution of habitat quality in the host metapopulation. This model suggests that for pathogens with intermediate levels of spread, high-quality habitat can serve as an ecological trap, and can be detrimental to host persistence relative to low-quality habitat. This inversion of the relative roles of high- and low-quality habitat highlights the importance of considering the interaction between spatial structure and pathogen transmission when managing wildlife populations exposed to an environmentally persistent pathogen.

When environmentally persistent pathogens transform good habitat into ecological traps

USGS Publications Warehouse

Leach, Clint; Webb, Colleen T.; Cross, Paul C.

2016-01-01

Habitat quality plays an important role in the dynamics and stability of wildlife metapopulations. However, the benefits of high-quality habitat may be modulated by the presence of an environmentally persistent pathogen. In some cases, the presence of environmental pathogen reservoirs on high-quality habitat may lead to the creation of ecological traps, wherein host individuals preferentially colonize high-quality habitat, but are then exposed to increased infection risk and disease-induced mortality. We explored this possibility through the development of a stochastic patch occupancy model, where we varied the pathogen’s virulence, transmission rate and environmental persistence as well as the distribution of habitat quality in the host metapopulation. This model suggests that for pathogens with intermediate levels of spread, high-quality habitat can serve as an ecological trap, and can be detrimental to host persistence relative to low-quality habitat. This inversion of the relative roles of high- and low-quality habitat highlights the importance of considering the interaction between spatial structure and pathogen transmission when managing wildlife populations exposed to an environmentally persistent pathogen.

Wettability effect on capillary trapping of supercritical CO2 at pore-scale: micromodel experiment and numerical modeling

NASA Astrophysics Data System (ADS)

Hu, R.; Wan, J.

2015-12-01

Wettability of reservoir minerals along pore surfaces plays a controlling role in capillary trapping of supercritical (sc) CO2 in geologic carbon sequestration. The mechanisms controlling scCO2 residual trapping are still not fully understood. We studied the effect of pore surface wettability on CO2 residual saturation at the pore-scale using engineered high pressure and high temperature micromodel (transparent pore networks) experiments and numerical modeling. Through chemical treatment of the micromodel pore surfaces, water-wet, intermediate-wet, and CO2-wet micromodels can be obtained. Both drainage and imbibition experiments were conducted at 8.5 MPa and 45 °C with controlled flow rate. Dynamic images of fluid-fluid displacement processes were recorded using a microscope with a CCD camera. Residual saturations were determined by analysis of late stage imbibition images of flow path structures. We performed direct numerical simulations of the full Navier-Stokes equations using a volume-of-fluid based finite-volume framework for the primary drainage and the followed imbibition for the micromodel experiments with different contact angles. The numerical simulations agreed well with our experimental observations. We found that more scCO2 can be trapped within the CO2-wet micromodel whereas lower residual scCO2 saturation occurred within the water-wet micromodels in both our experiments and the numerical simulations. These results provide direct and consistent evidence of the effect of wettability, and have important implications for scCO2 trapping in geologic carbon sequestration.

Shear-flow trapped-ion-mode interaction revisited. II. Intermittent transport associated with low-frequency zonal flow dynamics

DOE Office of Scientific and Technical Information (OSTI.GOV)

Ghizzo, A., E-mail: alain.ghizzo@univ-lorraine.fr; Palermo, F.

We address the mechanisms underlying low-frequency zonal flow generation in turbulent system and the associated intermittent regime of ion-temperature-gradient (ITG) turbulence. This model is in connection with the recent observation of quasi periodic zonal flow oscillation at a frequency close to 2 kHz, at the low-high transition, observed in the ASDEX Upgrade [Conway et al., Phys. Rev. Lett. 106, 065001 (2011)] and EAST tokamak [Xu et al., Phys. Rev. Lett 107, 125001 (2011)]. Turbulent bursts caused by the coupling of Kelvin-Helmholtz (KH) driven shear flows with trapped ion modes (TIMs) were investigated by means of reduced gyrokinetic simulations. It was foundmore » that ITG turbulence can be regulated by low-frequency meso-scale zonal flows driven by resonant collisionless trapped ion modes (CTIMs), through parametric-type scattering, a process in competition with the usual KH instability.« less

Integrated Microfluidic System for Size-Based Selection and Trapping of Giant Vesicles.

PubMed

Kazayama, Yuki; Teshima, Tetsuhiko; Osaki, Toshihisa; Takeuchi, Shoji; Toyota, Taro

2016-01-19

Vesicles composed of phospholipids (liposomes) have attracted interest as artificial cell models and have been widely studied to explore lipid-lipid and lipid-protein interactions. However, the size dispersity of liposomes prepared by conventional methods was a major problem that inhibited their use in high-throughput analyses based on monodisperse liposomes. In this study, we developed an integrative microfluidic device that enables both the size-based selection and trapping of liposomes. This device consists of hydrodynamic selection and trapping channels in series, which made it possible to successfully produce an array of more than 60 monodisperse liposomes from a polydisperse liposome suspension with a narrow size distribution (the coefficient of variation was less than 12%). We successfully observed a size-dependent response of the liposomes to sequential osmotic stimuli, which had not clarified so far, by using this device. Our device will be a powerful tool to facilitate the statistical analysis of liposome dynamics.

Bayesian Quantification of Contrast-Enhanced Ultrasound Images With Adaptive Inclusion of an Irreversible Component.

PubMed

Rizzo, Gaia; Tonietto, Matteo; Castellaro, Marco; Raffeiner, Bernd; Coran, Alessandro; Fiocco, Ugo; Stramare, Roberto; Grisan, Enrico

2017-04-01

Contrast Enhanced Ultrasound (CEUS) is a sensitive imaging technique to assess tissue vascularity and it can be particularly useful in early detection and grading of arthritis. In a recent study we have shown that a Gamma-variate can accurately quantify synovial perfusion and it is flexible enough to describe many heterogeneous patterns. However, in some cases the heterogeneity of the kinetics can be such that even the Gamma model does not properly describe the curve, with a high number of outliers. In this work we apply to CEUS data the single compartment recirculation model (SCR) which takes explicitly into account the trapping of the microbubbles contrast agent by adding to the single Gamma-variate model its integral. The SCR model, originally proposed for dynamic-susceptibility magnetic resonance imaging, is solved here at pixel level within a Bayesian framework using Variational Bayes (VB). We also include the automatic relevant determination (ARD) algorithm to automatically infer the model complexity (SCR vs. Gamma model) from the data. We demonstrate that the inclusion of trapping best describes the CEUS patterns in 50% of the pixels, with the other 50% best fitted by a single Gamma. Such results highlight the necessity of the use ARD, to automatically exclude the irreversible component where not supported by the data. VB with ARD returns precise estimates in the majority of the kinetics (88% of total percentage of pixels) in a limited computational time (on average, 3.6 min per subject). Moreover, the impact of the additional trapping component has been evaluated for the differentiation of rheumatoid and non-rheumatoid patients, by means of a support vector machine classifier with backward feature selection. The results show that the trapping parameter is always present in the selected feature set, and improves the classification.

Development of a syringe pump assisted dynamic headspace sampling technique for needle trap device.

PubMed

Eom, In-Yong; Niri, Vadoud H; Pawliszyn, Janusz

2008-07-04

This paper describes a new approach that combines needle trap devices (NTDs) with a dynamic headspace sampling technique (purge and trap) using a bidirectional syringe pump. The needle trap device is a 22-G stainless steel needle 3.5-in. long packed with divinylbenzene sorbent particles. The same sized needle, without packing, was used for purging purposes. We chose an aqueous mixture of benzene, toluene, ethylbenzene, and p-xylene (BTEX) and developed a sequential purge and trap (SPNT) method, in which sampling (trapping) and purging cycles were performed sequentially by the use of syringe pump with different distribution channels. In this technique, a certain volume (1 mL) of headspace was sequentially sampled using the needle trap; afterwards, the same volume of air was purged into the solution at a high flow rate. The proposed technique showed an effective extraction compared to the continuous purge and trap technique, with a minimal dilution effect. Method evaluation was also performed by obtaining the calibration graphs for aqueous BTEX solutions in the concentration range of 1-250 ng/mL. The developed technique was compared to the headspace solid-phase microextraction method for the analysis of aqueous BTEX samples. Detection limits as low as 1 ng/mL were obtained for BTEX by NTD-SPNT.

Method for increasing the dynamic range of mass spectrometers

DOEpatents

Belov, Mikhail; Smith, Richard D.; Udseth, Harold R.

2004-09-07

A method for enhancing the dynamic range of a mass spectrometer by first passing a sample of ions through the mass spectrometer having a quadrupole ion filter, whereupon the intensities of the mass spectrum of the sample are measured. From the mass spectrum, ions within this sample are then identified for subsequent ejection. As further sampling introduces more ions into the mass spectrometer, the appropriate rf voltages are applied to a quadrupole ion filter, thereby selectively ejecting the undesired ions previously identified. In this manner, the desired ions may be collected for longer periods of time in an ion trap, thus allowing better collection and subsequent analysis of the desired ions. The ion trap used for accumulation may be the same ion trap used for mass analysis, in which case the mass analysis is performed directly, or it may be an intermediate trap. In the case where collection is an intermediate trap, the desired ions are accumulated in the intermediate trap, and then transferred to a separate mass analyzer. The present invention finds particular utility where the mass analysis is performed in an ion trap mass spectrometer or a Fourier transform ion cyclotron resonance mass spectrometer.

Real-Space Mapping of Surface Trap States in CIGSe Nanocrystals Using 4D Electron Microscopy.

PubMed

Bose, Riya; Bera, Ashok; Parida, Manas R; Adhikari, Aniruddha; Shaheen, Basamat S; Alarousu, Erkki; Sun, Jingya; Wu, Tom; Bakr, Osman M; Mohammed, Omar F

2016-07-13

Surface trap states in copper indium gallium selenide semiconductor nanocrystals (NCs), which serve as undesirable channels for nonradiative carrier recombination, remain a great challenge impeding the development of solar and optoelectronics devices based on these NCs. In order to design efficient passivation techniques to minimize these trap states, a precise knowledge about the charge carrier dynamics on the NCs surface is essential. However, selective mapping of surface traps requires capabilities beyond the reach of conventional laser spectroscopy and static electron microscopy; it can only be accessed by using a one-of-a-kind, second-generation four-dimensional scanning ultrafast electron microscope (4D S-UEM) with subpicosecond temporal and nanometer spatial resolutions. Here, we precisely map the collective surface charge carrier dynamics of copper indium gallium selenide NCs as a function of the surface trap states before and after surface passivation in real space and time using S-UEM. The time-resolved snapshots clearly demonstrate that the density of the trap states is significantly reduced after zinc sulfide (ZnS) shelling. Furthermore, the removal of trap states and elongation of carrier lifetime are confirmed by the increased photocurrent of the self-biased photodetector fabricated using the shelled NCs.

Dynamics analysis of microsphere in a dual-beam fiber-optic trap with transverse offset.

PubMed

Chen, Xinlin; Xiao, Guangzong; Luo, Hui; Xiong, Wei; Yang, Kaiyong

2016-04-04

A comprehensive dynamics analysis of microsphere has been presented in a dual-beam fiber-optic trap with transverse offset. As the offset distance between two counterpropagating beams increases, the motion type of the microsphere starts with capture, then spiral motion, then orbital rotation, and ends with escape. We analyze the transformation process and mechanism of the four motion types based on ray optics approximation. Dynamic simulations show that the existence of critical offset distances at which different motion types transform. The result is an important step toward explaining physical phenomena in a dual-beam fiber-optic trap with transverse offset, and is generally applicable to achieving controllable motions of microspheres in integrated systems, such as microfluidic systems and lab-on-a-chip systems.

A technique for individual atom delivery into a crossed vortex bottle beam trap using a dynamic 1D optical lattice.

PubMed

Dinardo, Brad A; Anderson, Dana Z

2016-12-01

We describe a system for loading a single atom from a reservoir into a blue-detuned crossed vortex bottle beam trap using a dynamic 1D optical lattice. The lattice beams are frequency chirped using acousto-optic modulators, which causes the lattice to move along its axial direction and behave like an optical conveyor belt. A stationary lattice is initially loaded with approximately 6000 atoms from a reservoir, and the conveyor belt transports them 1.1 mm from the reservoir to a bottle beam trap, where a single atom is loaded via light-assisted collisions. Photon counting data confirm that an atom can be delivered and loaded into the bottle beam trap 13.1% of the time.

Tunable two-dimensional arrays of single Rydberg atoms for realizing quantum Ising models

NASA Astrophysics Data System (ADS)

Labuhn, Henning; Barredo, Daniel; Ravets, Sylvain; de Léséleuc, Sylvain; Macrì, Tommaso; Lahaye, Thierry; Browaeys, Antoine

2016-06-01

Spin models are the prime example of simplified many-body Hamiltonians used to model complex, strongly correlated real-world materials. However, despite the simplified character of such models, their dynamics often cannot be simulated exactly on classical computers when the number of particles exceeds a few tens. For this reason, quantum simulation of spin Hamiltonians using the tools of atomic and molecular physics has become a very active field over the past years, using ultracold atoms or molecules in optical lattices, or trapped ions. All of these approaches have their own strengths and limitations. Here we report an alternative platform for the study of spin systems, using individual atoms trapped in tunable two-dimensional arrays of optical microtraps with arbitrary geometries, where filling fractions range from 60 to 100 per cent. When excited to high-energy Rydberg D states, the atoms undergo strong interactions whose anisotropic character opens the way to simulating exotic matter. We illustrate the versatility of our system by studying the dynamics of a quantum Ising-like spin-1/2 system in a transverse field with up to 30 spins, for a variety of geometries in one and two dimensions, and for a wide range of interaction strengths. For geometries where the anisotropy is expected to have small effects on the dynamics, we find excellent agreement with ab initio simulations of the spin-1/2 system, while for strongly anisotropic situations the multilevel structure of the D states has a measurable influence. Our findings establish arrays of single Rydberg atoms as a versatile platform for the study of quantum magnetism.

Modeling a three-dimensional river plume over continental shelf using a 3D unstructured grid model

USGS Publications Warehouse

Cheng, R.T.; Casulli, V.; ,

2004-01-01

River derived fresh water discharging into an adjacent continental shelf forms a trapped river plume that propagates in a narrow region along the coast. These river plumes are real and they have been observed in the field. Many previous investigations have reported some aspects of the river plume properties, which are sensitive to stratification, Coriolis acceleration, winds (upwelling or downwelling), coastal currents, and river discharge. Numerical modeling of the dynamics of river plumes is very challenging, because the complete problem involves a wide range of vertical and horizontal scales. Proper simulations of river plume dynamics cannot be achieved without a realistic representation of the flow and salinity structure near the river mouth that controls the initial formation and propagation of the plume in the coastal ocean. In this study, an unstructured grid model was used for simulations of river plume dynamics allowing fine grid resolution in the river and in regions near the coast with a coarse grid in the far field of the river plume in the coastal ocean, in the vertical, fine fixed levels were used near the free surface, and coarse vertical levels were used over the continental shelf. The simulations have demonstrated the uniquely important role played by Coriolis acceleration. Without Coriolis acceleration, no trapped river plume can be formed no matter how favorable the ambient conditions might be. The simulation results show properties of the river plume and the characteristics of flow and salinity within the estuary; they are completely consistent with the physics of estuaries and coastal oceans.

Amerindian Livelihoods, Outside Interventions, and Poverty Traps in the Ecuadorian Amazon

ERIC Educational Resources Information Center

Rudel, Thomas K.; Katan, Tuntiak; Horowitz, Bruce

2013-01-01

Recent efforts to explain the persistence of rural poverty have made frequent use of the concept of poverty traps, understood as self-reinforcing poverty. The dynamic dimension of the poverty trap concept makes it a potentially useful tool for understanding conditions of persistent poverty, especially in circumstances where outside interventions…

Dynamics of predation on Lygus hesperus (Hemiptera: Miridae) in alfalfa trap cropped organic strawberry

USDA-ARS?s Scientific Manuscript database

Alfalfa (Medicago sativa L.) can be strategically planted as a trap crop for Lygus spp. in California’s organic strawberry fields. Alfalfa has been shown to attract both Lygus spp. and, in turn, a Lygus-specific parasitoid, Peristenus relictus (Ruthe). However, the impact of alfalfa trap-cropped st...

Charge carrier trapping and acoustic phonon modes in single CdTe nanowires.

PubMed

Lo, Shun Shang; Major, Todd A; Petchsang, Nattasamon; Huang, Libai; Kuno, Masaru K; Hartland, Gregory V

2012-06-26

Semiconductor nanostructures produced by wet chemical synthesis are extremely heterogeneous, which makes single particle techniques a useful way to interrogate their properties. In this paper the ultrafast dynamics of single CdTe nanowires are studied by transient absorption microscopy. The wires have lengths of several micrometers and lateral dimensions on the order of 30 nm. The transient absorption traces show very fast decays, which are assigned to charge carrier trapping into surface defects. The time constants vary for different wires due to differences in the energetics and/or density of surface trap sites. Measurements performed at the band edge compared to the near-IR give slightly different time constants, implying that the dynamics for electron and hole trapping are different. The rate of charge carrier trapping was observed to slow down at high carrier densities, which was attributed to trap-state filling. Modulations due to the fundamental and first overtone of the acoustic breathing mode were also observed in the transient absorption traces. The quality factors for these modes were similar to those measured for metal nanostructures, and indicate a complex interaction with the environment.

A Long DNA Segment in a Linear Nanoscale Paul Trap

DOE Office of Scientific and Technical Information (OSTI.GOV)

Joseph, Sony nmn; Guan, Weihau; Reed, Mark A

2009-01-01

We study the dynamics of a linearly distributed line charge such as single stranded DNA (ssDNA) in a nanoscale, linear 2D Paul trap in vacuum. Using molecular dynamics simulations we show that a line charge can be trapped effectively in the trap for a well defined range of stability parameters. We investigated (i) a flexible bonded string of charged beads and (ii) a ssDNA polymer of variable length, for various trap parameters. A line charge undergoes oscillations or rotations as it moves, depending on its initial angle, the position of the center of mass and the velocity. The stability regionmore » for a strongly bonded line of charged beads is similar to that of a single ion with the same charge to mass ratio. Single stranded DNA as long as 40 nm does not fold or curl in the Paul trap, but could undergo rotations about the center of mass. However, we show that a stretching field in the axial direction can effectively prevent the rotations and increase the confinement stability.« less

A new apparatus for studies of quantized vortex dynamics in dilute-gas Bose-Einstein condensates

NASA Astrophysics Data System (ADS)

Newman, Zachary L.

The presence of quantized vortices and a high level of control over trap geometries and other system parameters make dilute-gas Bose-Einstein condensates (BECs) a natural environment for studies of vortex dynamics and quantum turbulence in superfluids, primary interests of the BEC group at the University of Arizona. Such research may lead to deeper understanding of the nature of quantum fluid dynamics and far-from-equilbrium phenomena. Despite the importance of quantized vortex dynamics in the fields of superfluidity, superconductivity and quantum turbulence, direct imaging of vortices in trapped BECs remains a significant technical challenge. This is primarily due to the small size of the vortex core in a trapped gas, which is typically a few hundred nanometers in diameter. In this dissertation I present the design and construction of a new 87Rb BEC apparatus with the goal of studying vortex dynamics in trapped BECs. The heart of the apparatus is a compact vacuum chamber with a custom, all-glass science cell designed to accommodate the use of commercial high-numerical-aperture microscope objectives for in situ imaging of vortices. The designs for the new system are, in part, based on prior work in our group on in situ imaging of vortices. Here I review aspects of our prior work and discuss some of the successes and limitations that are relevant to the new apparatus. The bulk of the thesis is used to described the major subsystems of the new apparatus which include the vacuum chamber, the laser systems, the magnetic transfer system and the final magnetic trap for the atoms. Finally, I demonstrate the creation of a BEC of ˜ 2 x 106 87Rb atoms in our new system and show that the BEC can be transferred into a weak, spherical, magnetic trap with a well defined magnetic field axis that may be useful for future vortex imaging studies.

Study of In-Trap Ion Clouds by Ion Trajectory Simulations.

PubMed

Zhou, Xiaoyu; Liu, Xinwei; Cao, Wenbo; Wang, Xiao; Li, Ming; Qiao, Haoxue; Ouyang, Zheng

2018-02-01

Gaussian distribution has been utilized to describe the global number density distribution of ion cloud in the Paul trap, which is known as the thermal equilibrium theory and widely used in theoretical modeling of ion clouds in the ion traps. Using ion trajectory simulations, however, the ion clouds can now also be treated as a dynamic ion flow field and the location-dependent features could now be characterized. This study was carried out to better understand the in-trap ion cloud properties, such as the local particle velocity and temperature. The local ion number densities were found to be heterogeneously distributed in terms of mean and distribution width; the velocity and temperature of the ion flow varied with pressure depending on the flow type of the neutral molecules; and the "quasi-static" equilibrium status can only be achieved after a certain number of collisions, for which the time period is pressure-dependent. This work provides new insights of the ion clouds that are globally stable but subjected to local rf heating and collisional cooling. Graphical Abstract ᅟ.

Rotational dynamics and heating of trapped nanovaterite particles (Conference Presentation)

NASA Astrophysics Data System (ADS)

Arita, Yoshihiko; Richards, Joseph M.; Mazilu, Michael; Spalding, Gabriel C.; Skelton Spesyvtseva, Susan E.; Craig, Derek; Dholakia, Kishan

2016-09-01

Rotational control over optically trapped particles has gained significant prominence in recent years. The marriage between light fields possessing optical angular momentum and the material properties of microparticles has been useful to controllably spin particles in liquid, air and vacuum. The rotational degree of freedom adds new functionality to optical traps: in addition to allowing fundamental tests of optical angular momentum, the transfer of spin angular momentum in particular can allow measurements of local viscosity and exert local stresses on cellular systems. We demonstrate optical trapping and controlled rotation of nanovaterite crystals. These particles represent the smallest birefringent crystals ever trapped and set into rotation. Rotation rates of up to 5kHz in water are recorded, representing the fastest rotation to date for dielectric particles in liquid. Laser-induced heating results in the superlinear behaviour of the rotation rate as a function of trap power. We study both the rotational and translational modes of trapped nanovaterite crystals. The particle temperatures derived from those two optomechanical modes are in good agreement, which is supported by a numerical model revealing that the observed heating is dominated by absorption of light by the particles rather than by the surrounding liquid. A comparison is performed with trapped silica particles of similar size. The use of nanovaterite particles open up new studies for levitated optomechanics in vacuum as well as microrheological properties of cells or biological media. Their size and low heating offers prospects of viscosity measurements in ultra-small volumes and potentially simpler uptake by cellular media.

Estimating population density for disease risk assessment: The importance of understanding the area of influence of traps using wild pigs as an example.

PubMed

Davis, Amy J; Leland, Bruce; Bodenchuk, Michael; VerCauteren, Kurt C; Pepin, Kim M

2017-06-01

Population density is a key driver of disease dynamics in wildlife populations. Accurate disease risk assessment and determination of management impacts on wildlife populations requires an ability to estimate population density alongside management actions. A common management technique for controlling wildlife populations to monitor and mitigate disease transmission risk is trapping (e.g., box traps, corral traps, drop nets). Although abundance can be estimated from trapping actions using a variety of analytical approaches, inference is limited by the spatial extent to which a trap attracts animals on the landscape. If the "area of influence" were known, abundance estimates could be converted to densities. In addition to being an important predictor of contact rate and thus disease spread, density is more informative because it is comparable across sites of different sizes. The goal of our study is to demonstrate the importance of determining the area sampled by traps (area of influence) so that density can be estimated from management-based trapping designs which do not employ a trapping grid. To provide one example of how area of influence could be calculated alongside management, we conducted a small pilot study on wild pigs (Sus scrofa) using two removal methods 1) trapping followed by 2) aerial gunning, at three sites in northeast Texas in 2015. We estimated abundance from trapping data with a removal model. We calculated empirical densities as aerial counts divided by the area searched by air (based on aerial flight tracks). We inferred the area of influence of traps by assuming consistent densities across the larger spatial scale and then solving for area impacted by the traps. Based on our pilot study we estimated the area of influence for corral traps in late summer in Texas to be ∼8.6km 2 . Future work showing the effects of behavioral and environmental factors on area of influence will help mangers obtain estimates of density from management data, and determine conditions where trap-attraction is strongest. The ability to estimate density alongside population control activities will improve risk assessment and response operations against disease outbreaks. Published by Elsevier B.V.

Stability of Buoyancy-Driven Gas Flow: Visualization of Coherent and Incoherent Gas Flow Patterns and Capillary Trapping

NASA Astrophysics Data System (ADS)

Geistlinger, H. W.; Samani, S.; Pohlert, M.; Jia, R.; Lazik, D.

2009-12-01

There are several mechanisms by which the CO2 can be stored: (1) In hydrodynamic trapping, the buoyant CO2 remains as a mobile fluid but is prevented from flowing back to the surface by an impermeable cap rock. (2) In solution trapping, CO2 dissolves into the brine, possibly enhanced by gravity instabilities due to the larger density of the brine-CO2 liquid mixture. (3) In mineral trapping, geochemical binding to the rock due to mineral precipitation. (4) In capillary trapping, the CO2 phase is disconnected into a coherent, mobile phase and an incoherent, immobile (trapped) phase. Recent analytical and numerical investigations [Juanes et al., 2006, 2009; Hesse et al., 2007 ] of buoyant-driven CO2-plume along a sloped aquifer are based on the following conceptual process model: (1) During the injection period, the less wetting CO2 displaces the more wetting brine in a drainage-like process. It is assumed that no capillary trapping occurs and that the CO2-network is coherent and driven both by the injection pressure and the buoyant pressure. Because of this coherence assumption a generalized Darcy-law can be used for the dynamics of the mobile, gaseous CO2-phase. (2) After injection the buoyant CO2 migrates laterally and upward, and water displaces CO2 at the trailing edge of the plume in an imbibition-like process. During this process, there are several physical mechanisms by which the water can displace the CO2 [Lenormand et al., 1983]. In addition to piston-type displacement, core-annular flow (also called: cooperative pore-body filling) may occur, i.e. the wetting phase moves along the walls and under certain conditions the CO2-core flow becomes unstable (snap-off). For water wet rocks, snap-off is the dominant mechanism [Al-Futaisi and Patzek, 2003; Valvatne and Blunt, 2004]. There seems to be consensus that the capillary trapping mechanism has a huge impact on the migration and distribution of CO2 which, in turn, affects the effectiveness of the other sequestration mechanisms. In order to investigate the stability of buoyancy-driven gas flow and the transition between coherent flow, incoherent flow, and their correlation to capillary trapping, we conducted high-resolution optical bench scale experiments. We observed a grain-size (dk) - and flow-rate (Q) dependent transition from incoherent to coherent flow. Based on core-annular flow (= cooperative pore-body filling), we propose a dynamic stability criterion that could describe our experimental results. Our experimental results for vertical gas flow support the experimental results by Lenormand et al. [1983] obtained for horizontal flow, if one takes into account that gravity leads to more unstable flow conditions. Our main results, which are in strong contradiction to the accepted conceptual model of the sloped aquifer, are: (1) Capillary Trapping can already occur during injection and at the front of the plume [Lazik et al., 2008] (2) Gas clusters or bubbles can be mobile (incoherent gas flow) and immobile (capillary trapping), and (3) Incoherent gas flow can not be described by a generalized Darcy law [Geistlinger et al., 2006, 2009].

Charge carrier dynamics in organic semiconductors and their donor-acceptor composites: Numerical modeling of time-resolved photocurrent

NASA Astrophysics Data System (ADS)

Johnson, Brian; Kendrick, Mark J.; Ostroverkhova, Oksana

2013-09-01

We present a model that describes nanosecond (ns) time-scale photocurrent dynamics in functionalized anthradithiophene (ADT) films and ADT-based donor-acceptor (D/A) composites. By fitting numerically simulated photocurrents to experimental data, we quantify contributions of multiple pathways of charge carrier photogeneration to the photocurrent, as well as extract parameters that characterize charge transport (CT) in organic films including charge carrier mobilities, trap densities, hole trap depth, and trapping and recombination rates. In pristine ADT films, simulations revealed two competing charge photogeneration pathways: fast, occurring on picosecond (ps) or sub-ps time scales with efficiencies below 10%, and slow, which proceeds at the time scale of tens of nanoseconds, with efficiencies of about 11%-12%, at the applied electric fields of 40-80 kV/cm. The relative contribution of these pathways to the photocurrent was electric field dependent, with the contribution of the fast process increasing with applied electric field. However, the total charge photogeneration efficiency was weakly electric field dependent exhibiting values of 14%-20% of the absorbed photons. The remaining 80%-86% of the photoexcitation did not contribute to charge carrier generation at these time scales. In ADT-based D/A composites with 2 wt.% acceptor concentration, an additional pathway of charge photogeneration that proceeds via CT exciton dissociation contributed to the total charge photogeneration. In the composite with the functionalized pentacene (Pn) acceptor, which exhibits strong exciplex emission from a tightly bound D/A CT exciton, the contribution of the CT state to charge generation was small, ˜8%-12% of the total number of photogenerated charge carriers, dependent on the electric field. In contrast, in the composite with PCBM acceptor, the CT state contributed about a half of all photogenerated charge carriers. In both D/A composites, the charge carrier mobilities were reduced and trap densities and average trap depths were increased, as compared to a pristine ADT donor film. A considerably slower recombination of free holes with trapped electrons was found in the composite with the PCBM acceptor, which led to slower decays of the transient photocurrent and considerably higher charge retention, as compared to a pristine ADT donor film and the composite with the functionalized Pn acceptor.

A Computer Model of Insect Traps in a Landscape

NASA Astrophysics Data System (ADS)

Manoukis, Nicholas C.; Hall, Brian; Geib, Scott M.

2014-11-01

Attractant-based trap networks are important elements of invasive insect detection, pest control, and basic research programs. We present a landscape-level, spatially explicit model of trap networks, focused on detection, that incorporates variable attractiveness of traps and a movement model for insect dispersion. We describe the model and validate its behavior using field trap data on networks targeting two species, Ceratitis capitata and Anoplophora glabripennis. Our model will assist efforts to optimize trap networks by 1) introducing an accessible and realistic mathematical characterization of the operation of a single trap that lends itself easily to parametrization via field experiments and 2) allowing direct quantification and comparison of sensitivity between trap networks. Results from the two case studies indicate that the relationship between number of traps and their spatial distribution and capture probability under the model is qualitatively dependent on the attractiveness of the traps, a result with important practical consequences.

Modeling mechanical interactions in growing populations of rod-shaped bacteria

NASA Astrophysics Data System (ADS)

Winkle, James J.; Igoshin, Oleg A.; Bennett, Matthew R.; Josić, Krešimir; Ott, William

2017-10-01

Advances in synthetic biology allow us to engineer bacterial collectives with pre-specified characteristics. However, the behavior of these collectives is difficult to understand, as cellular growth and division as well as extra-cellular fluid flow lead to complex, changing arrangements of cells within the population. To rationally engineer and control the behavior of cell collectives we need theoretical and computational tools to understand their emergent spatiotemporal dynamics. Here, we present an agent-based model that allows growing cells to detect and respond to mechanical interactions. Crucially, our model couples the dynamics of cell growth to the cell’s environment: Mechanical constraints can affect cellular growth rate and a cell may alter its behavior in response to these constraints. This coupling links the mechanical forces that influence cell growth and emergent behaviors in cell assemblies. We illustrate our approach by showing how mechanical interactions can impact the dynamics of bacterial collectives growing in microfluidic traps.

Laboratory study supporting the interpretation of Solar Dynamics Observatory data

DOE PAGES

Trabert, E.; Beiersdorfer, P.

2015-01-29

High-resolution extreme ultraviolet spectra of ions in an electron beam ion trap are investigated as a laboratory complement of the moderate-resolution observation bands of the AIA experiment on board the Solar Dynamics Observatory (SDO) spacecraft. Here, the latter observations depend on dominant iron lines of various charge states which in combination yield temperature information on the solar plasma. Our measurements suggest additions to the spectral models that are used in the SDO data interpretation. In the process, we also note a fair number of inconsistencies among the wavelength reference data bases.

Optimization of a mirror-based neutron source using differential evolution algorithm

NASA Astrophysics Data System (ADS)

Yurov, D. V.; Prikhodko, V. V.

2016-12-01

This study is dedicated to the assessment of capabilities of gas-dynamic trap (GDT) and gas-dynamic multiple-mirror trap (GDMT) as potential neutron sources for subcritical hybrids. In mathematical terms the problem of the study has been formulated as determining the global maximum of fusion gain (Q pl), the latter represented as a function of trap parameters. A differential evolution method has been applied to perform the search. Considered in all calculations has been a configuration of the neutron source with 20 m long distance between the mirrors and 100 MW heating power. It is important to mention that the numerical study has also taken into account a number of constraints on plasma characteristics so as to provide physical credibility of searched-for trap configurations. According to the results obtained the traps considered have demonstrated fusion gain up to 0.2, depending on the constraints applied. This enables them to be used either as neutron sources within subcritical reactors for minor actinides incineration or as material-testing facilities.

Dynamics of charged particles in a Paul radio-frequency quadrupole trap

NASA Technical Reports Server (NTRS)

Prestage, J. D.; Williams, A.; Maleki, L.; Djomehri, M. J.; Harabetian, E.

1991-01-01

A molecular-dynamics simulation of hundreds of ions confined in a Paul trap has been performed. The simulation includes the trapped particles' micromotion and interparticle Coulomb interactions. A random walk in velocity was implemented to bring the secular motion to a given temperature which was numerically measured. When the coupling Gamma is large the ions from concentric shells which undergo a quadrupole oscillation at the RF frequency, while the ions within a shell form a 2D hexagonal lattice. Ion clouds at 5 mK show no RF heating for q(z) less than about 0.6, whereas rapid heating is seen for qz = 0.8.

Dependence of the residual surface resistance of superconducting radio frequency cavities on the cooling dynamics around T{sub c}

DOE Office of Scientific and Technical Information (OSTI.GOV)

Romanenko, A., E-mail: aroman@fnal.gov; Grassellino, A., E-mail: annag@fnal.gov; Melnychuk, O.

We report a strong effect of the cooling dynamics through T{sub c} on the amount of trapped external magnetic flux in superconducting niobium cavities. The effect is similar for fine grain and single crystal niobium and all surface treatments including electropolishing with and without 120 °C baking and nitrogen doping. Direct magnetic field measurements on the cavity walls show that the effect stems from changes in the flux trapping efficiency: slow cooling leads to almost complete flux trapping and higher residual resistance, while fast cooling leads to the much more efficient flux expulsion and lower residual resistance.

A Note on the Bogdanov-Takens Bifurcation in the Romer Model with Learning by Doing

NASA Astrophysics Data System (ADS)

Bella, Giovanni

This paper is aimed at describing the whole set of necessary and sufficient conditions for the emergence of multiple equilibria and global indeterminacy in the standard endogenous growth framework with learning by doing. The novelty of this paper relies on the application of the original Bogdanov-Takens bifurcation theorem, which allows us to characterize the full dynamics of the model, and determine the emergence of an unavoidable poverty trap.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Liguori, R.; Aprano, S.; Rubino, A.

In this study we analyzed one of the environmental factors that could affect organic materials. Pentacene thin film samples were fabricated and the degradation of their electrical characteristics was measured when the devices were exposed to ultraviolet light irradiation. The results have been reported in terms of a trap density model, which provides a description of the dynamics of light induced electrically active defects in an organic semiconductor.

Elastic light scattering from single cells: orientational dynamics in optical trap.

PubMed

Watson, Dakota; Hagen, Norbert; Diver, Jonathan; Marchand, Philippe; Chachisvilis, Mirianas

2004-08-01

Light-scattering diagrams (phase functions) from single living cells and beads suspended in an optical trap were recorded with 30-ms time resolution. The intensity of the scattered light was recorded over an angular range of 0.5-179.5 degrees using an optical setup based on an elliptical mirror and rotating aperture. Experiments revealed that light-scattering diagrams from biological cells exhibit significant and complex time dependence. We have attributed this dependence to the cell's orientational dynamics within the trap. We have also used experimentally measured phase function information to calculate the time dependence of the optical radiation pressure force on the trapped particle and show how it changes depending on the orientation of the particle. Relevance of these experiments to potential improvement in the sensitivity of label-free flow cytometry is discussed.

Motional studies of one and two laser-cooled trapped ions for electric-field sensing applications

NASA Astrophysics Data System (ADS)

Domínguez, F.; Gutiérrez, M. J.; Arrazola, I.; Berrocal, J.; Cornejo, J. M.; Del Pozo, J. J.; Rica, R. A.; Schmidt, S.; Solano, E.; Rodríguez, D.

2018-03-01

We have studied the dynamics of one and two laser-cooled trapped ?Ca? ions by applying electric fields of different nature along the axial direction of the trap, namely, driving the motion with a harmonic dipolar field, or with white noise. These two types of driving induce distinct motional states of the axial modes: a coherent oscillation with the dipolar field, or an enhanced Brownian motion due to an additional contribution to the heating rate from the electric noise. In both scenarios, the sensitivity of an isolated ion and a laser-cooled two-ion crystal has been evaluated and compared. The analysis and understanding of this dynamics is important towards the implementation of a novel Penning trap mass-spectroscopy technique based on optical detection, aiming at improving precision and sensitivity.

Ion trap architectures and new directions

NASA Astrophysics Data System (ADS)

Siverns, James D.; Quraishi, Qudsia

2017-12-01

Trapped ion technology has seen advances in performance, robustness and versatility over the last decade. With increasing numbers of trapped ion groups worldwide, a myriad of trap architectures are currently in use. Applications of trapped ions include: quantum simulation, computing and networking, time standards and fundamental studies in quantum dynamics. Design of such traps is driven by these various research aims, but some universally desirable properties have lead to the development of ion trap foundries. Additionally, the excellent control achievable with trapped ions and the ability to do photonic readout has allowed progress on quantum networking using entanglement between remotely situated ion-based nodes. Here, we present a selection of trap architectures currently in use by the community and present their most salient characteristics, identifying features particularly suited for quantum networking. We also discuss our own in-house research efforts aimed at long-distance trapped ion networking.

Equilibration dynamics of a many-body quantum system across the superfluid to Mott insulator phase transition

NASA Astrophysics Data System (ADS)

Mullers, Andreas; Baals, Christian; Santra, Bodhaditya; Labouvie, Ralf; Mertz, Thomas; Dhar, Arya; Vasic, Ivana; Cichy, Agnieszka; Hofstetter, Walter; Ott, Herwig

2017-04-01

We report on the center-of-mass motion of ultracold 87Rb atoms on displacing an underlying potential. The atoms are adiabatically loaded into an optical lattice superimposed onto an optical dipole trap. The CO2 laser beam forming the dipole trap is then shifted by 1 μm which forces the system out of equilibrium. The subsequent motion of the atoms center-of mass is imaged with a scanning electron microscope for various depths of the optical lattice spanning the superfluid to Mott-insulator phase transition. The observed dynamics range from fast oscillations in the superfluid regime to a steady exponential movement towards the new equilibrium position for higher lattice depths. By piecewise analysis of the system, we can also identify a thermal phase at the edges which moves with velocities in between those of the superfluid and the insulating phase. We will present the experiment and the results of theoretical modelling currently in progress.

Watching conformational- and photodynamics of single fluorescent proteins in solution

NASA Astrophysics Data System (ADS)

Goldsmith, Randall H.; Moerner, W. E.

2010-03-01

Observing the dynamics of single biomolecules over prolonged time periods is difficult to achieve without significantly altering the molecule through immobilization. It can, however, be accomplished using the anti-Brownian electrokinetic trap, which allows extended investigation of solution-phase biomolecules-without immobilization-through real-time electrokinetic feedback. Here we apply the trap to study an important photosynthetic antenna protein, allophycocyanin. The technique allows the observation of single molecules of solution-phase allophycocyanin for more than one second. We observe a complex relationship between fluorescence intensity and lifetime that cannot be explained by simple static kinetic models. Light-induced conformational changes are shown to occur and evidence is obtained for fluctuations in the spontaneous emission lifetime, which is typically assumed to be constant. Our methods provide a new window into the dynamics of fluorescent proteins and the observations are relevant for the interpretation of in vivo single-molecule imaging experiments, bacterial photosynthetic regulation and biomaterials for solar energy harvesting.

Elements of Dynamics of a One-Dimensional Trapped Bose-Einstein Condensate Excited by a Time-Dependent Dimple: A Lagrangian Variational Approach

NASA Astrophysics Data System (ADS)

Sakhel, Asaad R.; Sakhel, Roger R.

2018-02-01

We examine the dynamics of a one-dimensional harmonically trapped Bose-Einstein condensate (BEC), induced by the addition of a dimple trap whose depth oscillates with time. For this purpose, the Lagrangian variational method (LVM) is applied to provide the required analytical equations. The goal is to provide an analytical explanation for the quasiperiodic oscillations of the BEC size at resonance, that is additional to the one given by Adhikari (J Phys B At Mol Opt Phys 36:1109, 2003). It is shown that LVM is able to reproduce instabilities in the dynamics along the same lines outlined by Lellouch et al. (Phys Rev X 7:021015, 2017). Moreover, it is found that at resonance the energy dynamics display ordered oscillations, whereas at off-resonance they tend to be chaotic. Further, by using the Poincare-Lindstedt method to solve the LVM equation of motion, the resulting solution is able to reproduce the quasiperiodic oscillations of the BEC.

Model-based prediction of nephropathia epidemica outbreaks based on climatological and vegetation data and bank vole population dynamics.

PubMed

Haredasht, S Amirpour; Taylor, C J; Maes, P; Verstraeten, W W; Clement, J; Barrios, M; Lagrou, K; Van Ranst, M; Coppin, P; Berckmans, D; Aerts, J-M

2013-11-01

Wildlife-originated zoonotic diseases in general are a major contributor to emerging infectious diseases. Hantaviruses more specifically cause thousands of human disease cases annually worldwide, while understanding and predicting human hantavirus epidemics pose numerous unsolved challenges. Nephropathia epidemica (NE) is a human infection caused by Puumala virus, which is naturally carried and shed by bank voles (Myodes glareolus). The objective of this study was to develop a method that allows model-based predicting 3 months ahead of the occurrence of NE epidemics. Two data sets were utilized to develop and test the models. These data sets were concerned with NE cases in Finland and Belgium. In this study, we selected the most relevant inputs from all the available data for use in a dynamic linear regression (DLR) model. The number of NE cases in Finland were modelled using data from 1996 to 2008. The NE cases were predicted based on the time series data of average monthly air temperature (°C) and bank voles' trapping index using a DLR model. The bank voles' trapping index data were interpolated using a related dynamic harmonic regression model (DHR). Here, the DLR and DHR models used time-varying parameters. Both the DHR and DLR models were based on a unified state-space estimation framework. For the Belgium case, no time series of the bank voles' population dynamics were available. Several studies, however, have suggested that the population of bank voles is related to the variation in seed production of beech and oak trees in Northern Europe. Therefore, the NE occurrence pattern in Belgium was predicted based on a DLR model by using remotely sensed phenology parameters of broad-leaved forests, together with the oak and beech seed categories and average monthly air temperature (°C) using data from 2001 to 2009. Our results suggest that even without any knowledge about hantavirus dynamics in the host population, the time variation in NE outbreaks in Finland could be predicted 3 months ahead with a 34% mean relative prediction error (MRPE). This took into account solely the population dynamics of the carrier species (bank voles). The time series analysis also revealed that climate change, as represented by the vegetation index, changes in forest phenology derived from satellite images and directly measured air temperature, may affect the mechanics of NE transmission. NE outbreaks in Belgium were predicted 3 months ahead with a 40% MRPE, based only on the climatological and vegetation data, in this case, without any knowledge of the bank vole's population dynamics. In this research, we demonstrated that NE outbreaks can be predicted using climate and vegetation data or the bank vole's population dynamics, by using dynamic data-based models with time-varying parameters. Such a predictive modelling approach might be used as a step towards the development of new tools for the prevention of future NE outbreaks. © 2012 Blackwell Verlag GmbH.

Thermometry of levitated nanoparticles in a hybrid electro-optical trap

NASA Astrophysics Data System (ADS)

Aranas, E. B.; Fonseca, P. Z. G.; Barker, P. F.; Monteiro, T. S.

2017-03-01

There have been recent rapid developments in stable trapping of levitated nanoparticles in high vacuum. Cooling of nanoparticles, from phonon occupancies of 107 down to ≃ 100{--}1000 phonons, have already been achieved by several groups. Prospects for quantum ground-state cooling seem extremely promising. Cavity-cooling without added stabilisation by feedback cooling remains challenging, but trapping at high vacuum in a cavity is now possible through the addition of a Paul trap. However, the Paul trap has been found to qualitatively modify the cavity output spectrum, with the latter acquiring an atypical ‘split-sideband’ structure, of different form from the displacement spectrum, and which depends on N, the optical well at which the particle localises. In the present work we investigate the N-dependence of the dynamics, in particular with respect to thermometry: we show that in strong cooling regions N≳ 100, the temperature may still be reliably inferred from the cavity output spectra. We also explain the N-dependence of the mechanical frequencies and optomechanical coupling showing that these may be accurately estimated. We present a simple ‘fast-cavity’ model for the cavity output and test all our findings against full numerical solutions of the nonlinear stochastic equations of motion for the system.

Sediment depositions upstream of open check dams: new elements from small scale models

NASA Astrophysics Data System (ADS)

Piton, Guillaume; Le Guern, Jules; Carbonari, Costanza; Recking, Alain

2015-04-01

Torrent hazard mitigation remains a big issue in mountainous regions. In steep slope streams and especially in their fan part, torrential floods mainly result from abrupt and massive sediment deposits. To curtail such phenomenon, soil conservation measures as well as torrent control works have been undertaken for decades. Since the 1950s, open check dams complete other structural and non-structural measures in watershed scale mitigation plans1. They are often built to trap sediments near the fan apexes. The development of earthmoving machinery after the WWII facilitated the dredging operations of open check dams. Hundreds of these structures have thus been built for 60 years. Their design evolved with the improving comprehension of torrential hydraulics and sediment transport; however this kind of structure has a general tendency to trap most of the sediments supplied by the headwaters. Secondary effects as channel incision downstream of the traps often followed an open check dam creation. This sediment starvation trend tends to propagate to the main valley rivers and to disrupt past geomorphic equilibriums. Taking it into account and to diminish useless dredging operation, a better selectivity of sediment trapping must be sought in open check dams, i.e. optimal open check dams would trap sediments during dangerous floods and flush them during normal small floods. An accurate description of the hydraulic and deposition processes that occur in sediment traps is needed to optimize existing structures and to design best-adjusted new structures. A literature review2 showed that if design criteria exist for the structure itself, little information is available on the dynamic of the sediment depositions upstream of open check dams, i.e. what are the geomorphic patterns that occur during the deposition?, what are the relevant friction laws and sediment transport formula that better describe massive depositions in sediment traps?, what are the range of Froude and Shields numbers that the flows tend to adopt? New small scale model experiments have been undertaken focusing on depositions processes and their related hydraulics. Accurate photogrammetric measurements allowed us to better describe the deposition processes3. Large Scale Particle Image Velocimetry (LS-PIV) was performed to determine surface velocity fields in highly active channels with low grain submersion4. We will present preliminary results of our experiments showing the new elements we observed in massive deposit dynamics. REFERENCES 1.Armanini, A., Dellagiacoma, F. & Ferrari, L. From the check dam to the development of functional check dams. Fluvial Hydraulics of Mountain Regions 37, 331-344 (1991). 2.Piton, G. & Recking, A. Design of sediment traps with open check dams: a review, part I: hydraulic and deposition processes. (Accepted by the) Journal of Hydraulic Engineering 1-23 (2015). 3.Le Guern, J. Ms Thesis: Modélisation physique des plages de depot : analyse de la dynamique de remplissage.(2014) . 4.Carbonari, C. Ms Thesis: Small scale experiments of deposition processes occuring in sediment traps, LS-PIV measurments and geomorphological descriptions. (in preparation).

Extending the Dynamic Range of the Ion Trap by Differential Mobility Filtration

PubMed Central

Hall, Adam B.; Coy, Stephen L.; Kafle, Amol; Glick, James; Nazarov, Erkinjon

2013-01-01

A miniature, planar, differential ion mobility spectrometer (DMS) was interfaced to an LCQ classic ion trap to conduct selective ion filtration prior to mass analysis in order to extend the dynamic range of the trap. Space charge effects are known to limit the functional ion storage capacity of ion trap mass analyzers and this, in turn, can affect the quality of the mass spectral data generated. This problem is further exacerbated in the analysis of mixtures where the indiscriminate introduction of matrix ions results in premature trap saturation with non-targeted species, thereby reducing the number of parent ions that may be used to conduct MS/MS experiments for quantitation or other diagnostic studies. We show that conducting differential mobility-based separations prior to mass analysis allows the isolation of targeted analytes from electrosprayed mixtures preventing the indiscriminate introduction of matrix ions and premature trap saturation with analytically unrelated species. Coupling these two analytical techniques is shown to enhance the detection of a targeted drug metabolite from a biological matrix. In its capacity as a selective ion filter, the DMS can improve the analytical performance of analyzers such as quadrupole (3-D or linear) and ion cyclotron resonance (FT-ICR) ion traps that depend on ion accumulation. PMID:23797861

Trapping and dynamic manipulation of polystyrene beads mimicking circulating tumor cells using targeted magnetic/photoacoustic contrast agents

NASA Astrophysics Data System (ADS)

Wei, Chen-Wei; Xia, Jinjun; Pelivanov, Ivan; Hu, Xiaoge; Gao, Xiaohu; O'Donnell, Matthew

2012-10-01

Results on magnetically trapping and manipulating micro-scale beads circulating in a flow field mimicking metastatic cancer cells in human peripheral vessels are presented. Composite contrast agents combining magneto-sensitive nanospheres and highly optical absorptive gold nanorods were conjugated to micro-scale polystyrene beads. To efficiently trap the targeted objects in a fast stream, a dual magnet system consisting of two flat magnets to magnetize (polarize) the contrast agent and an array of cone magnets producing a sharp gradient field to trap the magnetized contrast agent was designed and constructed. A water-ink solution with an optical absorption coefficient of 10 cm-1 was used to mimic the optical absorption of blood. Magnetomotive photoacoustic imaging helped visualize bead trapping, dynamic manipulation of trapped beads in a flow field, and the subtraction of stationary background signals insensitive to the magnetic field. The results show that trafficking micro-scale objects can be effectively trapped in a stream with a flow rate up to 12 ml/min and the background can be significantly (greater than 15 dB) suppressed. It makes the proposed method very promising for sensitive detection of rare circulating tumor cells within high flow vessels with a highly absorptive optical background.

Stochastic three-wave interaction in flaring solar loops

NASA Technical Reports Server (NTRS)

Vlahos, L.; Sharma, R. R.; Papadopoulos, K.

1983-01-01

A model is proposed for the dynamic structure of high-frequency microwave bursts. The dynamic component is attributed to beams of precipitating electrons which generate electrostatic waves in the upper hybrid branch. Coherent upconversion of the electrostatic waves to electromagnetic waves produces an intrinsically stochastic emission component which is superposed on the gyrosynchrotron continuum generated by stably trapped electron fluxes. The role of the density and temperature of the ambient plasma in the wave growth and the transition of the three wave upconversion to stochastic, despite the stationarity of the energy source, are discussed in detail. The model appears to reproduce the observational features for reasonable parameters of the solar flare plasma.

Entanglement spreading after a geometric quench in quantum spin chains

NASA Astrophysics Data System (ADS)

Alba, Vincenzo; Heidrich-Meisner, Fabian

2014-08-01

We investigate the entanglement spreading in the anisotropic spin-1/2 Heisenberg (XXZ) chain after a geometric quench. This corresponds to a sudden change of the geometry of the chain or, in the equivalent language of interacting fermions confined in a box trap, to a sudden increase of the trap size. The entanglement dynamics after the quench is associated with the ballistic propagation of a magnetization wave front. At the free fermion point (XX chain), the von Neumann entropy SA exhibits several intriguing dynamical regimes. Specifically, at short times a logarithmic increase is observed, similar to local quenches. This is accurately described by an analytic formula that we derive from heuristic arguments. At intermediate times partial revivals of the short-time dynamics are superposed with a power-law increase SA˜tα, with α <1. Finally, at very long times a steady state develops with constant entanglement entropy, apart from oscillations. As expected, since the model is integrable, we find that the steady state is nonthermal, although it exhibits extensive entanglement entropy. We also investigate the entanglement dynamics after the quench from a finite to the infinite chain (sudden expansion). While at long times the entanglement vanishes, we demonstrate that its relaxation dynamics exhibits a number of scaling properties. Finally, we discuss the short-time entanglement dynamics in the XXZ chain in the gapless phase. The same formula that describes the time dependence for the XX chain remains valid in the whole gapless phase.

Predicting the dynamics of ascospore maturation of Venturia pirina based on environmental factors.

PubMed

Rossi, V; Salinari, F; Pattori, E; Giosuè, S; Bugiani, R

2009-04-01

Airborne ascospores of Venturia pirina were trapped at two sites in northern Italy in 2002 to 2008. The cumulative proportion of ascospores trapped at each discharge was regressed against the physiological time. The best fit (R(2) = 0.90, standard error of estimates [SEest] = 0.11) was obtained using a Gompertz equation and the degree-days (>0 degrees C) accumulated after the day on which the first ascospore of the season was trapped (biofix day), but only for the days with > or =0.2 mm rain or < or =4 hPa vapor pressure deficit (DDwet). This Italian model performed better than the models developed in Oregon, United States (R(2) = 0.69, SEest = 0.16) or Victoria, Australia (R(2) = 0.74, SEest = 0.18), which consider only the effect of temperature. When the Italian model was evaluated against data not used in its elaboration, it accurately predicted ascospore maturation (R(2) = 0.92, SEest = 0.10). A logistic regression model was also developed to estimate the biofix for initiating the accumulation of degree-days (biofix model). The probability of the first ascospore discharge of the season increased as DDwet (calculated from 1 January) increased. Based on this model, there is low probability of the first ascospore discharge when DDwet < or =268.5 (P = 0.03) and high probability (P = 0.83) of discharge on the first day with >0.2 mm rain after such a DDwet threshold.

Single molecule force spectroscopy at high data acquisition: A Bayesian nonparametric analysis

NASA Astrophysics Data System (ADS)

Sgouralis, Ioannis; Whitmore, Miles; Lapidus, Lisa; Comstock, Matthew J.; Pressé, Steve

2018-03-01

Bayesian nonparametrics (BNPs) are poised to have a deep impact in the analysis of single molecule data as they provide posterior probabilities over entire models consistent with the supplied data, not just model parameters of one preferred model. Thus they provide an elegant and rigorous solution to the difficult problem encountered when selecting an appropriate candidate model. Nevertheless, BNPs' flexibility to learn models and their associated parameters from experimental data is a double-edged sword. Most importantly, BNPs are prone to increasing the complexity of the estimated models due to artifactual features present in time traces. Thus, because of experimental challenges unique to single molecule methods, naive application of available BNP tools is not possible. Here we consider traces with time correlations and, as a specific example, we deal with force spectroscopy traces collected at high acquisition rates. While high acquisition rates are required in order to capture dwells in short-lived molecular states, in this setup, a slow response of the optical trap instrumentation (i.e., trapped beads, ambient fluid, and tethering handles) distorts the molecular signals introducing time correlations into the data that may be misinterpreted as true states by naive BNPs. Our adaptation of BNP tools explicitly takes into consideration these response dynamics, in addition to drift and noise, and makes unsupervised time series analysis of correlated single molecule force spectroscopy measurements possible, even at acquisition rates similar to or below the trap's response times.

The range of the mange: Spatiotemporal patterns of sarcoptic mange in red foxes (Vulpes vulpes) as revealed by camera trapping

PubMed Central

Odden, Morten; Linnell, John D. C.; Odden, John

2017-01-01

Sarcoptic mange is a widely distributed disease that affects numerous mammalian species. We used camera traps to investigate the apparent prevalence and spatiotemporal dynamics of sarcoptic mange in a red fox population in southeastern Norway. We monitored red foxes for five years using 305 camera traps distributed across an 18000 km2 area. A total of 6581 fox events were examined to visually identify mange compatible lesions. We investigated factors associated with the occurrence of mange by using logistic models within a Bayesian framework, whereas the spatiotemporal dynamics of the disease were analysed with space-time scan statistics. The apparent prevalence of the disease fluctuated over the study period with a mean of 3.15% and credible interval [1.25, 6.37], and our best logistic model explaining the presence of red foxes with mange-compatible lesions included time since the beginning of the study and the interaction between distance to settlement and season as explanatory variables. The scan analyses detected several potential clusters of the disease that varied in persistence and size, and the locations in the cluster with the highest probability were closer to human settlements than the other survey locations. Our results indicate that red foxes in an advanced stage of the disease are most likely found closer to human settlements during periods of low wild prey availability (winter). We discuss different potential causes. Furthermore, the disease appears to follow a pattern of small localized outbreaks rather than sporadic isolated events. PMID:28423011

The range of attraction for light traps catching Culicoides biting midges (Diptera: Ceratopogonidae)

PubMed Central

2013-01-01

Background Culicoides are vectors of e.g. bluetongue virus and Schmallenberg virus in northern Europe. Light trapping is an important tool for detecting the presence and quantifying the abundance of vectors in the field. Until now, few studies have investigated the range of attraction of light traps. Methods Here we test a previously described mathematical model (Model I) and two novel models for the attraction of vectors to light traps (Model II and III). In Model I, Culicoides fly to the nearest trap from within a fixed range of attraction. In Model II Culicoides fly towards areas with greater light intensity, and in Model III Culicoides evaluate light sources in the field of view and fly towards the strongest. Model II and III incorporated the directionally dependent light field created around light traps with fluorescent light tubes. All three models were fitted to light trap collections obtained from two novel experimental setups in the field where traps were placed in different configurations. Results Results showed that overlapping ranges of attraction of neighboring traps extended the shared range of attraction. Model I did not fit data from any of the experimental setups. Model II could only fit data from one of the setups, while Model III fitted data from both experimental setups. Conclusions The model with the best fit, Model III, indicates that Culicoides continuously evaluate the light source direction and intensity. The maximum range of attraction of a single 4W CDC light trap was estimated to be approximately 15.25 meters. The attraction towards light traps is different from the attraction to host animals and thus light trap catches may not represent the vector species and numbers attracted to hosts. PMID:23497628

The range of attraction for light traps catching Culicoides biting midges (Diptera: Ceratopogonidae).

PubMed

Kirkeby, Carsten; Græsbøll, Kaare; Stockmarr, Anders; Christiansen, Lasse E; Bødker, René

2013-03-15

Culicoides are vectors of e.g. bluetongue virus and Schmallenberg virus in northern Europe. Light trapping is an important tool for detecting the presence and quantifying the abundance of vectors in the field. Until now, few studies have investigated the range of attraction of light traps. Here we test a previously described mathematical model (Model I) and two novel models for the attraction of vectors to light traps (Model II and III). In Model I, Culicoides fly to the nearest trap from within a fixed range of attraction. In Model II Culicoides fly towards areas with greater light intensity, and in Model III Culicoides evaluate light sources in the field of view and fly towards the strongest. Model II and III incorporated the directionally dependent light field created around light traps with fluorescent light tubes. All three models were fitted to light trap collections obtained from two novel experimental setups in the field where traps were placed in different configurations. Results showed that overlapping ranges of attraction of neighboring traps extended the shared range of attraction. Model I did not fit data from any of the experimental setups. Model II could only fit data from one of the setups, while Model III fitted data from both experimental setups. The model with the best fit, Model III, indicates that Culicoides continuously evaluate the light source direction and intensity. The maximum range of attraction of a single 4W CDC light trap was estimated to be approximately 15.25 meters. The attraction towards light traps is different from the attraction to host animals and thus light trap catches may not represent the vector species and numbers attracted to hosts.

The Role of Trap-assisted Recombination in Luminescent Properties of Organometal Halide CH3NH3PbBr3 Perovskite Films and Quantum Dots

NASA Astrophysics Data System (ADS)

Zhang, Zhen-Yu; Wang, Hai-Yu; Zhang, Yan-Xia; Hao, Ya-Wei; Sun, Chun; Zhang, Yu; Gao, Bing-Rong; Chen, Qi-Dai; Sun, Hong-Bo

2016-06-01

Hybrid metal halide perovskites have been paid enormous attentions in photophysics research, whose excellent performances were attributed to their intriguing charge carriers proprieties. However, it still remains far from satisfaction in the comprehensive understanding of perovskite charge-transport properities, especially about trap-assisted recombination process. In this Letter, through time-resolved transient absorption (TA) and photoluminescence (PL) measurements, we provided a relative comprehensive investigation on the charge carriers recombination dynamics of CH3NH3PbBr3 (MAPbBr3) perovskite films and quantum dots (QDs), especially about trap-assisted recombination. It was found that the integral recombination mode of MAPbBr3 films was highly sensitive to the density distribution of generated charge carriers and trap states. Additional, Trap effects would be gradually weakened with elevated carrier densities. Furthermore, the trap-assisted recombination can be removed from MAPbBr3 QDs through its own surface passivation mechanism and this specialty may render the QDs as a new material in illuminating research. This work provides deeper physical insights into the dynamics processes of MAPbBr3 materials and paves a way toward more light-harvesting applications in future.

Electrical Transport and Low-Frequency Noise in Chemical Vapor Deposited Single-Layer MoS2 Devices

DTIC Science & Technology

2014-03-18

dependent noise in both passivated and etched devices could be explained by carrier number fluctuation arising from random trapping and de -trapping of...for 30 min at room temperature, followed by a de -ionized water/acetone/isopropanol rinse. Additional details about the processing steps can be found in...trends in these devices. 4 Nanotechnology 25 (2014) 155702 D Sharma et al Carrier number fluctuations arise from dynamic trapping and de -trapping of free

Dynamics and control of fast ion crystal splitting in segmented Paul traps (Open Access, Publisher’s Version)

DTIC Science & Technology

2014-07-09

operations, in addition to laser - or microwave-driven logic gates. Essential shuttling operations are splitting and merging of linear ion crystals. It is...from stray charges, laser induced charging of the trap [19], trap geometry imperfections or residual ponderomotive forces along the trap axis. The...transfer expressed as the mean phonon number Δ ω¯ = n E / f . We distinguish several regimes of laser –ion interaction: (i) if the vibrational

Evaluation of propane combustion traps for the collection of Phlebotomus papatasi (Scopoli) in southern Israel.

PubMed

Kline, Daniel L; Müller, Günter C; Hogsette, Jerome A

2011-03-01

In this study, we evaluated the efficacy of eleven commercial models of propane combustion traps for catching male and female Phlebotomus papatasi. The traps differed in physical appearance, amount of carbon dioxide produced and released, type and location of capturing device, and the method by which the trap suction fans were powered. The traps tested were the Mosquito Magnet™(MM)-Pro, MM-Liberty, MM-Liberty Plus, MM-Defender, SkeeterVac®(SV)-35, SV-27, Mosquito Deleto™(MD)-2200, MD-2500, MT150-Power Trap, and two models of The Guardian Mosquito Traps (MK-01 and MK-12). All trap models except the SV-35, the SV-27, the MD-2500, and the MK-12 attracted significantly more females than males. The SV-35 was the most efficient trap, catching significantly more females than all the other models. The MD-2200 and MK-12 models were the least effective in catching either female or male sand flies. These data indicate that several models of propane combustion traps might be suitable substitutes for either CO(2) -baited or unbaited light traps for adult sand fly surveillance tools. One advantageous feature is the traps' ability to remain operational 24/7 for ca. 20 days on a single tank of propane. Additionally, the models that produce their own electricity to power the trap's fans have an important logistical advantage in field operations over light traps, which require daily battery exchange and charging. © 2011 The Society for Vector Ecology.

Non-equilibrium dynamics of artificial quantum matter

NASA Astrophysics Data System (ADS)

Babadi, Mehrtash

The rapid progress of the field of ultracold atoms during the past two decades has set new milestones in our control over matter. By cooling dilute atomic gases and molecules to nano-Kelvin temperatures, novel quantum mechanical states of matter can be realized and studied on a table-top experimental setup while bulk matter can be tailored to faithfully simulate abstract theoretical models. Two of such models which have witnessed significant experimental and theoretical attention are (1) the two-component Fermi gas with resonant s-wave interactions, and (2) the single-component Fermi gas with dipole-dipole interactions. This thesis is devoted to studying the non-equilibrium collective dynamics of these systems using the general framework of quantum kinetic theory. We present a concise review of the utilized mathematical methods in the first two chapters, including the Schwinger-Keldysh formalism of non-equilibrium quantum fields, two-particle irreducible (2PI) effective actions and the framework of quantum kinetic theory. We study the collective dynamics of the dipolar Fermi gas in a quasi-two-dimensional optical trap in chapter 3 and provide a detailed account of its dynamical crossover from the collisionless to the hydrodynamical regime. Chapter 4 is devoted to studying the dynamics of the attractive Fermi gas in the normal phase. Starting from the self-consistent T-matrix (pairing fluctuation) approximation, we systematically derive a set of quantum kinetic equations and show that they provide a globally valid description of the dynamics of the attractive Fermi gas, ranging from the weak-coupling Fermi liquid phase to the intermediate non-Fermi liquid pairing pseudogap regime and finally the strong-coupling Bose liquid phase. The shortcomings of the self-consistent T-matrix approximation in two spatial dimensions are discussed along with a proposal to overcome its unphysical behaviors. The developed kinetic formalism is finally utilized to reproduce and interpret the findings of a recent experiment done on the collective dynamics of trapped two-dimensional ultracold gases.

Anomalous transport in cellular flows: The role of initial conditions and aging

NASA Astrophysics Data System (ADS)

Pöschke, Patrick; Sokolov, Igor M.; Nepomnyashchy, Alexander A.; Zaks, Michael A.

2016-09-01

We consider the diffusion-advection problem in two simple cellular flow models (often invoked as examples of subdiffusive tracer motion) and concentrate on the intermediate time range, in which the tracer motion indeed may show subdiffusion. We perform extensive numerical simulations of the systems under different initial conditions and show that the pure intermediate-time subdiffusion regime is only evident when the particles start at the border between different cells, i.e., at the separatrix, and is less pronounced or absent for other initial conditions. The motion moreover shows quite peculiar aging properties, which are also mirrored in the behavior of the time-averaged mean squared displacement for single trajectories. This kind of behavior is due to the complex motion of tracers trapped inside the cell and is absent in classical models based on continuous-time random walks with no dynamics in the trapped state.

Importance of hydrophobic traps for proton diffusion in lyotropic liquid crystals

DOE PAGES

McDaniel, Jesse G.; Yethiraj, Arun

2016-03-04

The diffusion of protons in self-assembled systems is potentially important for the design of efficient proton exchange membranes. In this work, we study proton dynamics in a low-water content, lamellar phase of an sodium-carboxylate gemini surfactant/water system using computer simulations. The hopping of protons via the Grotthuss mechanism is explicity allowed through the multi-state empirical valence bond (MS-EVB) method. We find that the hydronium ion is trapped on the hydrophobic side of the surfactant-water interface, and proton diffusion then proceeds by hopping between surface sites. The importance of hydrophobic traps is surprising, because one would expect the hydronium ions tomore » be trapped at the charged head-groups. Finally, the physics illustrated in this system should be relevant to the proton dynamics in other amphiphilic membrane systems, whenever there exists exposed hydrophobic surface regions.« less

Dynamics of optical matter creation and annihilation in colloidal liquids controlled by laser trapping power.

PubMed

Liu, Jin; Dai, Qiao-Feng; Huang, Xu-Guang; Wu, Li-Jun; Guo, Qi; Hu, Wei; Yang, Xiang-Bo; Lan, Sheng; Gopal, Achanta Venu; Trofimov, Vyacheslav A

2008-11-15

We investigate the dynamics of optical matter creation and annihilation in a colloidal liquid that was employed to construct an all-optical switch. It is revealed that the switching-on process can be characterized by the Fermi-Dirac distribution function, while the switching-off process can be described by a steady state followed by a single exponential decay. The phase transition times exhibit a strong dependence on trapping power. With an increasing trapping power, while the switching-on time decreases rapidly, the switch-off time increases significantly, indicating the effects of optical binding and van der Waals force on the lifetime of the optical matter.

Dependence of the residual surface resistance of superconducting radio frequency cavities on the cooling dynamics around T c

DOE Office of Scientific and Technical Information (OSTI.GOV)

Romanenko, A.; Grassellino, A.; Melnychuk, O.

We report a strong effect of the cooling dynamics throughmore » $$T_\\mathrm{c}$$ on the amount of trapped external magnetic flux in superconducting niobium cavities. The effect is similar for fine grain and single crystal niobium and all surface treatments including electropolishing with and without 120$$^\\circ$$C baking and nitrogen doping. Direct magnetic field measurements on the cavity walls show that the effect stems from changes in the flux trapping efficiency: slow cooling leads to almost complete flux trapping and higher residual resistance while fast cooling leads to the much more efficient flux expulsion and lower residual resistance.« less

Andreev Bound States Formation and Quasiparticle Trapping in Quench Dynamics Revealed by Time-Dependent Counting Statistics.

PubMed

Souto, R Seoane; Martín-Rodero, A; Yeyati, A Levy

2016-12-23

We analyze the quantum quench dynamics in the formation of a phase-biased superconducting nanojunction. We find that in the absence of an external relaxation mechanism and for very general conditions the system gets trapped in a metastable state, corresponding to a nonequilibrium population of the Andreev bound states. The use of the time-dependent full counting statistics analysis allows us to extract information on the asymptotic population of even and odd many-body states, demonstrating that a universal behavior, dependent only on the Andreev state energy, is reached in the quantum point contact limit. These results shed light on recent experimental observations on quasiparticle trapping in superconducting atomic contacts.

Neutral gas sympathetic cooling of an ion in a Paul trap.

PubMed

Chen, Kuang; Sullivan, Scott T; Hudson, Eric R

2014-04-11

A single ion immersed in a neutral buffer gas is studied. An analytical model is developed that gives a complete description of the dynamics and steady-state properties of the ions. An extension of this model, using techniques employed in the mathematics of economics and finance, is used to explain the recent observation of non-Maxwellian statistics for these systems. Taken together, these results offer an explanation of the long-standing issues associated with sympathetic cooling of an ion by a neutral buffer gas.

Neutral Gas Sympathetic Cooling of an Ion in a Paul Trap

NASA Astrophysics Data System (ADS)

Chen, Kuang; Sullivan, Scott T.; Hudson, Eric R.

2014-04-01

A single ion immersed in a neutral buffer gas is studied. An analytical model is developed that gives a complete description of the dynamics and steady-state properties of the ions. An extension of this model, using techniques employed in the mathematics of economics and finance, is used to explain the recent observation of non-Maxwellian statistics for these systems. Taken together, these results offer an explanation of the long-standing issues associated with sympathetic cooling of an ion by a neutral buffer gas.

Dynamic Flight Maneuvering Using Virtual Control Surfaces Generated by Trapped Vorticity

DTIC Science & Technology

2010-12-01

of a modified Dragon Eye UAV. These tests illustrated the possibility of controlled flight using open-loop flow control actuators. Future research...2 -1 0 1 2 z ( cm ) 0 1 2 3 4 5 1 2 3 4 5 Time (s)  (d eg ) Figure II-1 Step command tracking in plung: ideal reference model response...experimental results. The experimental results were obtained with the ball screws locked in position so that the wing model was only allowed to pitch

Gel electrophoresis of linear and star-branched DNA

NASA Astrophysics Data System (ADS)

Lau, Henry W.; Archer, Lynden A.

2011-12-01

The electrophoretic mobility of double-stranded DNA in polyacrylamide gel is investigated using an activated hopping model for the transport of a charged object within a heterogeneous medium. The model is premised upon a representation of the DNA path through the gel matrix as a series of traps with alternating large and small cross sections. Calculations of the trap dimensions from gel data show that the path imposes varying degrees of confinement upon migrating analytes, which retard their forward motion in a size-dependent manner. An expression derived for DNA mobility is shown to provide accurate predictions for the dynamics of linear DNA (67-622 bp) in gels of multiple concentrations. For star-branched DNA, the incorporation within the model of a length scale previously proposed to account for analyte architecture [Yuan , Anal. Chem.ANCHAM0003-270010.1021/ac060414w 78, 6179 (2006)] leads to mobility predictions that compare well with experimental results for a wide range of DNA shapes and molecular weights.

Spectrally reconfigurable integrated multi-spot particle trap.

PubMed

Leake, Kaelyn D; Olson, Michael A B; Ozcelik, Damla; Hawkins, Aaron R; Schmidt, Holger

2015-12-01

Optical manipulation of small particles in the form of trapping, pushing, or sorting has developed into a vast field with applications in the life sciences, biophysics, and atomic physics. Recently, there has been increasing effort toward integration of particle manipulation techniques with integrated photonic structures on self-contained optofluidic chips. Here, we use the wavelength dependence of multi-spot pattern formation in multimode interference (MMI) waveguides to create a new type of reconfigurable, integrated optical particle trap. Interfering lateral MMI modes create multiple trapping spots in an intersecting fluidic channel. The number of trapping spots can be dynamically controlled by altering the trapping wavelength. This novel, spectral reconfigurability is utilized to deterministically move single and multiple particles between different trapping locations along the channel. This fully integrated multi-particle trap can form the basis of high throughput biophotonic assays on a chip.

Water security, risk and economic growth: lessons from a dynamical systems model

NASA Astrophysics Data System (ADS)

Dadson, Simon; Hall, Jim; Garrick, Dustin; Sadoff, Claudia; Grey, David; Whittington, Dale

2016-04-01

Investments in the physical infrastructure, human capital, and institutions needed for water resources management have been a noteworthy feature in the development of most civilisations. These investments affect the economy in two distinct ways: (i) by improving the factor productivity of water in multiple sectors of the economy, especially those that are water intensive such as agriculture and energy; and (ii) by reducing the acute and chronic harmful effects of water-related hazards like floods, droughts, and water-related diseases. The need for capital investment to mitigate these risks in order to promote economic growth is widely acknowledged, but prior work to conceptualise the relationship between water-related risks and economic growth has focused on the productive and harmful roles of water in the economy independently. Here the two influences are combined using a simple, dynamical model of water-related investment, risk, and growth at the national level. The model suggests the existence of a context-specific threshold above which growth proceeds along an 'S'-curve. In many cases there is a requirement for initial investment in water-related assets to enable growth. Below the threshold it is possible for a poverty trap to arise. The presence and location of the poverty trap is context-specific and depends on the relative exposure of productive water-related assets to risk, compared with risks faced by assets in the wider economy. Exogenous changes in the level of water-related risk (through, for example, climate and land cover change) can potentially push an economy away from a growth path towards a poverty trap. These results illustrate the value of accounting for environmental risk in models of economic growth and may offer guidance in the design of robust policies for investment in water-related productive assets to manage risk, particularly in the face of global and regional environmental change.

Dynamic pathways for viral capsid assembly

DOE Office of Scientific and Technical Information (OSTI.GOV)

Hagan, Michael F.; Chandler, David

2006-02-09

We develop a class of models with which we simulate the assembly of particles into T1 capsid-like objects using Newtonian dynamics. By simulating assembly for many different values of system parameters, we vary the forces that drive assembly. For some ranges of parameters, assembly is facile, while for others, assembly is dynamically frustrated by kinetic traps corresponding to malformed or incompletely formed capsids. Our simulations sample many independent trajectories at various capsomer concentrations, allowing for statistically meaningful conclusions. Depending on subunit (i.e., capsomer) geometries, successful assembly proceeds by several mechanisms involving binding of intermediates of various sizes. We discuss themore » relationship between these mechanisms and experimental evaluations of capsid assembly processes.« less

Examining wildlife responses to phenology and wildfire using a landscape-scale camera trap network

USGS Publications Warehouse

Villarreal, Miguel L.; Gass, Leila; Norman, Laura; Sankeya, Joel B.; Wallace, Cynthia S.A.; McMacken, Dennis; Childs, Jack L.; Petrakis, Roy E.

2012-01-01

Between 2001 and 2009, the Borderlands Jaguar Detection Project deployed 174 camera traps in the mountains of southern Arizona to record jaguar activity. In addition to jaguars, the motion-activated cameras, placed along known wildlife travel routes, recorded occurrences of ~ 20 other animal species. We examined temporal relationships of white-tailed deer (Odocoileus virginianus) and javelina (Pecari tajacu) to landscape phenology (as measured by monthly Normalized Difference Vegetation Index data) and the timing of wildfire (Alambre Fire of 2007). Mixed model analyses suggest that temporal dynamics of these two species were related to vegetation phenology and natural disturbance in the Sky Island region, information important for wildlife managers faced with uncertainty regarding changing climate and disturbance regimes.

Hawking-like radiation does not require a trapped region.

PubMed

Barceló, Carlos; Liberati, Stefano; Sonego, Sebastiano; Visser, Matt

2006-10-27

We discuss the issue of quasiparticle production by "analogue black holes" with particular attention paid to the possibility of reproducing Hawking radiation in a laboratory. By constructing simple geometric acoustic models, we obtain a somewhat unexpected result: We show that, in order to obtain a stationary and Planckian emission of quasiparticles, it is not necessary to create a trapped region in the acoustic spacetime (corresponding to a supersonic regime in the fluid flow). It is sufficient to set up a dynamically changing flow asymptotically approaching a sonic regime with sufficient rapidity in laboratory time. This result is generic to curved-space quantum field theory, the "analogue spacetimes" we consider providing a guide to physical intuition, and a possible route to laboratory experiments.

Analytical solutions for the dynamics of two trapped interacting ultracold atoms

DOE Office of Scientific and Technical Information (OSTI.GOV)

Idziaszek, Zbigniew; Calarco, Tommaso; CNR-INFM BEC Center, I-38050 Povo

2006-08-15

We discuss exact solutions of the Schroedinger equation for the system of two ultracold atoms confined in an axially symmetric harmonic potential. We investigate different geometries of the trapping potential, in particular we study the properties of eigenenergies and eigenfunctions for quasi-one-dimensional and quasi-two-dimensional traps. We show that the quasi-one-dimensional and the quasi-two-dimensional regimes for two atoms can be already realized in the traps with moderately large (or small) ratios of the trapping frequencies in the axial and the transverse directions. Finally, we apply our theory to Feshbach resonances for trapped atoms. Introducing in our description an energy-dependent scattering lengthmore » we calculate analytically the eigenenergies for two trapped atoms in the presence of a Feshbach resonance.« less

Efficacy of traps, lures, and repellents for Xylosandrus compactus (Coleoptera: Curculionidae) and other ambrosia beetles on Coffea arabica plantations and Acacia koa nurseries in Hawaii

Treesearch

E. G. Burbano; M.G. Wright; N.E. Gillette; S. Mori; N. Dudley; N. Jones; M. Kaufmann

2012-01-01

The black twig borer, Xylosandrus compactus (Eichhoff) (Coleoptera: Curculionidae: Scolytinae), is a pest of coffee and many endemic Hawaiian plants. Traps baited with chemical attractants commonly are used to capture ambrosia beetles for purposes of monitoring, studying population dynamics, predicting outbreaks, and mass trapping to reduce damage...

Symmetry breaking, Josephson oscillation and self-trapping in a self-bound three-dimensional quantum ball.

PubMed

Adhikari, S K

2017-11-22

We study spontaneous symmetry breaking (SSB), Josephson oscillation, and self-trapping in a stable, mobile, three-dimensional matter-wave spherical quantum ball self-bound by attractive two-body and repulsive three-body interactions. The SSB is realized by a parity-symmetric (a) one-dimensional (1D) double-well potential or (b) a 1D Gaussian potential, both along the z axis and no potential along the x and y axes. In the presence of each of these potentials, the symmetric ground state dynamically evolves into a doubly-degenerate SSB ground state. If the SSB ground state in the double well, predominantly located in the first well (z > 0), is given a small displacement, the quantum ball oscillates with a self-trapping in the first well. For a medium displacement one encounters an asymmetric Josephson oscillation. The asymmetric oscillation is a consequence of SSB. The study is performed by a variational and a numerical solution of a non-linear mean-field model with 1D parity-symmetric perturbations.

Optical patterning of trapped charge in nitrogen-doped diamond

NASA Astrophysics Data System (ADS)

Jayakumar, Harishankar; Henshaw, Jacob; Dhomkar, Siddharth; Pagliero, Daniela; Laraoui, Abdelghani; Manson, Neil B.; Albu, Remus; Doherty, Marcus W.; Meriles, Carlos A.

2016-08-01

The nitrogen-vacancy (NV) centre in diamond is emerging as a promising platform for solid-state quantum information processing and nanoscale metrology. Of interest in these applications is the manipulation of the NV charge, which can be attained by optical excitation. Here, we use two-colour optical microscopy to investigate the dynamics of NV photo-ionization, charge diffusion and trapping in type-1b diamond. We combine fixed-point laser excitation and scanning fluorescence imaging to locally alter the concentration of negatively charged NVs, and to subsequently probe the corresponding redistribution of charge. We uncover the formation of spatial patterns of trapped charge, which we qualitatively reproduce via a model of the interplay between photo-excited carriers and atomic defects. Further, by using the NV as a probe, we map the relative fraction of positively charged nitrogen on localized optical excitation. These observations may prove important to transporting quantum information between NVs or to developing three-dimensional, charge-based memories.

The effects of electric field and gate bias pulse on the migration and stability of ionized oxygen vacancies in amorphous In–Ga–Zn–O thin film transistors

PubMed Central

Oh, Young Jun; Noh, Hyeon-Kyun; Chang, Kee Joo

2015-01-01

Oxygen vacancies have been considered as the origin of threshold voltage instability under negative bias illumination stress in amorphous oxide thin film transistors. Here we report the results of first-principles molecular dynamics simulations for the drift motion of oxygen vacancies. We show that oxygen vacancies, which are initially ionized by trapping photoexcited hole carriers, can easily migrate under an external electric field. Thus, accumulated hole traps near the channel/dielectric interface cause negative shift of the threshold voltage, supporting the oxygen vacancy model. In addition, we find that ionized oxygen vacancies easily recover their neutral defect configurations by capturing electrons when the Fermi level increases. Our results are in good agreement with the experimental observation that applying a positive gate bias pulse of short duration eliminates hole traps and thus leads to the recovery of device stability from persistent photoconductivity. PMID:27877799

Localization of intense electromagnetic waves in plasmas.

PubMed

Shukla, Padma Kant; Eliasson, Bengt

2008-05-28

We present theoretical and numerical studies of the interaction between relativistically intense laser light and a two-temperature plasma consisting of one relativistically hot and one cold component of electrons. Such plasmas are frequently encountered in intense laser-plasma experiments where collisionless heating via Raman instabilities leads to a high-energetic tail in the electron distribution function. The electromagnetic waves (EMWs) are governed by the Maxwell equations, and the plasma is governed by the relativistic Vlasov and hydrodynamic equations. Owing to the interaction between the laser light and the plasma, we can have trapping of electrons in the intense wakefield of the laser pulse and the formation of relativistic electron holes (REHs) in which laser light is trapped. Such electron holes are characterized by a non-Maxwellian distribution of electrons where we have trapped and free electron populations. We present a model for the interaction between laser light and REHs, and computer simulations that show the stability and dynamics of the coupled electron hole and EMW envelopes.

Optical patterning of trapped charge in nitrogen-doped diamond.

PubMed

Jayakumar, Harishankar; Henshaw, Jacob; Dhomkar, Siddharth; Pagliero, Daniela; Laraoui, Abdelghani; Manson, Neil B; Albu, Remus; Doherty, Marcus W; Meriles, Carlos A

2016-08-30

The nitrogen-vacancy (NV) centre in diamond is emerging as a promising platform for solid-state quantum information processing and nanoscale metrology. Of interest in these applications is the manipulation of the NV charge, which can be attained by optical excitation. Here, we use two-colour optical microscopy to investigate the dynamics of NV photo-ionization, charge diffusion and trapping in type-1b diamond. We combine fixed-point laser excitation and scanning fluorescence imaging to locally alter the concentration of negatively charged NVs, and to subsequently probe the corresponding redistribution of charge. We uncover the formation of spatial patterns of trapped charge, which we qualitatively reproduce via a model of the interplay between photo-excited carriers and atomic defects. Further, by using the NV as a probe, we map the relative fraction of positively charged nitrogen on localized optical excitation. These observations may prove important to transporting quantum information between NVs or to developing three-dimensional, charge-based memories.

Optical patterning of trapped charge in nitrogen-doped diamond

PubMed Central

Jayakumar, Harishankar; Henshaw, Jacob; Dhomkar, Siddharth; Pagliero, Daniela; Laraoui, Abdelghani; Manson, Neil B.; Albu, Remus; Doherty, Marcus W.; Meriles, Carlos A.

2016-01-01

The nitrogen-vacancy (NV) centre in diamond is emerging as a promising platform for solid-state quantum information processing and nanoscale metrology. Of interest in these applications is the manipulation of the NV charge, which can be attained by optical excitation. Here, we use two-colour optical microscopy to investigate the dynamics of NV photo-ionization, charge diffusion and trapping in type-1b diamond. We combine fixed-point laser excitation and scanning fluorescence imaging to locally alter the concentration of negatively charged NVs, and to subsequently probe the corresponding redistribution of charge. We uncover the formation of spatial patterns of trapped charge, which we qualitatively reproduce via a model of the interplay between photo-excited carriers and atomic defects. Further, by using the NV as a probe, we map the relative fraction of positively charged nitrogen on localized optical excitation. These observations may prove important to transporting quantum information between NVs or to developing three-dimensional, charge-based memories. PMID:27573190

Mechanism for Broadband White-Light Emission from Two-Dimensional (110) Hybrid Perovskites.

PubMed

Hu, Te; Smith, Matthew D; Dohner, Emma R; Sher, Meng-Ju; Wu, Xiaoxi; Trinh, M Tuan; Fisher, Alan; Corbett, Jeff; Zhu, X-Y; Karunadasa, Hemamala I; Lindenberg, Aaron M

2016-06-16

The recently discovered phenomenon of broadband white-light emission at room temperature in the (110) two-dimensional organic-inorganic perovskite (N-MEDA)[PbBr4] (N-MEDA = N(1)-methylethane-1,2-diammonium) is promising for applications in solid-state lighting. However, the spectral broadening mechanism and, in particular, the processes and dynamics associated with the emissive species are still unclear. Herein, we apply a suite of ultrafast spectroscopic probes to measure the primary events directly following photoexcitation, which allows us to resolve the evolution of light-induced emissive states associated with white-light emission at femtosecond resolution. Terahertz spectra show fast free carrier trapping and transient absorption spectra show the formation of self-trapped excitons on femtosecond time-scales. Emission-wavelength-dependent dynamics of the self-trapped exciton luminescence are observed, indicative of an energy distribution of photogenerated emissive states in the perovskite. Our results are consistent with photogenerated carriers self-trapped in a deformable lattice due to strong electron-phonon coupling, where permanent lattice defects and correlated self-trapped states lend further inhomogeneity to the excited-state potential energy surface.

Identification of the spatial location of deep trap states in AlGaN/GaN heterostructures by surface photovoltage spectroscopy

NASA Astrophysics Data System (ADS)

Jana, Dipankar; Porwal, S.; Sharma, T. K.

2017-12-01

Spatial and spectral origin of deep level defects in molecular beam epitaxy grown AlGaN/GaN heterostructures are investigated by using surface photovoltage spectroscopy (SPS) and pump-probe SPS techniques. A deep trap center ∼1 eV above the valence band is observed in SPS measurements which is correlated with the yellow luminescence feature in GaN. Capture of electrons and holes is resolved by performing temperature dependent SPS and pump-probe SPS measurements. It is found that the deep trap states are distributed throughout the sample while their dominance in SPS spectra depends on the density, occupation probability of deep trap states and the background electron density of GaN channel layer. Dynamics of deep trap states associated with GaN channel layer is investigated by performing frequency dependent photoluminescence (PL) and SPS measurements. A time constant of few millisecond is estimated for the deep defects which might limit the dynamic performance of AlGaN/GaN based devices.

Proton-Induced Trap States, Injection and Recombination Dynamics in Water-Splitting Dye-Sensitized Photoelectrochemical Cells.

PubMed

McCool, Nicholas S; Swierk, John R; Nemes, Coleen T; Saunders, Timothy P; Schmuttenmaer, Charles A; Mallouk, Thomas E

2016-07-06

Water-splitting dye-sensitized photoelectrochemical cells (WS-DSPECs) utilize a sensitized metal oxide and a water oxidation catalyst in order to generate hydrogen and oxygen from water. Although the Faradaic efficiency of water splitting is close to unity, the recombination of photogenerated electrons with oxidized dye molecules causes the quantum efficiency of these devices to be low. It is therefore important to understand recombination mechanisms in order to develop strategies to minimize them. In this paper, we discuss the role of proton intercalation in the formation of recombination centers. Proton intercalation forms nonmobile surface trap states that persist on time scales that are orders of magnitude longer than the electron lifetime in TiO2. As a result of electron trapping, recombination with surface-bound oxidized dye molecules occurs. We report a method for effectively removing the surface trap states by mildly heating the electrodes under vacuum, which appears to primarily improve the injection kinetics without affecting bulk trapping dynamics, further stressing the importance of proton control in WS-DSPECs.

Mechanical trapping of particles in granular media

NASA Astrophysics Data System (ADS)

Kerimov, Abdulla; Mavko, Gary; Mukerji, Tapan; Al Ibrahim, Mustafa A.

2018-02-01

Mechanical trapping of fine particles in the pores of granular materials is an essential mechanism in a wide variety of natural and industrial filtration processes. The progress of invading particles is primarily limited by the network of pore throats and connected pathways encountered by the particles during their motion through the porous medium. Trapping of invading particles is limited to a depth defined by the size, shape, and distribution of the invading particles with respect to the size, shape, and distribution of the host porous matrix. Therefore, the trapping process, in principle, can be used to obtain information about geometrical properties, such as pore throat and particle size, of the underlying host matrix. A numerical framework is developed to simulate the mechanical trapping of fine particles in porous granular media with prescribed host particle size, shape, and distribution. The trapping of invading particles is systematically modeled in host packings with different host particle distributions: monodisperse, bidisperse, and polydisperse distributions of host particle sizes. Our simulation results show quantitatively and qualitatively to what extent trapping behavior is different in the generated monodisperse, bidisperse, and polydisperse packings of spherical particles. Depending on host particle size and distribution, the information about extreme estimates of minimal pore throat sizes of the connected pathways in the underlying host matrix can be inferred from trapping features, such as the fraction of trapped particles as a function of invading particle size. The presence of connected pathways with minimum and maximum of minimal pore throat diameters can be directly obtained from trapping features. This limited information about the extreme estimates of pore throat sizes of the connected pathways in the host granular media inferred from our numerical simulations is consistent with simple geometrical estimates of extreme value of pore and throat sizes of the densest structural arrangements of spherical particles and geometrical Delaunay tessellation analysis of the pore space of host granular media. Our results suggest simple relations between the host particle size and trapping features. These relationships can be potentially used to describe both the dynamics of the mechanical trapping process and the geometrical properties of the host granular media.

Mechanical trapping of particles in granular media.

PubMed

Kerimov, Abdulla; Mavko, Gary; Mukerji, Tapan; Al Ibrahim, Mustafa A

2018-02-01

Mechanical trapping of fine particles in the pores of granular materials is an essential mechanism in a wide variety of natural and industrial filtration processes. The progress of invading particles is primarily limited by the network of pore throats and connected pathways encountered by the particles during their motion through the porous medium. Trapping of invading particles is limited to a depth defined by the size, shape, and distribution of the invading particles with respect to the size, shape, and distribution of the host porous matrix. Therefore, the trapping process, in principle, can be used to obtain information about geometrical properties, such as pore throat and particle size, of the underlying host matrix. A numerical framework is developed to simulate the mechanical trapping of fine particles in porous granular media with prescribed host particle size, shape, and distribution. The trapping of invading particles is systematically modeled in host packings with different host particle distributions: monodisperse, bidisperse, and polydisperse distributions of host particle sizes. Our simulation results show quantitatively and qualitatively to what extent trapping behavior is different in the generated monodisperse, bidisperse, and polydisperse packings of spherical particles. Depending on host particle size and distribution, the information about extreme estimates of minimal pore throat sizes of the connected pathways in the underlying host matrix can be inferred from trapping features, such as the fraction of trapped particles as a function of invading particle size. The presence of connected pathways with minimum and maximum of minimal pore throat diameters can be directly obtained from trapping features. This limited information about the extreme estimates of pore throat sizes of the connected pathways in the host granular media inferred from our numerical simulations is consistent with simple geometrical estimates of extreme value of pore and throat sizes of the densest structural arrangements of spherical particles and geometrical Delaunay tessellation analysis of the pore space of host granular media. Our results suggest simple relations between the host particle size and trapping features. These relationships can be potentially used to describe both the dynamics of the mechanical trapping process and the geometrical properties of the host granular media.

Evaluation of various models of propane-powered mosquito traps.

PubMed

Kline, Daniel L

2002-06-01

Large cage and field studies were conducted to determine the efficacy of various models of propane-powered mosquito traps. These traps utilized counterflow technology in conjunction with catalytic combustion to produce attractants (carbon dioxide, water vapor, and heat) and a thermoelectric generator that converted excess heat into electricity for stand-alone operation. The cage studies showed that large numbers of Aedes aegypti and Ochlerotatus taeniorhynchus were captured and that each progressive model resulted in increased trapping efficiency. In several field studies against natural populations of mosquitoes two different propane traps were compared against two other trap systems, the professional (PRO) and counterflow geometry (CFG) traps. In these studies the propane traps consistently caught more mosquitoes than the PRO trap and significantly fewer mosquitoes than the CFG traps. The difference in collection size between the CFG and propane traps was due mostly to Anopheles crucians. In spring 1997 the CFG trap captured 3.6X more An. crucians than the Portable Propane (PP) model and in spring 1998 it captured 6.3X more An. crucians than the Mosquito Magnet Beta-1 (MMB-1) trap. Both the PP and MMB-1 captured slightly more Culex spp. than the CFG trap.

Climate-based models for West Nile Culex mosquito vectors in the Northeastern US

NASA Astrophysics Data System (ADS)

Gong, Hongfei; Degaetano, Arthur T.; Harrington, Laura C.

2011-05-01

Climate-based models simulating Culex mosquito population abundance in the Northeastern US were developed. Two West Nile vector species, Culex pipiens and Culex restuans, were included in model simulations. The model was optimized by a parameter-space search within biological bounds. Mosquito population dynamics were driven by major environmental factors including temperature, rainfall, evaporation rate and photoperiod. The results show a strong correlation between the timing of early population increases (as early warning of West Nile virus risk) and decreases in late summer. Simulated abundance was highly correlated with actual mosquito capture in New Jersey light traps and validated with field data. This climate-based model simulates the population dynamics of both the adult and immature mosquito life stage of Culex arbovirus vectors in the Northeastern US. It is expected to have direct and practical application for mosquito control and West Nile prevention programs.

Structure, dynamics and bifurcations of discrete solitons in trapped ion crystals

NASA Astrophysics Data System (ADS)

Landa, H.; Reznik, B.; Brox, J.; Mielenz, M.; Schaetz, T.

2013-09-01

We study discrete solitons (kinks) accessible in the state-of-the-art trapped ion experiments, considering zigzag crystals and quasi-three-dimensional configurations, both theoretically and experimentally. We first extend the theoretical understanding of different phenomena predicted and recently experimentally observed in the structure and dynamics of these topological excitations. Employing tools from topological degree theory, we analyze bifurcations of crystal configurations in dependence on the trapping parameters, and investigate the formation of kink configurations and the transformations of kinks between different structures. This allows us to accurately define and calculate the effective potential experienced by solitons within the Wigner crystal, and study how this (so-called Peierls-Nabarro) potential gets modified to a non-periodic globally trapping potential in certain parameter regimes. The kinks' rest mass (energy) and spectrum of modes are computed and the dynamics of linear and nonlinear kink oscillations are analyzed. We also present novel, experimentally observed, configurations of kinks incorporating a large-mass defect realized by an embedded molecular ion, and of pairs of interacting kinks stable for long times, offering the perspective for exploring and exploiting complex collective nonlinear excitations, controllable on the quantum level.

Dynamics of vortex quadrupoles in nonrotating trapped Bose-Einstein condensates.

PubMed

Yang, Tao; Hu, Zhi-Qiang; Zou, Shan; Liu, Wu-Ming

2016-07-28

Dynamics of vortex clusters is essential for understanding diverse superfluid phenomena. In this paper, we examine the dynamics of vortex quadrupoles in a trapped two-dimensional (2D) Bose-Einstein condensate. We find that the movement of these vortex-clusters fall into three distinct regimes which are fully described by the radial positions of the vortices in a 2D isotropic harmonic trap, or by the major radius (minor radius) of the elliptical equipotential lines decided by the vortex positions in a 2D anisotropic harmonic trap. In the "recombination" and "exchange" regimes the quadrupole structure maintains, while the vortices annihilate each other permanently in the "annihilation" regime. We find that the mechanism of the charge flipping in the "exchange" regime and the disappearance of the quadrupole structure in the "annihilation" regime are both through an intermediate state where two vortex dipoles connected through a soliton ring. We give the parameter ranges for these three regimes in coordinate space for a specific initial configuration and phase diagram of the vortex positions with respect to the Thomas-Fermi radius of the condensate. We show that the results are also applicable to systems with quantum fluctuations for the short-time evolution.

Gradual Crossover from Subdiffusion to Normal Diffusion: A Many-Body Effect in Protein Surface Water

NASA Astrophysics Data System (ADS)

Tan, Pan; Liang, Yihao; Xu, Qin; Mamontov, Eugene; Li, Jinglai; Xing, Xiangjun; Hong, Liang

2018-06-01

Dynamics of hydration water is essential for the function of biomacromolecules. Previous studies have demonstrated that water molecules exhibit subdiffusion on the surface of biomacromolecules; yet the microscopic mechanism remains vague. Here, by performing neutron scattering, molecular dynamics simulations, and analytic modeling on hydrated perdeuterated protein powders, we found water molecules jump randomly between trapping sites on protein surfaces, whose waiting times obey a broad distribution, resulting in subdiffusion. Moreover, the subdiffusive exponent gradually increases with observation time towards normal diffusion due to a many-body volume-exclusion effect.

Photoinduced relaxation dynamics of nitrogen-capped silicon nanoclusters: a TD-DFT study

NASA Astrophysics Data System (ADS)

Liu, Xiang-Yang; Xie, Xiao-Ying; Fang, Wei-Hai; Cui, Ganglong

2018-04-01

Herein we have developed and implemented a TD-DFT-based surface-hopping dynamics simulation method with a recently proposed numerical algorithm capable of efficiently computing nonadiabatic couplings, a semiclassical spectrum simulation method, and an excited-state character analysis method based on one-electron transition density matrix. With the use of these developed methods, we have studied the spectroscopic properties, excited-state characters, and photoinduced relaxation dynamics of three silicon nanoclusters capped with different chromophores (Cl@SiQD, Car@SiQD, Azo@SiQD). Spectroscopically, the main absorption peak is visibly red-shifted from Cl@SiQD via Car@SiQD to Azo@SiQD. In contrast to Cl@SiQD and Car@SiQD, there are two peaks observed in Azo@SiQD. Mechanistically, the excited-state relaxation to the lowest S1 excited singlet state is ultrafast in Cl@SiQD, which is less than 190 fs and without involving excited-state trapping. In comparison, there are clear excited-state trappings in Car@SiQD and Azo@SiQD. In the former, the S2 state is trapped more than 300 fs; in the latter, the S3 excited-state trapping is more than 615 fs. These results demonstrate that the interfacial interaction has significant influences on the spectroscopic properties and excited-state relaxation dynamics. The knowledge gained in this work could be helpful for the design of silicon nanoclusters with better photoluminescence performance.

Dynamics of trapped atoms around an optical nanofiber probed through polarimetry.

PubMed

Solano, Pablo; Fatemi, Fredrik K; Orozco, Luis A; Rolston, S L

2017-06-15

The evanescent field outside an optical nanofiber (ONF) can create optical traps for neutral atoms. We present a non-destructive method to characterize such trapping potentials. An off-resonance linearly polarized probe beam that propagates through the ONF experiences a slow axis of polarization produced by trapped atoms on opposite sides along the ONF. The transverse atomic motion is imprinted onto the probe polarization through the changing atomic index of refraction. By applying a transient impulse, we measure a time-dependent polarization rotation of the probe beam that provides both a rapid and non-destructive measurement of the optical trapping frequencies.

The temporal evolution process from fluorescence bleaching to clean Raman spectra of single solid particles optically trapped in air

NASA Astrophysics Data System (ADS)

Gong, Zhiyong; Pan, Yong-Le; Videen, Gorden; Wang, Chuji

2017-12-01

We observe the entire temporal evolution process of fluorescence and Raman spectra of single solid particles optically trapped in air. The spectra initially contain strong fluorescence with weak Raman peaks, then the fluorescence was bleached within seconds, and finally only the clean Raman peaks remain. We construct an optical trap using two counter-propagating hollow beams, which is able to stably trap both absorbing and non-absorbing particles in air, for observing such temporal processes. This technique offers a new method to study dynamic changes in the fluorescence and Raman spectra from a single optically trapped particle in air.

Squeezed coherent states of motion for ions confined in quadrupole and octupole ion traps

NASA Astrophysics Data System (ADS)

Mihalcea, Bogdan M.

2018-01-01

Quasiclassical dynamics of trapped ions is characterized by applying the time dependent variational principle (TDVP) on coherent state orbits, in case of quadrupole and octupole combined (Paul and Penning) or radiofrequency (RF) traps. A dequantization algorithm is proposed, by which the classical Hamilton (energy) function associated to the system results as the expectation value of the quantum Hamiltonian on squeezed coherent states. We develop such method and particularize the quantum Hamiltonian for both combined and RF nonlinear traps, that exhibit axial symmetry. We also build the classical Hamiltonian functions for the particular traps we considered, and find the classical equations of motion.

From Low Altitude to High Altitude: Assimilating SAMPEX Data in Global Radiation Belt Models by Quantifying Precipitation and Loss

NASA Astrophysics Data System (ADS)

Tu, W.; Reeves, G. D.; Cunningham, G.; Selesnick, R. S.; Li, X.; Looper, M. D.

2012-12-01

Since its launch in 1992, SAMPEX has been continuously providing measurements of radiation belt electrons at low altitude, which are not only ideal for the direct quantification of the electron precipitation loss in the radiation belt, but also provide data coverage in a critical region for global radiation belt data assimilation models. However, quantitatively combining high-altitude and low-earth-orbit (LEO) measurements on the same L-shell is challenging because LEO measurements typically contain a dynamic mixture of trapped and precipitating populations. Specifically, the electrons measured by SAMPEX can be distinguished as trapped, quasi-trapped (in the drift loss cone), and precipitating (in the bounce loss cone). To simulate the low-altitude electron distribution observed by SAMPEX/PET, a drift-diffusion model has been developed that includes the effects of azimuthal drift and pitch angle diffusion. The simulation provides direct quantification of the rates and variations of electron loss to the atmosphere, a direct input to our Dynamic Radiation Environment Assimilation Model (DREAM) as the electron loss lifetimes. The current DREAM uses data assimilation to combine a 1D radial diffusion model with observational data of radiation belt electrons. In order to implement the mixed electron measurements from SAMPEX into DREAM, we need to map the SAMPEX data from low altitude to high altitudes. To perform the mapping, we will first examine the well-known 'global coherence' of radiation belt electrons by comparing SAMPEX electron fluxes with the energetic electron data from LANL GEO and GPS spacecraft. If the correlation is good, we can directly map the SAMPEX fluxes to high altitudes based on the global coherence; if not, we will use the derived pitch angle distribution from the drift-diffusion model to map up the field and test the mapping by comparing to the high-altitude flux measurements. Then the globally mapped electron fluxes can be assimilated into DREAM. This new implementation of SAMPEX data will greatly augment the data coverage of DREAM and contribute to the global specification of the radiation belt environment.

Time-dependent nonlinear Jaynes-Cummings dynamics of a trapped ion

NASA Astrophysics Data System (ADS)

Krumm, F.; Vogel, W.

2018-04-01

In quantum interaction problems with explicitly time-dependent interaction Hamiltonians, the time ordering plays a crucial role for describing the quantum evolution of the system under consideration. In such complex scenarios, exact solutions of the dynamics are rarely available. Here we study the nonlinear vibronic dynamics of a trapped ion, driven in the resolved sideband regime with some small frequency mismatch. By describing the pump field in a quantized manner, we are able to derive exact solutions for the dynamics of the system. This eventually allows us to provide analytical solutions for various types of time-dependent quantities. In particular, we study in some detail the electronic and the motional quantum dynamics of the ion, as well as the time evolution of the nonclassicality of the motional quantum state.

Eliminating degradation and uncovering ion-trapping dynamics in electrochromic WO3 thin films

PubMed Central

Wen, Rui-Tao; Granqvist, Claes G.; Niklasson, Gunnar A.

2015-01-01

Amorphous WO3 thin films are of keen interest as cathodic electrodes in transmittance-modulating electrochromic devices. However, these films suffer from ion-trapping-induced degradation of optical modulation and reversibility upon extended Li+-ion exchange. Here, we demonstrate that ion-trapping-induced degradation, which is commonly believed to be irreversible, can be successfully eliminated by constant-current-driven de-trapping, i.e., WO3 films can be rejuvenated and regain their initial highly reversible electrochromic performance. Pronounced ion-trapping occurs when x exceeds ~0.65 in LixWO3 during ion insertion. We find two main kinds of Li+-ion trapping sites (intermediate and deep) in WO3, where the intermediate ones are most prevalent. Li+-ions can be completely removed from intermediate traps but are irreversibly bound in deep traps. Our results provide a general framework for developing and designing superior electrochromic materials and devices. PMID:26259104

Bayesian inference in camera trapping studies for a class of spatial capture-recapture models

USGS Publications Warehouse

Royle, J. Andrew; Karanth, K. Ullas; Gopalaswamy, Arjun M.; Kumar, N. Samba

2009-01-01

We develop a class of models for inference about abundance or density using spatial capture-recapture data from studies based on camera trapping and related methods. The model is a hierarchical model composed of two components: a point process model describing the distribution of individuals in space (or their home range centers) and a model describing the observation of individuals in traps. We suppose that trap- and individual-specific capture probabilities are a function of distance between individual home range centers and trap locations. We show that the models can be regarded as generalized linear mixed models, where the individual home range centers are random effects. We adopt a Bayesian framework for inference under these models using a formulation based on data augmentation. We apply the models to camera trapping data on tigers from the Nagarahole Reserve, India, collected over 48 nights in 2006. For this study, 120 camera locations were used, but cameras were only operational at 30 locations during any given sample occasion. Movement of traps is common in many camera-trapping studies and represents an important feature of the observation model that we address explicitly in our application.

Optical trapping and manipulation of neutral particles using lasers

PubMed Central

Ashkin, Arthur

1997-01-01

The techniques of optical trapping and manipulation of neutral particles by lasers provide unique means to control the dynamics of small particles. These new experimental methods have played a revolutionary role in areas of the physical and biological sciences. This paper reviews the early developments in the field leading to the demonstration of cooling and trapping of neutral atoms in atomic physics and to the first use of optical tweezers traps in biology. Some further major achievements of these rapidly developing methods also are considered. PMID:9144154

Solar atmospheric dynamics. II - Nonlinear models of the photospheric and chromospheric oscillations

NASA Technical Reports Server (NTRS)

Leibacher, J.; Gouttebroze, P.; Stein, R. F.

1982-01-01

The one-dimensional, nonlinear dynamics of the solar atmosphere is investigated, and models of the observed photospheric (300 s) and chromospheric (200 s) oscillations are described. These are resonances of acoustic wave cavities formed by the variation of the temperature and ionization between the subphotospheric, hydrogen convection zone and the chromosphere-corona transition region. The dependence of the oscillations upon the excitation and boundary conditions leads to the conclusion that for the observed amplitudes, the modes are independently excited and, as trapped modes, transport little if any mechanical flux. In the upper photosphere and lower chromosphere, where the two modes have comparable energy density, interference between them leads to apparent vertical phase delays which might be interpreted as evidence of an energy flux.

Slow dynamics in glasses: A comparison between theory and experiment

DOE Office of Scientific and Technical Information (OSTI.GOV)

Phillips, J. C.

Minimalist theories of complex systems are broadly of two kinds: mean field and axiomatic. So far, all theories of complex properties absent from simple systems and intrinsic to glasses are axiomatic. Stretched Exponential Relaxation (SER) is the prototypical complex temporal property of glasses, discovered by Kohlrausch 150 years ago, and now observed almost universally in microscopically homogeneous, complex nonequilibrium materials, including luminescent electronic Coulomb glasses. A critical comparison of alternative axiomatic theories with both numerical simulations and experiments strongly favors channeled dynamical trap models over static percolative or energy landscape models. The topics discussed cover those reported since the author'smore » review article in 1996, with an emphasis on parallels between channel bifurcation in electronic and molecular relaxation.« less

Temporal distribution of Aedes aegypti in different districts of Rio de Janeiro, Brazil, measured by two types of traps.

PubMed

Honório, N A; Codeço, C T; Alves, F C; Magalhães, M A F M; Lourenço-De-Oliveira, R

2009-09-01

Dengue dynamics in Rio de Janeiro, Brazil, as in many dengue-endemic regions of the world, is seasonal, with peaks during the wet-hot months. This temporal pattern is generally attributed to the dynamics of its mosquito vector Aedes aegypti (L.). The objectives of this study were to characterize the temporal pattern of Ae. aegypti population dynamics in three neighborhoods of Rio de Janeiro and its association with local meteorological variables; and to compare positivity and density indices obtained with ovitraps and MosquiTraps. The three neighborhoods are distinct in vegetation coverage, sanitation, water supply, and urbanization. Mosquito sampling was carried out weekly, from September 2006 to March 2008, a period during which large dengue epidemics occurred in the city. Our results show peaks of oviposition in early summer 2007 and late summer 2008, detected by both traps. The ovitrap provided a more sensitive index than MosquiTrap. The MosquiTrap detection threshold showed high variation among areas, corresponding to a mean egg density of approximately 25-52 eggs per ovitrap. Both temperature and rainfall were significantly related to Ae. aegypti indices at a short (1 wk) time lag. Our results suggest that mean weekly temperature above 22-24 degrees C is strongly associated with high Ae. aegypti abundance and consequently with an increased risk of dengue transmission. Understanding the effects of meteorological variables on Ae. aegypti population dynamics will help to target control measures at the times when vector populations are greatest, contributing to the development of climate-based control and surveillance measures for dengue fever in a hyperendemic area.

Anti-Brownian ELectrokinetic (ABEL) trapping of single β2-adrenergic receptors in the absence and presence of agonist

NASA Astrophysics Data System (ADS)

Bockenhauer, Samuel; Fuerstenberg, Alexandre; Yao, Xiao Jie; Kobilka, Brian K.; Moerner, W. E.

2012-02-01

The ABEL trap allows trapping of single biomolecules in solution for extended observation without immobilization. The essential idea combines fluorescence-based position estimation with fast electrokinetic feedback in a microfluidic geometry to counter the Brownian motion of a single nanoscale object, hence maintaining its position in the field of view for hundreds of milliseconds to seconds. Such prolonged observation of single proteins allows access to slow dynamics, as probed by any available photophysical observables. We have used the ABEL trap to study conformational dynamics of the β2-adrenergic receptor, a key G-protein coupled receptor and drug target, in the absence and presence of agonist. A single environment-sensitive dye reports on the receptor microenvironment, providing a real-time readout of conformational change for each trapped receptor. The focus of this paper will be a quantitative comparison of the ligandfree and agonist-bound receptor data from our ABEL trap experiments. We observe a small but clearly detectable shift in conformational equilibria and a lengthening of fluctuation timescales upon binding of agonist. In order to quantify the shift in state distributions and timescales, we apply nonparametric statistical tests to place error bounds on the resulting single-molecule distributions.

Nonlinear fishbone dynamics in spherical tokamaks

DOE Data Explorer

Wang, Feng [Princeton Plasma Physics Lab. (PPPL), Princeton, NJ (United States); Dalian Univ Technol, Sch Phys & Optoelect Technol, Minist Educ, Key Lab Mat Modificat Laser Ion & Electron Beams, Dalian 116024, Peoples R China.; Fu, G.Y. [Princeton Plasma Physics Lab. (PPPL), Princeton, NJ (United States); Institute for Fusion Theory and Simulation and Department of Physics Hangzhou, Zhejiang University, Hangzhou, 310027, People's Republic of China; Shen, Wei [Institute of Plasma Physics, Chinese Academy of Science, Hefei 230031, People's Republic of China

2017-01-01

Linear and nonlinear kinetic-MHD hybrid simulations have been carried out to investigate linear stability and nonlinear dynamics of beam-driven fishbone instability in spherical tokamak plasmas. Realistic NSTX parameters with finite toroidal rotation were used. The results show that the fishbone is driven by both trapped and passing particles. The instability drive of passing particles is comparable to that of trapped particles in the linear regime. The effects of rotation are destabilizing and a new region of instability appears at higher q min (>1.5) values, q min being the minimum of safety factor profile. In the nonlinear regime, the mode saturates due to flattening of beam ion distribution, and this persists after initial saturation while mode frequency chirps down in such a way that the resonant trapped particles move out radially and keep in resonance with the mode. Correspondingly, the flattening region of beam ion distribution expands radially outward. A substantial fraction of initially non-resonant trapped particles become resonant around the time of mode saturation and keep in resonance with the mode as frequency chirps down. On the other hand, the fraction of resonant passing particles is significantly smaller than that of trapped particles. Our analysis shows that trapped particles provide the main drive to the mode in the nonlinear regime.

Nonlinear fishbone dynamics in spherical tokamaks

DOE PAGES

Wang, Feng; Fu, G. Y.; Shen, Wei

2016-11-22

Linear and nonlinear kinetic-MHD hybrid simulations have been carried out to investigate linear stability and nonlinear dynamics of beam-driven fishbone instability in spherical tokamak plasmas. Realistic NSTX parameters with finite toroidal rotation were used. Our results show that the fishbone is driven by both trapped and passing particles. The instability drive of passing particles is comparable to that of trapped particles in the linear regime. The effects of rotation are destabilizing and a new region of instability appears at higher q min (>1.5) values, q min being the minimum of safety factor profile. In the nonlinear regime, the mode saturatesmore » due to flattening of beam ion distribution, and this persists after initial saturation while mode frequency chirps down in such a way that the resonant trapped particles move out radially and keep in resonance with the mode. Correspondingly, the flattening region of beam ion distribution expands radially outward. Furthermore, a substantial fraction of initially non-resonant trapped particles become resonant around the time of mode saturation and keep in resonance with the mode as frequency chirps down. On the other hand, the fraction of resonant passing particles is significantly smaller than that of trapped particles. Finally, our analysis shows that trapped particles provide the main drive to the mode in the nonlinear regime.« less

Single-molecule analysis of diffusion and trapping of STIM1 and Orai1 at endoplasmic reticulum–plasma membrane junctions

PubMed Central

Wu, Minnie M.; Covington, Elizabeth D.; Lewis, Richard S.

2014-01-01

Following endoplasmic reticulum (ER) Ca2+ depletion, STIM1 and Orai1 complexes assemble autonomously at ER–plasma membrane (PM) junctions to trigger store-operated Ca2+ influx. One hypothesis to explain this process is a diffusion trap in which activated STIM1 diffusing in the ER becomes trapped at junctions through interactions with the PM, and STIM1 then traps Orai1 in the PM through binding of its calcium release-activated calcium activation domain. We tested this model by analyzing STIM1 and Orai1 diffusion using single-particle tracking, photoactivation of protein ensembles, and Monte Carlo simulations. In resting cells, STIM1 diffusion is Brownian, while Orai1 is slightly subdiffusive. After store depletion, both proteins slow to the same speeds, consistent with complex formation, and are confined to a corral similar in size to ER–PM junctions. While the escape probability at high STIM:Orai expression ratios is <1%, it is significantly increased by reducing the affinity of STIM1 for Orai1 or by expressing the two proteins at comparable levels. Our results provide direct evidence that STIM-Orai complexes are trapped by their physical connections across the junctional gap, but also reveal that the complexes are surprisingly dynamic, suggesting that readily reversible binding reactions generate free STIM1 and Orai1, which engage in constant diffusional exchange with extrajunctional pools. PMID:25057023

Fast Transverse Beam Instability Caused by Electron Cloud Trapped in Combined Function Magnets

DOE Office of Scientific and Technical Information (OSTI.GOV)

Antipov, Sergey

Electron cloud instabilities affect the performance of many circular high-intensity particle accelerators. They usually have a fast growth rate and might lead to an increase of the transverse emittance and beam loss. A peculiar example of such an instability is observed in the Fermilab Recycler proton storage ring. Although this instability might pose a challenge for future intensity upgrades, its nature had not been completely understood. The phenomena has been studied experimentally by comparing the dynamics of stable and unstable beam, numerically by simulating the build-up of the electron cloud and its interaction with the beam, and analytically by constructing a model of an electron cloud driven instability with the electrons trapped in combined function dipoles. Stabilization of the beam by a clearing bunch reveals that the instability is caused by the electron cloud, trapped in beam optics magnets. Measurements of microwave propagation confirm the presence of the cloud in the combined function dipoles. Numerical simulations show that up to 10more » $$^{-2}$$ of the particles can be trapped by their magnetic field. Since the process of electron cloud build-up is exponential, once trapped this amount of electrons significantly increases the density of the cloud on the next revolution. In a combined function dipole this multi-turn accumulation allows the electron cloud reaching final intensities orders of magnitude greater than in a pure dipole. The estimated fast instability growth rate of about 30 revolutions and low mode frequency of 0.4 MHz are consistent with experimental observations and agree with the simulations. The created instability model allows investigating the beam stability for the future intensity upgrades.« less

Ultralow power trapping and fluorescence detection of single particles on an optofluidic chip.

PubMed

Kühn, S; Phillips, B S; Lunt, E J; Hawkins, A R; Schmidt, H

2010-01-21

The development of on-chip methods to manipulate particles is receiving rapidly increasing attention. All-optical traps offer numerous advantages, but are plagued by large required power levels on the order of hundreds of milliwatts and the inability to act exclusively on individual particles. Here, we demonstrate a fully integrated electro-optical trap for single particles with optical excitation power levels that are five orders of magnitude lower than in conventional optical force traps. The trap is based on spatio-temporal light modulation that is implemented using networks of antiresonant reflecting optical waveguides. We demonstrate the combination of on-chip trapping and fluorescence detection of single microorganisms by studying the photobleaching dynamics of stained DNA in E. coli bacteria. The favorable size scaling facilitates the trapping of single nanoparticles on integrated optofluidic chips.

Dynamical transition for a particle in a squared Gaussian potential

NASA Astrophysics Data System (ADS)

Touya, C.; Dean, D. S.

2007-02-01

We study the problem of a Brownian particle diffusing in finite dimensions in a potential given by ψ = phi2/2 where phi is Gaussian random field. Exact results for the diffusion constant in the high temperature phase are given in one and two dimensions and it is shown to vanish in a power-law fashion at the dynamical transition temperature. Our results are confronted with numerical simulations where the Gaussian field is constructed, in a standard way, as a sum over random Fourier modes. We show that when the number of Fourier modes is finite the low temperature diffusion constant becomes non-zero and has an Arrhenius form. Thus we have a simple model with a fully understood finite size scaling theory for the dynamical transition. In addition we analyse the nature of the anomalous diffusion in the low temperature regime and show that the anomalous exponent agrees with that predicted by a trap model.

Fast instability caused by electron cloud in combined function magnets

DOE PAGES

Antipov, S. A.; Adamson, P.; Burov, A.; ...

2017-04-10

One of the factors which may limit the intensity in the Fermilab Recycler is a fast transverse instability. It develops within a hundred turns and, in certain conditions, may lead to a beam loss. The high rate of the instability suggest that its cause is electron cloud. Here, we studied the phenomena by observing the dynamics of stable and unstable beam, simulating numerically the build-up of the electron cloud, and developed an analytical model of an electron cloud driven instability with the electrons trapped in combined function di-poles. We also found that beam motion can be stabilized by a clearingmore » bunch, which confirms the electron cloud nature of the instability. The clearing suggest electron cloud trapping in Recycler combined function mag-nets. Numerical simulations show that up to 1% of the particles can be trapped by the magnetic field. Since the process of electron cloud build-up is exponential, once trapped this amount of electrons significantly increases the density of the cloud on the next revolution. Furthermore, in a Recycler combined function dipole this multi-turn accumulation allows the electron cloud reaching final intensities orders of magnitude greater than in a pure dipole. The estimated resulting instability growth rate of about 30 revolutions and the mode fre-quency of 0.4 MHz are consistent with experimental observations and agree with the simulation in the PEI code. The created instability model allows investigating the beam stability for the future intensity upgrades.« less

Fast instability caused by electron cloud in combined function magnets

DOE Office of Scientific and Technical Information (OSTI.GOV)

Antipov, S. A.; Adamson, P.; Burov, A.

One of the factors which may limit the intensity in the Fermilab Recycler is a fast transverse instability. It develops within a hundred turns and, in certain conditions, may lead to a beam loss. The high rate of the instability suggest that its cause is electron cloud. Here, we studied the phenomena by observing the dynamics of stable and unstable beam, simulating numerically the build-up of the electron cloud, and developed an analytical model of an electron cloud driven instability with the electrons trapped in combined function di-poles. We also found that beam motion can be stabilized by a clearingmore » bunch, which confirms the electron cloud nature of the instability. The clearing suggest electron cloud trapping in Recycler combined function mag-nets. Numerical simulations show that up to 1% of the particles can be trapped by the magnetic field. Since the process of electron cloud build-up is exponential, once trapped this amount of electrons significantly increases the density of the cloud on the next revolution. Furthermore, in a Recycler combined function dipole this multi-turn accumulation allows the electron cloud reaching final intensities orders of magnitude greater than in a pure dipole. The estimated resulting instability growth rate of about 30 revolutions and the mode fre-quency of 0.4 MHz are consistent with experimental observations and agree with the simulation in the PEI code. The created instability model allows investigating the beam stability for the future intensity upgrades.« less

An investigation of the sites occupied by atomic barium in solid xenon—A 2D-EE luminescence spectroscopy and molecular dynamics study

NASA Astrophysics Data System (ADS)

Davis, Barry M.; Gervais, Benoit; McCaffrey, John G.

2018-03-01

A detailed characterisation of the luminescence recorded for the 6p 1P1-6s 1S0 transition of atomic barium isolated in annealed solid xenon has been undertaken using two-dimensional excitation-emission (2D-EE) spectroscopy. In the excitation spectra extracted from the 2D-EE scans, two dominant thermally stable sites were identified, consisting of a classic, three-fold split Jahn-Teller band, labeled the blue site, and an unusual asymmetric 2 + 1 split band, the violet site. A much weaker band has also been identified, whose emission is strongly overlapped by the violet site. The temperature dependence of the luminescence for these sites was monitored revealing that the blue site has a non-radiative channel competing effectively with the fluorescence even at 9.8 K. By contrast, the fluorescence decay time of the violet site was recorded to be 4.3 ns and independent of temperature up to 24 K. The nature of the dominant thermally stable trapping sites was investigated theoretically with Diatomics-in-Molecule (DIM) molecular dynamics simulations. The DIM model was parameterized with ab initio multi-reference configuration interaction calculations for the lowest energy excited states of the BaṡXe pair. The simulated absorption spectra are compared with the experimental results obtained from site-resolved excitation spectroscopy. The simulations allow us to assign the experimental blue feature spectrum to a tetra-vacancy trapping site in the bulk xenon fcc crystal—a site often observed when trapping other metal atoms in rare gas matrices. By contrast, the violet site is assigned to a specific 5-atom vacancy trapping site located at a grain boundary.

Structures and mechanisms in clay nanopore trapping of structurally-different fluoroquinolone antimicrobials.

PubMed

Okaikue-Woodi, Fanny E K; Kelch, Sabrina E; Schmidt, Michael P; Enid Martinez, Carmen; Youngman, Randall E; Aristilde, Ludmilla

2018-03-01

Smectite clay nanoparticles are implicated in the retention of antimicrobials within soils and sediments; these clays are also inspected as drug carriers in physiological systems. Cation exchange is considered the primary adsorption mechanism of antimicrobials within smectite nanopores. However, a dual role of acid-base chemistry and adsorptive structures is speculated by recent studies. Using the prototypical smectite clay montmorillonite, we employed a combination of X-ray diffraction (XRD), nuclear magnetic resonance, attenuated total reflectance-Fourier transform infrared spectroscopy, and molecular dynamics simulations to investigate the interlayer nanopore trapping of two structurally-different fluoroquinolone (FQ) antimicrobials with similar acid-base chemistry: ciprofloxacin (a first-generation FQ) and moxifloxacin (a third-generation FQ). Greater sorption at pH 5.0 than at pH 7.0 for both FQs was consistent with cation-exchange of positively-charged species. However, the clay exhibited a near twofold higher sorption capacity for moxifloxacin than for ciprofloxacin. This difference was shown by the XRD data to be accompanied by enhanced trapping of moxifloxacin within the clay interlayers. Using the XRD-determined nanopore sizes, we performed molecular dynamics simulations of thermodynamically-favorable model adsorbates, which revealed that ciprofloxacin was adsorbed parallel to the clay surface but moxifloxacin adopted a tilted conformation across the nanopore. These conformations resulted in more slowly-exchanged than quickly-exchanged Na complexes with ciprofloxacin compared with moxifloxacin. These different Na populations were also captured by 23 Na nuclear magnetic resonance. Furthermore, the simulated adsorbates uncovered different complexation interactions that were corroborated by infrared spectroscopy. Therefore, beyond acid-base chemistry, our findings imply that distinct adsorbate structures control antimicrobial trapping within clay nanopores, which can promote persistence in environmental matrices and stable delivery in biological systems. Copyright © 2017 Elsevier Inc. All rights reserved.

Mechanism of vaso-occlusion in sickle cell anemia

NASA Astrophysics Data System (ADS)

Lei, Huan; Karniadakis, George

2012-11-01

Vaso-occlusion crisis is one of the key hallmark of sickle cell anemia. While early studies suggested that the crisis is caused by blockage of a single elongated cell, recent experimental investigations indicate that vaso-occlusion is a complex process triggered by adhesive interactions among different cell groups in multiple stages. Based on dissipative particle dynamics, a multi-scale model for the sickle red blood cells (SS-RBCs), accounting for diversity in both shapes and cell rigidities, is developed to investigate the mechanism of vaso-occlusion crisis. Using this model, the adhesive dynamics of single SS-RBC was investigated in arterioles. Simulation results indicate that the different cell groups (deformable SS2 RBCs, rigid SS4 RBCs, leukocytes, etc.) exhibit heterogeneous adhesive behavior due to the different cell morphologies and membrane rigidities. We further simulate the tube flow of SS-RBC suspensions with different cell fractions. The more adhesive SS2 cells interact with the vascular endothelium and further trap rigid SS4 cells, resulting in vaso-occlusion in vessels less than 15 μm . Under inflammation, adherent leukocytes may also trap SS4 cells, resulting in vaso-occlusion in even larger vessels. This work was supported by the NSF grant CBET-0852948 and the NIH grant R01HL094270.

Evolution of colloidal dispersions in novel time-varying optical potentials

NASA Astrophysics Data System (ADS)

Koss, Brian Alan

Optical traps use forces exerted by a tightly focused light beam to trap objects from tens of nanometers to tens of micrometers in size. Since their introduction in 1986, optical tweezers have become very useful to biology, chemistry, and soft condensed-matter physics. Work presented here, promises to advance optical tweezers not only in fundamental scientific research, but also in applications outside of the laboratory and into the mainstream of miniaturized manufacturing and diagnostics. By providing unprecedented access to the mesoscopic world, a new generation of optical traps, called Dynamic Holographic Optical Tweezers (HOTs) offers revolutionary new opportunities for fundamental and applied research. To demonstrate this technique, HOTs will be used to pump particles via a new method of transport called Optical Peristalsis (OP). OP is efficient method for transporting mesoscopic objects in three dimensions using short repetitive sequences of holographic optical trapping patterns. Transport in this process is analogous to peristaltic pumping, with the configurations of optical traps mimicking states of a peristaltic pump. While not limited to the deterministic particle transport, OP, can also be a platform to investigate the stochastic limit of particle transport. Advances in recent years have demonstrated that a variety of time-varying perturbations can induce drift in a diffusive system without exerting an overall force. Among these, are thermal ratchet models in which the system is subjected to time-varying energy landscapes that break spatiotemporal symmetry and thereby induce drift. Typically, the potential energy landscape is chosen to be the sawtooth potential. This work describes an alternate class of symmetric thermal ratchet models, that are not sawtooth, and demonstrates their efficacy in biasing the diffusion of colloidal spheres in both the stochastic and deterministic limits. Unlike previous models, each state in this thermal ratchet consists of discrete spatially-symmetric potential wells, which are implemented with an array of HOTs.

Fractional Poisson-Nernst-Planck Model for Ion Channels I: Basic Formulations and Algorithms.

PubMed

Chen, Duan

2017-11-01

In this work, we propose a fractional Poisson-Nernst-Planck model to describe ion permeation in gated ion channels. Due to the intrinsic conformational changes, crowdedness in narrow channel pores, binding and trapping introduced by functioning units of channel proteins, ionic transport in the channel exhibits a power-law-like anomalous diffusion dynamics. We start from continuous-time random walk model for a single ion and use a long-tailed density distribution function for the particle jump waiting time, to derive the fractional Fokker-Planck equation. Then, it is generalized to the macroscopic fractional Poisson-Nernst-Planck model for ionic concentrations. Necessary computational algorithms are designed to implement numerical simulations for the proposed model, and the dynamics of gating current is investigated. Numerical simulations show that the fractional PNP model provides a more qualitatively reasonable match to the profile of gating currents from experimental observations. Meanwhile, the proposed model motivates new challenges in terms of mathematical modeling and computations.

Counter-diabatic driving for Dirac dynamics

NASA Astrophysics Data System (ADS)

Fan, Qi-Zhen; Cheng, Xiao-Hang; Chen, Xi

2018-03-01

In this paper, we investigate the fast quantum control of Dirac equation dynamics by counter-diabatic driving, sharing the concept of shortcut to adiabaticity. We systematically calculate the counter-diabatic terms in different Dirac systems, like graphene and trapped ions. Specially, the fast and robust population inversion processes are achieved in Dirac system, taking into account the quantum simulation with trapped ions. In addition, the population transfer between two bands can be suppressed by counter-diabatic driving in graphene system, which might have potential applications in opt-electric devices.

Developing Capture Mechanisms and High-Fidelity Dynamic Models for the MXER Tether System

NASA Technical Reports Server (NTRS)

Canfield, Steven L.

2007-01-01

A team consisting of collaborators from Tennessee Technological University (TTU), Marshall Space Flight Center, BD Systems, and the University of Delaware (herein called the TTU team) conducted specific research and development activities in MXER tether systems during the base period of May 15, 2004 through September 30, 2006 under contract number NNM04AB13C. The team addressed two primary topics related to the MXER tether system: 1) Development of validated high-fidelity dynamic models of an elastic rotating tether and 2) development of feasible mechanisms to enable reliable rendezvous and capture. This contractor report will describe in detail the activities that were performed during the base period of this cycle-2 MXER tether activity and will summarize the results of this funded activity. The primary deliverables of this project were the quad trap, a robust capture mechanism proposed, developed, tested, and demonstrated with a high degree of feasibility and the detailed development of a validated high-fidelity elastic tether dynamic model provided through multiple formulations.

Dynamic regime of coherent population trapping and optimization of frequency modulation parameters in atomic clocks.

PubMed

Yudin, V I; Taichenachev, A V; Basalaev, M Yu; Kovalenko, D V

2017-02-06

We theoretically investigate the dynamic regime of coherent population trapping (CPT) in the presence of frequency modulation (FM). We have formulated the criteria for quasi-stationary (adiabatic) and dynamic (non-adiabatic) responses of atomic system driven by this FM. Using the density matrix formalism for Λ system, the error signal is exactly calculated and optimized. It is shown that the optimal FM parameters correspond to the dynamic regime of atomic-field interaction, which significantly differs from conventional description of CPT resonances in the frame of quasi-stationary approach (under small modulation frequency). Obtained theoretical results are in good qualitative agreement with different experiments. Also we have found CPT-analogue of Pound-Driver-Hall regime of frequency stabilization.

Slow quench dynamics of a one-dimensional Bose gas confined to an optical lattice.

PubMed

Bernier, Jean-Sébastien; Roux, Guillaume; Kollath, Corinna

2011-05-20

We analyze the effect of a linear time variation of the interaction strength on a trapped one-dimensional Bose gas confined to an optical lattice. The evolution of different observables such as the experimentally accessible on site particle distribution are studied as a function of the ramp time by using time-dependent numerical techniques. We find that the dynamics of a trapped system typically displays two regimes: For long ramp times, the dynamics is governed by density redistribution, while at short ramp times, local dynamics dominates as the evolution is identical to that of an homogeneous system. In the homogeneous limit, we also discuss the nontrivial scaling of the energy absorbed with the ramp time.

A hierarchical model for estimating the spatial distribution and abundance of animals detected by continuous-time recorders

USGS Publications Warehouse

Dorazio, Robert; Karanth, K. Ullas

2017-01-01

MotivationSeveral spatial capture-recapture (SCR) models have been developed to estimate animal abundance by analyzing the detections of individuals in a spatial array of traps. Most of these models do not use the actual dates and times of detection, even though this information is readily available when using continuous-time recorders, such as microphones or motion-activated cameras. Instead most SCR models either partition the period of trap operation into a set of subjectively chosen discrete intervals and ignore multiple detections of the same individual within each interval, or they simply use the frequency of detections during the period of trap operation and ignore the observed times of detection. Both practices make inefficient use of potentially important information in the data.Model and data analysisWe developed a hierarchical SCR model to estimate the spatial distribution and abundance of animals detected with continuous-time recorders. Our model includes two kinds of point processes: a spatial process to specify the distribution of latent activity centers of individuals within the region of sampling and a temporal process to specify temporal patterns in the detections of individuals. We illustrated this SCR model by analyzing spatial and temporal patterns evident in the camera-trap detections of tigers living in and around the Nagarahole Tiger Reserve in India. We also conducted a simulation study to examine the performance of our model when analyzing data sets of greater complexity than the tiger data.BenefitsOur approach provides three important benefits: First, it exploits all of the information in SCR data obtained using continuous-time recorders. Second, it is sufficiently versatile to allow the effects of both space use and behavior of animals to be specified as functions of covariates that vary over space and time. Third, it allows both the spatial distribution and abundance of individuals to be estimated, effectively providing a species distribution model, even in cases where spatial covariates of abundance are unknown or unavailable. We illustrated these benefits in the analysis of our data, which allowed us to quantify differences between nocturnal and diurnal activities of tigers and to estimate their spatial distribution and abundance across the study area. Our continuous-time SCR model allows an analyst to specify many of the ecological processes thought to be involved in the distribution, movement, and behavior of animals detected in a spatial trapping array of continuous-time recorders. We plan to extend this model to estimate the population dynamics of animals detected during multiple years of SCR surveys.

Modeling ductile metals under large strain, pressure and high strain rate incorporating damage and microstructure evolution

NASA Astrophysics Data System (ADS)

Iannitti, Gianluca; Bonora, Nicola; Ruggiero, Andrew; Dichiaro, Simone

2012-03-01

In this work, a constitutive modeling that couples plasticity, grain size evolution (due to plastic deformation and dynamic recrystallization) and ductile damage has been developed. The effect of grain size on the material yield stress (Hall-Petch) and on the melting temperature has been considered. The model has been used to investigate computationally the behavior of high purity copper in dynamic tensile extrusion test (DTE). An extensive numerical simulation work, using implicit finite element code with direct integration, has been performed and the results have been compared with available experimental data. The major finding is that the proposed model is capable to predict most of the observed features such as the increase of material ductility with the decreasing average grain size, the overall number and size of fragments and the average grain size distribution in the fragment trapped into the dime.

Modeling ductile metals under large strain, pressure and high strain rates incorporating damage and microstructure evolution

NASA Astrophysics Data System (ADS)

Iannitti, Gianluca; Bonora, Nicola; Ruggiero, Andrew; Dichiaro, Simone

2011-06-01

In this work, a constitutive modeling that couples plasticity, grain size evolution (due to plastic deformation and dynamic recrystallization) and ductile damage has been developed. The effect of grain size on the material yield stress (Hall-Petch) and on the melting temperature has been considered. The model has been used to investigate computationally the behaviour of high purity copper in dynamic tensile extrusion test (DTE). An extensive numerical simulation work, using implicit finite element code with direct integration, has been performed and the results have been compared with available experimental data. The major finding is that the proposed model is capable to predict most of the observed features such as the increase of material ductility with the decreasing average grain size, the overall number and size of fragments and the average grain size distribution in the fragment trapped into the dime.

Time Serial Analysis of the Induced LEO Environment within the ISS 6A

NASA Technical Reports Server (NTRS)

Wilson, John W.; Nealy, John E.; Tomov, B. T.; Cucinotta, Francis A.; Badavi, Frank F.; DeAngelis, Giovanni; Atwell, William; Leutke, N.

2006-01-01

Anisotropies in the low Earth orbit (LEO) radiation environment were found to influence the thermoluminescence detectors (TLD) dose within the (International Space Station) ISS 7A Service Module. Subsequently, anisotropic environmental models with improved dynamic time extrapolation have been developed including westward and northern drifts using AP8 Min & Max as estimates of the historic spatial distribution of trapped protons in the 1965 and 1970 era, respectively. In addition, a directional dependent geomagnetic cutoff model was derived for geomagnetic field configurations from the 1945 to 2020 time frame. A dynamic neutron albedo model based on our atmospheric radiation studies has likewise been required to explain LEO neutron measurements. The simultaneous measurements of dose and dose rate using four Liulin instruments at various locations in the US LAB and Node 1 has experimentally demonstrated anisotropic effects in ISS 6A and are used herein to evaluate the adequacy of these revised environmental models.

Atomic quantum simulation of the lattice gauge-Higgs model: Higgs couplings and emergence of exact local gauge symmetry.

PubMed

Kasamatsu, Kenichi; Ichinose, Ikuo; Matsui, Tetsuo

2013-09-13

Recently, the possibility of quantum simulation of dynamical gauge fields was pointed out by using a system of cold atoms trapped on each link in an optical lattice. However, to implement exact local gauge invariance, fine-tuning the interaction parameters among atoms is necessary. In the present Letter, we study the effect of violation of the U(1) local gauge invariance by relaxing the fine-tuning of the parameters and showing that a wide variety of cold atoms is still a faithful quantum simulator for a U(1) gauge-Higgs model containing a Higgs field sitting on sites. The clarification of the dynamics of this gauge-Higgs model sheds some light upon various unsolved problems, including the inflation process of the early Universe. We study the phase structure of this model by Monte Carlo simulation and also discuss the atomic characteristics of the Higgs phase in each simulator.

Excitation of transverse dipole and quadrupole modes in a pure ion plasma in a linear Paul trap to study collective processes in intense beams

DOE Office of Scientific and Technical Information (OSTI.GOV)

Gilson, Erik P.; Davidson, Ronald C.; Efthimion, Philip C.

Transverse dipole and quadrupole modes have been excited in a one-component cesium ion plasma trapped in the Paul Trap Simulator Experiment (PTSX) in order to characterize their properties and understand the effect of their excitation on equivalent long-distance beam propagation. The PTSX device is a compact laboratory Paul trap that simulates the transverse dynamics of a long, intense charge bunch propagating through an alternating-gradient transport system by putting the physicist in the beam's frame of reference. A pair of arbitrary function generators was used to apply trapping voltage waveform perturbations with a range of frequencies and, by changing which electrodesmore » were driven with the perturbation, with either a dipole or quadrupole spatial structure. The results presented in this paper explore the dependence of the perturbation voltage's effect on the perturbation duration and amplitude. Perturbations were also applied that simulate the effect of random lattice errors that exist in an accelerator with quadrupole magnets that are misaligned or have variance in their field strength. The experimental results quantify the growth in the equivalent transverse beam emittance that occurs due to the applied noise and demonstrate that the random lattice errors interact with the trapped plasma through the plasma's internal collective modes. Coherent periodic perturbations were applied to simulate the effects of magnet errors in circular machines such as storage rings. The trapped one component plasma is strongly affected when the perturbation frequency is commensurate with a plasma mode frequency. The experimental results, which help to understand the physics of quiescent intense beam propagation over large distances, are compared with analytic models.« less

A 3-D model of tumor progression based on complex automata driven by particle dynamics.

PubMed

Wcisło, Rafał; Dzwinel, Witold; Yuen, David A; Dudek, Arkadiusz Z

2009-12-01

The dynamics of a growing tumor involving mechanical remodeling of healthy tissue and vasculature is neglected in most of the existing tumor models. This is due to the lack of efficient computational framework allowing for simulation of mechanical interactions. Meanwhile, just these interactions trigger critical changes in tumor growth dynamics and are responsible for its volumetric and directional progression. We describe here a novel 3-D model of tumor growth, which combines particle dynamics with cellular automata concept. The particles represent both tissue cells and fragments of the vascular network. They interact with their closest neighbors via semi-harmonic central forces simulating mechanical resistance of the cell walls. The particle dynamics is governed by both the Newtonian laws of motion and the cellular automata rules. These rules can represent cell life-cycle and other biological interactions involving smaller spatio-temporal scales. We show that our complex automata, particle based model can reproduce realistic 3-D dynamics of the entire system consisting of the tumor, normal tissue cells, blood vessels and blood flow. It can explain phenomena such as the inward cell motion in avascular tumor, stabilization of tumor growth by the external pressure, tumor vascularization due to the process of angiogenesis, trapping of healthy cells by invading tumor, and influence of external (boundary) conditions on the direction of tumor progression. We conclude that the particle model can serve as a general framework for designing advanced multiscale models of tumor dynamics and it is very competitive to the modeling approaches presented before.

Chaos in plasma simulation and experiment

DOE Office of Scientific and Technical Information (OSTI.GOV)

Watts, C.; Newman, D.E.; Sprott, J.C.

1993-09-01

We investigate the possibility that chaos and simple determinism are governing the dynamics of reversed field pinch (RFP) plasmas using data from both numerical simulations and experiment. A large repertoire of nonlinear analysis techniques is used to identify low dimensional chaos. These tools include phase portraits and Poincard sections, correlation dimension, the spectrum of Lyapunov exponents and short term predictability. In addition, nonlinear noise reduction techniques are applied to the experimental data in an attempt to extract any underlying deterministic dynamics. Two model systems are used to simulate the plasma dynamics. These are -the DEBS code, which models global RFPmore » dynamics, and the dissipative trapped electron mode (DTEM) model, which models drift wave turbulence. Data from both simulations show strong indications of low,dimensional chaos and simple determinism. Experimental data were obtained from the Madison Symmetric Torus RFP and consist of a wide array of both global and local diagnostic signals. None of the signals shows any indication of low dimensional chaos or other simple determinism. Moreover, most of the analysis tools indicate the experimental system is very high dimensional with properties similar to noise. Nonlinear noise reduction is unsuccessful at extracting an underlying deterministic system.« less

DOE Office of Scientific and Technical Information (OSTI.GOV)

Herbrych, Jacek W.; Feiguin, Adrian E.; Dagotto, Elbio R.

Here, we present a time-dependent density-matrix renormalization group investigation of the quantum distillation process within the Fermi-Hubbard model on a quasi-one-dimensional ladder geometry. The term distillation refers to the dynamical, spatial separation of singlons and doublons in the sudden expansion of interacting particles in an optical lattice, i.e., the release of a cloud of atoms from a trapping potential. Remarkably, quantum distillation can lead to a contraction of the doublon cloud, resulting in an increased density of the doublons in the core region compared to the initial state. As a main result, we show that this phenomenon is not limitedmore » to chains that were previously studied. Interestingly, there are additional dynamical processes on the two-leg ladder such as density oscillations and self-trapping of defects that lead to a less efficient distillation process. An investigation of the time evolution starting from product states provides an explanation for this behavior. Initial product states are also considered since in optical lattice experiments, such states are often used as the initial setup. We propose configurations that lead to a fast and efficient quantum distillation.« less

Trapped surfaces and emergent curved space in the Bose-Hubbard model

NASA Astrophysics Data System (ADS)

Caravelli, Francesco; Hamma, Alioscia; Markopoulou, Fotini; Riera, Arnau

2012-02-01

A Bose-Hubbard model on a dynamical lattice was introduced in previous work as a spin system analogue of emergent geometry and gravity. Graphs with regions of high connectivity in the lattice were identified as candidate analogues of spacetime geometries that contain trapped surfaces. We carry out a detailed study of these systems and show explicitly that the highly connected subgraphs trap matter. We do this by solving the model in the limit of no back-reaction of the matter on the lattice, and for states with certain symmetries that are natural for our problem. We find that in this case the problem reduces to a one-dimensional Hubbard model on a lattice with variable vertex degree and multiple edges between the same two vertices. In addition, we obtain a (discrete) differential equation for the evolution of the probability density of particles which is closed in the classical regime. This is a wave equation in which the vertex degree is related to the local speed of propagation of probability. This allows an interpretation of the probability density of particles similar to that in analogue gravity systems: matter inside this analogue system sees a curved spacetime. We verify our analytic results by numerical simulations. Finally, we analyze the dependence of localization on a gradual, rather than abrupt, falloff of the vertex degree on the boundary of the highly connected region and find that matter is localized in and around that region.

Density estimation in a wolverine population using spatial capture-recapture models

USGS Publications Warehouse

Royle, J. Andrew; Magoun, Audrey J.; Gardner, Beth; Valkenbury, Patrick; Lowell, Richard E.; McKelvey, Kevin

2011-01-01

Classical closed-population capture-recapture models do not accommodate the spatial information inherent in encounter history data obtained from camera-trapping studies. As a result, individual heterogeneity in encounter probability is induced, and it is not possible to estimate density objectively because trap arrays do not have a well-defined sample area. We applied newly-developed, capture-recapture models that accommodate the spatial attribute inherent in capture-recapture data to a population of wolverines (Gulo gulo) in Southeast Alaska in 2008. We used camera-trapping data collected from 37 cameras in a 2,140-km2 area of forested and open habitats largely enclosed by ocean and glacial icefields. We detected 21 unique individuals 115 times. Wolverines exhibited a strong positive trap response, with an increased tendency to revisit previously visited traps. Under the trap-response model, we estimated wolverine density at 9.7 individuals/1,000-km2(95% Bayesian CI: 5.9-15.0). Our model provides a formal statistical framework for estimating density from wolverine camera-trapping studies that accounts for a behavioral response due to baited traps. Further, our model-based estimator does not have strict requirements about the spatial configuration of traps or length of trapping sessions, providing considerable operational flexibility in the development of field studies.

An experimental approach to identify dynamical models of transcriptional regulation in living cells

NASA Astrophysics Data System (ADS)

Fiore, G.; Menolascina, F.; di Bernardo, M.; di Bernardo, D.

2013-06-01

We describe an innovative experimental approach, and a proof of principle investigation, for the application of System Identification techniques to derive quantitative dynamical models of transcriptional regulation in living cells. Specifically, we constructed an experimental platform for System Identification based on a microfluidic device, a time-lapse microscope, and a set of automated syringes all controlled by a computer. The platform allows delivering a time-varying concentration of any molecule of interest to the cells trapped in the microfluidics device (input) and real-time monitoring of a fluorescent reporter protein (output) at a high sampling rate. We tested this platform on the GAL1 promoter in the yeast Saccharomyces cerevisiae driving expression of a green fluorescent protein (Gfp) fused to the GAL1 gene. We demonstrated that the System Identification platform enables accurate measurements of the input (sugars concentrations in the medium) and output (Gfp fluorescence intensity) signals, thus making it possible to apply System Identification techniques to obtain a quantitative dynamical model of the promoter. We explored and compared linear and nonlinear model structures in order to select the most appropriate to derive a quantitative model of the promoter dynamics. Our platform can be used to quickly obtain quantitative models of eukaryotic promoters, currently a complex and time-consuming process.

Watching Single Enzymes and Fluorescent Proteins in Action in Solution Using a Microfluidic Trap

NASA Astrophysics Data System (ADS)

Goldsmith, Randall

2012-02-01

Observation of dynamics of single biomolecules over a prolonged time without altering the biomolecule via immobilization is achieved with a specialized microfluidic device. This device, the Anti-Brownian ELectrokinetic (ABEL) Trap, uses real-time electrokinetic feedback to cancel Brownian motion of single objects in solution. First, we use the ABEL Trap to study Allophycocyanin (APC), a photosynthetic antenna-protein and popular fluorescent probe. A complex relationship between fluorescence intensity and lifetime is observed, suggesting light-induced conformational changes and radiative and non-radiative rate fluctuations. Second, we apply the ABEL Trap to single molecules of the multi-copper enzyme blue Nitrite Reductase where a fluorescent label reports on the oxidation state of the Type I Copper. Redox cycling is observed and kinetic analysis allows extraction of the microscopic rate constants in the kinetic scheme. Evidence of a substrate-induced shift of the intramolecular electron transfer rate is seen. Taken together, these observations provide windows of unprecedented detail into the dynamics of solution-phase biomolecules.

Seasonal dynamics of three insect pests in the cabbage field in central Slovenia.

PubMed

Trdan, Stanislav; Vidrih, Matej; Bobnar, Aleksander

2008-01-01

From the beginning of April until the beginning of November 2006, a seasonal dynamics of three harmful insect species--Swede midge (Contarinia nasturtii [Kieffer], Diptera, Cecidomyiidae), flea beetles (Phyllotreta spp., Coleoptera, Chrysomelidae), and diamondback moth (Plutella xylostella [L.], Lepidoptera, Plutellidae)--was investigated at the Laboratory Field of the Biotechnical Faculty in Ljubljana (Slovenia). The males were monitored with pheromone traps; the males of Swede midge were trapped with the traps of Swiss producer (Agroscope FAW, Wädenswill), while the adult flea beetles (trap type KLP+) and diamondback moths (trap type RAG) were trapped with the Hungarian traps (Plant Protection Institute, Hungarian Academy of Sciences). The pheromone capsules were changed in 4-week intervals, while the males were counted on about every 7th day. The first massive occurrence of diamondback moth (1.6 males/trap/day) was established in the second 10 days period of April, and the pest remained active until the 2nd 10 days period of September. The adults were the most numerous in the period between the end of May until the middle of June, but even then their number did not exceed three males caught per day. In the first 10 days period of May, the first adult flea beetles were recorded in the pheromone traps, while their notable number (0.8 males/trap/day) was stated in the third 10 days period of May. Absolutely the highest number of the beetles was recorded in the second (19 adults/trap/day) and in the third (25 adults/trap/day) 10 days of July, and the pest occurred until the beginning of October. The first massive occurrence of Swede midge (0.4 males/trap/day) was established in the second 10 days period of May, while the highest number of males (8/trap/day) were caught in the second 10 days period of July. In the third 10 days period of October, the last adults were found in the traps. Based on the results of monitoring of three cabbage insect pests we ascertained that in the central Slovenia the Swede midge has 3-4 generations, the flea beetles has 1-2 generations, and the diamondback moth has 4 generations.

Integrated Pest Management in a Predator-Prey System with Allee Effects.

PubMed

Costa, M I S; dos Anjos, L

2015-08-01

A commonly used biocontrol strategy to control invasive pests with Allee effects consists of the deliberate introduction of natural enemies. To enhance the effectiveness of this strategy, several tactics of control of invasive species (e.g., mass-trapping, manual removal of individuals, and pesticide spraying) are combined so as to impair pest outbreaks. This combination of strategies to control pest species dynamics are usually named integrated pest management (IPM). In this work, we devise a predator-prey dynamical model in order to assess the influence of the intensity of chemical killing on the success of an IPM. The biological and mathematical framework presented in this study can also be analyzed in the light of species conservation and food web dynamics theory.

Non-equilibrium thermodynamics of harmonically trapped bosons

NASA Astrophysics Data System (ADS)

Ángel García-March, Miguel; Fogarty, Thomás; Campbell, Steve; Busch, Thomas; Paternostro, Mauro

2016-10-01

We apply the framework of non-equilibrium quantum thermodynamics to the physics of quenched small-sized bosonic quantum gases in a one-dimensional harmonic trap. We show that dynamical orthogonality can occur in these few-body systems with strong interactions after a quench and we find its occurrence analytically for an infinitely repulsive pair of atoms. We further show this phenomena is related to the fundamental excitations that dictate the dynamics from the spectral function. We establish a clear qualitative link between the amount of (irreversible) work performed on the system and the establishment of entanglement. We extend our analysis to multipartite systems by examining the case of three trapped atoms. We show the initial (pre-quench) interactions play a vital role in determining the dynamical features, while the qualitative features of the two particle case appear to remain valid. Finally, we propose the use of the atomic density profile as a readily accessible indicator of the non-equilibrium properties of the systems in question.

Intermediate-Scale Investigation of Capillary and Dissolution Trapping during CO2 Injection and Post-Injection in Heterogeneous Geological Formations

NASA Astrophysics Data System (ADS)

Cihan, A.; Illangasekare, T. H.; Zhou, Q.; Birkholzer, J. T.; Rodriguez, D.

2010-12-01

The capillary and dissolution trapping processes are believed to be major trapping mechanisms during CO2 injection and post-injection in heterogeneous subsurface environments. These processes are important at relatively shorter time periods compared to mineralization and have a strong impact on storage capacity and leakage risks, and they are suitable to investigate at reasonable times in the laboratory. The objectives of the research presented is to investigate the effect of the texture transitions and variability in heterogeneous field formations on the effective capillary and dissolution trapping at the field scale through multistage analysis comprising of experimental and modeling studies. A series of controlled experiments in intermediate-scale test tanks are proposed to investigate the key processes involving (1) viscous fingering of free-phase CO2 along high-permeability (or high-K) fast flow pathways, (2) dynamic intrusion of CO2 from high-K zones into low-K zones by capillarity (as well as buoyancy), (3) diffusive transport of dissolved CO2 into low-K zones across large interface areas, and (4) density-driven convective mass transfer into CO2-free regions. The test tanks contain liquid sampling ports to measure spatial and temporal changes in concentration of dissolved fluid as the injected fluid migrates. In addition to visualization and capturing images through digital photography, X-ray and gamma attenuation methods are used to measure phase saturations. Heterogeneous packing configurations are created with tightly packed sands ranging from very fine to medium fine to mimic sedimentary rocks at potential storage formations. Effect of formation type, injection pressure and injection rate on trapped fluid fraction are quantified. Macroscopic variables such as saturation, pressure and concentration that are measured will be used for testing the existing macroscopic models. The applicability of multiphase flow theories will be evaluated by comparing with the experimental data. Existing upscaling methodologies will be tested using experimental data for accurately estimating parameters of the large-scale heterogeneous porous media. This paper presents preliminary results from the initial-stage experiments and the modeling analysis. In the future, we will design and conduct a comprehensive set of experiments for improving the fundamental understanding of the processes, and refine and calibrate the models simulating the effective capillary and dissolution trapping with an ultimate goal to design efficient and safe storage schemes.

A versatile strategy for gene trapping and trap conversion in emerging model organisms.

PubMed

Kontarakis, Zacharias; Pavlopoulos, Anastasios; Kiupakis, Alexandros; Konstantinides, Nikolaos; Douris, Vassilis; Averof, Michalis

2011-06-01

Genetic model organisms such as Drosophila, C. elegans and the mouse provide formidable tools for studying mechanisms of development, physiology and behaviour. Established models alone, however, allow us to survey only a tiny fraction of the morphological and functional diversity present in the animal kingdom. Here, we present iTRAC, a versatile gene-trapping approach that combines the implementation of unbiased genetic screens with the generation of sophisticated genetic tools both in established and emerging model organisms. The approach utilises an exon-trapping transposon vector that carries an integrase docking site, allowing the targeted integration of new constructs into trapped loci. We provide proof of principle for iTRAC in the emerging model crustacean Parhyale hawaiensis: we generate traps that allow specific developmental and physiological processes to be visualised in unparalleled detail, we show that trapped genes can be easily cloned from an unsequenced genome, and we demonstrate targeting of new constructs into a trapped locus. Using this approach, gene traps can serve as platforms for generating diverse reporters, drivers for tissue-specific expression, gene knockdown and other genetic tools not yet imagined.

``Particle traps'' at planet gap edges in disks: effects of grain growth and fragmentation

NASA Astrophysics Data System (ADS)

Gonzalez, J.-F.; Laibe, G.; Maddison, S. T.; Pinte, C.; Ménard, F.

2014-12-01

We model the dust evolution in protoplanetary disks (PPD) with 3D, Smoothed Particle Hydrodynamics (SPH), two-phase (gas+dust) hydrodynamical simulations. The gas+dust dynamics, where aerodynamic drag leads to the vertical settling and radial migration of grains, is consistently treated. In a previous work, we characterized the spatial distribution of non-growing dust grains of different sizes in a disk containing a gap-opening planet and investigated the gap's detectability with ALMA. Here we take into account the effects of grain growth and fragmentation and study their impact on the distribution of solids in the disk. We show that rapid grain growth in the ``particle traps'' at the edges of planet gaps are strongly affected by fragmentation. We discuss the consequences for ALMA and NOEMA observations.

Rapid crystallization of externally produced ions in a Penning trap

NASA Astrophysics Data System (ADS)

Murböck, T.; Schmidt, S.; Birkl, G.; Nörtershäuser, W.; Thompson, R. C.; Vogel, M.

2016-10-01

We have studied the cooling dynamics, formation process, and geometric structure of mesoscopic crystals of externally produced magnesium ions in a Penning trap. We present a cooling model and measurements for a combination of buffer gas cooling and laser cooling which has been found to reduce the ion kinetic energy by eight orders of magnitude from several hundreds of eV to μ eV and below within seconds. With ion numbers of the order of 1 ×103 to 1 ×105 , such cooling leads to the formation of ion Coulomb crystals which display a characteristic shell structure in agreement with the theory of non-neutral plasmas. We show the production and characterization of two-species ion crystals as a means of sympathetic cooling of ions lacking a suitable laser-cooling transition.

Trap configuration and spacing influences parameter estimates in spatial capture-recapture models

USGS Publications Warehouse

Sun, Catherine C.; Fuller, Angela K.; Royle, J. Andrew

2014-01-01

An increasing number of studies employ spatial capture-recapture models to estimate population size, but there has been limited research on how different spatial sampling designs and trap configurations influence parameter estimators. Spatial capture-recapture models provide an advantage over non-spatial models by explicitly accounting for heterogeneous detection probabilities among individuals that arise due to the spatial organization of individuals relative to sampling devices. We simulated black bear (Ursus americanus) populations and spatial capture-recapture data to evaluate the influence of trap configuration and trap spacing on estimates of population size and a spatial scale parameter, sigma, that relates to home range size. We varied detection probability and home range size, and considered three trap configurations common to large-mammal mark-recapture studies: regular spacing, clustered, and a temporal sequence of different cluster configurations (i.e., trap relocation). We explored trap spacing and number of traps per cluster by varying the number of traps. The clustered arrangement performed well when detection rates were low, and provides for easier field implementation than the sequential trap arrangement. However, performance differences between trap configurations diminished as home range size increased. Our simulations suggest it is important to consider trap spacing relative to home range sizes, with traps ideally spaced no more than twice the spatial scale parameter. While spatial capture-recapture models can accommodate different sampling designs and still estimate parameters with accuracy and precision, our simulations demonstrate that aspects of sampling design, namely trap configuration and spacing, must consider study area size, ranges of individual movement, and home range sizes in the study population.

Local and global bifurcations in an economic growth model with endogenous labour supply and multiplicative external habits

NASA Astrophysics Data System (ADS)

Gori, Luca; Sodini, Mauro

2014-03-01

This paper analyses the mathematical properties of an economic growth model with overlapping generations, endogenous labour supply, and multiplicative external habits. The dynamics of the economy is characterised by a two-dimensional map describing the time evolution of capital and labour supply. We show that if the relative importance of external habits in the utility function is sufficiently high, multiple (determinate or indeterminate) fixed points and poverty traps can exist. In addition, periodic or quasiperiodic behaviour and/or coexistence of attractors may occur.

Water security, risk, and economic growth: Insights from a dynamical systems model

NASA Astrophysics Data System (ADS)

Dadson, Simon; Hall, Jim W.; Garrick, Dustin; Sadoff, Claudia; Grey, David; Whittington, Dale

2017-08-01

Investments in the physical infrastructure, human capital, and institutions needed for water resources management have been noteworthy in the development of most civilizations. These investments affect the economy in two distinct ways: (i) by improving the factor productivity of water in multiple economic sectors, especially those that are water intensive such as agriculture and energy and (ii) by reducing acute and chronic harmful effects of water-related hazards like floods, droughts, and water-related diseases. The need for capital investment to mitigate risks and promote economic growth is widely acknowledged, but prior conceptual work on the relationship between water-related investments and economic growth has focused on the productive and harmful roles of water in the economy independently. Here the two influences are combined using a simple, dynamical systems model of water-related investment, risk, and growth. In cases where initial water security is low, initial investment in water-related assets enables growth. Without such investment, losses due to water-related hazards exert a drag on economic growth and may create a poverty trap. The presence and location of the poverty trap is context-specific and depends on the exposure of productive water-related assets to water-related risk. Exogenous changes in water-related risk can potentially push an economy away from a growth path toward a poverty trap. Our investigation shows that an inverted-U-shaped investment relation between the level of investment in water security and the current level of water security leads to faster rates of growth than the alternatives that we consider here, and that this relation is responsible for the "S"-curve that is posited in the literature. These results illustrate the importance of accounting for environmental and health risks in economic models and offer insights for the design of robust policies for investment in water-related productive assets to manage risk, in the face of environmental change.

Dark optical lattice of ring traps for cold atoms

NASA Astrophysics Data System (ADS)

Courtade, Emmanuel; Houde, Olivier; Clément, Jean-François; Verkerk, Philippe; Hennequin, Daniel

2006-09-01

We propose an optical lattice for cold atoms made of a one-dimensional stack of dark ring traps. It is obtained through the interference pattern of a standard Gaussian beam with a counterpropagating hollow beam obtained using a setup with two conical lenses. The traps of the resulting lattice are characterized by a high confinement and a filling rate much larger than unity, even if loaded with cold atoms from a magneto-optical trap. We have implemented this system experimentally, and demonstrated its feasibility. Applications in statistical physics, quantum computing, and Bose-Einstein condensate dynamics are conceivable.

Optical Traps to Study Properties of Molecular Motors

PubMed Central

Spudich, James A.; Rice, Sarah E.; Rock, Ronald S.; Purcell, Thomas J.; Warrick, Hans M.

2016-01-01

In vitro motility assays enabled the analysis of coupling between ATP hydrolysis and movement of myosin along actin filaments or kinesin along microtubules. Single-molecule assays using laser trapping have been used to obtain more detailed information about kinesins, myosins, and processive DNA enzymes. The combination of in vitro motility assays with laser-trap measurements has revealed detailed dynamic structural changes associated with the ATPase cycle. This article describes the use of optical traps to study processive and nonprocessive molecular motor proteins, focusing on the design of the instrument and the assays to characterize motility. PMID:22046048

Assessing and Projecting Greenhouse Gas Release due to Abrupt Permafrost Degradation

NASA Astrophysics Data System (ADS)

Saito, K.; Ohno, H.; Yokohata, T.; Iwahana, G.; Machiya, H.

2017-12-01

Permafrost is a large reservoir of frozen soil organic carbon (SOC; about half of all the terrestrial storage). Therefore, its degradation (i.e., thawing) under global warming may lead to a substantial amount of additional greenhouse gas (GHG) release. However, understanding of the processes, geographical distribution of such hazards, and implementation of the relevant processes in the advanced climate models are insufficient yet so that variations in permafrost remains one of the large source of uncertainty in climatic and biogeochemical assessment and projections. Thermokarst, induced by melting of ground ice in ice-rich permafrost, leads to dynamic surface subsidence up to 60 m, which further affects local and regional societies and eco-systems in the Arctic. It can also accelerate a large-scale warming process through a positive feedback between released GHGs (especially methane), atmospheric warming and permafrost degradation. This three-year research project (2-1605, Environment Research and Technology Development Fund of the Ministry of the Environment, Japan) aims to assess and project the impacts of GHG release through dynamic permafrost degradation through in-situ and remote (e.g., satellite and airborn) observations, lab analysis of sampled ice and soil cores, and numerical modeling, by demonstrating the vulnerability distribution and relative impacts between large-scale degradation and such dynamic degradation. Our preliminary laboratory analysis of ice and soil cores sampled in 2016 at the Alaskan and Siberian sites largely underlain by ice-rich permafrost, shows that, although gas volumes trapped in unit mass are more or less homogenous among sites both for ice and soil cores, large variations are found in the methane concentration in the trapped gases, ranging from a few ppm (similar to that of the atmosphere) to hundreds of thousands ppm We will also present our numerical approach to evaluate relative impacts of GHGs released through dynamic permafrost degradations, by implementing conceptual modeling to assess and project distribution and affected amount of ground ice and SOC.

Many-body excitations and deexcitations in trapped ultracold bosonic clouds

NASA Astrophysics Data System (ADS)

Theisen, Marcus; Streltsov, Alexej I.

2016-11-01

We employ the multiconfigurational time-dependent Hartree for bosons (MCTDHB) method to study excited states of interacting Bose-Einstein condensates confined by harmonic and double-well trap potentials. Two approaches to access excitations, one static and the other dynamic, are investigated and contrasted. In static simulations the low-lying excitations are computed by utilizing a linear-response theory constructed on top of a static MCTDHB solution (LR-MCTDHB). Complimentarily, we propose two dynamic protocols that address excitations by propagating the MCTDHB wave function. In particular, we investigate dipolelike oscillations induced by shifting the origin of the confining potential and breathinglike excitations by quenching the frequency of a parabolic part of the trap. To contrast static predictions and dynamic results we compute the time evolution and regard the respective Fourier transform of several local and nonlocal observables. Namely, we study the expectation value of the position operator , its variance Var [x (t )] , and a local density computed at selected positions. We find that the variance is the most sensitive and informative quantity: Along with excitations it contains information about deexcitations even in a linear regime of the induced dynamics. The dynamic protocols are found to access the many-body excitations predicted by the static LR-MCTDHB approach.

A new quasi-thermal trap model for solar flare hard X-ray bursts - An electrostatic trap model

NASA Technical Reports Server (NTRS)

Spicer, D. S.; Emslie, A. G.

1988-01-01

A new quasi-thermal trap model of solar flare hard X-ray bursts is presented. The new model utilizes the trapping ability of a magnetic mirror and a magnetic field-aligned electrostatic potential produced by differences in anisotropies of the electron and ion distribution function. It is demonstrated that this potential can, together with the magnetic mirror itself, effectively confine electrons in a trap, thereby enhancing their bremsstrahlung yield per electron. This analysis makes even more untenable models involving precipitation of the bremsstrahlung-producing electrons onto a cold target.

DOE Office of Scientific and Technical Information (OSTI.GOV)

McDaniel, Jesse G.; Yethiraj, Arun, E-mail: yethiraj@chem.wisc.edu

The diffusion of protons in self-assembled systems is potentially important for the design of efficient proton exchange membranes. In this work, we study proton dynamics in a low-water content, lamellar phase of a sodium-carboxylate gemini surfactant/water system using computer simulations. The hopping of protons via the Grotthuss mechanism is explicitly allowed through the multi-state empirical valence bond method. We find that the hydronium ion is trapped on the hydrophobic side of the surfactant-water interface, and proton diffusion then proceeds by hopping between surface sites. The importance of hydrophobic traps is surprising because one would expect the hydronium ions to bemore » trapped at the charged headgroups. The physics illustrated in this system should be relevant to the proton dynamics in other amphiphilic membrane systems, whenever there exist exposed hydrophobic surface regions.« less

Spectroscopy and optical imaging of coalescing droplets

NASA Astrophysics Data System (ADS)

Ivanov, Maksym; Viderström, Michel; Chang, Kelken; Ramírez Contreras, Claudia; Mehlig, Bernhard; Hanstorp, Dag

2016-09-01

We report on experimental investigations of the dynamics of colliding liquid droplets by combining optical trapping, spectroscopy and high-speed color imaging. Two droplets with diameters between 5 and 50 microns are suspended in quiescent air by optical traps. The traps allows us to control the initial positions, and hence the impact parameter and the relative velocity of the colliding droplets. Movies of the droplet dynamics are recorded using high-speed digital movie cameras at a frame rate of up to 63000 frames per second. A fluorescent dye is added to one of the colliding droplets. We investigate the temporal evolution of the scattered and fluorescence light from the colliding droplets with concurrent spectroscopy and color imaging. This technique can be used to detect the exchange of molecules between a pair of neutral or charged droplets.

Comprehensive dynamic on-resistance assessments in GaN-on-Si MIS-HEMTs for power switching applications

NASA Astrophysics Data System (ADS)

Chou, Po-Chien; Hsieh, Ting-En; Cheng, Stone; del Alamo, Jesús A.; Chang, Edward Yi

2018-05-01

This study comprehensively analyzed the reliability of trapping and hot-electron effects responsible for the dynamic on-resistance (Ron) of GaN-based metal–insulator–semiconductor high electron mobility transistors. Specifically, this study performed the following analyses. First, we developed the on-the-fly Ron measurement to analyze the effects of traps during stress. With this technique, the faster one (with a pulse period of 20 ms) can characterize the degradation; the transient behavior could be monitored accurately by such short measurement pulse. Then, dynamic Ron transients were investigated under different bias conditions, including combined off state stress conditions, back-gating stress conditions, and semi-on stress conditions, in separate investigations of surface- and buffer-, and hot-electron-related trapping effects. Finally, the experiments showed that the Ron increase in semi-on state is significantly correlated with the high drain voltage and relatively high current levels (compared with the off-state current), involving the injection of greater amount of hot electrons from the channel into the AlGaN/insulator interface and the GaN buffer. These findings provide a path for device engineering to clarify the possible origins for electron traps and to accelerate the development of emerging GaN technologies.

Dynamics of vortex quadrupoles in nonrotating trapped Bose-Einstein condensates

PubMed Central

Yang, Tao; Hu, Zhi-Qiang; Zou, Shan; Liu, Wu-Ming

2016-01-01

Dynamics of vortex clusters is essential for understanding diverse superfluid phenomena. In this paper, we examine the dynamics of vortex quadrupoles in a trapped two-dimensional (2D) Bose-Einstein condensate. We find that the movement of these vortex-clusters fall into three distinct regimes which are fully described by the radial positions of the vortices in a 2D isotropic harmonic trap, or by the major radius (minor radius) of the elliptical equipotential lines decided by the vortex positions in a 2D anisotropic harmonic trap. In the “recombination” and “exchange” regimes the quadrupole structure maintains, while the vortices annihilate each other permanently in the “annihilation” regime. We find that the mechanism of the charge flipping in the “exchange” regime and the disappearance of the quadrupole structure in the “annihilation” regime are both through an intermediate state where two vortex dipoles connected through a soliton ring. We give the parameter ranges for these three regimes in coordinate space for a specific initial configuration and phase diagram of the vortex positions with respect to the Thomas-Fermi radius of the condensate. We show that the results are also applicable to systems with quantum fluctuations for the short-time evolution. PMID:27464981

Ultrafast exciton migration in an HJ-aggregate: Potential surfaces and quantum dynamics

NASA Astrophysics Data System (ADS)

Binder, Robert; Polkehn, Matthias; Ma, Tianji; Burghardt, Irene

2017-01-01

Quantum dynamical and electronic structure calculations are combined to investigate the mechanism of exciton migration in an oligothiophene HJ aggregate, i.e., a combination of oligomer chains (J-type aggregates) and stacked aggregates of such chains (H-type aggregates). To this end, a Frenkel exciton model is parametrized by a recently introduced procedure [Binder et al., J. Chem. Phys. 141, 014101 (2014)] which uses oligomer excited-state calculations to perform an exact, point-wise mapping of coupled potential energy surfaces to an effective Frenkel model. Based upon this parametrization, the Multi-Layer Multi-Configuration Time-Dependent Hartree (ML-MCTDH) method is employed to investigate ultrafast dynamics of exciton transfer in a small, asymmetric HJ aggregate model composed of 30 sites and 30 active modes. For a partially delocalized initial condition, it is shown that a torsional defect confines the trapped initial exciton, and planarization induces an ultrafast resonant transition between an HJ-aggregated segment and a covalently bound "dangling chain" end. This model is a minimal realization of experimentally investigated mixed systems exhibiting ultrafast exciton transfer between aggregated, highly planarized chains and neighboring disordered segments.

Evaluation of sticky traps for adult Aedes mosquitoes in Malaysia: a potential monitoring and surveillance tool for the efficacy of control strategies.

PubMed

Roslan, Muhammad Aidil; Ngui, Romano; Vythilingam, Indra; Sulaiman, Wan Yusoff Wan

2017-12-01

The present study compared the performance of sticky traps in order to identify the most effective and practical trap for capturing Aedes aegypti and Aedes albopictus mosquitoes. Three phases were conducted in the study, with Phase 1 evaluating the five prototypes (Models A, B, C, D, and E) of sticky trap release-and-recapture using two groups of mosquito release numbers (five and 50) that were released in each replicate. Similarly, Phase 2 compared the performance between Model E and the classical ovitrap that had been modified (sticky ovitrap), using five and 50 mosquito release numbers. Further assessment of both traps was carried out in Phase 3, in which both traps were installed in nine sampling grids. Results from Phase 1 showed that Model E was the trap that recaptured higher numbers of mosquitoes when compared to Models A, B, C, and D. Further assessment between Model E and the modified sticky ovitrap (known as Model F) found that Model F outperformed Model E in both Phases 2 and 3. Thus, Model F was selected as the most effective and practical sticky trap, which could serve as an alternative tool for monitoring and controlling dengue vectors in Malaysia. © 2017 The Society for Vector Ecology.

Evaluating potential sources of variation in Chironomidae catch rates on sticky traps

USGS Publications Warehouse

Smith, Joshua T.; Muehlbauer, Jeffrey D.; Kennedy, Theodore A.

2016-01-01

Sticky traps are a convenient tool for assessing adult aquatic insect population dynamics, but there are many practical questions about how trap sampling artefacts may affect observed results. Utilising study sites on the Colorado River and two smaller streams in northern Arizona, USA, we evaluated whether catch rates and sex ratios of Chironomidae, a ubiquitous aquatic insect, were affected by spraying traps with insecticide, placing traps at different heights above ground, and placing traps at different locations within a terrestrial habitat patch. We also evaluated temporal variation in Chironomidae counts monthly over a 9-month growing season. We found no significant variation in catch rates or sex ratios between traps treated versus untreated with insecticide, nor between traps placed at the upstream or downstream end of a terrestrial habitat patch. Traps placed near ground level did have significantly higher catch rates than traps placed at 1.5 m, although sex ratios were similar across heights. Chironomidae abundance and sex ratios also varied from month-to-month and seemed to be related to climatic conditions. Our results inform future sticky trap studies by demonstrating that trap height, but not insecticide treatment or precise trap placement within a habitat patch, is an important source of variation influencing catch rates.

Quantification of the Precipitation Loss of Radiation Belt Electrons Observed by SAMPEX (Invited)

NASA Astrophysics Data System (ADS)

Tu, W.; Li, X.; Selesnick, R. S.; Looper, M. D.

2010-12-01

Based on SAMPEX/PET observations, the fluxes and the spatial and temporal variations of electron loss to the atmosphere in the Earth’s radiation belt were quantified using a drift-diffusion model that includes the effects of azimuthal drift and pitch angle diffusion. The measured electrons by SAMPEX can be distinguished as trapped, quasi-trapped (in the drift loss cone), or precipitating (in the bounce loss cone), and the model simulates the low-altitude electron distribution from SAMPEX. After fitting the model results to the data, the magnitudes and variations of the electron loss rate can be estimated based on the optimum model parameter values. In this presentation we give an overview of our method and published results, followed by some recent improvements we made on the model, including updating the quantified electron lifetimes more frequently (e.g., every two hours instead of half a day) to achieve smoother variations, estimating the adiabatic effects at SAMPEX’s orbit and their influence on our model results, and calculating the error bar associated with each quantified electron lifetime. This method combining a model with low-altitude observations provides direct quantification of the electron loss rate, as required for any accurate modeling of the radiation belt electron dynamics.

Scattering of spermatozoa off cylindrical pillars

NASA Astrophysics Data System (ADS)

Bukatin, Anton; Lushi, Enkeleida; Kantsler, Vasily

2017-11-01

The motion of micro-swimmers in structured environments, even though crucial in processes such as in vivo and in vitro egg fertilization, is still not completely understood. We combine microfluidic experiments with mathematical modeling of 3D swimming near convex surfaces to quantify the dynamics of individual sperm cells in the proximity of cylindrical pillars. Our results show that the hydrodynamic and contact forces that account for the shape asymmetry and flagellar motion, are crucial in correctly describing the dynamics observed in the experiments. Last, we discuss how the size of the cylindrical obstacles determines whether the swimmers scatter off or get trapped circling the pillar.

Onsager vortex formation in two-component Bose–Einstein condensates in two-dimensional traps

NASA Astrophysics Data System (ADS)

Han, Junsik; Tsubota, Makoto

2018-03-01

We study numerically the dynamics of quantized vortices in two-dimensional one-component and two-component Bose–Einstein condensates (BECs) trapped by a harmonic and box potentials. In two-component miscible BECs, we confirmed the tendency of the formation of Onsager vortices in both traps. The vortices in one component separate spatially from those in the other component, which comes from their intercomponent-coupling. We also discuss the decay of the number of vortices.

Tin Oxide Nanowires: The Influence of Trap States on Ultrafast Carrier Relaxation

PubMed Central

2009-01-01

We have studied the optical properties and carrier dynamics in SnO2nanowires (NWs) with an average radius of 50 nm that were grown via the vapor–liquid solid method. Transient differential absorption measurements have been employed to investigate the ultrafast relaxation dynamics of photogenerated carriers in the SnO2NWs. Steady state transmission measurements revealed that the band gap of these NWs is 3.77 eV and contains two broad absorption bands. The first is located below the band edge (shallow traps) and the second near the center of the band gap (deep traps). Both of these absorption bands seem to play a crucial role in the relaxation of the photogenerated carriers. Time resolved measurements suggest that the photogenerated carriers take a few picoseconds to move into the shallow trap states whereas they take ~70 ps to move from the shallow to the deep trap states. Furthermore the recombination process of electrons in these trap states with holes in the valence band takes ~2 ns. Auger recombination appears to be important at the highest fluence used in this study (500 μJ/cm2); however, it has negligible effect for fluences below 50 μJ/cm2. The Auger coefficient for the SnO2NWs was estimated to be 7.5 ± 2.5 × 10−31 cm6/s. PMID:20596473

Ecology of West Nile virus across four European countries: empirical modelling of the Culex pipiens abundance dynamics as a function of weather.

PubMed

Groen, Thomas A; L'Ambert, Gregory; Bellini, Romeo; Chaskopoulou, Alexandra; Petric, Dusan; Zgomba, Marija; Marrama, Laurence; Bicout, Dominique J

2017-10-26

Culex pipiens is the major vector of West Nile virus in Europe, and is causing frequent outbreaks throughout the southern part of the continent. Proper empirical modelling of the population dynamics of this species can help in understanding West Nile virus epidemiology, optimizing vector surveillance and mosquito control efforts. But modelling results may differ from place to place. In this study we look at which type of models and weather variables can be consistently used across different locations. Weekly mosquito trap collections from eight functional units located in France, Greece, Italy and Serbia for several years were combined. Additionally, rainfall, relative humidity and temperature were recorded. Correlations between lagged weather conditions and Cx. pipiens dynamics were analysed. Also seasonal autoregressive integrated moving-average (SARIMA) models were fitted to describe the temporal dynamics of Cx. pipiens and to check whether the weather variables could improve these models. Correlations were strongest between mean temperatures at short time lags, followed by relative humidity, most likely due to collinearity. Precipitation alone had weak correlations and inconsistent patterns across sites. SARIMA models could also make reasonable predictions, especially when longer time series of Cx. pipiens observations are available. Average temperature was a consistently good predictor across sites. When only short time series (~ < 4 years) of observations are available, average temperature can therefore be used to model Cx. pipiens dynamics. When longer time series (~ > 4 years) are available, SARIMAs can provide better statistical descriptions of Cx. pipiens dynamics, without the need for further weather variables. This suggests that density dependence is also an important determinant of Cx. pipiens dynamics.

Investigations of potential bias in the estimation of lambda using Pradel's (1996) model for capture-recapture data

USGS Publications Warehouse

Hines, James E.; Nichols, James D.

2002-01-01

Pradel's (1996) temporal symmetry model permitting direct estimation and modelling of population growth rate, u i , provides a potentially useful tool for the study of population dynamics using marked animals. Because of its recent publication date, the approach has not seen much use, and there have been virtually no investigations directed at robustness of the resulting estimators. Here we consider several potential sources of bias, all motivated by specific uses of this estimation approach. We consider sampling situations in which the study area expands with time and present an analytic expression for the bias in u i We next consider trap response in capture probabilities and heterogeneous capture probabilities and compute large-sample and simulation-based approximations of resulting bias in u i . These approximations indicate that trap response is an especially important assumption violation that can produce substantial bias. Finally, we consider losses on capture and emphasize the importance of selecting the estimator for u i that is appropriate to the question being addressed. For studies based on only sighting and resighting data, Pradel's (1996) u i ' is the appropriate estimator.

Modeling the kinetics of bubble nucleation in champagne and carbonated beverages.

PubMed

Liger-Belair, Gérard; Parmentier, Maryline; Jeandet, Philippe

2006-10-26

In champagne and carbonated beverages, bubble nucleation was mostly found to take place from tiny Taylor-like bubbles trapped inside immersed cellulose fibers stuck on the glass wall. The present paper complements a previous paper about the thorough examination of the bubble nucleation process in a flute poured with champagne (Liger-Belair et al. J. Phys. Chem. B 2005, 109, 14573). In this previous paper, a model was built that accurately reproduces the dynamics of these tiny Taylor-like bubbles that grow inside the fiber's lumen by diffusion of CO(2)-dissolved molecules. In the present paper, by use of the model recently developed, the frequency of bubble formation from cellulose fibers is accessed and linked with various liquid and fiber parameters, namely, the concentration c(L) of CO(2)-dissolved molecules, the liquid temperature theta, its viscosity eta, the ambient pressure P, the course of the gas pocket growing trapped inside the fiber's lumen before releasing a bubble, and the radius r of the fiber's lumen. The relative influence of the latter parameters on the bubbling frequency is discussed and supported with recent experimental observations and data.

Characterizing physical properties and heterogeneous chemistry of single particles in air using optical trapping-Raman spectroscopy

NASA Astrophysics Data System (ADS)

Gong, Z.; Wang, C.; Pan, Y. L.; Videen, G.

2017-12-01

Heterogeneous reactions of solid particles in a gaseous environment are of increasing interest; however, most of the heterogeneous chemistry studies of airborne solids were conducted on particle ensembles. A close examination on the heterogeneous chemistry between single particles and gaseous-environment species is the key to elucidate the fundamental mechanisms of hydroscopic growth, cloud nuclei condensation, secondary aerosol formation, etc., and reduce the uncertainty of models in radiative forcing, climate change, and atmospheric chemistry. We demonstrate an optical trapping-Raman spectroscopy (OT-RS) system to study the heterogeneous chemistry of the solid particles in air at single-particle level. Compared to other single-particle techniques, optical trapping offers a non-invasive, flexible, and stable method to isolate single solid particle from substrates. Benefited from two counter-propagating hollow beams, the optical trapping configuration is adaptive to trap a variety of particles with different materials from inorganic substitution (carbon nanotubes, silica, etc.) to organic, dye-doped polymers and bioaerosols (spores, pollen, etc.), with different optical properties from transparent to strongly absorbing, with different sizes from sub-micrometers to tens of microns, or with distinct morphologies from loosely packed nanotubes to microspheres and irregular pollen grains. The particles in the optical trap may stay unchanged, surface degraded, or optically fragmented according to different laser intensity, and their physical and chemical properties are characterized by the Raman spectra and imaging system simultaneously. The Raman spectra is able to distinguish the chemical compositions of different particles, while the synchronized imaging system can resolve their physical properties (sizes, shapes, morphologies, etc.). The temporal behavior of the trapped particles also can be monitored by the OT-RS system at an indefinite time with a resolution from 10 ms to 5 min, which can be further applied to monitor the dynamics of heterogeneous reactions. The OT-RS system provides a flexible method to characterize and monitor the physical properties and heterogeneous chemistry of optically trapped solid particles in gaseous environment at single-particle level.

Nonlinear simulation of the fishbone instability

NASA Astrophysics Data System (ADS)

Idouakass, Malik; Faganello, Matteo; Berk, Herbert; Garbet, Xavier; Benkadda, Sadruddin; PIIM Team; IFS Team; IRFM Team

2014-10-01

We propose to extend the Odblom-Breizman precessional fishbone model to account for both the MagnetoHydroDynamic (MHD) nonlinearity at the q = 1 surface and the nonlinear response of the energetic particles contained within the q = 1 surface. This electromagnetic mode, whose excitation, damping and frequency chirping are determined by the self-consistent interaction between an energetic trapped particle population and the bulk plasma evolution, can induce effective transport and losses for the energetic particles, being them alpha-particles in next-future fusion devices or heated particles in present Tokamaks. The model is reduced to its simplest form, assuming a reduced MHD description for the bulk plasma and a two-dimensional phase-space evolution (gyro and bounce averaged) for deeply trapped energetic particles. Numerical simulations have been performed in order to characterize the mode chirping and saturation, in particular looking at the interplay between the development of phase-space structures and the system dissipation associated to the MHD non-linearities at the resonance locations.

Topological analysis of metabolic networks based on petri net theory.

PubMed

Zevedei-Oancea, Ionela; Schuster, Stefan

2011-01-01

Petri net concepts provide additional tools for the modelling of metabolic networks. Here, the similarities between the counterparts in traditional biochemical modelling and Petri net theory are discussed. For example the stoichiometry matrix of a metabolic network corresponds to the incidence matrix of the Petri net. The flux modes and conservation relations have the T-invariants, respectively, P-invariants as counterparts. We reveal the biological meaning of some notions specific to the Petri net framework (traps, siphons, deadlocks, liveness). We focus on the topological analysis rather than on the analysis of the dynamic behaviour. The treatment of external metabolites is discussed. Some simple theoretical examples are presented for illustration. Also the Petri nets corresponding to some biochemical networks are built to support our results. For example, the role of triose phosphate isomerase (TPI) in Trypanosoma brucei metabolism is evaluated by detecting siphons and traps. All Petri net properties treated in this contribution are exemplified on a system extracted from nucleotide metabolism.

Topological analysis of metabolic networks based on Petri net theory.

PubMed

Zevedei-Oancea, Ionela; Schuster, Stefan

2003-01-01

Petri net concepts provide additional tools for the modelling of metabolic networks. Here, the similarities between the counterparts in traditional biochemical modelling and Petri net theory are discussed. For example the stoichiometry matrix of a metabolic network corresponds to the incidence matrix of the Petri net. The flux modes and conservation relations have the T-invariants, respectively, P-invariants as counterparts. We reveal the biological meaning of some notions specific to the Petri net framework (traps, siphons, deadlocks, liveness). We focus on the topological analysis rather than on the analysis of the dynamic behaviour. The treatment of external metabolites is discussed. Some simple theoretical examples are presented for illustration. Also the Petri nets corresponding to some biochemical networks are built to support our results. For example, the role of triose phosphate isomerase (TPI) in Trypanosoma brucei metabolism is evaluated by detecting siphons and traps. All Petri net properties treated in this contribution are exemplified on a system extracted from nucleotide metabolism.

Dynamics of bright-bright solitons in Bose-Einstein condensate with Raman-induced one-dimensional spin-orbit coupling

NASA Astrophysics Data System (ADS)

Wen, Lin; Zhang, Xiao-Fei; Hu, Ai-Yuan; Zhou, Jing; Yu, Peng; Xia, Lei; Sun, Qing; Ji, An-Chun

2018-03-01

We investigate the dynamics of bright-bright solitons in one-dimensional two-component Bose-Einstein condensates with Raman-induced spin-orbit coupling, via the variational approximation and the numerical simulation of Gross-Pitaevskii equations. For the uniform system without trapping potential, we obtain two population balanced stationary solitons. By performing the linear stability analysis, we find a Goldstone eigenmode and an oscillation eigenmode around these stationary solitons. Moreover, we derive a general dynamical solution to describe the center-of-mass motion and spin evolution of the solitons under the action of spin-orbit coupling. The effects of a harmonic trap have also been discussed.

On the existence of horizons in spacetimes with vanishing curvature invariants

NASA Astrophysics Data System (ADS)

Senovilla, José M. M.

2003-11-01

A direct very simple proof that there can be no closed trapped surfaces (ergo no black hole regions) in spacetimes with all curvature scalar invariants vanishing is given. Explicit examples of the recently introduced ``dynamical horizons'' which nevertheless do not enclose any trapped region are presented too.

Anti-Brownian ELectrokinetic (ABEL) Trapping of Single High Density Lipoprotein (HDL) Particles

NASA Astrophysics Data System (ADS)

Bockenhauer, Samuel; Furstenberg, Alexandre; Wang, Quan; Devree, Brian; Jie Yao, Xiao; Bokoch, Michael; Kobilka, Brian; Sunahara, Roger; Moerner, W. E.

2010-03-01

The ABEL trap is a novel device for trapping single biomolecules in solution for extended observation. The trap estimates the position of a fluorescently-labeled object as small as ˜10 nm in solution and then applies a feedback electrokinetic drift every 20 us to trap the object by canceling its Brownian motion. We use the ABEL trap to study HDL particles at the single-copy level. HDL particles, essential in regulation of ``good'' cholesterol in humans, comprise a small (˜10 nm) lipid bilayer disc bounded by a belt of apolipoproteins. By engineering HDL particles with single fluorescent donor/acceptor probes and varying lipid compositions, we are working to study lipid diffusion on small length scales. We also use HDL particles as hosts for single transmembrane receptors, which should enable study of receptor conformational dynamics on long timescales.

Trapping and manipulation of microparticles using laser-induced convection currents and photophoresis.

PubMed

Flores-Flores, E; Torres-Hurtado, S A; Páez, R; Ruiz, U; Beltrán-Pérez, G; Neale, S L; Ramirez-San-Juan, J C; Ramos-García, R

2015-10-01

In this work we demonstrate optical trapping and manipulation of microparticles suspended in water due to laser-induced convection currents. Convection currents are generated due to laser light absorption in an hydrogenated amorphous silicon (a:Si-H) thin film. The particles are dragged towards the beam's center by the convection currents (Stokes drag force) allowing trapping with powers as low as 0.8 mW. However, for powers >3 mW trapped particles form a ring around the beam due to two competing forces: Stokes drag and thermo-photophoretic forces. Additionally, we show that dynamic beam shaping can be used to trap and manipulate multiple particles by photophotophoresis without the need of lithographically created resistive heaters.

Trapping and manipulation of microparticles using laser-induced convection currents and photophoresis

PubMed Central

Flores-Flores, E.; Torres-Hurtado, S. A.; Páez, R.; Ruiz, U.; Beltrán-Pérez, G.; Neale, S. L.; Ramirez-San-Juan, J. C.; Ramos-García, R.

2015-01-01

In this work we demonstrate optical trapping and manipulation of microparticles suspended in water due to laser-induced convection currents. Convection currents are generated due to laser light absorption in an hydrogenated amorphous silicon (a:Si-H) thin film. The particles are dragged towards the beam's center by the convection currents (Stokes drag force) allowing trapping with powers as low as 0.8 mW. However, for powers >3 mW trapped particles form a ring around the beam due to two competing forces: Stokes drag and thermo-photophoretic forces. Additionally, we show that dynamic beam shaping can be used to trap and manipulate multiple particles by photophotophoresis without the need of lithographically created resistive heaters. PMID:26504655

Control of Screening of a Charged Particle in Electrolytic Aqueous Paul Trap

DOE Office of Scientific and Technical Information (OSTI.GOV)

Park, Jae Hyun nmn; Krstic, Predrag S

2011-01-01

Individual charged particles could be trapped and confined in the combined radio-frequency and DC quadrupole electric field of an aqueous Paul trap. Viscosity of water improves confinement and extends the range of the trap parameters which characterize the stability of the trap. Electrolyte, if present in aqueous solution, may screen the charged particle and thus partially or fully suppress electrophoretic interaction with the applied filed, possibly reducing it to a generally much weaker dielectrophoretic interaction with an induced dipole. Applying molecular dynamics simulation we show that the quadrupole field has a different affects at the electrolyte ions and at muchmore » heavier charged particle, effectively eliminating the screening effect and reinstating the electrophoretic confinement.« less

Control Of Screening Of A Charged Particle In Electrolytic Aqueous Paul Trap

DOE Office of Scientific and Technical Information (OSTI.GOV)

Park, Jae Hyun; Krstic, Predrag S.

2011-06-01

Individual charged particles could be trapped and confined by the combined radio-frequency and DC quadrupole electric field of an aqueous Paul trap. Viscosity of water improves confinement and extends the range of the trap parameters which characterize the stability of the trap. Electrolyte, if present in aqueous solution, may screen the charged particle and thus partially or fully suppress electrophoretic interaction with the applied filed, possibly reducing it to a generally much weaker dielectrophoretic interaction with an induced dipole. Applying molecular dynamics simulation we show that the quadrupole field has a different effect at the electrolyte ions and at muchmore » heavier charged particle, effectively eliminating the screening by electrolyte ions and reinstating the electrophoretic confinement.« less

Measurement of energy landscape roughness of folded and unfolded proteins

PubMed Central

Milanesi, Lilia; Waltho, Jonathan P.; Hunter, Christopher A.; Shaw, Daniel J.; Beddard, Godfrey S.; Reid, Gavin D.; Dev, Sagarika; Volk, Martin

2012-01-01

The dynamics of protein conformational changes, from protein folding to smaller changes, such as those involved in ligand binding, are governed by the properties of the conformational energy landscape. Different techniques have been used to follow the motion of a protein over this landscape and thus quantify its properties. However, these techniques often are limited to short timescales and low-energy conformations. Here, we describe a general approach that overcomes these limitations. Starting from a nonnative conformation held by an aromatic disulfide bond, we use time-resolved spectroscopy to observe nonequilibrium backbone dynamics over nine orders of magnitude in time, from picoseconds to milliseconds, after photolysis of the disulfide bond. We find that the reencounter probability of residues that initially are in close contact decreases with time following an unusual power law that persists over the full time range and is independent of the primary sequence. Model simulations show that this power law arises from subdiffusional motion, indicating a wide distribution of trapping times in local minima of the energy landscape, and enable us to quantify the roughness of the energy landscape (4–5 kBT). Surprisingly, even under denaturing conditions, the energy landscape remains highly rugged with deep traps (>20 kBT) that result from multiple nonnative interactions and are sufficient for trapping on the millisecond timescale. Finally, we suggest that the subdiffusional motion of the protein backbone found here may promote rapid folding of proteins with low contact order by enhancing contact formation between nearby residues. PMID:23150572

Optical patterning of trapped charge in nitrogen-doped diamond

NASA Astrophysics Data System (ADS)

Dhomkar, Siddharth; Jayakumar, Harishankar; Pagliero, Daniela; Laraoui, Abdelghani; Albu, Remus; Manson, Neil; Doherty, Marcus; Henshaw, Jacob; Meriles, Carlos

The nitrogen-vacancy (NV) center in diamond is emerging as a promising platform for solid-state quantum information processing and nanoscale metrology. Of interest in these applications is the manipulation of the NV charge state, which can be attained by optical illumination. Here we use two-color optical microscopy to investigate the dynamics of NV photo-ionization, charge diffusion, and trapping in type-1b diamond. We combine fixed-point laser excitation and scanning fluorescence imaging to locally alter the concentration of negatively charged NVs and to subsequently probe the corresponding redistribution of charge. We uncover the formation of various spatial patterns of trapped charge, which we semi-quantitatively reproduce via a model of the interplay between photo-excited carriers and atomic defects in the diamond lattice. Further, by using the NV as a local probe, we map the relative fraction of positively charged nitrogen upon localized optical excitation. These observations may prove important to various technologies, including the transport of quantum information between remote NVs and the development of three-dimensional, charge-based memories. We acknowledge support from the National Science Foundation through Grant NSF-1314205.

Flux-trapping during the formation of field-reversed configurations

NASA Astrophysics Data System (ADS)

Armstrong, W. T.; Harding, D. G.; Crawford, E. A.; Hoffman, A. L.

1981-10-01

Optimized trapping of bias flux during the early formation phases of a Field Reversed Configuration was studied experimentally on the field reversed theta pinch TRX-1. An annular z-pinch preionizer was employed to permit ionization at high values of initial reverse bias flux. Octopole barrier fields are pulsed during field reversal to minimize plasma/wall contact and associated loss of reverse flux. Also, second half cycle operation was examined in obtaining very high values of reverse flux. Flux loss is generally observed to be governed by resistive diffusion through a current sheath at the plasma boundary, rather than flux convection to the plasma boundary. Trapped reverse flux at the time of field reversal, as well as after the radial implosion, is observed to increase with the applied bias field. This increase is greatest, and in fact nearly linear with bias field, when barrier fields are employed. Barrier fields also appear to broaden the current sheath, which results in some flux loss and a less dynamic radial implosion. A general model and one dimensional simulation of flux loss is described and correlated with experimental results.

Pore-scale modeling of capillary trapping in water-wet porous media: A new cooperative pore-body filling model

NASA Astrophysics Data System (ADS)

Ruspini, L. C.; Farokhpoor, R.; Øren, P. E.

2017-10-01

We present a pore-network model study of capillary trapping in water-wet porous media. The amount and distribution of trapped non-wetting phase is determined by the competition between two trapping mechanisms - snap-off and cooperative pore-body filling. We develop a new model to describe the pore-body filling mechanism in geologically realistic pore-networks. The model accounts for the geometrical characteristics of the pore, the spatial location of the connecting throats and the local fluid topology at the time of the displacement. We validate the model by comparing computed capillary trapping curves with published data for four different water-wet rocks. Computations are performed on pore-networks extracted from micro-CT images and process-based reconstructions of the actual rocks used in the experiments. Compared with commonly used stochastic models, the new model describes more accurately the experimental measurements, especially for well connected porous systems where trapping is controlled by subtleties of the pore structure. The new model successfully predicts relative permeabilities and residual saturation for Bentheimer sandstone using in-situ measured contact angles as input to the simulations. The simulated trapped cluster size distributions are compared with predictions from percolation theory.

Assessing tiger population dynamics using photographic capture-recapture sampling

USGS Publications Warehouse

Karanth, K.U.; Nichols, J.D.; Kumar, N.S.; Hines, J.E.

2006-01-01

Although wide-ranging, elusive, large carnivore species, such as the tiger, are of scientific and conservation interest, rigorous inferences about their population dynamics are scarce because of methodological problems of sampling populations at the required spatial and temporal scales. We report the application of a rigorous, noninvasive method for assessing tiger population dynamics to test model-based predictions about population viability. We obtained photographic capture histories for 74 individual tigers during a nine-year study involving 5725 trap-nights of effort. These data were modeled under a likelihood-based, ?robust design? capture?recapture analytic framework. We explicitly modeled and estimated ecological parameters such as time-specific abundance, density, survival, recruitment, temporary emigration, and transience, using models that incorporated effects of factors such as individual heterogeneity, trap-response, and time on probabilities of photo-capturing tigers. The model estimated a random temporary emigration parameter of =K' =Y' 0.10 ? 0.069 (values are estimated mean ? SE). When scaled to an annual basis, tiger survival rates were estimated at S = 0.77 ? 0.051, and the estimated probability that a newly caught animal was a transient was = 0.18 ? 0.11. During the period when the sampled area was of constant size, the estimated population size Nt varied from 17 ? 1.7 to 31 ? 2.1 tigers, with a geometric mean rate of annual population change estimated as = 1.03 ? 0.020, representing a 3% annual increase. The estimated recruitment of new animals, Bt, varied from 0 ? 3.0 to 14 ? 2.9 tigers. Population density estimates, D, ranged from 7.33 ? 0.8 tigers/100 km2 to 21.73 ? 1.7 tigers/100 km2 during the study. Thus, despite substantial annual losses and temporal variation in recruitment, the tiger density remained at relatively high levels in Nagarahole. Our results are consistent with the hypothesis that protected wild tiger populations can remain healthy despite heavy mortalities because of their inherently high reproductive potential. The ability to model the entire photographic capture history data set and incorporate reduced-parameter models led to estimates of mean annual population change that were sufficiently precise to be useful. This efficient, noninvasive sampling approach can be used to rigorously investigate the population dynamics of tigers and other elusive, rare, wide-ranging animal species in which individuals can be identified from photographs or other means.

Assessing tiger population dynamics using photographic capture-recapture sampling.

PubMed

Karanth, K Ullas; Nichols, James D; Kumar, N Samba; Hines, James E

2006-11-01

Although wide-ranging, elusive, large carnivore species, such as the tiger, are of scientific and conservation interest, rigorous inferences about their population dynamics are scarce because of methodological problems of sampling populations at the required spatial and temporal scales. We report the application of a rigorous, noninvasive method for assessing tiger population dynamics to test model-based predictions about population viability. We obtained photographic capture histories for 74 individual tigers during a nine-year study involving 5725 trap-nights of effort. These data were modeled under a likelihood-based, "robust design" capture-recapture analytic framework. We explicitly modeled and estimated ecological parameters such as time-specific abundance, density, survival, recruitment, temporary emigration, and transience, using models that incorporated effects of factors such as individual heterogeneity, trap-response, and time on probabilities of photo-capturing tigers. The model estimated a random temporary emigration parameter of gamma" = gamma' = 0.10 +/- 0.069 (values are estimated mean +/- SE). When scaled to an annual basis, tiger survival rates were estimated at S = 0.77 +/- 0.051, and the estimated probability that a newly caught animal was a transient was tau = 0.18 +/- 0.11. During the period when the sampled area was of constant size, the estimated population size N(t) varied from 17 +/- 1.7 to 31 +/- 2.1 tigers, with a geometric mean rate of annual population change estimated as lambda = 1.03 +/- 0.020, representing a 3% annual increase. The estimated recruitment of new animals, B(t), varied from 0 +/- 3.0 to 14 +/- 2.9 tigers. Population density estimates, D, ranged from 7.33 +/- 0.8 tigers/100 km2 to 21.73 +/- 1.7 tigers/100 km2 during the study. Thus, despite substantial annual losses and temporal variation in recruitment, the tiger density remained at relatively high levels in Nagarahole. Our results are consistent with the hypothesis that protected wild tiger populations can remain healthy despite heavy mortalities because of their inherently high reproductive potential. The ability to model the entire photographic capture history data set and incorporate reduced-parameter models led to estimates of mean annual population change that were sufficiently precise to be useful. This efficient, noninvasive sampling approach can be used to rigorously investigate the population dynamics of tigers and other elusive, rare, wide-ranging animal species in which individuals can be identified from photographs or other means.

Rapid Configurational Fluctuations in a Model of Methylcellulose

NASA Astrophysics Data System (ADS)

Li, Xiaolan; Dorfman, Kevin

Methylcellulose is a thermoresponsive polymer that undergoes a phase transition at elevated temperature, forming fibrils of a uniform diameter. However, the gelation mechanism is still unclear, in particular at higher polymer concentrations. We have investigated a coarse-grained model for methylcellulose, proposed by Larson and coworkers, that produces collapsed toroids in dilute solution with a radius close to that in experiments. Using Brownian Dynamics simulations, we demonstrate that this model's dihedral potential generates ``flipping events'', which helps the chain to avoid kinetic traps by undergoing a sudden transition between a coiled and a collapsed state. If the dihedral potential is removed, the chains cannot escape from their collapsed configuration, whereas at high dihedral potentials, the chains cannot stabilize the collapsed state. We will present quantitative results on the effect of the dihedral potential on both chain statistics and dynamic behavior, and discuss the implication of our results on the spontaneous formation of high-aspect ratio fibrils in experiments.

Dynamical Model of Drug Accumulation in Bacteria: Sensitivity Analysis and Experimentally Testable Predictions

DOE PAGES

Vesselinova, Neda; Alexandrov, Boian; Wall, Michael E.

2016-11-08

We present a dynamical model of drug accumulation in bacteria. The model captures key features in experimental time courses on ofloxacin accumulation: initial uptake; two-phase response; and long-term acclimation. In combination with experimental data, the model provides estimates of import and export rates in each phase, the time of entry into the second phase, and the decrease of internal drug during acclimation. Global sensitivity analysis, local sensitivity analysis, and Bayesian sensitivity analysis of the model provide information about the robustness of these estimates, and about the relative importance of different parameters in determining the features of the accumulation time coursesmore » in three different bacterial species: Escherichia coli, Staphylococcus aureus, and Pseudomonas aeruginosa. The results lead to experimentally testable predictions of the effects of membrane permeability, drug efflux and trapping (e.g., by DNA binding) on drug accumulation. A key prediction is that a sudden increase in ofloxacin accumulation in both E. coli and S. aureus is accompanied by a decrease in membrane permeability.« less

Dynamical Model of Drug Accumulation in Bacteria: Sensitivity Analysis and Experimentally Testable Predictions

DOE Office of Scientific and Technical Information (OSTI.GOV)

Vesselinova, Neda; Alexandrov, Boian; Wall, Michael E.

We present a dynamical model of drug accumulation in bacteria. The model captures key features in experimental time courses on ofloxacin accumulation: initial uptake; two-phase response; and long-term acclimation. In combination with experimental data, the model provides estimates of import and export rates in each phase, the time of entry into the second phase, and the decrease of internal drug during acclimation. Global sensitivity analysis, local sensitivity analysis, and Bayesian sensitivity analysis of the model provide information about the robustness of these estimates, and about the relative importance of different parameters in determining the features of the accumulation time coursesmore » in three different bacterial species: Escherichia coli, Staphylococcus aureus, and Pseudomonas aeruginosa. The results lead to experimentally testable predictions of the effects of membrane permeability, drug efflux and trapping (e.g., by DNA binding) on drug accumulation. A key prediction is that a sudden increase in ofloxacin accumulation in both E. coli and S. aureus is accompanied by a decrease in membrane permeability.« less

Influence of e-e+ creation on the radiative trapping in ultraintense fields of colliding laser pulses

NASA Astrophysics Data System (ADS)

Baumann, C.; Pukhov, A.

2016-12-01

The behavior of a thin plasma target irradiated by two counterpropagating laser pulses of ultrahigh intensity is studied in the framework of one- and two-dimensional particle-in-cell simulations. It is found that above an intensity threshold, radiative trapping can focus electrons in the peaks of the electromagnetic field. At even higher intensities, the trapping effect cannot be maintained according to the increasing influence of electron-positron pair production on the laser-plasma dynamics.

The effect of atomic response time in the theory of Doppler cooling of trapped ions

NASA Astrophysics Data System (ADS)

Janacek, H.; Steane, A. M.; Lucas, D. M.; Stacey, D. N.

2018-03-01

We describe a simple approach to the problem of incorporating the response time of an atom or ion being Doppler-cooled into the theory of the cooling process. The system being cooled does not in general respond instantly to the changing laser frequencies it experiences in its rest frame, and this 'dynamic effect' can affect significantly the temperatures attainable. It is particularly important for trapped ions when there is a slow decay out of the cooling cycle requiring the use of a repumping beam. We treat the cases of trapped ions with two and three internal states, then apply the theory to ?. For this ion experimental data exist showing the ion to be cold under conditions for which heating is predicted if the dynamic effect is neglected. The present theory accounts for the observed behaviour.

DOE Office of Scientific and Technical Information (OSTI.GOV)

McDaniel, Jesse G.; Yethiraj, Arun

The diffusion of protons in self-assembled systems is potentially important for the design of efficient proton exchange membranes. In this work, we study proton dynamics in a low-water content, lamellar phase of an sodium-carboxylate gemini surfactant/water system using computer simulations. The hopping of protons via the Grotthuss mechanism is explicity allowed through the multi-state empirical valence bond (MS-EVB) method. We find that the hydronium ion is trapped on the hydrophobic side of the surfactant-water interface, and proton diffusion then proceeds by hopping between surface sites. The importance of hydrophobic traps is surprising, because one would expect the hydronium ions tomore » be trapped at the charged head-groups. Finally, the physics illustrated in this system should be relevant to the proton dynamics in other amphiphilic membrane systems, whenever there exists exposed hydrophobic surface regions.« less

Paul trapping of charged particles in aqueous solution

DOE Office of Scientific and Technical Information (OSTI.GOV)

Guan, Weihau; Reed, Mark A; Joseph, Sony nmn

2011-01-01

We experimentally demonstrate the feasibility of an aqueous Paul trap using a proof-of-principle planar device. Radio frequency voltages are used to generate an alternating focusing/defocusing potential well in two orthogonal directions. Individual charged particles are dynamically confined into nanometer scale in space. Compared with conventional Paul traps working in frictionless vacuum, the aqueous environment associated with damping forces and thermally induced fluctuations (Brownian noise) exerts a fundamental influence on the underlying physics. We investigate the impact of these two effects on the confining dynamics, with the aim to reduce the rms value of the positional fluctuations. We find that themore » rms fluctuations can be modulated by adjusting the voltages and frequencies. This technique provides an alternative for the localization and control of charged particles in an aqueous environment.« less

Random Telegraph Signal-Like Fluctuation Created by Fowler-Nordheim Stress in Gate Induced Drain Leakage Current of the Saddle Type Dynamic Random Access Memory Cell Transistor

NASA Astrophysics Data System (ADS)

Kim, Heesang; Oh, Byoungchan; Kim, Kyungdo; Cha, Seon-Yong; Jeong, Jae-Goan; Hong, Sung-Joo; Lee, Jong-Ho; Park, Byung-Gook; Shin, Hyungcheol

2010-09-01

We generated traps inside gate oxide in gate-drain overlap region of recess channel type dynamic random access memory (DRAM) cell transistor through Fowler-Nordheim (FN) stress, and observed gate induced drain leakage (GIDL) current both in time domain and in frequency domain. It was found that the trap inside gate oxide could generate random telegraph signal (RTS)-like fluctuation in GIDL current. The characteristics of that fluctuation were similar to those of RTS-like fluctuation in GIDL current observed in the non-stressed device. This result shows the possibility that the trap causing variable retention time (VRT) in DRAM data retention time can be located inside gate oxide like channel RTS of metal-oxide-semiconductor field-effect transistors (MOSFETs).

Lateral variability of the estuarine turbidity maximum in a tidal strait: Chapter 24

USGS Publications Warehouse

Ganju, N.K.; Schoellhamer, D.H.; ,

2008-01-01

The behavior of the estuarine turbidity maximum (ETM) in response to freshwater flow, tidal forcing, and bed dynamics has been studied extensively by many researchers. However, the majority of investigations focus on the longitudinal position and strength of the ETM, which can vary over tidal, spring-neap, and seasonal timescales. ETMs may become longitudinally fixed due to bathymetric constraints, and thus the lateral position may vary significantly on differing timescales. Lateral dynamics of the ETM may affect contaminant uptake in biologically active regions, while local deposition patterns may be affected by the dominant lateral position. A longitudinally fixed ETM in Carquinez Strait, California, was studied to specifically investigate the dynamics of lateral ETM variability during April 2004. an abrupt topographical control on the north side restricts gravitational circulation resulting in convergence and particle trapping, creating the ETM. The cross-section was continuously monitored with two upward-looking velocity profilers and four optical backscatterance sensors. In addition, cross-sectional measurements over one tidal cycle were performed during a spring tide with boat-mounted velocity and water quality profilers. The lateral and vertical positions of the ETM center of mass varied by a maximum of 250 and 5 m, respectively (20% of width and 17% of depth) over the tidal timescale, while tidally averaged lateral and vertical positions varied substantially less (50 and 1 m, respectively). ETM position responded to tidal energy (Urms), with higher vertical position and a laterally centered position resulting from increased mixing during spring tides, and a northerly lateral position from decreased mixing during neap tides. Hydrodynamic and sediment transport modeling of this period reproduces the lateral and vertical movements of the ETM center of mass. Modeling results indicate increased gravitational circulation in the strait and enhanced particle trapping on the north side during neap tides, thus displacing the ETM center of mass to the north. The south side has no topographical control, and therefore no particle trapping mechanism exists on the south side. Secondary circulation is strengthened on spring tides, distributing near-bed sediment toward the south. The field and modeling results are in agreement with previous work in Carquinez Strait and further elucidate the strong lateral variation of the ETM, even in narrow, energetic tidal straits. ?? 2008 Elsevier B.V. All rights reserved.

Trapped particles in the polar wind

NASA Astrophysics Data System (ADS)

Demars, H. G.; Barakat, A. R.; Schunk, R. W.

1998-01-01

The flow of plasma along open field lines at high latitudes is highly variable and depends both on conditions in the underlying ionosphere and thermosphere and on the transport of particles and energy from the magnetosphere. Past attempts to model this time variability have, for the most part, examined the response of the plasma on a stationary field line to certain prespecified boundary conditions and heat sources. While such prespecified conditions may bear some resemblance to what occurs naturally, they are artificial and cannot be expected to yield a truly quantitative understanding of the various physical processes that interact to produce the dynamic polar wind. The present study is one in a series of studies that attempts to eliminate this artificiality by coupling the mathematical description of the polar wind to a three-dimensional time-dependent model of the high-latitude ionosphere. In this study, an individual flux tube of plasma is followed as it moves under the influence of combined corotation and convection electric fields. Boundary conditions at the lower end of the flux tube are obtained from the ionosphere model, which takes into account all significant particle species, chemical reactions, and heat sources that contribute to the state of the ionosphere. A multi-ion macroscopic particle-in-cell code is used to model the plasma in the flux tube. A description of the behavior of H+ and O+ for the altitude range from 2000 km to about 8 Earth radii is obtained as the flux tube moves along the trajectory, which traverses regions of the subauroral ionosphere, dayside and nightside ovals, and polar cap. The goal of the study is to determine the extent to which ion trapping can occur in the polar wind and the effects that collisions, wave-particle interactions, centrifugal acceleration, and varying ionospheric conditions have on the trapped ions. The main conclusion of the study is that O+ trapping is important and it acts to increase the O+ density at high altitudes.

Simple point vortex model for the relaxation of 2D superfluid turbulence in a Bose-Einstein condensate

NASA Astrophysics Data System (ADS)

Kim, Joon Hyun; Kwon, Woo Jin; Shin, Yong-Il

2016-05-01

In a recent experiment, it was found that the dissipative evolution of a corotating vortex pair in a trapped Bose-Einstein condensate is well described by a point vortex model with longitudinal friction on the vortex motion and the thermal friction coefficient was determined as a function of sample temperature. In this poster, we present a numerical study on the relaxation of 2D superfluid turbulence based on the dissipative point vortex model. We consider a homogeneous system in a cylindrical trap having randomly distributed vortices and implement the vortex-antivortex pair annihilation by removing a pair when its separation becomes smaller than a certain threshold value. We characterize the relaxation of the turbulent vortex states with the decay time required for the vortex number to be reduced to a quarter of initial number. We find the vortex decay time is inversely proportional to the thermal friction coefficient. In particular, we observe the decay times obtained from this work show good quantitative agreement with the experimental results in, indicating that in spite of its simplicity, the point vortex model reasonably captures the physics in the relaxation dynamics of the real system.

Noninvasive measurement of dynamic correlation functions

NASA Astrophysics Data System (ADS)

Uhrich, Philipp; Castrignano, Salvatore; Uys, Hermann; Kastner, Michael

2017-08-01

The measurement of dynamic correlation functions of quantum systems is complicated by measurement backaction. To facilitate such measurements we introduce a protocol, based on weak ancilla-system couplings, that is applicable to arbitrary (pseudo)spin systems and arbitrary equilibrium or nonequilibrium initial states. Different choices of the coupling operator give access to the real and imaginary parts of the dynamic correlation function. This protocol reduces disturbances due to the early-time measurements to a minimum, and we quantify the deviation of the measured correlation functions from the theoretical, unitarily evolved ones. Implementations of the protocol in trapped ions and other experimental platforms are discussed. For spin-1 /2 models and single-site observables we prove that measurement backaction can be avoided altogether, allowing for the use of ancilla-free protocols.

Sediment dynamics in shallow Lake Markermeer, The Netherlands: field/laboratory surveys and first results for a 3-D suspended solids model.

PubMed

Kelderman, P; De Rozari, P; Mukhopadhyay, S; Ang'weya, R O

2012-01-01

In 2007/08, a study was undertaken on sediment dynamics in shallow Lake Markermeer, The Netherlands. Firstly, the sediment characteristics median grain size, mud content and loss on ignition showed a spatial as well as water depth related pattern indicating wind-induced sediment transport. Sediment dynamics were investigated in a sediment trap field survey at two stations. Sediment yields, virtually all coming from sediment resuspension, were significantly correlated with wind speeds. Resuspension rates for Lake Markermeer were very high, viz. ca. 1,000 g/m(2)day as an annual average, leading to high suspended solids (SS) contents, due to the large lake area and its shallowness (high 'Dynamic Ratio'). Sediment resuspension behaviour was further investigated in preliminary laboratory experiments using a 'micro-flume', applying increasing water currents onto five Lake Markermeer sediments. Resuspension showed a clear exponential behaviour. Finally, a 3-D model was set up for water quality and SS contents in Lake Markermeer; first results showed a good agreement between modelled and actual SS contents. Construction of artificial islands and dams will reduce wind fetches and may be expected to cause a substantial decrease in lake water turbidity.

Electron spin resonance of nitrogen-vacancy centers in optically trapped nanodiamonds

PubMed Central

Horowitz, Viva R.; Alemán, Benjamín J.; Christle, David J.; Cleland, Andrew N.; Awschalom, David D.

2012-01-01

Using an optical tweezers apparatus, we demonstrate three-dimensional control of nanodiamonds in solution with simultaneous readout of ground-state electron-spin resonance (ESR) transitions in an ensemble of diamond nitrogen-vacancy color centers. Despite the motion and random orientation of nitrogen-vacancy centers suspended in the optical trap, we observe distinct peaks in the measured ESR spectra qualitatively similar to the same measurement in bulk. Accounting for the random dynamics, we model the ESR spectra observed in an externally applied magnetic field to enable dc magnetometry in solution. We estimate the dc magnetic field sensitivity based on variations in ESR line shapes to be approximately . This technique may provide a pathway for spin-based magnetic, electric, and thermal sensing in fluidic environments and biophysical systems inaccessible to existing scanning probe techniques. PMID:22869706

Investigation of the Dynamic Contact Angle Using a Direct Numerical Simulation Method.

PubMed

Zhu, Guangpu; Yao, Jun; Zhang, Lei; Sun, Hai; Li, Aifen; Shams, Bilal

2016-11-15

A large amount of residual oil, which exists as isolated oil slugs, remains trapped in reservoirs after water flooding. Numerous numerical studies are performed to investigate the fundamental flow mechanism of oil slugs to improve flooding efficiency. Dynamic contact angle models are usually introduced to simulate an accurate contact angle and meniscus displacement of oil slugs under a high capillary number. Nevertheless, in the oil slug flow simulation process, it is unnecessary to introduce the dynamic contact angle model because of a negligible change in the meniscus displacement after using the dynamic contact angle model when the capillary number is small. Therefore, a critical capillary number should be introduced to judge whether the dynamic contact model should be incorporated into simulations. In this study, a direct numerical simulation method is employed to simulate the oil slug flow in a capillary tube at the pore scale. The position of the interface between water and the oil slug is determined using the phase-field method. The capacity and accuracy of the model are validated using a classical benchmark: a dynamic capillary filling process. Then, different dynamic contact angle models and the factors that affect the dynamic contact angle are analyzed. The meniscus displacements of oil slugs with a dynamic contact angle and a static contact angle (SCA) are obtained during simulations, and the relative error between them is calculated automatically. The relative error limit has been defined to be 5%, beyond which the dynamic contact angle model needs to be incorporated into the simulation to approach the realistic displacement. Thus, the desired critical capillary number can be determined. A three-dimensional universal chart of critical capillary number, which functions as static contact angle and viscosity ratio, is given to provide a guideline for oil slug simulation. Also, a fitting formula is presented for ease of use.

Superradiance and dynamical instability in an illuminated BEC

NASA Astrophysics Data System (ADS)

Lunden, William; Amato-Grill, Jesse; Dimitrova, Ivana; Jepsen, Niklas; Ketterle, Wolfgang

2017-04-01

An elongated, trapped Bose-Einstein condensate illuminated by an off-resonant laser beam has been used as a platform to observe superradiant Rayleigh scattering for almost two decades. We now consider the case of an elongated BEC illuminated by a pair of non-interfering, off-resonant lasers, and explore the dynamics of the coupled light-matter system in the short-time regime (i.e., times on the order of the inverse of the single-photon recoil frequency). In particular, we look for signatures of a proposed dynamical instability in the coupled system which spontaneously breaks the translational symmetry of both the BEC density and the total light field's intensity profile along the long axis of the trap. We also explore the relative roles of the spontaneous light force and the dipole force in both superradiance and this dynamical instability.

Quench-induced resonant tunneling mechanisms of bosons in an optical lattice with harmonic confinement

NASA Astrophysics Data System (ADS)

Mistakidis, Simeon; Koutentakis, Georgios; Schmelcher, Peter; Theory Group of Fundamental Processes in Quantum Physics Team

2017-04-01

The non-equilibrium dynamics of small boson ensembles in one-dimensional optical lattices is explored upon a sudden quench of an additional harmonic trap from strong to weak confinement. We find that the competition between the initial localization and the repulsive interaction leads to a resonant response of the system for intermediate quench amplitudes, corresponding to avoided crossings in the many-body eigenspectrum with varying final trap frequency. In particular, we show that these avoided crossings can be utilized to prepare the system in a desired state. The dynamical response is shown to depend on both the interaction strength as well as the number of atoms manifesting the many-body nature of the tunneling dynamics. Deutsche Forschungsgemeinschaft (DFG) in the framework of the SFB 925 ``Light induced dynamics and control of correlated quantum systems''.

Tempo-spatial dynamics of adult plum curculio (Coleoptera: Curculionidae) based on semiochemical-baited trap captures in blueberries

USDA-ARS?s Scientific Manuscript database

Plum curculio, Conotrachelus nenuphar (Herbst), has become an important pest of highbush blueberries in the northeastern USA. Here, we conducted experiments in 2010-2013 to compare the efficacy of semiochemical-baited traps for C. nenuphar versus conventional (beating cloth) sampling methods in blu...

Snapshot Serengeti, high-frequency annotated camera trap images of 40 mammalian species in an African savanna

PubMed Central

Swanson, Alexandra; Kosmala, Margaret; Lintott, Chris; Simpson, Robert; Smith, Arfon; Packer, Craig

2015-01-01

Camera traps can be used to address large-scale questions in community ecology by providing systematic data on an array of wide-ranging species. We deployed 225 camera traps across 1,125 km2 in Serengeti National Park, Tanzania, to evaluate spatial and temporal inter-species dynamics. The cameras have operated continuously since 2010 and had accumulated 99,241 camera-trap days and produced 1.2 million sets of pictures by 2013. Members of the general public classified the images via the citizen-science website www.snapshotserengeti.org. Multiple users viewed each image and recorded the species, number of individuals, associated behaviours, and presence of young. Over 28,000 registered users contributed 10.8 million classifications. We applied a simple algorithm to aggregate these individual classifications into a final ‘consensus’ dataset, yielding a final classification for each image and a measure of agreement among individual answers. The consensus classifications and raw imagery provide an unparalleled opportunity to investigate multi-species dynamics in an intact ecosystem and a valuable resource for machine-learning and computer-vision research. PMID:26097743

Surface-electrode point Paul trap

DOE Office of Scientific and Technical Information (OSTI.GOV)

Kim, Tony Hyun; Herskind, Peter F.; Chuang, Isaac L.

2010-10-15

We present a model as well as experimental results for a surface electrode radiofrequency Paul trap that has a circular electrode geometry well suited for trapping single ions and two-dimensional planar ion crystals. The trap design is compatible with microfabrication and offers a simple method by which the height of the trapped ions above the surface may be changed in situ. We demonstrate trapping of single {sup 88}Sr{sup +} ions over an ion height range of 200-1000 {mu}m for several hours under Doppler laser cooling and use these to characterize the trap, finding good agreement with our model.

Dynamics of plasma−dust structures formed in a trap created in the narrowing of a current channel in a magnetic field

DOE Office of Scientific and Technical Information (OSTI.GOV)

Dzlieva, E. S., E-mail: plasmadust@yandex.ru; Karasev, V. Yu., E-mail: v.karasev@spbu.ru; Pavlov, S. I.

The geometry and dynamics of plasma−dust structures in a longitudinal magnetic field is studied experimentally. The structures are formed in a glow-discharge trap created in the double electric layer produced as a result of discharge narrowing by means of a dielectric insert introduced in the discharge tube. Studies of structures formed in the new type of glow-discharge trap are of interest from the standpoint of future experiments with complex plasmas in superstrong magnetic fields in which the dust component is magnetized. Different types of dielectric inserts were used: conical and plane ones with symmetric and asymmetric apertures. Conditions for themore » existence of stable dust structures are determined for dust grains of different density and different dispersity. According to the experimental results, the angular velocity of dust rotation is ≥10 s{sup –1}, which is the fastest type of dust motion for all types of discharges in a magnetic field. The rotation is interpreted by analyzing the dynamics of individual dust grains.« less

Seasonal nutrient and plankton dynamics in a physical-biological model of Crater Lake

USGS Publications Warehouse

Fennel, K.; Collier, R.; Larson, G.; Crawford, G.; Boss, E.

2007-01-01

A coupled 1D physical-biological model of Crater Lake is presented. The model simulates the seasonal evolution of two functional phytoplankton groups, total chlorophyll, and zooplankton in good quantitative agreement with observations from a 10-year monitoring study. During the stratified period in summer and early fall the model displays a marked vertical structure: the phytoplankton biomass of the functional group 1, which represents diatoms and dinoflagellates, has its highest concentration in the upper 40 m; the phytoplankton biomass of group 2, which represents chlorophyta, chrysophyta, cryptomonads and cyanobacteria, has its highest concentrations between 50 and 80 m, and phytoplankton chlorophyll has its maximum at 120 m depth. A similar vertical structure is a reoccurring feature in the available data. In the model the key process allowing a vertical separation between biomass and chlorophyll is photoacclimation. Vertical light attenuation (i.e., water clarity) and the physiological ability of phytoplankton to increase their cellular chlorophyll-to-biomass ratio are ultimately determining the location of the chlorophyll maximum. The location of the particle maxima on the other hand is determined by the balance between growth and losses and occurs where growth and losses equal. The vertical particle flux simulated by our model agrees well with flux measurements from a sediment trap. This motivated us to revisit a previously published study by Dymond et al. (1996). Dymond et al. used a box model to estimate the vertical particle flux and found a discrepancy by a factor 2.5-10 between their model-derived flux and measured fluxes from a sediment trap. Their box model neglected the exchange flux of dissolved and suspended organic matter, which, as our model and available data suggests is significant for the vertical exchange of nitrogen. Adjustment of Dymond et al.'s assumptions to account for dissolved and suspended nitrogen yields a flux estimate that is consistent with sediment trap measurements and our model. ?? 2007 Springer Science+Business Media B.V.

Seasonality of the Mediterranean Fruit Fly (Diptera: Tephritidae) on Terceira and Sao Jorge Islands, Azores, Portugal.

PubMed

Pimentel, R; Lopes, D J H; Mexia, A M M; Mumford, J D

2017-01-01

Population dynamics studies are very important for any area-wide control program as they provide detailed knowledge about the relationship of Medfly [Ceratitis capitata (Wiedemann)] life cycle with host availability and abundance. The main goal of this study is to analyse seasonality of C. capitata in Terceira and Sao Jorge Islands (Azores archipelago) using field and laboratory data collected during (2010-2014) CABMEDMAC (MAC/3/A163) project. The results from Sao Jorge Island indicate significantly lower male/female ratio than on Terceira Island. This is an important finding specially regarding when stablishing the scenario parameters for a sterile insect technique application in each island. The population dynamics of C. capitata are generally linked with host fruit availability and abundance. However, on Terceira Island fruit infestation levels are not synchronized with the trap counts. For example, there was Medfly infestations in some fruits [e.g., Solanum mauritianum (Scop.)] while in the nearby traps there were no captures at the same time. From this perspective, it is important to denote the importance of wild invasive plants, on the population dynamics of C. capitata, as well important to consider the possibility of having different densities of traps according to the characteristics of each area in order to improve the network of traps surveillance's sensitivity on Terceira Island. © The Authors 2017. Published by Oxford University Press on behalf of Entomological Society of America.

Camera traps can be heard and seen by animals.

PubMed

Meek, Paul D; Ballard, Guy-Anthony; Fleming, Peter J S; Schaefer, Michael; Williams, Warwick; Falzon, Greg

2014-01-01

Camera traps are electrical instruments that emit sounds and light. In recent decades they have become a tool of choice in wildlife research and monitoring. The variability between camera trap models and the methods used are considerable, and little is known about how animals respond to camera trap emissions. It has been reported that some animals show a response to camera traps, and in research this is often undesirable so it is important to understand why the animals are disturbed. We conducted laboratory based investigations to test the audio and infrared optical outputs of 12 camera trap models. Camera traps were measured for audio outputs in an anechoic chamber; we also measured ultrasonic (n = 5) and infrared illumination outputs (n = 7) of a subset of the camera trap models. We then compared the perceptive hearing range (n = 21) and assessed the vision ranges (n = 3) of mammals species (where data existed) to determine if animals can see and hear camera traps. We report that camera traps produce sounds that are well within the perceptive range of most mammals' hearing and produce illumination that can be seen by many species.

Rich stochastic dynamics of co-doped Er:Yb fluorescence upconversion nanoparticles in the presence of thermal, non-conservative, harmonic and optical forces

NASA Astrophysics Data System (ADS)

Nome, Rene A.; Sorbello, Cecilia; Jobbágy, Matías; Barja, Beatriz C.; Sanches, Vitor; Cruz, Joyce S.; Aguiar, Vinicius F.

2017-03-01

The stochastic dynamics of individual co-doped Er:Yb upconversion nanoparticles (UCNP) were investigated from experiments and simulations. The UCNP were characterized by high-resolution scanning electron microscopy, dynamic light scattering, and zeta potential measurements. Single UCNP measurements were performed by fluorescence upconversion micro-spectroscopy and optical trapping. The mean-square displacement (MSD) from single UCNP exhibited a time-dependent diffusion coefficient which was compared with Brownian dynamics simulations of a viscoelastic model of harmonically bound spheres. Experimental time-dependent two-dimensional trajectories of individual UCNP revealed correlated two-dimensional nanoparticle motion. The measurements were compared with stochastic trajectories calculated in the presence of a non-conservative rotational force field. Overall, the complex interplay of UCNP adhesion, thermal fluctuations and optical forces led to a rich stochastic behavior of these nanoparticles.

A distributed analysis of Human impact on global sediment dynamics

NASA Astrophysics Data System (ADS)

Cohen, S.; Kettner, A.; Syvitski, J. P.

2012-12-01

Understanding riverine sediment dynamics is an important undertaking for both socially-relevant issues such as agriculture, water security and infrastructure management and for scientific analysis of landscapes, river ecology, oceanography and other disciplines. Providing good quantitative and predictive tools in therefore timely particularly in light of predicted climate and landuse changes. Ever increasing human activity during the Anthropocene have affected sediment dynamics in two major ways: (1) an increase is hillslope erosion due to agriculture, deforestation and landscape engineering and (2) trapping of sediment in dams and other man-made reservoirs. The intensity and dynamics between these man-made factors vary widely across the globe and in time and are therefore hard to predict. Using sophisticated numerical models is therefore warranted. Here we use a distributed global riverine sediment flux and water discharge model (WBMsed) to compare a pristine (without human input) and disturbed (with human input) simulations. Using these 50 year simulations we will show and discuss the complex spatial and temporal patterns of human effect on riverine sediment flux and water discharge.

Probing polariton dynamics in trapped ions with phase-coherent two-dimensional spectroscopy

DOE Office of Scientific and Technical Information (OSTI.GOV)

Gessner, Manuel; Schlawin, Frank; Buchleitner, Andreas

2015-06-07

We devise a phase-coherent three-pulse protocol to probe the polariton dynamics in a trapped-ion quantum simulation. In contrast to conventional nonlinear signals, the presented scheme does not change the number of excitations in the system, allowing for the investigation of the dynamics within an N-excitation manifold. In the particular case of a filling factor one (N excitations in an N-ion chain), the proposed interaction induces coherent transitions between a delocalized phonon superfluid and a localized atomic insulator phase. Numerical simulations of a two-ion chain demonstrate that the resulting two-dimensional spectra allow for the unambiguous identification of the distinct phases, andmore » the two-dimensional line shapes efficiently characterize the relevant decoherence mechanism.« less

Chaos and simple determinism in reversed field pinch plasmas: Nonlinear analysis of numerical simulation and experimental data

DOE Office of Scientific and Technical Information (OSTI.GOV)

Watts, Christopher A.

In this dissertation the possibility that chaos and simple determinism are governing the dynamics of reversed field pinch (RFP) plasmas is investigated. To properly assess this possibility, data from both numerical simulations and experiment are analyzed. A large repertoire of nonlinear analysis techniques is used to identify low dimensional chaos in the data. These tools include phase portraits and Poincare sections, correlation dimension, the spectrum of Lyapunov exponents and short term predictability. In addition, nonlinear noise reduction techniques are applied to the experimental data in an attempt to extract any underlying deterministic dynamics. Two model systems are used to simulatemore » the plasma dynamics. These are the DEBS code, which models global RFP dynamics, and the dissipative trapped electron mode (DTEM) model, which models drift wave turbulence. Data from both simulations show strong indications of low dimensional chaos and simple determinism. Experimental date were obtained from the Madison Symmetric Torus RFP and consist of a wide array of both global and local diagnostic signals. None of the signals shows any indication of low dimensional chaos or low simple determinism. Moreover, most of the analysis tools indicate the experimental system is very high dimensional with properties similar to noise. Nonlinear noise reduction is unsuccessful at extracting an underlying deterministic system.« less

A new insight into diffusional escape from a biased cylindrical trap

NASA Astrophysics Data System (ADS)

Berezhkovskii, Alexander M.; Dagdug, Leonardo; Bezrukov, Sergey M.

2017-09-01

Recent experiments with single biological nanopores, as well as single-molecule fluorescence spectroscopy and pulling studies of protein and nucleic acid folding raised a number of questions that stimulated theoretical and computational investigations of barrier crossing dynamics. The present paper addresses a closely related problem focusing on trajectories of Brownian particles that escape from a cylindrical trap in the presence of a force F parallel to the cylinder axis. To gain new insights into the escape dynamics, we analyze the "fine structure" of these trajectories. Specifically, we divide trajectories into two segments: a looping segment, when a particle unsuccessfully tries to escape returning to the trap bottom again and again, and a direct-transit segment, when it finally escapes moving without touching the bottom. Analytical expressions are derived for the Laplace transforms of the probability densities of the durations of the two segments. These expressions are used to find the mean looping and direct-transit times as functions of the biasing force F. It turns out that the force-dependences of the two mean times are qualitatively different. The mean looping time monotonically increases as F decreases, approaching exponential F-dependence at large negative forces pushing the particle towards the trap bottom. In contrast to this intuitively appealing behavior, the mean direct-transit time shows rather counterintuitive behavior: it decreases as the force magnitude, |F|, increases independently of whether the force pushes the particles to the trap bottom or to the exit from the trap, having a maximum at F = 0.

Field evaluation of a new light trap for phlebotomine sand flies.

PubMed

Gaglio, Gabriella; Napoli, Ettore; Falsone, Luigi; Giannetto, Salvatore; Brianti, Emanuele

2017-10-01

Light traps are one of the most common attractive method for the collection of nocturnal insects. Although light traps are generally referred to as "CDC light traps", different models, equipped with incandescent or UV lamps, have been developed. A new light trap, named Laika trap 3.0, equipped with LED lamps and featured with a light and handy design, has been recently proposed into the market. In this study we tested and compared the capture performances of this new trap with those of a classical light trap model under field conditions. From May to November 2013, a Laika trap and a classical light trap were placed biweekly in an area endemic for sand flies. A total of 256 sand fly specimens, belonging to 3 species (Sergentomyia minuta, Phlebotomus perniciosus, Phlebotomus neglectus) were collected during the study period. The Laika trap captured 126 phlebotomine sand flies: P. perniciosus (n=38); S. minuta (n=88), a similar number of specimens (130) and the same species were captured by classical light trap which collected also 3 specimens of P. neglectus. No significant differences in the capture efficiency at each day of trapping, neither in the number of species or in the sex of sand flies were observed. According to results of this study, the Laika trap may be a valid alternative to classical light trap models especially when handy design and low power consumption are key factors in field studies. Copyright © 2017 Elsevier B.V. All rights reserved.

Cryogenic thermal diode heat pipes

NASA Technical Reports Server (NTRS)

Alario, J.

1979-01-01

The development of spiral artery cryogenic thermal diode heat pipes was continued. Ethane was the working fluid and stainless steel the heat pipe material in all cases. The major tasks included: (1) building a liquid blockage (blocking orifice) thermal diode suitable for the HEPP space flight experiment; (2) building a liquid trap thermal diode engineering model; (3) retesting the original liquid blockage engineering model, and (4) investigating the startup dynamics of artery cryogenic thermal diodes. An experimental investigation was also conducted into the wetting characteristics of ethane/stainless steel systems using a specially constructed chamber that permitted in situ observations.

Adiabatic description of long range frequency sweeping

NASA Astrophysics Data System (ADS)

Breizman, Boris; Nyqvist, Robert; Lilley, Matthew

2012-10-01

A theoretical framework is developed to describe long range frequency sweeping events in the 1D electrostatic bump-on-tail model with fast particle sources and collisions. The model includes three collision operators (Krook, drag (dynamical friction) and velocity space diffusion), and allows for a general shape of the fast particle distribution function. The behavior of phase space holes and clumps is analyzed, and the effect of particle trapping due to separatrix expansion is discussed. With a fast particle distribution function whose slope decays above the resonant phase velocity, hooked frequency sweeping is found for holes in the presence of drag collisions alone.

Hierarchical Poly Tree Configurations for the Solution of Dynamically Refined Finte Element Models

NASA Technical Reports Server (NTRS)

Gute, G. D.; Padovan, J.

1993-01-01

This paper demonstrates how a multilevel substructuring technique, called the Hierarchical Poly Tree (HPT), can be used to integrate a localized mesh refinement into the original finite element model more efficiently. The optimal HPT configurations for solving isoparametrically square h-, p-, and hp-extensions on single and multiprocessor computers is derived. In addition, the reduced number of stiffness matrix elements that must be stored when employing this type of solution strategy is quantified. Moreover, the HPT inherently provides localize 'error-trapping' and a logical, efficient means with which to isolate physically anomalous and analytically singular behavior.

Multicomponent exciton gas in cuprous oxide: cooling behaviour and the role of Auger decay

NASA Astrophysics Data System (ADS)

Semkat, D.; Sobkowiak, S.; Schöne, F.; Stolz, H.; Koch, Th; Fehske, H.

2017-10-01

In this paper we present a hydrodynamic model to describe the dynamics of para- and orthoexcitons in cuprous oxide at ultralow temperatures inside a stress induced potential trap. We take into account the finite lifetime of the excitons, the excitation process and exciton-phonon as well as exciton-exciton interaction. Furthermore, we model the two-body loss mechanism assuming an Auger-like effect and compare it to an alternative explanation which relies on the formation of biexcitons. We discuss in detail the influence on the numerical results and compare the predictions to experimental data.

Exact dynamics of a one dimensional Bose gas in a periodic time-dependent harmonic trap

NASA Astrophysics Data System (ADS)

Scopa, Stefano; Unterberger, Jéremie; Karevski, Dragi

2018-05-01

We study the unitary dynamics of a 1D gas of hard-core bosons trapped into a harmonic potential which varies periodically in time with frequency . Such periodic systems can be classified into orbits of different monodromies corresponding to two different physical situations, namely the case in which the bosonic cloud remains stable during the time-evolution and the case where it turns out to be unstable. In the present work we derive in the large particle number limit exact results for the stroboscopic evolution of the energy and particle densities in both physical situations.

Application of dynamic light scattering for studying the evolution of micro- and nano-droplets

NASA Astrophysics Data System (ADS)

Derkachov, G.; Jakubczyk, D.; Kolwas, K.; Shopa, Y.; Woźniak, M.; Wojciechowski, T.

2018-01-01

The dynamic light scattering (DLS) technique was used for studying the processes of aggregation of spherical SiO2 particles in various diethylene glycol (DEG) suspensions. The suspensions were studied in a cuvette, in a millimeter-sized droplet and in a micrometer-sized droplet. For the first time DLS signals for droplets of picolitre volume, levitated in an electrodynamic quadrupole trap, were obtained. It is shown that the correlation analysis of light scattered from a micro-droplet allows monitoring the changes of its internal structure, as well as its motions: trap-constricted Brownian motions and random rotations.

Spatial interference patterns in the dynamics of a 2D Bose-Einstein condensate

NASA Astrophysics Data System (ADS)

Bera, Jayanta; Roy, Utpal

2018-05-01

Bose-Einstein condensate has become a highly tunable physical system, which is proven to mimic a number of interesting physical phenomena in condensed matter physics. We study the dynamics of a two-dimensional Bose Einstein condensate (BEC) in the presence of a flat harmonic confinement and time-dependent sharp potential peak. Condensate density can be meticulously controlled with time by tuning the physically relevant parameters: frequency of the harmonic trap, width of the peaks, frequency of their oscillations, initial density etc. By engineering various trap profile, we solve the system, numerically, and explore the resulting spatial interference patters.

A Survey of Radiation Measurements Made Aboard Russian Spacecraft in Low-Earth Orbit

NASA Technical Reports Server (NTRS)

Benton, E. R.; Benton, E. V.

1999-01-01

The accurate prediction of ionizing radiation exposure in low-Earth orbit is necessary in order to minimize risks to astronauts, spacecraft and instrumentation. To this end, models of the radiation environment, the AP-8 trapped proton model and the AE-8 trapped electron model, have been developed for use by spacecraft designers and mission planners. It has been widely acknowledged for some time now by the space radiation community that these models possess some major shortcomings. Both models cover only a limited trapped particle energy region and predictions at low altitudes are extrapolated from higher altitude data. With the launch of the first components of the International Space Station with numerous constellations of low-Earth orbit communications satellites now being planned and deployed, the inadequacies of these trapped particle models need to be addressed. Efforts are now underway both in the U.S. and in Europe to refine the AP-8 and AE-8 trapped particle models. This report is an attempt to collect a significant fraction of data for use in validation of trapped radiation models at low altitudes.

[Comparison of different sampling traps for Dermanyssus gallinae (Acari: Dermanyssidae) (de Geer, 1778)].

PubMed

Cunha, Lucas M; Cunha, Mariana M; Leite, Romário C; Silva, Israel J; Oliveira, Paulo R de

2009-01-01

This work aims to compare the performance of corrugated paper and "taquaril" bamboo (Phyllostachys sp.) straw traps for collecting (in sampling) Dermanyssus gallinae in a metal cages battery laying hens. The presence of eggs in the two trap models were compared using a Qui-square test and a proportion confidence interval test. Total daily values of mobile instars gathered in each type of trap were compared using the Wilcoxon's test. The amount of traps containing eggs was not different in neither of the traps (p < 0,05). The number of mobile instars sampled at every two days per trap model was different (p

Direct dynamics simulation of dioxetane formation and decomposition via the singlet .O-O-CH2-CH2. biradical: Non-RRKM dynamics

NASA Astrophysics Data System (ADS)

Sun, Rui; Park, Kyoyeon; de Jong, Wibe A.; Lischka, Hans; Windus, Theresa L.; Hase, William L.

2012-07-01

Electronic structure calculations and direct chemical dynamics simulations are used to study the formation and decomposition of dioxetane on its ground state singlet potential energy surface. The stationary points for 1O2 + C2H4, the singlet .O-O-CH2-CH2. biradical, the transition state (TS) connecting this biradical with dioxetane, and the two transition states and gauche .O-CH2-CH2-O. biradical connecting dioxetane with the formaldehyde product molecules are investigated at different levels of electronic structure theory including UB3LYP, UMP2, MRMP2, and CASSCF and a range of basis sets. The UB3LYP/6-31G* method was found to give representative energies for the reactive system and was used as a model for the simulations. UB3LYP/6-31G* direct dynamics trajectories were initiated at the TS connecting the .O-O-CH2-CH2. biradical and dioxetane by sampling the TS's vibrational energy levels, and rotational and reaction coordinate energies, with Boltzmann distributions at 300, 1000, and 1500 K. This corresponds to the transition state theory model for trajectories that pass the TS. The trajectories were directed randomly towards both the biradical and dioxetane. A small fraction of the trajectories directed towards the biradical recrossed the TS and formed dioxetane. The remainder formed 1O2 + C2H4 and of these ˜ 40% went directly from the TS to 1O2 + C2H4 without getting trapped and forming an intermediate in the .O-O-CH2-CH2. biradical potential energy minimum, a non-statistical result. The dioxetane molecules which are formed dissociate to two formaldehyde molecules with a rate constant two orders of magnitude smaller than that predicted by Rice-Ramsperger-Kassel-Marcus theory. The reaction dynamics from dioxetane to the formaldehyde molecules do not follow the intrinsic reaction coordinate or involve trapping in the gauche .O-CH2-CH2-O. biradical potential energy minimum. Important non-statistical dynamics are exhibited for this reactive system.

Can neap-spring tidal cycles modulate biogeochemical fluxes in the abyssal near-seafloor water column?

NASA Astrophysics Data System (ADS)

Turnewitsch, Robert; Dale, Andrew; Lahajnar, Niko; Lampitt, Richard S.; Sakamoto, Kei

2017-05-01

Before particulate matter that settles as 'primary flux' from the interior ocean is deposited into deep-sea sediments it has to traverse the benthic boundary layer (BBL) that is likely to cover almost all parts of the seafloor in the deep seas. Fluid dynamics in the BBL differ vastly from fluid dynamics in the overlying water column and, consequently, have the potential to lead to quantitative and compositional changes between primary and depositional fluxes. Despite this potential and the likely global relevance very little is known about mechanistic and quantitative aspects of the controlling processes. Here, results are presented for a sediment-trap time-series study that was conducted on the Porcupine Abyssal Plain in the abyssal Northeast Atlantic, with traps deployed at 2, 40 and 569 m above bottom (mab). The two bottommost traps were situated within the BBL-affected part of the water column. The time series captured 3 neap and 4 spring tides and the arrival of fresh settling material originating from a surface-ocean bloom. In the trap-collected material, total particulate matter (TPM), particulate inorganic carbon (PIC), biogenic silica (BSi), particulate organic carbon (POC), particulate nitrogen (PN), total hydrolysable amino acids (AA), hexosamines (HA) and lithogenic material (LM) were determined. The biogeochemical results are presented within the context of time series of measured currents (at 15 mab) and turbidity (at 1 mab). The main outcome is evidence for an effect of neap/spring tidal oscillations on particulate-matter dynamics in BBL-affected waters in the deep sea. Based on the frequency-decomposed current measurements and numerical modelling of BBL fluid dynamics, it is concluded that the neap/spring tidal oscillations of particulate-matter dynamics are less likely due to temporally varying total free-stream current speeds and more likely due to temporally and vertically varying turbulence intensities that result from the temporally varying interplay of different rotational flow components (residual, tidal, near-inertial) within the BBL. Using information from previously published empirical and theoretical relations between fluid and biogeochemical dynamics at the scale of individual particle aggregates, a conceptual and semi-quantitative picture of a mechanism was derived that explains how the neap/spring fluid-dynamic oscillations may translate through particle dynamics into neap/spring oscillations of biogeochemical aggregate decomposition (microbially driven organic-matter breakdown, biomineral dissolution). It is predicted that, during transitions from neap into spring tides, increased aggregation in near-seafloor waters and/or reduced deposition of aggregates at the seafloor coincides with reduced biogeochemical particulate-matter decomposition in near-seafloor waters. By contrast, during transitions from spring into neap tides, enhanced biogeochemical particulate-matter decomposition in near-seafloor waters is predicted to coincide with increased deposition of particulate matter at the seafloor. This study suggests that, in addition to current speed, the specifics and subtleties of the interplay of different rotational flow components can be an important control on how the primary flux from the interior ocean is translated into the depositional flux, with potential implications for sedimentary carbon deposition, benthic food supply and possibly even the sedimentary records of environmental change.

Charge Carrier Dynamics of Quantum Confined Semiconductor Nanoparticles Analyzed via Transient Absorption Spectroscopy

NASA Astrophysics Data System (ADS)

Thibert, Arthur Joseph, III

Semiconductor nanoparticles are tiny crystalline structures (typically range from 1 - 100 nm) whose shape in many cases can be dictated through tailored chemical synthesis with atomic scale precision. The small size of these nanoparticles often results in quantum confinement (spatial confinement of wave functions), which imparts the ability to manipulate band-gap energies thus allowing them to be optimally engineered for different applications (i.e., photovoltaics, photocatalysis, imaging). However, charge carriers excited within these nanoparticles are often involved in many different processes: trapping, trap migration, Auger recombination, non-radiative relaxation, radiative relaxation, oxidation / reduction, or multiple exciton generation. Broadband ultrafast transient absorption laser spectroscopy is used to spectrally resolve the fate of excited charge carriers in both wavelength and time, providing insight as to what synthetic developments or operating conditions will be necessary to optimize their efficiency for certain applications. This thesis outlines the effort of resolving the dynamics of excited charge carriers for several Cd and Si based nanoparticle systems using this experimental technique. The thesis is organized into five chapters and two appendices as indicated below. Chapter 1 provides a brief introduction to the photophysics of semiconductor nanoparticles. It begins by defining what nanoparticles, semiconductors, charge carriers, and quantum confinement are. From there it details how the study of charge carrier dynamics within nanoparticles can lead to increased efficiency in applications such as photocatalysis. Finally, the experimental methodology associated with ultrafast transient absorption spectroscopy is introduced and its power in mapping charge carrier dynamics is established. Chapter 2 (JPCC, 19647, 2011) introduces the first of the studied samples: water-solubilized 2D CdSe nanoribbons (NRs), which were synthesized in the Osterloh laboratory (UCD). The measured signals were decomposed into the constituent dynamics of three transient populations: hot tightly bound excitons, relaxed tightly bound excitons, and separated trapped carriers (holes and electrons). The influenes of three external factors affecting the observed dynamics were explored: (1) excitation wavelength, (2) excitation fluence, and (3) presence of the hole scavenger HS -. Both higher-energy excitation photons and higher-intensity excitation induce slower relaxation of charge carriers to the band edge due to the need to dissipate excess excitation energy. Nonlinear decay kinetics of the relaxed exciton population is observed and demonstrated to arise from bimolecular trapping of excitons with low-density trap sites located at CdSe NR surface sites instead of the commonly resolved multiparticle Auger recombination mechanism. This is supported by the observed linear excitation-fluence dependence of the trapped-carrier population that is n umerically simulated and found to deviate from the excitation fluence dependence expected of Auger recombination kinetics. Introducing hole scavenging HS- has a negligible effect on the exciton kinetics, including migration and dissociation, and instead passivates surface trap states to induce the rapid elimination of holes after exciton dissociation. This increases the lifetime of the reactive electron population and increases measured photocatalytic H2 generation activity. A broad (200 nm) and persistent (20 ps) stimulated emission observed in the tightly bound excitons suggests their potential use as broadband microlasers. In chapter 3 (JPCL, 2688, 2011), the photocatalytic H2O splitting activities of CdSe and CdSe/CdS core/shell quantum dots, which were also synthesized in the Osterloh laboratory (UCD) are contrasted. CdSe/CdS core/shell quantum dots constructed from 4.0 nm CdSe quantum dots are shown to be strongly active for visible-light-driven photocatalytic H2 evolution in 0.1M Na 2S/Na2SO3 solution with a turnover number of 9.94 after 5 h at 103.9 μmol/h. CdSe quantum dots themselves are only marginally active in 0.1 M Na2S/Na2SO3 solution with a turnover number of 1.10 after 5 h at 11.53 μmol/h, while CdSe quantum dots in pure H2O are found to be completely inactive. Broad-band transient absorption spectroscopy is used to elucidate the mechanisms that facilitate the enhancement in the CdSe core/shell quantum dots, which is attributed to passivation of surface-deep trap states with energies lying below the reduction potential necessary for H2O reduction. Thus, it is shown that surface trapping dynamics and energetics can be manipulated to dictate the photocatalytic activities of novel CdSe quantum dot based photocatalytic materials. Chapter 4 builds upon this work examining the differences in dynamics that occur upon passivation of water soluble CdZnS alloy cores with ZnS shells, which were produced in the Snee laboratory (UI Chicago), via 400 nm pump broadband probe ultrafast transient absorption spectroscopy, and global analysis modeling. We also examine the perturbation invoked on charge carrier dynamics caused by growing Pd nanoparticles on the CdZnS/ZnS shell surface in-situ and note the cyclical charge carrier transfer that takes place. Both the CdZnS core and CdZnS/ZnS core/shell quantum dots exhibit unusually long lived excited states (much > 8 ns) while the CdZnS/ZnS.Pd tandem core/shell quantum dots recover much quicker (~3 ns). Additionally, ultrafast excitation fluence dependencies are used to characterize Auger recombination and the presence of two different trap state populations observable in the visible spectrum. In chapter 5 (JACS, 20664, 2011), we switch from examining direct band-gap chalcogenide based quantum dots to Si quantum dots synthesized in the Kauzlarich laboratory (UCD), which exhibit an indirect band-gap. Here a microwave-assisted reaction to produce hydrogen-terminated silicon quantum dots is discussed. The Si quantum dots were passivated for water solubility via two different methods: hydrosilylation produced 3-aminopropenyl-terminated Si quantum dots, and a modified Stöber process produced silica-encapsulated Si quantum dots. Both methods produce water-soluble quantum dots with maximum emission at 414 nm, and after purification, the quantum dots exhibit intrinsic fluorescence quantum yield efficiencies of 15 and 23%, respectively. Even though the quantum dots have different surfaces, they exhibit nearly identical absorption and fluorescence spectra. Femtosecond transient absorption spectroscopy was used for temporal resolution of the photoexcited carrier dynamics between the quantum dots and ligand. The transient dynamics of the 3-aminopropenyl-terminated Si quantum dots is interpreted as a formation and decay of a charge-transfer excited state between the delocalized π electrons of the carbon linker and the Si core excitons. This charge transfer state is stable for ~4 ns before reverting back to a more stable, long-living species. The silica-encapsulated Si QDs show a simpler spectrum without charge transfer dynamics. Appendix I (Chem. Mat., 1220, 2010), addresses the long-time (μs) transient kinetics associated with TiO2 and layered titanates (TBA2 2Ti4O9), which were synthesized in the Osterloh laboratory (UCD). Transient absorption data reveal that photogenerated electrons become trapped in mid band-gap states, from which they decay exponentially with a time-constant of 43.67 + 0.28 ms in titanates, which is much slower than the 68 + 1 ns observed for TiO2 nanocrystals. The slower kinetics observed for the TBA 2Ti4O9 nanosheets originates either from the presence of deeper trap sites on the sheets vs. the nanoparticles, more trap sites, or from more effective electron-hole separation because of the micrometer dimensions of the 2D lattice. Appendix II, depicts the visible solar spectrum at sea level detailing the percentage of photons and energy that exist within certain wavelength ranges.

Two-component dark-bright solitons in three-dimensional atomic Bose-Einstein condensates.

PubMed

Wang, Wenlong; Kevrekidis, P G

2017-03-01

In the present work, we revisit two-component Bose-Einstein condensates in their fully three-dimensional (3D) form. Motivated by earlier studies of dark-bright solitons in the 1D case, we explore the stability of these structures in their fully 3D form in two variants. In one the dark soliton is planar and trapping a planar bright (disk) soliton. In the other case, a dark spherical shell soliton creates an effective potential in which a bright spherical shell of atoms is trapped in the second component. We identify these solutions as numerically exact states (up to a prescribed accuracy) and perform a Bogolyubov-de Gennes linearization analysis that illustrates that both structures can be dynamically stable in suitable intervals of sufficiently low chemical potentials. We corroborate this finding theoretically by analyzing the stability via degenerate perturbation theory near the linear limit of the system. When the solitary waves are found to be unstable, we explore their dynamical evolution via direct numerical simulations which, in turn, reveal wave forms that are more robust. Finally, using the SO(2) symmetry of the model, we produce multi-dark-bright planar or shell solitons involved in pairwise oscillatory motion.

Landscape change and sediment yield of rivers in the northeastern US during 19th century

NASA Astrophysics Data System (ADS)

Urbanova, T.; Wreschnig, A. J.; Ruffing, C. M.; McCormack, S. M.; Bain, D. J.; Hermans, C. M.

2009-12-01

During the 19th century, population growth, dam construction, and large scale forest clearing, particularly for agriculture, was followed by a massive migration to urban and industrialized centers. This led to the high degree of rural land abandonment in many parts of northeastern US. Such significant changes in land use and demography impacted sediment loading and delivery to receiving waters. The objective of this study is to assess the historical changes in sediment loading to waters as a result of land use change and related change in soil erosion, dam dynamics and sediment trapping. Various methods for assessing soil erosion, sediment yield and dam influence will be used and compared (RUSLE, BQART model, dam trapping efficiency). We expect to see 1) an accelerated erosion rates and sediment yield following forest clearing and intensification of agriculture and 2) decreased sediment delivery to estuaries with an increasing number of dams. While sediment management often focuses on fluvial corridors, our understanding of historic upland dynamics remains rudimentary. This study aims to highlight and explain the interconnectedness of the landscape-hydro system; with a particular emphasis on anthropogenic forcing and influences.

Condensate oscillations in a Penrose tiling lattice

NASA Astrophysics Data System (ADS)

Akdeniz, Z.; Vignolo, P.

2017-07-01

We study the dynamics of a Bose-Einstein condensate subject to a particular Penrose tiling lattice. In such a lattice, the potential energy at each site depends on the neighbour sites, accordingly to the model introduced by Sutherland [16]. The Bose-Einstein wavepacket, initially at rest at the lattice symmetry center, is released. We observe a very complex time-evolution that strongly depends on the symmetry center (two choices are possible), on the potential energy landscape dispersion, and on the interaction strength. The condensate-width oscillates at different frequencies and we can identify large-frequency reshaping oscillations and low-frequency rescaling oscillations. We discuss in which conditions these oscillations are spatially bounded, denoting a self-trapping dynamics.

Molecular dynamics modeling of helium bubbles in austenitic steels

NASA Astrophysics Data System (ADS)

Jelea, A.

2018-06-01

The austenitic steel devices from pressurized water reactors are continuously subjected to neutron irradiation that produces crystalline point defects and helium atoms in the steel matrix. These species evolve into large defects such as dislocation loops and helium filled bubbles. This paper analyzes, through molecular dynamics simulations with recently developed interatomic potentials, the impact of the helium/steel interface on the helium behavior in nanosize bubbles trapped in an austenitic steel matrix. It is shown that the repulsive helium-steel interactions induce higher pressures in the bubble compared to bulk helium at the same temperature and average density. A new equation of state for helium is proposed in order to take into account these interface effects.

Quench-induced breathing mode of one-dimensional Bose gases.

PubMed

Fang, Bess; Carleo, Giuseppe; Johnson, Aisling; Bouchoule, Isabelle

2014-07-18

We measure the position- and momentum-space breathing dynamics of trapped one-dimensional Bose gases at finite temperature. The profile in real space reveals sinusoidal width oscillations whose frequency varies continuously through the quasicondensate to ideal Bose gas crossover. A comparison with theoretical models taking temperature into account is provided. In momentum space, we report the first observation of a frequency doubling in the quasicondensate regime, corresponding to a self-reflection mechanism due to the repulsive interactions. Such a mechanism is predicted for a fermionized system, and has not been observed to date. The disappearance of the frequency doubling through the crossover is mapped out experimentally, giving insights into the dynamics of the breathing evolution.

Quench-Induced Breathing Mode of One-Dimensional Bose Gases

NASA Astrophysics Data System (ADS)

Fang, Bess; Carleo, Giuseppe; Johnson, Aisling; Bouchoule, Isabelle

2014-07-01

We measure the position- and momentum-space breathing dynamics of trapped one-dimensional Bose gases at finite temperature. The profile in real space reveals sinusoidal width oscillations whose frequency varies continuously through the quasicondensate to ideal Bose gas crossover. A comparison with theoretical models taking temperature into account is provided. In momentum space, we report the first observation of a frequency doubling in the quasicondensate regime, corresponding to a self-reflection mechanism due to the repulsive interactions. Such a mechanism is predicted for a fermionized system, and has not been observed to date. The disappearance of the frequency doubling through the crossover is mapped out experimentally, giving insights into the dynamics of the breathing evolution.

A dynamic magneto-optical trap for atom chips

NASA Astrophysics Data System (ADS)

Rushton, Jo; Roy, Ritayan; Bateman, James; Himsworth, Matt

2016-11-01

We describe a dynamic magneto-optical trap (MOT) suitable for the use with vacuum systems in which optical access is limited to a single window. This technique facilitates the long-standing desire of producing integrated atom chips, many of which are likely to have severely restricted optical access compared with conventional vacuum chambers. This ‘switching-MOT’ relies on the synchronized pulsing of optical and magnetic fields at audio frequencies. The trap’s beam geometry is obtained using a planar mirror surface, and does not require a patterned substrate or bulky optics inside the vacuum chamber. Central to the design is a novel magnetic field geometry that requires no external quadrupole or bias coils which leads toward a very compact system. We have implemented the trap for 85Rb and shown that it is capable of capturing 2 million atoms and directly cooling below the Doppler temperature.

Single particle and collective behavior of electrons in a diamagnetic Kepler trap

NASA Astrophysics Data System (ADS)

Godino, Joseph L.

2001-10-01

The Diamagnetic Kepler Trap (DKT) is a potential energy well that arises from a static Coulomb potential in a superimposed uniform magnetic field. Our goal is to study the single particle and collective behavior of electrons in a DKT. We have three principal reasons for doing so. First, trajectories of a single electron in a DKT can exhibit chaotic motion. The transition from regular to chaotic motion is theoretically interesting and we want to understand how this occurs. Second, we want to understand the behavior of a system of electrons in a laboratory realization of a DKT. In this situation, we have a many particle system of electrons and ions that move under the influence of external potentials in a neutral background gas. Under these conditions, trapped electrons exhibit collective modes of oscillation. Finally, by understanding the behavior of the trapped electrons we believe that we may be able to develop the DKT into an ion beam source. Due to the complexity of the DKT, we break our investigation into three parts. First, we conduct a theoretical and computational study of the motion of a single electron in a DKT. To enhance our understanding, we develop a simple model of the DKT that retains the significant properties of the exact system while permitting us to go further with our theoretical analysis. We develop a solution to the model equations of motion, which provide us with additional insight into the behavior of trajectories near the chaotic transition. Second, we characterize the behavior of trapped electrons in our experimental DKT. We present a set of measurements showing the collective oscillations. In addition, when we operate the DKT at magnetic fields greater than 100 gauss, we observe a columnar plasma beam emerging from the trap that we also characterize. Finally, we simulate the dynamics of the electrons and ions in a DKT. Here we include their interactions with the neutral background gas, boundary effects and space charge. We use the information obtained from our simulations to enhance our knowledge of the electrons in the experimental system.

Circuit model for single-energy-level trap centers in FETs

NASA Astrophysics Data System (ADS)

Albahrani, Sayed Ali; Parker, Anthony; Heimlich, Michael

2016-12-01

A circuit implementation of a single-energy-level trap center in an FET is presented. When included in transistor models it explains the temperature-potential-dependent time constants seen in the circuit manifestations of charge trapping, being gate lag and drain overshoot. The implementation is suitable for both time-domain and harmonic-balance simulations. The proposed model is based on the Shockley-Read-Hall (SRH) statistics of the trapping process. The results of isothermal pulse measurements performed on a GaN HEMT are presented. These measurement allow characterizing charge trapping in isolation from the effect of self-heating. These results are used to obtain the parameters of the proposed model.

Expanding the capability of reaction-diffusion codes using pseudo traps and temperature partitioning: Applied to hydrogen uptake and release from tungsten

DOE Office of Scientific and Technical Information (OSTI.GOV)

Simmonds, M. J.; Yu, J. H.; Wang, Y. Q.

Simulating the implantation and thermal desorption evolution in a reaction-diffusion model requires solving a set of coupled differential equations that describe the trapping and release of atomic species in Plasma Facing Materials (PFMs). These fundamental equations are well outlined by the Tritium Migration Analysis Program (TMAP) which can model systems with no more than three active traps per atomic species. To overcome this limitation, we have developed a Pseudo Trap and Temperature Partition (PTTP) scheme allowing us to lump multiple inactive traps into one pseudo trap, simplifying the system of equations to be solved. For all temperatures, we show themore » trapping of atoms from solute is exactly accounted for when using a pseudo trap. However, a single effective pseudo trap energy can not well replicate the release from multiple traps, each with its own detrapping energy. However, atoms held in a high energy trap will remain trapped at relatively low temperatures, and thus there is a temperature range in which release from high energy traps is effectively inactive. By partitioning the temperature range into segments, a pseudo trap can be defined for each segment to account for multiple high energy traps that are actively trapping but are effectively not releasing atoms. With increasing temperature, as in controlled thermal desorption, the lowest energy trap is nearly emptied and can be removed from the set of coupled equations, while the next higher energy trap becomes an actively releasing trap. Each segment is thus calculated sequentially, with the last time step of a given segment solution being used as an initial input for the next segment as only the pseudo and actively releasing traps are modeled. This PTTP scheme is then applied to experimental thermal desorption data for tungsten (W) samples damaged with heavy ions, which display six distinct release peaks during thermal desorption. Without modifying the TMAP7 source code the PTTP scheme is shown to successfully model the D retention in all six traps. In conclusion, we demonstrate the full reconstruction from the plasma implantation phase through the controlled thermal desorption phase with detrapping energies near 0.9, 1.1, 1.4, 1.7, 1.9 and 2.1 eV for a W sample damaged at room temperature.« less

Expanding the capability of reaction-diffusion codes using pseudo traps and temperature partitioning: Applied to hydrogen uptake and release from tungsten

DOE PAGES

Simmonds, M. J.; Yu, J. H.; Wang, Y. Q.; ...

2018-06-04

Simulating the implantation and thermal desorption evolution in a reaction-diffusion model requires solving a set of coupled differential equations that describe the trapping and release of atomic species in Plasma Facing Materials (PFMs). These fundamental equations are well outlined by the Tritium Migration Analysis Program (TMAP) which can model systems with no more than three active traps per atomic species. To overcome this limitation, we have developed a Pseudo Trap and Temperature Partition (PTTP) scheme allowing us to lump multiple inactive traps into one pseudo trap, simplifying the system of equations to be solved. For all temperatures, we show themore » trapping of atoms from solute is exactly accounted for when using a pseudo trap. However, a single effective pseudo trap energy can not well replicate the release from multiple traps, each with its own detrapping energy. However, atoms held in a high energy trap will remain trapped at relatively low temperatures, and thus there is a temperature range in which release from high energy traps is effectively inactive. By partitioning the temperature range into segments, a pseudo trap can be defined for each segment to account for multiple high energy traps that are actively trapping but are effectively not releasing atoms. With increasing temperature, as in controlled thermal desorption, the lowest energy trap is nearly emptied and can be removed from the set of coupled equations, while the next higher energy trap becomes an actively releasing trap. Each segment is thus calculated sequentially, with the last time step of a given segment solution being used as an initial input for the next segment as only the pseudo and actively releasing traps are modeled. This PTTP scheme is then applied to experimental thermal desorption data for tungsten (W) samples damaged with heavy ions, which display six distinct release peaks during thermal desorption. Without modifying the TMAP7 source code the PTTP scheme is shown to successfully model the D retention in all six traps. In conclusion, we demonstrate the full reconstruction from the plasma implantation phase through the controlled thermal desorption phase with detrapping energies near 0.9, 1.1, 1.4, 1.7, 1.9 and 2.1 eV for a W sample damaged at room temperature.« less

Bacterial diversity differences along an epigenic cave stream reveal evidence of community dynamics, succession, and stability.

PubMed

Brannen-Donnelly, Kathleen; Engel, Annette S

2015-01-01

Unchanging physicochemical conditions and nutrient sources over long periods of time in cave and karst subsurface habitats, particularly aquifers, can support stable ecosystems, termed autochthonous microbial endokarst communities (AMEC). AMEC existence is unknown for other karst settings, such as epigenic cave streams. Conceptually, AMEC should not form in streams due to faster turnover rates and seasonal disturbances that have the capacity to transport large quantities of water and sediment and to change allochthonous nutrient and organic matter sources. Our goal was to investigate whether AMEC could form and persist in hydrologically active, epigenic cave streams. We analyzed bacterial diversity from cave water, sediments, and artificial substrates (Bio-Traps®) placed in the cave at upstream and downstream locations. Distinct communities existed for the water, sediments, and Bio-Trap® samplers. Throughout the study period, a subset of community members persisted in the water, regardless of hydrological disturbances. Stable habitat conditions based on flow regimes resulted in more than one contemporaneous, stable community throughout the epigenic cave stream. However, evidence for AMEC was insufficient for the cave water or sediments. Community succession, specifically as predictable exogenous heterotrophic microbial community succession, was evident from decreases in community richness from the Bio-Traps®, a peak in Bio-Trap® community biomass, and from changes in the composition of Bio-Trap® communities. The planktonic community was compositionally similar to Bio-Trap® initial colonizers, but the downstream Bio-Trap® community became more similar to the sediment community at the same location. These results can help in understanding the diversity of planktonic and attached microbial communities from karst, as well as microbial community dynamics, stability, and succession during disturbance or contamination responses over time.

On the Rigorous Derivation of the 3D Cubic Nonlinear Schrödinger Equation with a Quadratic Trap

NASA Astrophysics Data System (ADS)

Chen, Xuwen

2013-11-01

We consider the dynamics of the three-dimensional N-body Schrödinger equation in the presence of a quadratic trap. We assume the pair interaction potential is N 3 β-1 V( N β x). We justify the mean-field approximation and offer a rigorous derivation of the three-dimensional cubic nonlinear Schrödinger equation (NLS) with a quadratic trap. We establish the space-time bound conjectured by Klainerman and Machedon (Commun Math Phys 279:169-185, 2008) for by adapting and simplifying an argument in Chen and Pavlović (Annales Henri Poincaré, 2013) which solves the problem for in the absence of a trap.

Hydrodynamic interaction of trapped active Janus particles in two dimensions

NASA Astrophysics Data System (ADS)

Debnath, Tanwi; Li, Yunyun; Ghosh, Pulak K.; Marchesoni, Fabio

2018-04-01

The dynamics of a pair of identical artificial microswimmers bound inside two harmonic traps, in a thin sheared fluid film, is numerically investigated. In a two-dimensional Oseen approximation, the hydrodynamic pair coupling is long-ranged and proportional to the particle radius to film thickness ratio. On increasing such ratio above a certain threshold, a transition occurs between a free regime, where each swimmer orbits in its own trap with random phase, and a strong synchronization regime, where the two swimmers strongly repel each other to an average distance larger than both the trap distance and their free orbit diameter. Moreover, the swimmers tend to synchronize their positions opposite the center of the system.

Testing for Dark Matter Trapped in the Solar System

NASA Technical Reports Server (NTRS)

Krisher, Timothy P.

1996-01-01

We consider the possibility of dark matter trapped in the solar system in bound solar orbits. If there exist mechanisms for dissipating excess kinetic energy by an amount sufficient for generating bound solar orbits, then trapping of galactic dark matter might have taken place during formation of the solar system, or could be an ongoing process. Possible locations for acumulation of trapped dark matter are orbital resonances with the planets or regions in the outer solar system. It is posible to test for the presence of unseen matter by detecting its gravitational effects. Current results for dynamical limits obtained from analyses of planetary ephemeris data and spacecraft tracking data are presented. Possible future improvements are discussed.

Use of a Linear Paul Trap to Study Random Noise-Induced Beam Degradation in High-Intensity Accelerators

DOE Office of Scientific and Technical Information (OSTI.GOV)

Chung, Moses; Gilson, Erik P.; Davidson, Ronald C.

2009-04-10

A random noise-induced beam degradation that can affect intense beam transport over long propagation distances has been experimentally studied by making use of the transverse beam dynamics equivalence between an alternating-gradient (AG) focusing system and a linear Paul trap system. For the present studies, machine imperfections in the quadrupole focusing lattice are considered, which are emulated by adding small random noise on the voltage waveform of the quadrupole electrodes in the Paul trap. It is observed that externally driven noise continuously produces a nonthermal tail of trapped ions, and increases the transverse emittance almost linearly with the duration of themore » noise.« less

Predictors of southern pine beetle flight activity

Treesearch

John C. Moser; T.R. Dell

1979-01-01

An equation based on weather data explained differences in capture counts of pine bark beetles trapped twice weekly for an entire year at a single infestation and contributed to the udnerstanding of some aspects of beetle dynamics. The proportion of the beetles that reached the traps increased with maximum temperature and decreased with heavy rain. Production of adults...

Photoinduced Br Desorption from CsBr Thin Films Grown on Cu(100)

DOE Office of Scientific and Technical Information (OSTI.GOV)

Halliday, Matthew T.; Joly, Alan G.; Hess, Wayne P.

2015-10-22

Thin films of CsBr deposited onto metals such as copper are potential photocathode materials for light sources and other applications. We investigate desorption dynamics of Br atoms from CsBr films grown on insulator (KBr, LiF) and metal (Cu) substrates induced by sub-bandgap 6.4 eV laser pulses. The experimental results demonstrate that the peak kinetic energy of Br atoms desorbed from CsBr/Cu films is much lower than that for the hyperthermal desorption from CsBr/LiF films. Kelvin probe measurements indicate negative charge at the surface following Br desorption from CsBr/Cu films. Our ab initio calculations of excitons at CsBr surfaces demonstrate thatmore » this behavior can be explained by an exciton model of desorption including electron trapping at the CsBr surface. Trapped negative charges reduce the energy of surface excitons available for Br desorption. We examine the electron-trapping characteristics of low-coordinated sites at the surface, in particular, divacancies and kink sites. We also provide a model of cation desorption caused by Franck-Hertz excitation of F centers at the surface in the course of irradiation of CsBr/Cu films. These results provide new insights into the mechanisms of photoinduced structural evolution of alkali halide films on metal substrates and activation of metal photocathodes coated with CsBr.« less

Application of Compressible Volume of Fluid Model in Simulating the Impact and Solidification of Hollow Spherical ZrO2 Droplet on a Surface

NASA Astrophysics Data System (ADS)

Safaei, Hadi; Emami, Mohsen Davazdah; Jazi, Hamidreza Salimi; Mostaghimi, Javad

2017-12-01

Applications of hollow spherical particles in thermal spraying process have been developed in recent years, accompanied by attempts in the form of experimental and numerical studies to better understand the process of impact of a hollow droplet on a surface. During such process, volume and density of the trapped gas inside droplet change. The numerical models should be able to simulate such changes and their consequent effects. The aim of this study is to numerically simulate the impact of a hollow ZrO2 droplet on a flat surface using the volume of fluid technique for compressible flows. An open-source, finite-volume-based CFD code was used to perform the simulations, where appropriate subprograms were added to handle the studied cases. Simulation results were compared with the available experimental data. Results showed that at high impact velocities ( U 0 > 100 m/s), the compression of trapped gas inside droplet played a significant role in the impact dynamics. In such velocities, the droplet splashed explosively. Compressibility effects result in a more porous splat, compared to the corresponding incompressible model. Moreover, the compressible model predicted a higher spread factor than the incompressible model, due to planetary structure of the splat.

Microscopic modeling of gas-surface scattering: II. Application to argon atom adsorption on a platinum (111) surface

NASA Astrophysics Data System (ADS)

Filinov, A.; Bonitz, M.; Loffhagen, D.

2018-06-01

A new combination of first principle molecular dynamics (MD) simulations with a rate equation model presented in the preceding paper (paper I) is applied to analyze in detail the scattering of argon atoms from a platinum (111) surface. The combined model is based on a classification of all atom trajectories according to their energies into trapped, quasi-trapped and scattering states. The number of particles in each of the three classes obeys coupled rate equations. The coefficients in the rate equations are the transition probabilities between these states which are obtained from MD simulations. While these rates are generally time-dependent, after a characteristic time scale t E of several tens of picoseconds they become stationary allowing for a rather simple analysis. Here, we investigate this time scale by analyzing in detail the temporal evolution of the energy distribution functions of the adsorbate atoms. We separately study the energy loss distribution function of the atoms and the distribution function of in-plane and perpendicular energy components. Further, we compute the sticking probability of argon atoms as a function of incident energy, angle and lattice temperature. Our model is important for plasma-surface modeling as it allows to extend accurate simulations to longer time scales.

Costs and benefits of trap-neuter-release and euthanasia for removal of urban cats in Oahu, Hawaii.

PubMed

Lohr, Cheryl A; Cox, Linda J; Lepczyk, Christopher A

2013-02-01

Our goal was to determine whether it is more cost-effective to control feral cat abundance with trap-neuter-release programs or trap and euthanize programs. Using STELLA 7, systems modeling software, we modeled changes over 30 years in abundance of cats in a feral colony in response to each management method and the costs and benefits associated with each method . We included costs associated with providing food, veterinary care, and microchips to the colony cats and the cost of euthanasia, wages, and trapping equipment in the model. Due to a lack of data on predation rates and disease transmission by feral cats the only benefits incorporated into the analyses were reduced predation on Wedge-tailed Shearwaters (Puffinus pacificus). When no additional domestic cats were abandoned by owners and the trap and euthanize program removed 30,000 cats in the first year, the colony was extirpated in at least 75% of model simulations within the second year. It took 30 years for trap-neuter-release to extirpate the colony. When the cat population was supplemented with 10% of the initial population size per year, the colony returned to carrying capacity within 6 years and the trap and euthanize program had to be repeated, whereas trap-neuter-release never reduced the number of cats to near zero within the 30-year time frame of the model. The abandonment of domestic cats reduced the cost effectiveness of both trap-neuter-release and trap and euthanize. Trap-neuter-release was approximately twice as expensive to implement as a trap and euthanize program. Results of sensitivity analyses suggested trap-neuter-release programs that employ volunteers are still less cost-effective than trap and euthanize programs that employ paid professionals and that trap-neuter-release was only effective when the total number of colony cats in an area was below 1000. Reducing the rate of abandonment of domestic cats appears to be a more effective solution for reducing the abundance of feral cats. ©2012 Society for Conservation Biology.

Comparative evaluation of the efficiency of the BG-Sentinel trap, CDC light trap and Mosquito-oviposition trap for the surveillance of vector mosquitoes.

PubMed

Li, Yiji; Su, Xinghua; Zhou, Guofa; Zhang, Hong; Puthiyakunnon, Santhosh; Shuai, Shufen; Cai, Songwu; Gu, Jinbao; Zhou, Xiaohong; Yan, Guiyun; Chen, Xiao-Guang

2016-08-12

The surveillance of vector mosquitoes is important for the control of mosquito-borne diseases. To identify a suitable surveillance tool for the adult dengue vector Aedes albopictus, the efficacy of the BG-Sentinel trap, CDC light trap and Mosquito-oviposition trap (MOT) on the capture of vector mosquitoes were comparatively evaluated in this study. The capture efficiencies of the BG-Sentinel trap, CDC light trap and Mosquito-oviposition trap for common vector mosquitoes were tested in a laboratory setting, through the release-recapture method, and at two field sites of Guangzhou, China from June 2013 to May 2014. The captured mosquitoes were counted, species identified and compared among the three traps on the basis of species. In the release-recapture experiments in a laboratory setting, the BG-Sentinel trap caught significantly more Aedes albopictus and Culex quinquefasciatus than the CDC light trap and Mosquito-ovitrap, except for Anopheles sinensis. The BG-Sentinel trap had a higher efficacy in capturing female rather than male Ae. albopictus and Cx. quinquefasciatus, but the capture in CDC light traps displayed no significant differences. In the field trial, BG-Sentinel traps collected more Aedes albopictus than CDC light traps and MOTs collected in both urban and suburban areas. The BG-Sentinel trap was more sensitive for monitoring the population density of Aedes albopictus than the CDC light trap and MOT during the peak months of the year 2013. However, on an average, CDC light traps captured significantly more Cx. quinquefasciatus than BG-Sentinel traps. The population dynamics of Cx. quinquefasciatus displayed a significant seasonal variation, with the lowest numbers in the middle of the year. This study indicates that the BG-Sentinel trap is more effective than the commonly used CDC light trap and MOT in sampling adult Aedes albopictus and Culex quinquefasciatus. We recommend its use in the surveillance of dengue vector mosquitoes in China.

Colloidal transport through trap arrays controlled by active microswimmers

NASA Astrophysics Data System (ADS)

Yang, Wen; Misko, Vyacheslav R.; Marchesoni, Fabio; Nori, Franco

2018-07-01

We investigate the dynamics of a binary mixture consisting of active and passive colloidal particles diffusing in a 2D array of truncated harmonic wells, or traps. We explore the possibility of using a small fraction of active particles to manipulate a much larger fraction of passive particles, for instance, to confine them in or extract them from the traps. The results of our study have potential application in biology and medical sciences, for example, to remove dead cells or undesired contaminants from biological systems by means of self-propelled nano-robots.

Soft hair of dynamical black hole and Hawking radiation

NASA Astrophysics Data System (ADS)

Chu, Chong-Sun; Koyama, Yoji

2018-04-01

Soft hair of black hole has been proposed recently to play an important role in the resolution of the black hole information paradox. Recent work has emphasized that the soft modes cannot affect the black hole S-matrix due to Weinberg soft theorems. However as soft hair is generated by supertranslation of geometry which involves an angular dependent shift of time, it must have non-trivial quantum effects. We consider supertranslation of the Vaidya black hole and construct a non-spherical symmetric dynamical spacetime with soft hair. We show that this spacetime admits a trapping horizon and is a dynamical black hole. We find that Hawking radiation is emitted from the trapping horizon of the dynamical black hole. The Hawking radiation has a spectrum which depends on the soft hair of the black hole and this is consistent with the factorization property of the black hole S-matrix.

Activity-induced clustering in model dumbbell swimmers: the role of hydrodynamic interactions.

PubMed

Furukawa, Akira; Marenduzzo, Davide; Cates, Michael E

2014-08-01

Using a fluid-particle dynamics approach, we numerically study the effects of hydrodynamic interactions on the collective dynamics of active suspensions within a simple model for bacterial motility: each microorganism is modeled as a stroke-averaged dumbbell swimmer with prescribed dipolar force pairs. Using both simulations and qualitative arguments, we show that, when the separation between swimmers is comparable to their size, the swimmers' motions are strongly affected by activity-induced hydrodynamic forces. To further understand these effects, we investigate semidilute suspensions of swimmers in the presence of thermal fluctuations. A direct comparison between simulations with and without hydrodynamic interactions shows these to enhance the dynamic clustering at a relatively small volume fraction; with our chosen model the key ingredient for this clustering behavior is hydrodynamic trapping of one swimmer by another, induced by the active forces. Furthermore, the density dependence of the motility (of both the translational and rotational motions) exhibits distinctly different behaviors with and without hydrodynamic interactions; we argue that this is linked to the clustering tendency. Our study illustrates the fact that hydrodynamic interactions not only affect kinetic pathways in active suspensions, but also cause major changes in their steady state properties.

Activity-induced clustering in model dumbbell swimmers: The role of hydrodynamic interactions

NASA Astrophysics Data System (ADS)

Furukawa, Akira; Marenduzzo, Davide; Cates, Michael E.

2014-08-01

Using a fluid-particle dynamics approach, we numerically study the effects of hydrodynamic interactions on the collective dynamics of active suspensions within a simple model for bacterial motility: each microorganism is modeled as a stroke-averaged dumbbell swimmer with prescribed dipolar force pairs. Using both simulations and qualitative arguments, we show that, when the separation between swimmers is comparable to their size, the swimmers' motions are strongly affected by activity-induced hydrodynamic forces. To further understand these effects, we investigate semidilute suspensions of swimmers in the presence of thermal fluctuations. A direct comparison between simulations with and without hydrodynamic interactions shows these to enhance the dynamic clustering at a relatively small volume fraction; with our chosen model the key ingredient for this clustering behavior is hydrodynamic trapping of one swimmer by another, induced by the active forces. Furthermore, the density dependence of the motility (of both the translational and rotational motions) exhibits distinctly different behaviors with and without hydrodynamic interactions; we argue that this is linked to the clustering tendency. Our study illustrates the fact that hydrodynamic interactions not only affect kinetic pathways in active suspensions, but also cause major changes in their steady state properties.

Testing the Model of Oscillating Magnetic Traps

NASA Astrophysics Data System (ADS)

Szaforz, Ż.; Tomczak, M.

2015-01-01

The aim of this paper is to test the model of oscillating magnetic traps (the OMT model), proposed by Jakimiec and Tomczak ( Solar Phys. 261, 233, 2010). This model describes the process of excitation of quasi-periodic pulsations (QPPs) observed during solar flares. In the OMT model energetic electrons are accelerated within a triangular, cusp-like structure situated between the reconnection point and the top of a flare loop as seen in soft X-rays. We analyzed QPPs in hard X-ray light curves for 23 flares as observed by Yohkoh. Three independent methods were used. We also used hard X-ray images to localize magnetic traps and soft X-ray images to diagnose thermal plasmas inside the traps. We found that the majority of the observed pulsation periods correlates with the diameters of oscillating magnetic traps, as was predicted by the OMT model. We also found that the electron number density of plasma inside the magnetic traps in the time of pulsation disappearance is strongly connected with the pulsation period. We conclude that the observations are consistent with the predictions of the OMT model for the analyzed set of flares.

A qualitative study of vortex trapping capability for lift enhancement on unconventional wing

NASA Astrophysics Data System (ADS)

Salleh, M. B.; Kamaruddin, N. M.; Mohamed-Kassim, Z.

2018-05-01

Lift enhancement by using passive vortex trapping technique offers great advantage in small aircraft design as it can improve aerodynamics performance and reduce weight of the wing. To achieve this aim, a qualitative study on the flow structures across wing models with cavities has been performed using smoke wire visualisation technique. An experiment has been conducted at low Reynolds number of 26,000 with angle of attack (α) = 0°, 5°, 10° and 15° to investigate the vortex trapping capability of semi-circular leading edge (SCLE) flat-plate wing model and elliptical leading edge (ELE) flat-plate wing model with cavities, respectively. Results from the qualitative study indicated unique characteristics in the flow structures between the tested wing models. The SCLE wing models were able to trap stable rotating vortices for α ≤ 10° whereas the ability of ELE wing models to suppress flow separation allowed stable clockwise vortices to be trapped inside the cavities even at α > 10°. The trapped vortices found to have the potential to increase lift on the unconventional wing models.

The investigation of trapped thickness shear modes in a contoured AT-cut quartz plate using the power series expansion technique

NASA Astrophysics Data System (ADS)

Li, Peng; Jin, Feng

2018-01-01

The dynamic model about the anti-plane vibration of a contoured quartz plate with thickness changing continuously is established by ignoring the effect of small elastic constant c 56. The governing equation is solved using the power series expansion technique, and the trapped thickness shear modes caused by bulge thickness are revealed. Theoretically, the proposed method is more general, which can be capable of handling various thickness profiles defined mathematically. After the convergence of the series is demonstrated and the correctness is numerically validated with the aid of finite element method results, systematic parametric studies are subsequently carried out to quantify the effects of the geometry parameter upon the trapped modes, including resonant frequency and mode shape. After that, the band structures of thickness shear waves propagation in a periodically contoured quartz plate, as well as the power transmission spectra, are obtained based on the power series expansion technique. It is revealed that broad stop bands below cut-off frequency exist owing to the trapped modes excited by the geometry inhomogeneity, which has little relationship with the structural periodicity, and its physical mechanism is different from the Bragg scattering effect. The outcome is widely applicable, and can be utilized to provide theoretical and practical guidance for the design and manufacturing of quartz resonators and wave filters.

Magnetic microstructures for regulating Brownian motion

NASA Astrophysics Data System (ADS)

Sooryakumar, Ratnasingham

2013-03-01

Nature has proven that it is possible to engineer complex nanoscale machines in the presence of thermal fluctuations. These biological complexes, which harness random thermal energy to provide functionality, yield a framework to develop related artificial, i.e., nonbiological, phenomena and devices. A major challenge to achieving positional control of fluid-borne submicron sized objects is regulating their Brownian fluctuations. In this talk a magnetic-field-based trap that regulates the thermal fluctuations of superparamagnetic beads in suspension will be presented. Local domain-wall fields originating from patterned magnetic wires, whose strength and profile are tuned by weak external fields, enable bead trajectories within the trap to be managed and easily varied between strong confinements and delocalized spatial excursions. Moreover, the frequency spectrum of the trapped bead responds to fields as a power-law function with a tunable, non-integer exponent. When extended to a cluster of particles, the trapping landscape preferentially stabilizes them into formations of 5-fold symmetry, while their Brownian fluctuations result in frequent transitions between different cluster configurations. The quantitative understanding of the Brownian dynamics together with the ability to tune the extent of the fluctuations enables the wire-based platform to serve as a model system to investigate the competition between random and deterministic forces. Funding from the U.S. Army Research Office under contract W911NF-10-1-0353 is acknowledged.

Dynamical consequences of mantle heterogeneity in two-phase models of mid-ocean ridges

NASA Astrophysics Data System (ADS)

Katz, R. F.

2010-12-01

The mid-ocean ridge system, over 50,000 km in length, samples the magmatic products of a large swath of the asthenosphere. It provides our best means to assess the heterogeneity structure of the upper mantle. Interpretation of the diverse array of observations of MOR petrology, geochemistry, tomography, etc requires models that can map heterogeneity structure onto predictions testable by comparison with these observations. I report on progress to this end; in particular, I describe numerical models of coupled magma/mantle dynamics at mid-ocean ridges [1,2]. These models incorporate heterogeneity in terms of a simple, two-component thermochemical system with specified amplitude and spatial distribution. They indicate that mantle heterogeneity has significant fluid-dynamical consequences for both mantle and magmatic flow. Models show that the distribution of enrichment can lead to asymmetry in the strength of upwelling across the ridge-axis and channelised magmatic transport to the axis. Furthermore, heterogeneity can cause off-axis upwelling of partially molten diapirs, trapping of enriched melts off-axis, and re-fertilization of the mantle by pooled and refrozen melts. Predicted consequences of geochemical heterogeneity may also be considered. References: [1] Katz, RF, (2008); Magma dynamics with the Enthalpy Method: Benchmark Solutions and Magmatic Focusing at Mid-ocean Ridges. Journal of Petrology, doi: 10.1093/petrology/egn058. [2] Katz RF, (2010); Porosity-driven convection and asymmetry beneath mid-ocean ridges. Submitted to G3.

Camera Traps Can Be Heard and Seen by Animals

PubMed Central

Meek, Paul D.; Ballard, Guy-Anthony; Fleming, Peter J. S.; Schaefer, Michael; Williams, Warwick; Falzon, Greg

2014-01-01

Camera traps are electrical instruments that emit sounds and light. In recent decades they have become a tool of choice in wildlife research and monitoring. The variability between camera trap models and the methods used are considerable, and little is known about how animals respond to camera trap emissions. It has been reported that some animals show a response to camera traps, and in research this is often undesirable so it is important to understand why the animals are disturbed. We conducted laboratory based investigations to test the audio and infrared optical outputs of 12 camera trap models. Camera traps were measured for audio outputs in an anechoic chamber; we also measured ultrasonic (n = 5) and infrared illumination outputs (n = 7) of a subset of the camera trap models. We then compared the perceptive hearing range (n = 21) and assessed the vision ranges (n = 3) of mammals species (where data existed) to determine if animals can see and hear camera traps. We report that camera traps produce sounds that are well within the perceptive range of most mammals’ hearing and produce illumination that can be seen by many species. PMID:25354356

A hierarchical model for estimating density in camera-trap studies

USGS Publications Warehouse

Royle, J. Andrew; Nichols, James D.; Karanth, K.Ullas; Gopalaswamy, Arjun M.

2009-01-01

Estimating animal density using capture–recapture data from arrays of detection devices such as camera traps has been problematic due to the movement of individuals and heterogeneity in capture probability among them induced by differential exposure to trapping.We develop a spatial capture–recapture model for estimating density from camera-trapping data which contains explicit models for the spatial point process governing the distribution of individuals and their exposure to and detection by traps.We adopt a Bayesian approach to analysis of the hierarchical model using the technique of data augmentation.The model is applied to photographic capture–recapture data on tigers Panthera tigris in Nagarahole reserve, India. Using this model, we estimate the density of tigers to be 14·3 animals per 100 km2 during 2004.Synthesis and applications. Our modelling framework largely overcomes several weaknesses in conventional approaches to the estimation of animal density from trap arrays. It effectively deals with key problems such as individual heterogeneity in capture probabilities, movement of traps, presence of potential ‘holes’ in the array and ad hoc estimation of sample area. The formulation, thus, greatly enhances flexibility in the conduct of field surveys as well as in the analysis of data, from studies that may involve physical, photographic or DNA-based ‘captures’ of individual animals.

Comparative evaluation of four mosquitoes sampling methods in rice irrigation schemes of lower Moshi, northern Tanzania.

PubMed

Kweka, Eliningaya J; Mahande, Aneth M

2009-07-06

Adult malaria vector sampling is the most important parameter for setting up an intervention and understanding disease dynamics in malaria endemic areas. The intervention will ideally be species-specific according to sampling output. It was the objective of this study to evaluate four sampling techniques, namely human landing catch, pit shelter, indoor resting collection and odour-baited entry trap. These four sampling methods were evaluated simultaneously for thirty days during October 2008, a season of low mosquitoes density and malaria transmission. These trapping methods were performed in one village for maximizing homogeneity in mosquito density. The cattle and man used in odour-baited entry trap were rotated between the chambers to avoid bias. A total of 3,074 mosquitoes were collected. Among these 1,780 (57.9%) were Anopheles arabiensis and 1,294 (42.1%) were Culex quinquefasciatus. Each trap sampled different number of mosquitoes, Indoor resting collection collected 335 (10.9%), Odour-baited entry trap-cow 1,404 (45.7%), Odour-baited entry trap-human 378 (12.3%), Pit shelter 562 (18.3%) and HLC 395 (12.8%). General linear model univariate analysis method was used, position of the trapping method had no effect on mosquito density catch (DF = 4, F = 35.596, P = 0.78). Days variation had no effect on the collected density too (DF = 29, F = 4.789, P = 0.09). The sampling techniques had significant impact on the caught mosquito densities (DF = 4, F = 34.636, P < 0.0001). The Wilcoxon pair-wise comparison between mosquitoes collected in human landing catch and pit shelter was significant (Z = -3.849, P < 0.0001), human landing catch versus Indoor resting collection was not significant (Z = -0.502, P = 0.615), human landing catch versus odour-baited entry trap-man was significant (Z = -2.687, P = 0.007), human landing catch versus odour-baited entry trap-cow was significant (Z = -3.127, P = 0.002). Odour-baited traps with different baits and pit shelter have shown high productivity in collecting higher densities of mosquitoes than human landing catch. These abilities are the possibilities of replacing the human landing catch practices for sampling malaria vectors in areas with An. arabiensis as malaria vectors. Further evaluations of these sampling methods need to be investigated is other areas with different species.

Trapping force and optical lifting under focused evanescent wave illumination.

PubMed

Ganic, Djenan; Gan, Xiaosong; Gu, Min

2004-11-01

A physical model is presented to understand and calculate trapping force exerted on a dielectric micro-particle under focused evanescent wave illumination. This model is based on our recent vectorial diffraction model by a high numerical aperture objective operating under the total internal condition. As a result, trapping force in a focused evanescent spot generated by both plane wave (TEM00) and doughnut beam (TEM*01) illumination is calculated, showing an agreement with the measured results. It is also revealed by this model that unlike optical trapping in the far-field region, optical axial trapping force in an evanescent focal spot increases linearly with the size of a trapped particle. This prediction shows that it is possible to overcome the force of gravity to lift a polystyrene particle of up to 800 nm in radius with a laser beam of power 10 microW.

Communities of Social Bees (Apidae: Meliponini) in Trap-Nests: the Spatial Dynamics of Reproduction in an Area of Atlantic Forest.

PubMed

Silva, M D; Ramalho, M; Monteiro, D

2014-08-01

As most stingless bee species depend on preexisting cavities, principally tree hollows, nesting site availability may represent an important restriction in the structuring of their forest communities. The present study examined the spatial dynamics of stingless bee communities in an area of Atlantic Forest by evaluating their swarming to trap-nests. The field work was performed in the Michelin Ecological Reserve (MER) on the southeastern coast of the state of Bahia, Brazil. Seven hundred and twenty trap-nests were distributed within two forest habitats in advanced and initial stages of regeneration. The trap-nests were monitored between September 2009 and March 2011. Twenty-five trap-nests were occupied by five bee species, resulting in a capture ratio of 0.035 swarms/trap (approximately 0.14 swarms/ha), corresponding to 10 swarms/year (0.056 swarms/ha/year). According to previous study at MER, the most abundant species in natural nests were also the most common in trap-nests in the two forest habitats examined, with the exception of Melipona scutellaris Latreille. Swarms of higher numbers of species were captured in initial regeneration stage forests than in advanced regeneration stage areas, and differences in species compositions were significant between both habitats (p = 0.03); these apparent differences were not consistent, however, when considering richness (p = 0.14) and total abundance (p = 0.08). The present study suggests the existence of a minimum cavity size threshold of approximately 1 L for most local species of stingless bees and sustains the hypothesis of a mass effect of Tetragonisca angustula Latreille populations from surrounding disturbed habitats on the MER forest community in terms of propagule (swarm) pressure. Examining swarm densities with trap-nests can be a promising technique for comparative analyses of the carrying capacities of forest habitats for stingless bee colonies, as long as size thresholds of cavities for nesting are taken into consideration.

Inference for occupancy and occupancy dynamics

USGS Publications Warehouse

O'Connell, Allan F.; Bailey, Larissa L.; O'Connell, Allan F.; Nichols, James D.; Karanth, K. Ullas

2011-01-01

This chapter deals with the estimation of occupancy as a state variable to assess the status of, and track changes in, species distributions when sampling with camera traps. Much of the recent interest in occupancy estimation and modeling originated from the models developed by MacKenzie et al. (2002, 2003), although similar methods were developed independently (Azuma et al. 1990; Bayley and Petersen 2001; Nichols and Karanth, 2002; Tyre et al. 2003), all of which deal with species occurrence information and imperfect detection. Less than a decade after these publications, the modeling and estimation of species occurrence and occupancy dynamics have increased significantly. Special features of scientific journals have explored innovative uses of detection–nondetection data with occupancy models (Vojta 2005), and an entire volume has synthesized the use and application of occupancy estimation methods (MacKenzie et al. 2006). Reviews of the topical concepts, philosophical considerations, and various sampling designs that can be used for occupancy estimation are now readily available for a range of audiences (MacKenzie and Royle 2005; MacKenzie et al. 2006; Bailey et al. 2007; Royle and Dorazio 2008; Conroy and Carroll 2009; Kendall and White 2009; Hines et al. 2010; Link and Barker 2010). As a result, it would be pointless here to recast all that these publications have so eloquently articulated, but that said, a review of any scientific topic requires sufficient context and relevant background information, especially when relatively new methodologies and techniques such as occupancy estimation and camera traps are involved. This is especially critical in a digital age where new information is published at warp speed, making it increasingly difficult to stay abreast of theoretical advances and research developments.

Transparency of near-critical density plasmas under extreme laser intensities

NASA Astrophysics Data System (ADS)

Ji, Liangliang; Shen, Baifei; Zhang, Xiaomei

2018-05-01

We investigated transparency of near-critical plasma targets for highly intense incident lasers and discovered that beyond relativistic transparency, there exists an anomalous opacity regime, where the plasma target tend to be opaque at extreme light intensities. The unexpected phenomenon is found to originate from the trapping of ions under exotic conditions. We found out the propagation velocity and the amplitude of the laser-driven charge separation field in a large parameter range and derived the trapping probability of ions. The model successfully interpolates the emergence of anomalous opacity in simulations. The trend is more significant when radiation reaction comes into effect, leaving a transparency window in the intensity domain. Transparency of a plasma target defines the electron dynamics and thereby the emission mechanisms of gamma-photons in the ultra-relativistic regime. Our findings are not only of fundamental interest but also imply the proper mechanisms for generating desired electron/gamma sources.

Rydberg blockade in three-atom systems

NASA Astrophysics Data System (ADS)

Barredo, Daniel; Ravets, Sylvain; Labuhn, Henning; Beguin, Lucas; Vernier, Aline; Chicireanu, Radu; Nogrette, Florence; Lahaye, Thierry; Browaeys, Antoine

2014-05-01

The control of individual neutral atoms in arrays of optical tweezers is a promising avenue for quantum science and technology. Here we demonstrate unprecedented control over a system of three Rydberg atoms arranged in linear and triangular configurations. The interaction between Rydberg atoms results in the observation of an almost perfect van der Waals blockade. When the single-atom Rabi frequency for excitation to the Rydberg state is comparable to the interaction energy, we directly observe the anisotropy of the interaction between nD-states. Using the independently measured two-body interaction energy shifts we fully reproduce the dynamics of the three-atom system with a model based on a master equation without any adjustable parameter. Combined with our ability to trap single atoms in arbitrary patterns of 2D arrays of up to 100 traps separated by a few microns, these results are very promising for a scalable implementation of quantum simulation of frustrated quantum magnetism with Rydberg atoms.

Using GPU parallelization to perform realistic simulations of the LPCTrap experiments

NASA Astrophysics Data System (ADS)

Fabian, X.; Mauger, F.; Quéméner, G.; Velten, Ph.; Ban, G.; Couratin, C.; Delahaye, P.; Durand, D.; Fabre, B.; Finlay, P.; Fléchard, X.; Liénard, E.; Méry, A.; Naviliat-Cuncic, O.; Pons, B.; Porobic, T.; Severijns, N.; Thomas, J. C.

2015-11-01

The LPCTrap setup is a sensitive tool to measure the β - ν angular correlation coefficient, a β ν , which can yield the mixing ratio ρ of a β decay transition. The latter enables the extraction of the Cabibbo-Kobayashi-Maskawa (CKM) matrix element V u d . In such a measurement, the most relevant observable is the energy distribution of the recoiling daughter nuclei following the nuclear β decay, which is obtained using a time-of-flight technique. In order to maximize the precision, one can reduce the systematic errors through a thorough simulation of the whole set-up, especially with a correct model of the trapped ion cloud. This paper presents such a simulation package and focuses on the ion cloud features; particular attention is therefore paid to realistic descriptions of trapping field dynamics, buffer gas cooling and the N-body space charge effects.

Spontaneous membrane formation and self-encapsulation of active rods in an inhomogeneous motility field

NASA Astrophysics Data System (ADS)

Grauer, Jens; Löwen, Hartmut; Janssen, Liesbeth M. C.

2018-02-01

We study the collective dynamics of self-propelled rods in an inhomogeneous motility field. At the interface between two regions of constant but different motility, a smectic rod layer is spontaneously created through aligning interactions between the active rods, reminiscent of an artificial, semipermeable membrane. This "active membrane" engulfes rods which are locally trapped in low-motility regions and thereby further enhances the trapping efficiency by self-organization, an effect which we call "self-encapsulation." Our results are gained by computer simulations of self-propelled rod models confined on a two-dimensional planar or spherical surface with a stepwise constant motility field, but the phenomenon should be observable in any geometry with sufficiently large spatial inhomogeneity. We also discuss possibilities to verify our predictions of active-membrane formation in experiments of self-propelled colloidal rods and vibrated granular matter.

Trapped Proton Environment in Medium-Earth Orbit (2000-2010)

DOE Office of Scientific and Technical Information (OSTI.GOV)

Chen, Yue; Friedel, Reinhard Hans; Kippen, Richard Marc

This report describes the method used to derive fluxes of the trapped proton belt along the GPS orbit (i.e., a Medium-Earth Orbit) during 2000 – 2010, a period almost covering a solar cycle. This method utilizes a newly developed empirical proton radiation-belt model, with the model output scaled by GPS in-situ measurements, to generate proton fluxes that cover a wide range of energies (50keV- 6MeV) and keep temporal features as well. The new proton radiation-belt model is developed based upon CEPPAD proton measurements from the Polar mission (1996 – 2007). Comparing to the de-facto standard empirical model of AP8, thismore » model is not only based upon a new data set representative of the proton belt during the same period covered by GPS, but can also provide statistical information of flux values such as worst cases and occurrence percentiles instead of solely the mean values. The comparison shows quite different results from the two models and suggests that the commonly accepted error factor of 2 on the AP8 flux output over-simplifies and thus underestimates variations of the proton belt. Output fluxes from this new model along the GPS orbit are further scaled by the ns41 in-situ data so as to reflect the dynamic nature of protons in the outer radiation belt at geomagnetically active times. Derived daily proton fluxes along the GPS ns41 orbit, whose data files are delivered along with this report, are depicted to illustrate the trapped proton environment in the Medium-Earth Orbit. Uncertainties on those daily proton fluxes from two sources are evaluated: One is from the new proton-belt model that has error factors < ~3; the other is from the in-situ measurements and the error factors could be ~ 5.« less

Space Environments and Effects: Trapped Proton Model

NASA Technical Reports Server (NTRS)

Huston, S. L.; Kauffman, W. (Technical Monitor)

2002-01-01

An improved model of the Earth's trapped proton environment has been developed. This model, designated Trapped Proton Model version 1 (TPM-1), determines the omnidirectional flux of protons with energy between 1 and 100 MeV throughout near-Earth space. The model also incorporates a true solar cycle dependence. The model consists of several data files and computer software to read them. There are three versions of the mo'del: a FORTRAN-Callable library, a stand-alone model, and a Web-based model.

Classification of Stellar Orbits Near Corotation

NASA Astrophysics Data System (ADS)

Breet, Jessica; Daniel, Kathryne J.; Bryn Mawr College Galaxy Lab

2018-01-01

The process of radial migration is frequently invoked as an important process to spiral galaxy evolution, but the physical properties that determine the efficiency of radial migration are poorly defined. In order for a star to migrate radially it must first be trapped in a resonant orbit at the corotation radius of a spiral pattern. Stars in such trapped orbits have changing average orbital radii — and thus orbital angular momenta — without any change in orbital eccentricity. It follows that transient spiral patterns can permanently rearrange the distribution of orbital angular momentum in the disk without kinematically heating it. It is also known that orbits can also have a significant dynamical response at Lindblad Resonances (LRs), where the Ultraharmonic Lindblad Resonances (ULRs) have a lesser impact on the disk. The goal of our project is to examine and constrain the efficiency of radial migration via an investigation into whether or not stars in trapped orbits have a dynamical response at the ULRs. We produced a dataset of nearly 105 orbits with initial conditions across a range of radii and 2-D velocities. We then classified these orbits into four categories based on analytic criteria for whether or not they are in trapped orbits and/or cross the ULR over 1 gigayear. Preliminary investigations show that trapped orbits that also meet the ULR have a chaotic response, putting a potential limit on the efficiency of radial migration.

Investigations of potential bias in the estimation of lambda using Pradel's (1996) model for capture-recapture data

USGS Publications Warehouse

Hines, J.E.; Nichols, J.D.

2002-01-01

Pradel's (1996) temporal symmetry model permitting direct estimation and modelling of population growth rate, lambda sub i provides a potentially useful tool for the study of population dynamics using marked animals. Because of its recent publication date, the approach has not seen much use, and there have been virtually no investigations directed at robustness of the resulting estimators. Here we consider several potential sources of bias, all motivated by specific uses of this estimation approach. We consider sampling situations in which the study area expands with time and present an analytic expression for the bias in lambda hat sub i. We next consider trap response in capture probabilities and heterogeneous capture probabilities and compute large-sample and simulation-based approximations of resulting bias in lambda hat sub i. These approximations indicate that trap response is an especially important assumption violation that can produce substantial bias. Finally, we consider losses on capture and emphasize the importance of selecting the estimator for lambda sub i that is appropriate to the question being addressed. For studies based on only sighting and resighting data, Pradel's (1996) lambda hat prime sub i is the appropriate estimator.

Relativistic space-charge-limited transport in Dirac semiconductor

NASA Astrophysics Data System (ADS)

Ang, Yee Sin; Zubair, M.; Ang, L. K.; Lavoie, Philippe

The theory of space-charge-limited (SCL) current was first formulated by Mott and Gurney more than 70 years ago based on the semiclassical transport of quasi-free electron in dielectric solids. Its validity for recently fabricated 2D materials, which can host different classes of exotic quasiparticles, remains questionable. Recently, SCL transport measurements in 2D Dirac semiconductor, such as MoS2 and hBN monolayers, revealed anomalous current-voltage scaling of J V 1 . 7 which cannot be satisfactorily explained by conventional theories. In this work, we propose a theory of space-charge-limited transport that takes into account the relativistic quasiparticle dynamics in 2D Dirac semiconductor based on semiclassical Boltzmann transport equation. Our relativistic SCL model reveals an unconventional scaling relation of J Vα with 3 / 2 < α < 2 in the trap-free (or trap-filled) regime, which is in stark contrast to the Mott-Gurney relation of α = 2 and the Mark-Helfrich relation of α > 2 . The α < 2 scaling is a unique manifestation of the massive Dirac quasiparticles and is supported by the experimental data of MoS2. The relativistic SCL model proposed here shall provide a physical basis for the modelling of Dirac-material-based devices

Magnetic targeting to enhance microbubble delivery in an occluded microarterial bifurcation

NASA Astrophysics Data System (ADS)

de Saint Victor, M.; Carugo, D.; Barnsley, L. C.; Owen, J.; Coussios, C.-C.; Stride, E.

2017-09-01

Ultrasound and microbubbles have been shown to accelerate the breakdown of blood clots both in vitro and in vivo. Clinical translation of this technology is still limited, however, in part by inefficient microbubble delivery to the thrombus. This study examines the obstacles to delivery posed by fluid dynamic conditions in occluded vasculature and investigates whether magnetic targeting can improve microbubble delivery. A 2D computational fluid dynamic model of a fully occluded Y-shaped microarterial bifurcation was developed to determine: (i) the fluid dynamic field in the vessel with inlet velocities from 1-100 mm s-1 (corresponding to Reynolds numbers 0.25-25) (ii) the transport dynamics of fibrinolytic drugs; and (iii) the flow behavior of microbubbles with diameters in the clinically-relevant range (0.6-5 µm). In vitro experiments were carried out in a custom-built microfluidic device. The flow field was characterized using tracer particles, and fibrinolytic drug transport was assessed using fluorescence microscopy. Lipid-shelled magnetic microbubbles were fluorescently labelled to determine their spatial distribution within the microvascular model. In both the simulations and experiments, the formation of laminar vortices and an abrupt reduction of fluid velocity were observed in the occluded branch of the bifurcation, severely limiting drug transport towards the occlusion. In the absence of a magnetic field, no microbubbles reached the occlusion, remaining trapped in the first vortex, within 350 µm from the bifurcation center. The number of microbubbles trapped within the vortex decreased as the inlet velocity increased, but was independent of microbubble size. Application of a magnetic field (magnetic flux density of 76 mT, magnetic flux density gradient of 10.90 T m-1 at the centre of the bifurcation) enabled delivery of microbubbles to the occlusion and the number of microbubbles delivered increased with bubble size and with decreasing inlet velocity.

Biaxially mechanical tuning of 2-D reversible and irreversible surface topologies through simultaneous and sequential wrinkling.

PubMed

Yin, Jie; Yagüe, Jose Luis; Boyce, Mary C; Gleason, Karen K

2014-02-26

Controlled buckling is a facile means of structuring surfaces. The resulting ordered wrinkling topologies provide surface properties and features desired for multifunctional applications. Here, we study the biaxially dynamic tuning of two-dimensional wrinkled micropatterns under cyclic mechanical stretching/releasing/restretching simultaneously or sequentially. A biaxially prestretched PDMS substrate is coated with a stiff polymer deposited by initiated chemical vapor deposition (iCVD). Applying a mechanical release/restretch cycle in two directions loaded simultaneously or sequentially to the wrinkled system results in a variety of dynamic and tunable wrinkled geometries, the evolution of which is investigated using in situ optical profilometry, numerical simulations, and theoretical modeling. Results show that restretching ordered herringbone micropatterns, created through sequential release of biaxial prestrain, leads to reversible and repeatable surface topography. The initial flat surface and the same wrinkled herringbone pattern are obtained alternatively after cyclic release/restretch processes, owing to the highly ordered structure leaving no avenue for trapping irregular topological regions during cycling as further evidenced by the uniformity of strains distributions and negligible residual strain. Conversely, restretching disordered labyrinth micropatterns created through simultaneous release shows an irreversible surface topology whether after sequential or simultaneous restretching due to creation of irregular surface topologies with regions of highly concentrated strain upon formation of the labyrinth which then lead to residual strains and trapped topologies upon cycling; furthermore, these trapped topologies depend upon the subsequent strain histories as well as the cycle. The disordered labyrinth pattern varies after each cyclic release/restretch process, presenting residual shallow patterns instead of achieving a flat state. The ability to dynamically tune the highly ordered herringbone patterning through mechanical stretching or other actuation makes these wrinkles excellent candidates for tunable multifunctional surfaces properties such as reflectivity, friction, anisotropic liquid flow or boundary layer control.

Dynamic measurements and simulations of airborne picolitre-droplet coalescence in holographic optical tweezers

DOE Office of Scientific and Technical Information (OSTI.GOV)

Bzdek, Bryan R.; Reid, Jonathan P., E-mail: j.p.reid@bristol.ac.uk; Collard, Liam

We report studies of the coalescence of pairs of picolitre aerosol droplets manipulated with holographic optical tweezers, probing the shape relaxation dynamics following coalescence by simultaneously monitoring the intensity of elastic backscattered light (EBL) from the trapping laser beam (time resolution on the order of 100 ns) while recording high frame rate camera images (time resolution <10 μs). The goals of this work are to: resolve the dynamics of droplet coalescence in holographic optical traps; assign the origin of key features in the time-dependent EBL intensity; and validate the use of the EBL alone to precisely determine droplet surface tensionmore » and viscosity. For low viscosity droplets, two sequential processes are evident: binary coalescence first results from the overlap of the optical traps on the time scale of microseconds followed by the recapture of the composite droplet in an optical trap on the time scale of milliseconds. As droplet viscosity increases, the relaxation in droplet shape eventually occurs on the same time scale as recapture, resulting in a convoluted evolution of the EBL intensity that inhibits quantitative determination of the relaxation time scale. Droplet coalescence was simulated using a computational framework to validate both experimental approaches. The results indicate that time-dependent monitoring of droplet shape from the EBL intensity allows for robust determination of properties such as surface tension and viscosity. Finally, the potential of high frame rate imaging to examine the coalescence of dissimilar viscosity droplets is discussed.« less

Impact of Shock Front Rippling and Self-reformation on the Electron Dynamics at Low-Mach-number Shocks

NASA Astrophysics Data System (ADS)

Yang, Zhongwei; Lu, Quanming; Liu, Ying D.; Wang, Rui

2018-04-01

Electron dynamics at low-Mach-number collisionless shocks are investigated by using two-dimensional electromagnetic particle-in-cell simulations with various shock normal angles. We found: (1) The reflected ions and incident electrons at the shock front provide an effective mechanism for the quasi-electrostatic wave generation due to the charge-separation. A fraction of incident electrons can be effectively trapped and accelerated at the leading edge of the shock foot. (2) At quasi-perpendicular shocks, the electron trapping and reflection is nonuniform due to the shock rippling along the shock surface and is more likely to take place at some locations accompanied by intense reflected ion-beams. The electron trapping process has a periodical evolution over time due to the shock front self-reformation, which is controlled by ion dynamics. Thus, this is a cross-scale coupling phenomenon. (3) At quasi-parallel shocks, reflected ions can travel far back upstream. Consequently, quasi-electrostatic waves can be excited in the shock transition and the foreshock region. The electron trajectory analysis shows these waves can trap electrons at the foot region and reflect a fraction of them far back upstream. Simulation runs in this paper indicate that the micro-turbulence at the shock foot can provide a possible scenario for producing the reflected electron beam, which is a basic condition for the type II radio burst emission at low-Mach-number interplanetary shocks driven by Coronal Mass Ejections (CMEs).

TRAP/SEE Code Users Manual for Predicting Trapped Radiation Environments

NASA Technical Reports Server (NTRS)

Armstrong, T. W.; Colborn, B. L.

2000-01-01

TRAP/SEE is a PC-based computer code with a user-friendly interface which predicts the ionizing radiation exposure of spacecraft having orbits in the Earth's trapped radiation belts. The code incorporates the standard AP8 and AE8 trapped proton and electron models but also allows application of an improved database interpolation method. The code treats low-Earth as well as highly-elliptical Earth orbits, taking into account trajectory perturbations due to gravitational forces from the Moon and Sun, atmospheric drag, and solar radiation pressure. Orbit-average spectra, peak spectra per orbit, and instantaneous spectra at points along the orbit trajectory are calculated. Described in this report are the features, models, model limitations and uncertainties, input and output descriptions, and example calculations and applications for the TRAP/SEE code.

The effects of deep level traps on the electrical properties of semi-insulating CdZnTe

DOE Office of Scientific and Technical Information (OSTI.GOV)

Zha, Gangqiang; Yang, Jian; Xu, Lingyan

2014-01-28

Deep level traps have considerable effects on the electrical properties and radiation detection performance of high resistivity CdZnTe. A deep-trap model for high resistivity CdZnTe was proposed in this paper. The high resistivity mechanism and the electrical properties were analyzed based on this model. High resistivity CdZnTe with high trap ionization energy E{sub t} can withstand high bias voltages. The leakage current is dependent on both the deep traps and the shallow impurities. The performance of a CdZnTe radiation detector will deteriorate at low temperatures, and the way in which sub-bandgap light excitation could improve the low temperature performance canmore » be explained using the deep trap model.« less

Monitoring Aethina tumida (Coleoptera: Nitidulidae) with baited bottom board traps: occurrence and seasonal abundance in honey bee colonies in Kenya.

PubMed

Torto, Baldwyn; Fombong, Ayuka T; Arbogast, Richard T; Teal, Peter E A

2010-12-01

The population dynamics of the honey bee pest Aethina tumida Murray (small hive beetle) have been studied in the United States with flight and Langstroth hive bottom board traps baited with pollen dough inoculated with a yeast Kodamaea ohmeri associated with the beetle. However, little is known about the population dynamics of the beetle in its native host range. Similarly baited Langstroth hive bottom board traps were used to monitor the occurrence and seasonal abundance of the beetle in honey bee colonies at two beekeeping locations in Kenya. Trap captures indicated that the beetle was present in honey bee colonies in low numbers all year round, but it was most abundant during the rainy season, with over 80% trapped during this period. The survival of larvae was tested in field releases under dry and wet soil conditions, and predators of larvae were identified. The actvity and survival of the beetle were strongly influenced by a combination of abiotic and biotic factors. Larval survival was higher during wet (28%) than dry (1.1%) conditions, with pupation occurring mostly at 0-15 cm and 11-20 cm, respectively, beneath the surface soil during these periods. The ant Pheidole megacephala was identified as a key predator of larvae at this site, and more active during the dry than wet seasons. These observations imply that intensive trapping during the rainy season could reduce the population of beetles infesting hives in subsequent seasons especially in places where the beetle is a serious pest. © 2010 Entomological Society of America

Contact between traps and surfaces during contact sampling of explosives in security settings.

PubMed

Chaffee-Cipich, Michelle N; Hoss, Darby J; Sweat, Melissa L; Beaudoin, Stephen P

2016-03-01

Realistic descriptions of interfacial contact between rough, deformable surfaces under load are difficult to obtain; however, this contact is of great import in a wide range of applications. Here, we detail, through experiment and computational simulation, the interfacial contact between four common traps and five commonly investigated surfaces encountered in explosives detection applications associated with airport security. The Young's modulus and hardness of four traps and seven substrates were measured using nanoindentation. These properties determine how deformation occurs when traps are applied for contact sampling of explosives. The nanoindentation data were analyzed using the Oliver-Pharr method, and an indenter area function was created using silicon and gold as the reference materials. The Young's moduli of the traps ranged from 0.2 to 8 GPa, while those of the surfaces ranged from 0.5 to 4 GPa. The hardness values of the traps ranged from 0.005 to 0.22 GPa, while those of the surfaces ranged from 0.02 to 0.2 GPa. For each of 20 scenarios (4 traps, 5 surfaces), six contact simulations were performed. In these contact simulations, the Greenwood-Willliamson microcontact model was used to represent the behavior of the asperities on the traps, while the Timoshenko Beam model was used to describe the macroscopic behavior of the bulk trap materials spanning the space between asperities. This combination of feature- and trap-scale modeling provides a more realistic description of the interfacial contact than either model applied individually. The calculated distributions of separation distances between the traps and surfaces when the traps were contacted with the surfaces under a normal load were compared to estimate the relative effectiveness of the traps at interrogating the topography of the surfaces. This method is proposed as a tool to guide the development of trap materials for surface sampling and surface cleaning applications. Copyright © 2016. Published by Elsevier Ireland Ltd.

Soliton structure in crystalline acetanilide

DOE Office of Scientific and Technical Information (OSTI.GOV)

Eilbeck, J.C.; Lomdahl, P.S.; Scott, A.C.

1984-10-15

The theory of self-trapping of amide I vibrational energy in crystalline acetanilide is studied in detail. A spectrum of stationary, self-trapped (soliton) solutions is determined and tested for dynamic stability. Only those solutions for which the amide I energy is concentrated near a single molecule were found to be stable. Exciton modes were found to be unstable to decay into solitons.

Soliton structure in crystalline acetanilide

NASA Astrophysics Data System (ADS)

Eilbeck, J. C.; Lomdahl, P. S.; Scott, A. C.

1984-10-01

The theory of self-trapping of amide I vibrational energy in crystalline acetanilide is studied in detail. A spectrum of stationary, self-trapped (soliton) solutions is determined and tested for dynamic stability. Only those solutions for which the amide I energy is concentrated near a single molecule were found to be stable. Exciton modes were found to be unstable to decay into solitons.

A Novel Gravito-Optical Surface Trap for Neutral Atoms

NASA Astrophysics Data System (ADS)

Xie, Chun-Xia; Wang, Zhengling; Yin, Jian-Ping

2006-04-01

We propose a novel gravito-optical surface trap (GOST) for neutral atoms based on one-dimensional intensity gradient cooling. The surface optical trap is composed of a blue-detuned reduced semi-Gaussian laser beam (SGB), a far-blue-detuned dark hollow beam and the gravity field. The SGB is produced by the diffraction of a collimated Gaussian laser beam passing through the straight edge of a semi-infinite opaque plate and then is reduced by an imaging lens. We calculate the intensity distribution of the reduced SGB, and study the dynamic process of the SGB intensity-gradient induced Sisyphus cooling for 87Rb atoms by using Monte Carlo simulations. Our study shows that the proposed GOST can be used not only to trap cold atoms loaded from a standard magneto-optical trap, but also to cool the trapped atoms to an equilibrium temperature of 3.47 μK from ~120 μK, even to realize an all-optical two-dimensional Bose-Einstein condensation by using optical-potential evaporative cooling.

A versatile electrostatic trap with open optical access

NASA Astrophysics Data System (ADS)

Li, Sheng-Qiang; Yin, Jian-Ping

2018-04-01

A versatile electrostatic trap with open optical access for cold polar molecules in weak-field-seeking state is proposed in this paper. The trap is composed of a pair of disk electrodes and a hexapole. With the help of a finite element software, the spatial distribution of the electrostatic field is calculated. The results indicate that a three-dimensional closed electrostatic trap is formed. Taking ND3 molecules as an example, the dynamic process of loading and trapping is simulated. The results show that when the velocity of the molecular beam is 10 m/s and the loading time is 0.9964 ms, the maximum loading efficiency reaches 94.25% and the temperature of the trapped molecules reaches about 30.3 mK. A single well can be split into two wells, which is of significant importance to the precision measurement and interference of matter waves. This scheme, in addition, can be further miniaturized to construct one-dimensional, two-dimensional, and three-dimensional spatial electrostatic lattices.

Mode division multiplexing technology for single-fiber optical trapping axial-position adjustment.

PubMed

Liu, Zhihai; Wang, Lei; Liang, Peibo; Zhang, Yu; Yang, Jun; Yuan, Libo

2013-07-15

We demonstrate trapped yeast cell axial-position adjustment without moving the optical fiber in a single-fiber optical trapping system. The dynamic axial-position adjustment is realized by controlling the power ratio of the fundamental mode beam (LP01) and the low-order mode beam (LP11) generated in a normal single-core fiber. In order to separate the trapping positions produced by the two mode beams, we fabricate a special fiber tapered tip with a selective two-step method. A yeast cell of 6 μm diameter is moved along the optical axis direction for a distance of ~3 μm. To the best of our knowledge, this is the first demonstration of the trapping position adjustment without moving the fiber for single-fiber optical tweezers. The excitation and utilization of multimode beams in a single fiber constitutes a new development for single-fiber optical trapping and makes possible more practical applications in biomedical research fields.

Motion of vortices in inhomogeneous Bose-Einstein condensates

NASA Astrophysics Data System (ADS)

Groszek, Andrew J.; Paganin, David M.; Helmerson, Kristian; Simula, Tapio P.

2018-02-01

We derive a general and exact equation of motion for a quantized vortex in an inhomogeneous two-dimensional Bose-Einstein condensate. This equation expresses the velocity of a vortex as a sum of local ambient density and phase gradients in the vicinity of the vortex. We perform Gross-Pitaevskii simulations of single-vortex dynamics in both harmonic and hard-walled disk-shaped traps, and find excellent agreement in both cases with our analytical prediction. The simulations reveal that, in a harmonic trap, the main contribution to the vortex velocity is an induced ambient phase gradient, a finding that contradicts the commonly quoted result that the local density gradient is the only relevant effect in this scenario. We use our analytical vortex velocity formula to derive a point-vortex model that accounts for both density and phase contributions to the vortex velocity, suitable for use in inhomogeneous condensates. Although good agreement is obtained between Gross-Pitaevskii and point-vortex simulations for specific few-vortex configurations, the effects of nonuniform condensate density are in general highly nontrivial, and are thus difficult to efficiently and accurately model using a simplified point-vortex description.

Spherical crystals in dusty plasmas - Simulation and theory

NASA Astrophysics Data System (ADS)

Bonitz, M.; Henning, C.; Golubnychiy, V.; Baumgartner, H.; Ludwig, P.; Arp, O.; Block, D.; Piel, A.; Melzer, A.; Kraeft, W. D.

2006-10-01

Coulomb crystals in spherically symmetric traps have been found in trapped cold ions and, recently, in dusty plasmas at room temperature [1] allowing for precision measurements, including individual particle positions and trajectories. Thus, for the first time, strong correlation phenomena can be studied directly on the microscopic level which allows for detailed comparisons with theoretical results and computer simulations. We present molecular dynamics and Monte Carlo simulations of Coulomb crystals in the range from 10 to 10,000 particles which agree very well with the measurements [3]. The results include the ground state shell configurations and symmetry properties [2,3], the crystal stability and melting behavior. Finally, a thermodynamic theory is developed and compared to simpler models, such as shell models [4]. [1] O. Arp, D. Block, A. Piel, and A. Melzer, Phys. Rev. Lett. 93, 165004 (2004). [2] P. Ludwig, S. Kosse, and M. Bonitz, Phys. Rev. E 71, 046403 (2005). [3] M. Bonitz, D. Block, O. Arp, V. Golubnychiy, H. Baumgartner, P. Ludwig, A. Piel, and A. Filinov, Phys. Rev. Lett. 96, 075001 (2006). [4] C. Henning et al., submitted for publication.

Charge retention in scaled SONOS nonvolatile semiconductor memory devices—Modeling and characterization

NASA Astrophysics Data System (ADS)

Hu, Yin; White, Marvin H.

1993-10-01

A new analytical model is developed to investigate the influence of the charge loss processes in the retention mode of the SONOS NVSM device. The model considers charge loss by the following processes: (1) electron back-tunneling from the nitride traps to the Si conduction band, (2) electron back-tunneling from the nitride traps to the Si/SiO 2 interface traps and (3) hole injection from the Si valence band to the nitride traps. An amphoteric trap charge distribution is used in this model. The new charge retention model predicts that process (1) determines the short term retention, while processes (2) and (3) determine the long term retention. Good agreement has been reached between the results of analytical calculations and the experimental retention data on both surface channel and buried channel SONOS devices.

Ultrafast carrier dynamics in a GaN/Al 0.18Ga0.82N superlattice

NASA Astrophysics Data System (ADS)

Mahler, Felix; Tomm, Jens W.; Reimann, Klaus; Woerner, Michael; Elsaesser, Thomas; Flytzanis, Christos; Hoffmann, Veit; Weyers, Markus

2018-04-01

Relaxation processes of photoexcited carriers in a GaN /Al0.18Ga0.82N superlattice are studied in femtosecond spectrally resolved reflectivity measurements at ambient temperature. The transient reflectivity reveals electron trapping into defect states close to the conduction-band minimum with a 150-200 fs time constant, followed by few-picosecond carrier cooling. A second slower trapping process into a different manifold of defect states is observed on a time scale of approximately 10 ps. Our results establish the prominent role of structural defects and disorder for ultrafast carrier dynamics in nitride semiconductor structures.

A Wsbnd Ne interatomic potential for simulation of neon implantation in tungsten

NASA Astrophysics Data System (ADS)

Backman, Marie; Juslin, Niklas; Huang, Guiyang; Wirth, Brian D.

2016-08-01

An interatomic pair potential for Wsbnd Ne is developed for atomistic molecular dynamics simulations of neon implantation in tungsten. The new potential predicts point defect energies and binding energies of small clusters that are in good agreement with electronic structure calculations. Molecular dynamics simulations of small neon clusters in tungsten show that trap mutation, in which an interstitial neon cluster displaces a tungsten atom from its lattice site, occurs for clusters of three or more neon atoms. However, near a free surface, trap mutation can occur at smaller sizes, including even a single neon interstitial in close proximity to a (100) or (110) surface.

Accurate Determination of the Dynamical Polarizability of Dysprosium

NASA Astrophysics Data System (ADS)

Ravensbergen, C.; Corre, V.; Soave, E.; Kreyer, M.; Tzanova, S.; Kirilov, E.; Grimm, R.

2018-06-01

We report a measurement of the dynamical polarizability of dysprosium atoms in their electronic ground state at the optical wavelength of 1064 nm, which is of particular interest for laser trapping experiments. Our method is based on collective oscillations in an optical dipole trap, and reaches unprecedented accuracy and precision by comparison with an alkali atom (potassium) as a reference species. We obtain values of 184.4(2.4) and 1.7(6) a.u. for the scalar and tensor polarizability, respectively. Our experiments have reached a level that permits meaningful tests of current theoretical descriptions and provides valuable information for future experiments utilizing the intriguing properties of heavy lanthanide atoms.

Scattering of water from the glycerol liquid-vacuum interface

NASA Technical Reports Server (NTRS)

Benjamin, I.; Wilson, M. A.; Pohorille, A.; Nathanson, G. M.

1995-01-01

Molecular dynamics calculations of the scattering of D2O from the glycerol surface at different collision energies are reported. The results for the trapping probabilities and energy transfer are in good agreement with experiments. The calculations demonstrate that the strong attractive forces between these two strongly hydrogen bonding molecules have only a minor effect on the initial collision dynamics. The trapping probability is influenced to a significant extent by the repulsive hard sphere-like initial encounter with the corrugated surface and, only at a later stage, by the efficiency of energy flow in the multiple interactions between the water and the surface molecules.

Oscillatory Dynamics of Single Bubbles and Agglomeration in a Sound Field in Microgravity

NASA Technical Reports Server (NTRS)

Marston, Philip L.; Trinh, Eugene H.; Depew, Jon; Asaki, Thomas J.

1994-01-01

A dual-frequency acoustic levitator containing water was developed for studying bubble and drop dynamics in low gravity. It was flown on USML-1 where it was used in the Glovebox facility. High frequency (21 or 63 kHz) ultrasonic waves were modulated by low frequencies to excite shape oscillations on bubbles and oil drops ultrasonically trapped in the water. Bubble diameters were typically close to 1 cm or larger. When such large bubbles are acoustically trapped on the Earth, the acoustic radiation pressure needed to overcome buoyancy tends to shift the natural frequency for quadrupole (n = 2) oscillations above the prediction of Lamb's equation. In low gravity, a much weaker trapping force was used and measurements of n = 2 and 3 mode frequencies were closer to the ideal case. Other video observations in low gravity include: (i) the transient reappearance of a bulge where a small bubble has coalesced with a large one, (ii) observations of the dynamics of bubbles coated by oil indicating that shape oscillations can shift a coated bubble away from the oil-water interface of the coating giving a centering of the core, and (iii) the agglomeration of bubbles induced by the sound field.

Microscopic thermodynamics with levitated nanoparticles (Conference Presentation)

NASA Astrophysics Data System (ADS)

Gieseler, Jan; Jain, Vijay; Moritz, Clemens; Dellago, Christoph; Quidant, Romain; Novotny, Lukas

2016-09-01

Micsospheres trapped in liquid by so called optical tweezers have been established as useful tools to study microscopic thermodynamics. Since the sphere is in direct contact with the liquid, it is strongly coupled to the thermal bath and its dynamics is dominated by thermal fluctuations. In contrast, here we use an optically trapped nanoparticle in vacuum to study fluctuations of a system that is coupled only weakly to the thermal bath. The weak coupling allows us to resolve the ballistic dynamics and to control its motion via modulation of the trapping beam, thereby preparing it in a highly non-thermal state. We develop a theory for the effective Hamiltonian that describes the system dynamics in this state and show that all the relevant parameters can be controlled in situ. This tunability allows us to study classical fluctuation theorems for different effective Hamiltonians and for varying coupling to the thermal bath ranging over several orders of magnitude. The ultimate goal, however, is to completely suppress the effect of the thermal bath and to prepare the levitated nanoparticle in a quantum mechanical state. Our most recent result indicate that this regime is now within reach.

Brownian motion of graphene.

PubMed

Maragó, Onofrio M; Bonaccorso, Francesco; Saija, Rosalba; Privitera, Giulia; Gucciardi, Pietro G; Iatì, Maria Antonia; Calogero, Giuseppe; Jones, Philip H; Borghese, Ferdinando; Denti, Paolo; Nicolosi, Valeria; Ferrari, Andrea C

2010-12-28

Brownian motion is a manifestation of the fluctuation-dissipation theorem of statistical mechanics. It regulates systems in physics, biology, chemistry, and finance. We use graphene as prototype material to unravel the consequences of the fluctuation-dissipation theorem in two dimensions, by studying the Brownian motion of optically trapped graphene flakes. These orient orthogonal to the light polarization, due to the optical constants anisotropy. We explain the flake dynamics in the optical trap and measure force and torque constants from the correlation functions of the tracking signals, as well as comparing experiments with a full electromagnetic theory of optical trapping. The understanding of optical trapping of two-dimensional nanostructures gained through our Brownian motion analysis paves the way to light-controlled manipulation and all-optical sorting of biological membranes and anisotropic macromolecules.

Dark soliton decay due to trap anharmonicity in atomic Bose-Einstein condensates

DOE Office of Scientific and Technical Information (OSTI.GOV)

Parker, N. G.; Department of Physics and Astronomy, McMaster University, Hamilton, Ontario L8S 4M1; School of Food Science and Nutrition, University of Leeds, Leeds LS2 9JT

2010-03-15

A number of recent experiments with nearly pure atomic Bose-Einstein condensates have confirmed the predicted dark soliton oscillations when under harmonic trapping. However, a dark soliton propagating in an inhomogeneous condensate has also been predicted to be unstable to the emission of sound waves. Although harmonic trapping supports an equilibrium between the coexisting soliton and sound, we show that the ensuing dynamics are sensitive to trap anharmonicities. Such anharmonicities can break the soliton-sound equilibrium and lead to the net decay of the soliton on a considerably shorter time scale than other dissipation mechanisms. Thus, we propose that small realistic modificationsmore » to existing experimental setups could enable the experimental observation of this decay channel.« less

A Study on Fast Gates for Large-Scale Quantum Simulation with Trapped Ions

PubMed Central

Taylor, Richard L.; Bentley, Christopher D. B.; Pedernales, Julen S.; Lamata, Lucas; Solano, Enrique; Carvalho, André R. R.; Hope, Joseph J.

2017-01-01

Large-scale digital quantum simulations require thousands of fundamental entangling gates to construct the simulated dynamics. Despite success in a variety of small-scale simulations, quantum information processing platforms have hitherto failed to demonstrate the combination of precise control and scalability required to systematically outmatch classical simulators. We analyse how fast gates could enable trapped-ion quantum processors to achieve the requisite scalability to outperform classical computers without error correction. We analyze the performance of a large-scale digital simulator, and find that fidelity of around 70% is realizable for π-pulse infidelities below 10−5 in traps subject to realistic rates of heating and dephasing. This scalability relies on fast gates: entangling gates faster than the trap period. PMID:28401945

A Study on Fast Gates for Large-Scale Quantum Simulation with Trapped Ions.

PubMed

Taylor, Richard L; Bentley, Christopher D B; Pedernales, Julen S; Lamata, Lucas; Solano, Enrique; Carvalho, André R R; Hope, Joseph J

2017-04-12

Large-scale digital quantum simulations require thousands of fundamental entangling gates to construct the simulated dynamics. Despite success in a variety of small-scale simulations, quantum information processing platforms have hitherto failed to demonstrate the combination of precise control and scalability required to systematically outmatch classical simulators. We analyse how fast gates could enable trapped-ion quantum processors to achieve the requisite scalability to outperform classical computers without error correction. We analyze the performance of a large-scale digital simulator, and find that fidelity of around 70% is realizable for π-pulse infidelities below 10 -5 in traps subject to realistic rates of heating and dephasing. This scalability relies on fast gates: entangling gates faster than the trap period.

Silicon as a model ion trap: Time domain measurements of donor Rydberg states

PubMed Central

Vinh, N. Q.; Greenland, P. T.; Litvinenko, K.; Redlich, B.; van der Meer, A. F. G.; Lynch, S. A.; Warner, M.; Stoneham, A. M.; Aeppli, G.; Paul, D. J.; Pidgeon, C. R.; Murdin, B. N.

2008-01-01

One of the great successes of quantum physics is the description of the long-lived Rydberg states of atoms and ions. The Bohr model is equally applicable to donor impurity atoms in semiconductor physics, where the conduction band corresponds to the vacuum, and the loosely bound electron orbiting a singly charged core has a hydrogen-like spectrum according to the usual Bohr–Sommerfeld formula, shifted to the far-infrared because of the small effective mass and high dielectric constant. Manipulation of Rydberg states in free atoms and ions by single and multiphoton processes has been tremendously productive since the development of pulsed visible laser spectroscopy. The analogous manipulations have not been conducted for donor impurities in silicon. Here, we use the FELIX pulsed free electron laser to perform time-domain measurements of the Rydberg state dynamics in phosphorus- and arsenic-doped silicon and we have obtained lifetimes consistent with frequency domain linewidths for isotopically purified silicon. This implies that the dominant decoherence mechanism for excited Rydberg states is lifetime broadening, just as for atoms in ion traps. The experiments are important because they represent a step toward coherent control and manipulation of atomic-like quantum levels in the most common semiconductor and complement magnetic resonance experiments in the literature, which show extraordinarily long spin lattice relaxation times—key to many well known schemes for quantum computing qubits—for the same impurities. Our results, taken together with the magnetic resonance data and progress in precise placement of single impurities, suggest that doped silicon, the basis for modern microelectronics, is also a model ion trap.

Feedback traps for virtual potentials

NASA Astrophysics Data System (ADS)

Gavrilov, Momčilo; Bechhoefer, John

2017-03-01

Feedback traps are tools for trapping and manipulating single charged objects, such as molecules in solution. An alternative to optical tweezers and other single-molecule techniques, they use feedback to counteract the Brownian motion of a molecule of interest. The trap first acquires information about a molecule's position and then applies an electric feedback force to move the molecule. Since electric forces are stronger than optical forces at small scales, feedback traps are the best way to trap single molecules without `touching' them (e.g. by putting them in a small box or attaching them to a tether). Feedback traps can do more than trap molecules: they can also subject a target object to forces that are calculated to be the gradient of a desired potential function U(x). If the feedback loop is fast enough, it creates a virtual potential whose dynamics will be very close to those of a particle in an actual potential U(x). But because the dynamics are entirely a result of the feedback loop-absent the feedback, there is only an object diffusing in a fluid-we are free to specify and then manipulate in time an arbitrary potential U(x,t). Here, we review recent applications of feedback traps to studies on the fundamental connections between information and thermodynamics, a topic where feedback plays an even more fundamental role. We discuss how recursive maximum-likelihood techniques allow continuous calibration, to compensate for drifts in experiments that last for days. We consider ways to estimate work and heat, using them to measure fluctuating energies to a precision of ±0.03 kT over these long experiments. Finally, we compare work and heat measurements of the costs of information erasure, the Landauer limit of kT ln 2 per bit of information erased. We argue that, when you want to know the average heat transferred to a bath in a long protocol, you should measure instead the average work and then infer the heat using the first law of thermodynamics. This article is part of the themed issue 'Horizons of cybernetical physics'.

Albedos of Small Hilda Asteroids

NASA Astrophysics Data System (ADS)

Ryan, Erin L.; Woodward, C. E.

2010-10-01

We present albedo results for 70 small Hilda dynamical family members detected by the Spitzer Space Telescope in multiple archival programs. This Spitzer data samples Hildas with diameters between 2 and 11 kilometers. Our preliminary analysis reveals that the mean geometric albedo for this sample is pv = 0.05, matching the mean albedo derived for large (20 to 160 km) Hilda asteroids observed by IRAS (Ryan and Woodward 2010). This mean albedo is significantly darker than the mean albedo of asteroids in the outer main belt (2.8 AU < a < 3.5 AU), possibly suggesting that these asteroids did not originate from the outer main belt . This is in direct conflict with some dynamical models which suggest that the HIldas are field asteroids trapped from an inward migration of Jupiter (Franklin et al. 2004), and may provide additional observation support for delivery of dark Kuiper Belt contaminants to the inner solar system as per the Nice Model (Levison et al. 2009).

Dependence of the shape of graphene nanobubbles on trapped substance

NASA Astrophysics Data System (ADS)

Ghorbanfekr-Kalashami, H.; Vasu, K. S.; Nair, R. R.; Peeters, François M.; Neek-Amal, M.

2017-06-01

Van der Waals (vdW) interaction between two-dimensional crystals (2D) can trap substances in high pressurized (of order 1 GPa) on nanobubbles. Increasing the adhesion between the 2D crystals further enhances the pressure and can lead to a phase transition of the trapped material. We found that the shape of the nanobubble can depend critically on the properties of the trapped substance. In the absence of any residual strain in the top 2D crystal, flat nanobubbles can be formed by trapped long hydrocarbons (that is, hexadecane). For large nanobubbles with radius 130 nm, our atomic force microscopy measurements show nanobubbles filled with hydrocarbons (water) have a cylindrical symmetry (asymmetric) shape which is in good agreement with our molecular dynamics simulations. This study provides insights into the effects of the specific material and the vdW pressure on the microscopic details of graphene bubbles.

Dependence of the shape of graphene nanobubbles on trapped substance.

PubMed

Ghorbanfekr-Kalashami, H; Vasu, K S; Nair, R R; Peeters, François M; Neek-Amal, M

2017-06-16

Van der Waals (vdW) interaction between two-dimensional crystals (2D) can trap substances in high pressurized (of order 1 GPa) on nanobubbles. Increasing the adhesion between the 2D crystals further enhances the pressure and can lead to a phase transition of the trapped material. We found that the shape of the nanobubble can depend critically on the properties of the trapped substance. In the absence of any residual strain in the top 2D crystal, flat nanobubbles can be formed by trapped long hydrocarbons (that is, hexadecane). For large nanobubbles with radius 130 nm, our atomic force microscopy measurements show nanobubbles filled with hydrocarbons (water) have a cylindrical symmetry (asymmetric) shape which is in good agreement with our molecular dynamics simulations. This study provides insights into the effects of the specific material and the vdW pressure on the microscopic details of graphene bubbles.

Dependence of the shape of graphene nanobubbles on trapped substance

PubMed Central

Ghorbanfekr-Kalashami, H.; Vasu, K. S.; Nair, R. R.; Peeters, François M.; Neek-Amal, M.

2017-01-01

Van der Waals (vdW) interaction between two-dimensional crystals (2D) can trap substances in high pressurized (of order 1 GPa) on nanobubbles. Increasing the adhesion between the 2D crystals further enhances the pressure and can lead to a phase transition of the trapped material. We found that the shape of the nanobubble can depend critically on the properties of the trapped substance. In the absence of any residual strain in the top 2D crystal, flat nanobubbles can be formed by trapped long hydrocarbons (that is, hexadecane). For large nanobubbles with radius 130 nm, our atomic force microscopy measurements show nanobubbles filled with hydrocarbons (water) have a cylindrical symmetry (asymmetric) shape which is in good agreement with our molecular dynamics simulations. This study provides insights into the effects of the specific material and the vdW pressure on the microscopic details of graphene bubbles. PMID:28621311

An optical conveyor for molecules.

PubMed

Weinert, Franz M; Braun, Dieter

2009-12-01

Trapping single ions under vacuum allows for precise spectroscopy in atomic physics. The confinement of biological molecules in bulk water is hindered by the lack of comparably strong forces. Molecules have been immobilized to surfaces, however often with detrimental effects on their function. Here, we optically trap molecules by creating the microscale analogue of a conveyor belt: a bidirectional flow is combined with a perpendicular thermophoretic molecule drift. Arranged in a toroidal geometry, the conveyor accumulates a hundredfold excess of 5-base DNA within seconds. The concentrations of the trapped DNA scale exponentially with length, reaching trapping potential depths of 14 kT for 50 bases. The mechanism does not require microfluidics, electrodes, or surface modifications. As a result, the trap can be dynamically relocated. The optical conveyor can be used to enhance diffusion-limited surface reactions, redirect cellular signaling, observe individual biomolecules over a prolonged time, or approach single-molecule chemistry in bulk water.

A comparison of the Nzi, Horse Pal® and Bite-Lite® H-traps and selected baits for the collection of adult Tabanidae in Florida and North Carolina.

PubMed

Kline, Daniel L; Hogsette, Jerome A; Rutz, Donald A

2018-06-01

Despite the veterinary and medical importance of horse flies, deer flies, and yellow flies, only a few trap types have been evaluated to monitor adult population dynamics. Currently, three trap types are being utilized (H-trap, Horse Pal® (HP), and Nzi trap), but no head-to-head comparisons have been reported. Thus, we conducted comparative trapping studies in Florida and North Carolina. At two study sites in Florida, the efficacy of all three trap types was compared, but only the H-trap and HP were compared in North Carolina. Although trap type was significant at all sites, the trap type which caught the most specimens was not the same. In Florida at the Lower Suwannee Wildlife Refuge (LSWR) site, the H-trap caught the most specimens (2,006), followed in decreasing order by Nzi (938) and HP (541). At the Cedar Ridge Ranch site, the Nzi caught significantly more specimens (1,439) than the H-trap (215) and HP (161), which were not significantly different from each other. In North Carolina, the H-trap caught approximately twice as many specimens as the HP (1,458 vs 720). These trap comparison studies were followed up by a study on the efficacy of various bait combinations: (No Bait (NB), dry ice only (DI), Trap Tech Lure (TTL) only, and DI + TTL), which was conducted only at the two Florida sites with H-traps. At both sites, bait combinations significantly affected trap collections. One pattern (DI +TTL > DI > TTL > NB) was recorded at the LSWR, while at the Cedar River Ranch the pattern was DI > DI +TTL > TTL > NB. Our data showed that trap type and bait combination significantly influence overall adult tabanid abundance as well as individual species composition. © 2018 The Society for Vector Ecology.

Multiscale Modeling of Primary Cilium Deformations Under Local Forces and Shear Flows

NASA Astrophysics Data System (ADS)

Peng, Zhangli; Feng, Zhe; Resnick, Andrew; Young, Yuan-Nan

2017-11-01

We study the detailed deformations of a primary cilium under local forces and shear flows by developing a multiscale model based on the state-of-the-art understanding of its molecular structure. Most eukaryotic cells are ciliated with primary cilia. Primary cilia play important roles in chemosensation, thermosensation, and mechanosensation, but the detailed mechanism for mechanosensation is not well understood. We apply the dissipative particle dynamics (DPD) to model an entire well with a primary cilium and consider its different components, including the basal body, microtubule doublets, actin cortex, and lipid bilayer. We calibrate the mechanical properties of individual components and their interactions from experimental measurements and molecular dynamics simulations. We validate the simulations by comparing the deformation profile of the cilium and the rotation of the basal body with optical trapping experiments. After validations, we investigate the deformation of the primary cilium under shear flows. Furthermore, we calculate the membrane tensions and cytoskeleton stresses, and use them to predict the activation of mechanosensitive channels.

Crystal cryocooling distorts conformational heterogeneity in a model Michaelis complex of DHFR

PubMed Central

Keedy, Daniel A.; van den Bedem, Henry; Sivak, David A.; Petsko, Gregory A.; Ringe, Dagmar; Wilson, Mark A.; Fraser, James S.

2014-01-01

Summary Most macromolecular X-ray structures are determined from cryocooled crystals, but it is unclear whether cryocooling distorts functionally relevant flexibility. Here we compare independently acquired pairs of high-resolution datasets of a model Michaelis complex of dihydrofolate reductase (DHFR), collected by separate groups at both room and cryogenic temperatures. These datasets allow us to isolate the differences between experimental procedures and between temperatures. Our analyses of multiconformer models and time-averaged ensembles suggest that cryocooling suppresses and otherwise modifies sidechain and mainchain conformational heterogeneity, quenching dynamic contact networks. Despite some idiosyncratic differences, most changes from room temperature to cryogenic temperature are conserved, and likely reflect temperature-dependent solvent remodeling. Both cryogenic datasets point to additional conformations not evident in the corresponding room-temperature datasets, suggesting that cryocooling does not merely trap pre-existing conformational heterogeneity. Our results demonstrate that crystal cryocooling consistently distorts the energy landscape of DHFR, a paragon for understanding functional protein dynamics. PMID:24882744

Fractional Langevin Equation Model for Characterization of Anomalous Brownian Motion from NMR Signals

NASA Astrophysics Data System (ADS)

Lisý, Vladimír; Tóthová, Jana

2018-02-01

Nuclear magnetic resonance is often used to study random motion of spins in different systems. In the long-time limit the current mathematical description of the experiments allows proper interpretation of measurements of normal and anomalous diffusion. The shorter-time dynamics is however correctly considered only in a few works that do not go beyond the standard Langevin theory of the Brownian motion (BM). In the present work, the attenuation function S (t) for an ensemble of spins in a magnetic-field gradient, expressed in a form applicable for any kind of stationary stochastic dynamics of spins with or without a memory, is calculated in the frame of the model of fractional BM. The solution of the model for particles trapped in a harmonic potential is obtained in a simple way and used for the calculation of S (t). In the limit of free particles coupled to a fractal heat bath, the results compare favorably with experiments acquired in human neuronal tissues.