Best of 2010

Welcome to the New Journal of Physics Best of 2010, a special collection of papers that represents the breadth and excellence of the work published in the journal last year. The articles were selected for their presentation of outstanding new research, receipt of the highest praise from our international referees and the highest number of downloads last year. This year's collection also includes a selection of video abstracts, a new feature for the journal.

If you would like any information about submitting your own research to NJP please e-mail us at njp@iop.org

Elena Belsole, Publisher
New Journal of Physics

QUANTUM PHYSICS

Open access
Logical independence and quantum randomness

T Paterek et al 2010 New J. Phys. 12 013019

We propose a link between logical independence and quantum physics. We demonstrate that quantum systems in the eigenstates of Pauli group operators are capable of encoding mathematical axioms and show that Pauli group quantum measurements are capable of revealing whether or not a given proposition is logically dependent on the axiomatic system. Whenever a mathematical proposition is logically independent of the axioms encoded in the measured state, the measurement associated with the proposition gives random outcomes. This allows for an experimental test of logical independence. Conversely, it also allows for an explanation of the probabilities of random outcomes observed in Pauli group measurements from logical independence without invoking quantum theory. The axiomatic systems we study can be completed and are therefore not subject to Gödel's incompleteness theorem.

Open access
Toward quantum superposition of living organisms

Oriol Romero-Isart et al 2010 New J. Phys. 12 033015

The most striking feature of quantum mechanics is the existence of superposition states, where an object appears to be in different situations at the same time. The existence of such states has been previously tested with small objects, such as atoms, ions, electrons and photons (Zoller et al 2005 Eur. Phys. J. D 36 203–28), and even with molecules (Arndt et al 1999 Nature 401 680–2). More recently, it has been shown that it is possible to create superpositions of collections of photons (Deléglise et al 2008 Nature 455 510–14), atoms (Hammerer et al 2008 arXiv:0807.3358) or Cooper pairs (Friedman et al 2000 Nature 406 43–6). Very recent progress in optomechanical systems may soon allow us to create superpositions of even larger objects, such as micro-sized mirrors or cantilevers (Marshall et al 2003 Phys. Rev. Lett. 91 130401; Kippenberg and Vahala 2008 Science 321 1172–6; Marquardt and Girvin 2009 Physics 2 40; Favero and Karrai 2009 Nature Photon. 3 201–5), and thus to test quantum mechanical phenomena at larger scales. Here we propose a method to cool down and create quantum superpositions of the motion of sub-wavelength, arbitrarily shaped dielectric objects trapped inside a high-finesse cavity at a very low pressure. Our method is ideally suited for the smallest living organisms, such as viruses, which survive under low-vacuum pressures (Rothschild and Mancinelli 2001 Nature 406 1092–101) and optically behave as dielectric objects (Ashkin and Dziedzic 1987 Science 235 1517–20). This opens up the possibility of testing the quantum nature of living organisms by creating quantum superposition states in very much the same spirit as the original Schrödinger's cat 'gedanken' paradigm (Schrödinger 1935 Naturwissenschaften 23 807–12, 823–8, 844–9). We anticipate that our paper will be a starting point for experimentally addressing fundamental questions, such as the role of life and consciousness in quantum mechanics.

Open access
Noise-assisted energy transfer in quantum networks and light-harvesting complexes

A W Chin et al 2010 New J. Phys. 12 065002

We provide physically intuitive mechanisms for the effect of noise on excitation energy transfer (EET) in networks. Using these mechanisms of dephasing-assisted transport (DAT) in a hybrid basis of both excitons and sites, we develop a detailed picture of how noise enables energy transfer with efficiencies well above 90% across the Fenna–Matthew–Olson (FMO) complex, a type of light-harvesting molecule. We demonstrate explicitly how noise alters the pathways of energy transfer across the complex, suppressing ineffective pathways and facilitating direct ones to the reaction centre. We explain that the fundamental mechanisms underpinning DAT are expected to be robust with respect to the considered noise model but show that the specific details of the exciton–phonon coupling, which remain largely unknown in these type of complexes, and in particular the impact of non-Markovian effects, result in variations of dynamical features that should be amenable to experimental verification with current or planned technology. A detailed understanding of DAT in natural compounds could open up a new paradigm of 'noise-engineering' by which EET can be optimized in artificial light-harvesting structures.

Open access
Experimental implementation of a four-player quantum game

C Schmid et al 2010 New J. Phys. 12 063031

Game theory is central to the understanding of competitive interactions arising in many fields, from the social and physical sciences to economics. Recently, as the definition of information is generalized to include entangled quantum systems, quantum game theory has emerged as a framework for understanding the competitive flow of quantum information. Up till now, only two- and three-player quantum games have been demonstrated with restricted strategy sets. Here, we report the first experiment that implements a four-player quantum minority game over tunable four-partite entangled states encoded in the polarization of single photons. Experimental application of appropriate player strategies gives equilibrium payoff values well above those achievable in the classical game. These results are in excellent quantitative agreement with our theoretical analysis of the symmetric Pareto optimal strategies. Our results demonstrate for the first time how nontrivial equilibria can arise in a competitive situation involving quantum agents.

Open access
Dangling-bond charge qubit on a silicon surface

Lucian Livadaru et al 2010 New J. Phys. 12 083018

Two closely spaced dangling bonds (DBs) positioned on a silicon surface and sharing an excess electron are revealed to be a strong candidate for a charge qubit. Based on our study of the coherent dynamics of this qubit, its extremely high tunneling rate ∼1014 s-1 greatly exceeds the expected decoherence rates for a silicon-based system, thereby overcoming a critical obstacle of charge qubit quantum computing (QC). We investigate possible configurations of DB qubits for QC devices. A first-order analysis of coherent dynamics of DBs shows promise in this respect.

Open access
Generation and detection of NOON states in superconducting circuits

Seth T Merkel and Frank K Wilhelm 2010 New J. Phys. 12 093036

NOON states, states between two modes of light of the form |N, 0⟩+e|0,N⟩, are highly nonclassical entangled states with applications in super-resolution interferometry. We show how NOON states can be efficiently produced in circuit quantum electrodynamics using superconducting phase qubits and resonators. We propose a protocol where only one interaction between the two modes is required, creating all the necessary entanglement at the start of the procedure. This protocol makes active use of the first three states of the phase qubits. Additionally, we show how to efficiently verify the success of such an experiment, even for large NOON states, using randomly sampled measurements and semidefinite programming techniques.

ASTROPHYSICS, COSMOLOGY AND GRAVITATION

Open access
Discussing cosmic string configurations in a supersymmetric scenario without Lorentz invariance

C N Ferreira et al 2010 New J. Phys. 12 053029

The main goal of this work is to pursue an investigation of cosmic string configurations focusing on possible consequences of Lorentz-symmetry breaking by a background vector. We analyze the possibility of cosmic strings as a viable source for fermionic cold dark matter particles. Whenever the latter are charged and have mass of the order of 1013 GeV, we propose they could decay into usual cosmic rays. We have also contemplated the sector of neutral particles generated in our model. Indeed, being neutral, these particles are hard to detect; however, by virtue of the Lorentz-symmetry breaking background vector, it is possible that they may present electromagnetic interaction with a significant magnetic moment.

Open access
X-Pipeline: an analysis package for autonomous gravitational-wave burst searches

Patrick J Sutton et al 2010 New J. Phys. 12 053034

Autonomous gravitational-wave searches—fully automated analyses of data that run without human intervention or assistance—are desirable for a number of reasons. They are necessary for the rapid identification of gravitational-wave burst candidates, which in turn will allow for follow-up observations by other observatories and the maximum exploitation of their scientific potential. A fully automated analysis would also circumvent the traditional 'by hand' setup and tuning of burst searches that is both labourious and time consuming. We demonstrate a fully automated search with X-Pipeline, a software package for the coherent analysis of data from networks of interferometers for detecting bursts associated with gamma-ray bursts (GRBs) and other astrophysical triggers. We discuss the methods X-Pipeline uses for automated running, including background estimation, efficiency studies, unbiased optimal tuning of search thresholds and prediction of upper limits. These are all done automatically via Monte Carlo with multiple independent data samples and without requiring human intervention. As a demonstration of the power of this approach, we apply X-Pipeline to LIGO data to compute the sensitivity to gravitational-wave emission associated with GRB 031108. We find that X-Pipeline is sensitive to signals approximately a factor of 2 weaker in amplitude than those detectable by the cross-correlation technique used in LIGO searches to date. We conclude with comments on the status of X-Pipeline as a fully autonomous, near-real-time-triggered burst search in the current LSC-Virgo Science Run.

Open access
Warped five-dimensional models: phenomenological status and experimental prospects

Hooman Davoudiasl et al 2010 New J. Phys. 12 075011

Warped five-dimensional models, based on the original Randall–Sundrum geometry, have been extended beyond their initial purpose of resolving the gauge hierarchy problem. Over the past decade, various ingredients have been added to their basic structure in order to provide natural and predictive models of flavor and also to address existing constraints from precision data. In this paper, we examine the theoretical and experimental status of realistic models that accommodate current data, while addressing the hierarchy and flavor puzzles of the Standard Model. We also discuss the prospects for future discovery of the TeV-scale Kaluza–Klein states that are predicted to emerge in these models, and outline some of the challenges that the detection of such particles pose for experiments at the Large Hadron Collider.

Open access
Horizon effects with surface waves on moving water

Germain Rousseaux et al 2010 New J. Phys. 12 095018

Surface waves on a stationary flow of water are considered in a linear model that includes the surface tension of the fluid. The resulting gravity-capillary waves experience a rich array of horizon effects when propagating against the flow. In some cases, three horizons (points where the group velocity of the wave reverses) exist for waves with a single laboratory frequency. Some of these effects are familiar in fluid mechanics under the name of wave blocking, but other aspects, in particular waves with negative co-moving frequency and the Hawking effect, were overlooked until surface waves were investigated as examples of analogue gravity (Schützhold R and Unruh W G 2002 Phys. Rev. D 66 044019). A comprehensive presentation of the various horizon effects for gravity-capillary waves is given, with emphasis on the deep water/ short wavelength case kh≫1, where many analytical results can be derived. A similarity of the state space of the waves to that of a thermodynamic system is pointed out.

Open access
Spacetime could be simultaneously continuous and discrete, in the same way that information can be

Achim Kempf 2010 New J. Phys. 12 115001

There are competing schools of thought about the question of whether spacetime is fundamentally continuous or discrete. Here, we consider the possibility that spacetime could be simultaneously continuous and discrete, in the same mathematical way that information can be simultaneously continuous and discrete. The equivalence of continuous information and discrete information, which is of key importance in signal processing, is established by the Shannon sampling theory: for any band-limited signal, it suffices to record discrete samples to be able to perfectly reconstruct it everywhere, if the samples are taken at a rate of at least twice the band limit. It is known that physical fields on generic curved spaces obey a sampling theorem if they possess an ultraviolet cutoff. Most recently, methods of spectral geometry have been employed to show that also the very shape of a curved space (i.e. of a Riemannian manifold) can be discretely sampled and then reconstructed up to the cutoff scale. Here, we develop these results further and also consider the generalization to curved spacetimes, i.e. to Lorentzian manifolds.

HIGH-ENERGY PARTICLE PHYSICS

Open access
Klein–Nishina steps in the energy spectrum of galactic cosmic-ray electrons

R Schlickeiser and J Ruppel 2010 New J. Phys. 12 033044

The full Klein–Nishina cross-section of the inverse Compton scattering interactions of electrons implies a significant reduction of the electron energy loss rate compared with the Thomson limit when the electron energy exceeds the critical Klein–Nishina energy EKKmec2=0.27m2ec4/(kBT), where T denotes the temperature of the photon graybody distribution. As a consequence, the total radiative energy loss rate of single electrons exhibits sudden drops in the overall -dependence when the electron energy reaches the critical Klein–Nishina energy. The strength of the drop is proportional to the energy density of the photon radiation field. The diffuse galactic optical photon fields from stars of spectral type B and G-K lead to critical Klein–Nishina energies of 40 and 161 GeV, respectively. Associated with the drop in the loss rate are sudden increases (Klein–Nishina steps) in the equilibrium spectrum of cosmic-ray electrons. Because the radiative loss rate of electrons is the main ingredient in any transport model of high-energy cosmic-ray electrons, Klein–Nishina steps will modify any calculated electron equilibrium spectrum irrespective of the electron sources and the spatial transport mode. To delineate most clearly the consequences of the Klein–Nishina decreases in the radiative loss rate, we chose as an illustrative example the simplest realistic model for cosmic-ray electron dynamics in the galaxy, consisting of the competition of radiative losses and secondary production by inelastic hadron–hadron collisions. We demonstrate that the spectral structure in the FERMI and HESS data is well described and even the excess measured by ATIC might be explained by Klein–Nishina steps.

Open access
Do three dimensions tell us anything about a theory of everything?

Jean Alexandre et al 2010 New J. Phys. 12 043050

It has been conjectured that four-dimensional supergravity may provide a suitable framework for a 'theory of everything', if its composite SU(8) gauge fields become dynamical. We illustrate that supersymmetric three-dimensional coset field theories, motivated by lattice models, provide toy laboratories for aspects of this conjecture. They feature dynamical composite supermultiplets made of constituent holons and spinons. We show how these models may be extended to include and supersymmetry, enabling dynamical conjectures to be verified more rigorously. We highlight some special features of these three-dimensional models and mention open questions about their relevance to the dynamics of supergravity.

Open access
The cosmic ray energy spectrum as measured using the Pierre Auger Observatory

Giorgio Matthiae 2010 New J. Phys. 12 075009

The Auger Observatory was designed to study high-energy cosmic rays by measuring the properties of the showers produced in the atmosphere. The instrument has taken data since January 2004 and was completed in 2008. First results on the energy spectrum of the primary cosmic rays for energies above 1018 eV with statistics larger than collected in previous works are presented and discussed.

Open access
Measurement of low-energy neutrino cross-sections with the PEANUT experiment

S Aoki et al 2010 New J. Phys. 12 113028

The PEANUT experiment was designed to study the NuMi neutrino beam at Fermilab. The detector uses a hybrid technique, being made of nuclear emulsions and scintillator trackers. Emulsion films act as a micrometric tracking device and are interleaved with lead plates used as passive material. The detector is designed to precisely reconstruct the topology of neutrino interactions and hence to measure the different contributions to the cross section. We present here the full reconstruction and analysis of 147 neutrino interactions and the measurement of the quasi-elastic, resonance and deep-inelastic contributions to the total charged current cross section at the energies of the NuMi neutrino beam. This technique could be applied for beam monitoring in future neutrino facilities, and this paper shows its proof-of-principle.

Open access
Measurement of the two-photon absorption cross-section of liquid argon with a time projection chamber

I Badhrees et al 2010 New J. Phys. 12 113024

This paper reports on laser-induced multiphoton ionization at 266 nm of liquid argon in a time projection chamber (LAr TPC) detector. The electron signal produced by the laser beam is a formidable tool for the calibration and monitoring of next-generation large-mass LAr TPCs. The detector that we designed and tested allowed us to measure the two-photon absorption cross-section of LAr with unprecedented accuracy and precision: σex=(1.24±0.10stat±0.30syst)×10− 56 cm4 s− 1.

ATOMIC AND MOLECULAR PHYSICS

Open access
Gauge fields for ultracold atoms in optical superlattices

Fabrice Gerbier and Jean Dalibard 2010 New J. Phys. 12 033007

We present a scheme that produces a strong U(1)-like gauge field on cold atoms confined in a two-dimensional square optical lattice. Our proposal relies on two essential features, a long-lived metastable excited state that exists for alkaline-earth or ytterbium atoms and an optical superlattice. As in the proposal by Jaksch and Zoller (2003 New J. Phys. 5 56), laser-assisted tunneling between adjacent sites creates an effective magnetic field. In the tight-binding approximation, atomic motion is described by the Harper Hamiltonian, with a flux across each lattice plaquette that can realistically take any value between 0 and π. We show how one can take advantage of the superlattice to ensure that each plaquette acquires the same phase, thus simulating a uniform magnetic field. We discuss the observable consequences of the artificial gauge field on non-interacting bosonic and fermionic gases. We also outline how the scheme can be generalized to non-Abelian gauge fields.

Open access
Thermometry with spin-dependent lattices

D McKay and B DeMarco 2010 New J. Phys. 12 055013

We propose a method for measuring the temperature of strongly correlated phases of ultracold atom gases confined in spin-dependent optical lattices. In this technique, a small number of 'impurity' atoms—trapped in a state that does not experience the lattice potential—are in thermal contact with atoms bound to the lattice. The impurity serves as a thermometer for the system because its temperature can be straightforwardly measured using time-of-flight expansion velocity. This technique may be useful for resolving many open questions regarding thermalization in these isolated systems. We discuss the theory behind this method and demonstrate proof-of-principle experiments, including the first realization of a three-dimensional (3D) spin-dependent lattice in the strongly correlated regime.

Open access
Cavity-enhanced Rayleigh scattering

Michael Motsch et al 2010 New J. Phys. 12 063022

We demonstrate Purcell-like enhancement of Rayleigh scattering into a single optical mode of a Fabry–Perot resonator for several thermal atomic and molecular gases. The light is detuned by more than an octave, in this case by hundreds of nanometers, from any optical transition, making particle excitation and spontaneous emission negligible. The enhancement of light scattering into the resonator is explained quantitatively as an interference effect of light waves emitted by a classical driven dipole oscillator. Applications of our method include the sensitive, non-destructive in situ detection of ultracold molecules.

Open access
Atom interferometry with trapped Bose–Einstein condensates: impact of atom–atom interactions

Julian Grond et al 2010 New J. Phys. 12 065036

Interferometry with ultracold atoms promises the possibility of ultraprecise and ultrasensitive measurements in many fields of physics, and is the basis of our most precise atomic clocks. Key to a high sensitivity is the possibility to achieve long measurement times and precise readout. Ultracold atoms can be precisely manipulated at the quantum level and can be held for very long times in traps; they would therefore be an ideal setting for interferometry. In this paper, we discuss how the nonlinearities from atom–atom interactions, on the one hand, allow us to efficiently produce squeezed states for enhanced readout and, on the other hand, result in phase diffusion that limits the phase accumulation time. We find that low-dimensional geometries are favorable, with two-dimensional (2D) settings giving the smallest contribution of phase diffusion caused by atom–atom interactions. Even for time sequences generated by optimal control, the achievable minimal detectable interaction energy ΔEmin is of the order of 10−4μ, where μ is the chemical potential of the Bose–Einstein condensate (BEC) in the trap. From these we have to conclude that for more precise measurements with atom interferometers, more sophisticated strategies, or turning off the interaction-induced dephasing during the phase accumulation stage, will be necessary.

Open access
The equation of state of ultracold Bose and Fermi gases: a few examples

Sylvain Nascimbène et al 2010 New J. Phys. 12 103026

We describe a powerful method for determining the equation of state of an ultracold gas from in situ images. The method provides a measurement of the local pressure of a harmonically trapped gas and we give several applications to Bose and Fermi gases. We obtain the grand-canonical equation of state of a spin-balanced Fermi gas with resonant interactions as a function of temperature (Nascimbène et al 2010 Nature 463 1057). We compare our equation of state with an equation of state measured by the Tokyo group (Horikoshi et al 2010 Science 327 442), which reveals a significant difference in the high-temperature regime. The normal phase, at low temperature, is well described by a Landau Fermi liquid model, and we observe a clear thermodynamic signature of the superfluid transition. In a second part, we apply the same procedure to Bose gases. From a single image of a quasi-ideal Bose gas, we determine the equation of state from the classical to the condensed regime. Finally, the method is applied to a Bose gas in a three-dimensional optical lattice in the Mott insulator regime. Our equation of state directly reveals the Mott insulator behavior and is suited to investigate finite-temperature effects.

Open access
The two-electron attosecond streak camera for time-resolving intra-atomic collisions

A Emmanouilidou et al 2010 New J. Phys. 12 103024

We generalize the one-electron attosecond streak camera to time-resolve the correlated two-electron escape dynamics during a collision process involving a deep core electron. The collision process is triggered by an extreme ultraviolet (XUV) attosecond pulse (single-photon absorption) and probed by a weak infrared field. The principle of our two-electron streak camera is that by placing the maximum of the vector potential of the probing field at the time of collision, we get the maximum splitting of the inter-electronic angle of escape. We thereby determine the time of collision.

OPTICS AND IMAGING

Open access
Scattering cross-section of a transformation optics-based metamaterial cloak

Nathan Kundtz et al 2010 New J. Phys. 12 043039

We present experimental quantitative scattering cross-section (SCS) measurements for a metamaterial cloak. The cloak is nearly identical to that reported in 2006; however, quantitative experimental measurements have not yet been reported for such a structure. This cylindrically symmetric cloak is designed to operate at a frequency of 10 GHz and to reduce the SCS of a cylinder 50 mm in diameter. Despite being only a crude approximation of the ideal transformation optical design, the fabricated metamaterial cloak is shown to reduce the SCS of the cylinder over the frequency range from 9.91  to 10.14 GHz, a span of 230 MHz or a 2.3% bandwidth. The maximum reduction in the SCS is 24%. This result provides a useful experimental, quantitative benchmark that can form the basis for comparison of the performances of future improved cloaking structures.

Open access
Looking beyond the perfect lens

Wee W H and Pendry J B 2010 New J. Phys. 12 053018

The holy grail of imaging is the ability to see through anything. From the conservation of energy, we can easily see that to see through a lossy material would require lenses with gain. The aim of this paper therefore is to propose a simple scheme by which we can construct a general perfect lens, with gain—one that can restore both the phases and amplitudes of near and far fields.

Open access
An omnidirectional electromagnetic absorber made of metamaterials

Qiang Cheng et al 2010 New J. Phys. 12 063006

In a recent theoretical work by Narimanov and Kildishev (2009 Appl. Phys. Lett. 95 041106) an optical omnidirectional light absorber based on metamaterials was proposed, in which theoretical analysis and numerical simulations showed that all optical waves hitting the absorber are trapped and absorbed. Here we report the first experimental demonstration of an omnidirectional electromagnetic absorber in the microwave frequency. The proposed device is composed of non-resonant and resonant metamaterial structures, which can trap and absorb electromagnetic waves coming from all directions spirally inwards without any reflections due to the local control of electromagnetic fields. It is shown that the absorption rate can reach 99 per cent in the microwave frequency. The all-directional full absorption property makes the device behave like an 'electromagnetic black body', and the wave trapping and absorbing properties simulate, to some extent, an 'electromagnetic black hole.' We expect that such a device could be used as a thermal emitting source and to harvest electromagnetic waves.

Open access
Flexible metamaterials at visible wavelengths

Andrea Di Falco et al 2010 New J. Phys. 12 113006

We report on the fabrication and characterization of plasmonic structures on flexible substrates (Metaflex) and demonstrate the optical properties of a single layer of Metaflex. The layer exhibits a plasmonic resonance in the visible region around 620 nm. We show experimental and numerical results for both nano-antennas and fishnet geometries. We anticipate the use of Metaflex as a building block for flexible metamaterials in the visible range.

Open access
Spacetime geometries and light trapping in travelling refractive index perturbations

S L Cacciatori et al 2010 New J. Phys. 12 095021

In the framework of transformation optics, we show that the propagation of a locally superluminal refractive index perturbation (RIP) in a Kerr medium can be described, in the eikonal approximation, by means of a stationary metric, which we prove to be of Gordon type. Under suitable hypotheses on the RIP, we obtain a stationary but not static metric, which is characterized by an ergosphere and by a peculiar behaviour of the geodesics, which are studied numerically, also accounting for material dispersion. Finally, the equation to be satisfied by an event horizon is also displayed and briefly discussed.

Open access
Photon-induced near-field electron microscopy (PINEM): theoretical and experimental

Sang Tae Park et al 2010 New J. Phys. 12 123028

Electron imaging in space and time is achieved in microscopy with timed (near relativistic) electron packets of picometer wavelength coincident with light pulses of femtosecond duration. The photons (with an energy of a few electronvolts) are used to impulsively heat or excite the specimen so that the evolution of structures from their nonequilibrium state can be followed in real time. As such, and at relatively low fluences, there is no interaction between the electrons and the photons; certainly that is the case in vacuum because energy–momentum conservation is not possible. In the presence of nanostructures and at higher fluences, energy–momentum conservation is possible and the electron packet can either gain or lose light quanta. Recently, it was reported that, when only electrons with gained energy are filtered, near-field imaging enables the visualization of nanoscale particles and interfaces with enhanced contrast (Barwick et al 2009 Nature 462 902). To explore a variety of applications, it is important to express, through analytical formulation, the key parameters involved in this photon-induced near-field electron microscopy (PINEM) and to predict the associated phenomena of, e.g., forty-photon absorption by the electron packet. In this paper, we give an account of the theoretical and experimental results of PINEM. In particular, the time-dependent quantum solution for ultrafast electron packets in the nanostructure scattered electromagnetic (near) field is solved in the high kinetic energy limit to obtain the evolution of the incident electron packet into a superposition of discrete momentum wavelets. The characteristic length and time scales of the halo of electron–photon coupling are discussed in the framework of Rayleigh and Mie scatterings, providing the dependence of the PINEM effect on size, polarization, material and spatiotemporal localization. We also provide a simple classical description that is based on features of plasmonics. A major part of this paper is devoted to the comparisons between the theoretical results and the recently obtained experimental findings about the imaging of materials and biological systems.

QUANTUM OPTICS AND LASERS

Open access
Toward scalable ion traps for quantum information processing

J M Amini et al 2010 New J. Phys. 12 033031

In this paper, we report the design, fabrication and preliminary testing of a 150 zone ion trap array built in a 'surface-electrode' geometry microfabricated on a single substrate. We demonstrate the transport of atomic ions between the legs of a 'Y'-type junction and measure the in-situ heating rates for the ions. The trap design demonstrates the use of a basic component design library that can be quickly assembled to form structures optimized for a particular experiment.

Open access
The Coherent X-ray Imaging (CXI) instrument at the Linac Coherent Light Source (LCLS)

Sébastien Boutet and Garth J Williams 2010 New J. Phys. 12 035024

The Linac Coherent Light Source (LCLS) became the first ever operational hard x-ray free-electron laser in 2009. It will operate as a user facility capable of delivering unique research opportunities in multiple fields of science. The LCLS and the LCLS Ultrafast Science Instruments (LUSI) construction projects are developing instruments designed to make full use of the capabilities afforded by the LCLS beam. One such instrument is being designed to utilize the LCLS coherent beam to image with high resolution any sub-micron object. This instrument is called the Coherent X-ray Imaging (CXI) instrument. This instrument will provide a flexible optical system capable of tailoring key beam parameters for the users. A suite of shot-to-shot diagnostics will also be provided to characterize the beam on every pulse. The provided instrumentation will include multi-purpose sample environments, sample delivery and a custom detector capable of collecting two-dimensional (2D) data at 120 Hz. In this paper, the LCLS will be briefly introduced, as well as the technique of coherent x-ray diffractive imaging (CXDI). A few examples of scientific opportunities arising from use of the CXI instrument will be described. Finally, the conceptual layout of the instrument will be presented, together with a description of the key requirements for the overall system and of specific devices required.

Open access
Coherent imaging of biological samples with femtosecond pulses at the free-electron laser FLASH

A P Mancuso et al 2010 New J. Phys. 12 035003

Coherent x-ray imaging represents a new window to imaging non-crystalline, biological specimens at unprecedented resolutions. The advent of free-electron lasers (FEL) allows extremely high flux densities to be delivered to a specimen resulting in stronger scattered signal from these samples to be measured. In the best case scenario, the diffraction pattern is measured before the sample is destroyed by these intense pulses, as the processes involved in radiation damage may be substantially slower than the pulse duration. In this case, the scattered signal can be interpreted and reconstructed to yield a faithful image of the sample at a resolution beyond the conventional radiation damage limit. We employ coherent x-ray diffraction imaging (CXDI) using the free-electron LASer in Hamburg (FLASH) in a non-destructive regime to compare images of a biological sample reconstructed using different, single, femtosecond pulses of FEL radiation. Furthermore, for the first time, we demonstrate CXDI, in-line holography and Fourier transform holography (FTH) of the same unicellular marine organism using an FEL and present diffraction data collected using the third harmonic of FLASH, reaching into the water window. We provide quantitative results for the resolution of the CXDI images as a function of pulse intensity, and compare this with the resolutions achieved with in-line holography and FTH.

Open access
Quantum key distribution and 1 Gbps data encryption over a single fibre

P Eraerds et al 2010 New J. Phys. 12 063027

We perform quantum key distribution (QKD) over a single fibre in the presence of four classical channels in a C-band dense wavelength division multiplexing (DWDM) configuration using a commercial QKD system. The classical channels are used for key distillation and 1 Gbps encrypted communication, rendering the entire system independent of any other communication channel than a single dedicated fibre. We successfully distil secret keys over fibre spans of up to 50 km. The separation between the quantum channel at 1551.72 nm and the nearest classical channel is only 200 GHz, while the classical channels are all separated by 100 GHz. In addition to that, we discuss possible improvements and alternative configurations, e.g. whether it is advantageous to choose the quantum channel at 1310 nm or to opt for a pure C-band (1530–1565 nm) configuration.

Open access
Matchgate quantum computing and non-local process analysis

S Ramelow et al 2010 New J. Phys. 12 083027

In the circuit model, quantum computers rely on the availability of a universal quantum gate set. A particularly intriguing example is a set of two-qubit-only gates: 'matchgates', along with swap (the exchange of two qubits). In this paper, we show a simple decomposition of arbitrary matchgates into better-known elementary gates and implement a matchgate in a single-photon linear optics experiment. The gate performance is fully characterized via quantum process tomography. Moreover, we represent the resulting reconstructed quantum process in a novel way, as a fidelity map in the space of all possible non-local two-qubit unitaries. We propose the non-local distance—which is independent of local imperfections such as uncorrelated noise or uncompensated local rotations—as a new diagnostic process measure for the non-local properties of the implemented gate.

Open access
The whispering gallery effect in neutron scattering

V V Nesvizhevsky et al 2010 New J. Phys. 12 113050

We present the first experimental evidence for neutron localization (whispering gallery wave) in the quasistationary quantum states near a cylindrical mirror surface. The boundary effective well is formed by the centrifugal effective potential and the mirror neutron–matter optical potential. We present a formalism that describes quantitatively the neutron scattering at a cylindrical mirror surface and compare the experimental results to this model. We discuss further prospects based on this study.

PLASMA PHYSICS

Open access
Investigation of the role of plasma channels as waveguides for laser-wakefield accelerators

T P A Ibbotson et al 2010 New J. Phys. 12 045008

The role of plasma channels as waveguides for laser-wakefield accelerators is discussed in terms of the results of experiments performed with the Astra-Gemini laser, numerical simulations using the code WAKE, and the theory of self-focusing and self-guiding of intense laser beams. It is found that at a given electron density, electron beams can be accelerated using lower laser powers in a waveguide structure than in a gas-jet or cell. The transition between relativistically self-guided and channel-assisted guiding is seen in the simulations and in the behaviour of the production of electron beams. We also show that by improving the quality of the driving laser beam the threshold laser energy required to produce electron beams can be reduced by a factor of almost 2. The use of an aperture allows the production of a quasi-monoenergetic electron beam of energy 520 MeV with an input laser power of only 30 TW.

Open access
The scaling of proton energies in ultrashort pulse laser plasma acceleration

K Zeil et al 2010 New J. Phys. 12 045015

This paper presents a systematic investigation of an ultrashort pulse laser acceleration of protons that yields unprecedented maximum proton energies of 17 MeV at a table-top Ti:sapphire laser power level of 100 TW. For plain few-micron-thick foil targets, a linear scaling of the maximum proton energy with laser power is observed and this is attributed to the short acceleration period close to the target rear surface. Although excellent laser pulse contrast was available, slight deformations of the target rear were found to lead to a predictable shift of the direction of the energetic proton emission away from the target normal that could be used for better discrimination of the low-energy part of the spectrum.

Open access
Effect of polarization force on the propagation of dust acoustic solitary waves

P Bandyopadhyay et al 2010 New J. Phys. 12 073002

We report the modifications in the propagation characteristics of dust acoustic solitary waves (DASWs) due to the polarization force acting on micron-size dust particles in a non-uniform plasma. In the small amplitude limit, we derive a K–dV-type equation and show that there is an increase in the amplitude and a reduction in the width of a solitary structure as the polarization force is enhanced for a given Mach number. For arbitrary amplitude waves we employ the Sagdeev potential method and find that the range of Mach numbers where solitary structures can exist becomes narrower in the presence of the polarization interaction. In both limits there exists a critical value of grain size beyond which the DASW cannot propagate.

Open access
Ultrahigh compression of water using intense heavy ion beams: laboratory planetary physics

N A Tahir et al 2010 New J. Phys. 12 073022

Intense heavy ion beams offer a unique tool for generating samples of high energy density matter with extreme conditions of density and pressure that are believed to exist in the interiors of giant planets. An international accelerator facility named FAIR (Facility for Antiprotons and Ion Research) is being constructed at Darmstadt, which will be completed around the year 2015. It is expected that this accelerator facility will deliver a bunched uranium beam with an intensity of 5×1011 ions per spill with a bunch length of 50–100 ns. An experiment named LAPLAS (Laboratory Planetary Sciences) has been proposed to achieve a low-entropy compression of a sample material like hydrogen or water (which are believed to be abundant in giant planets) that is imploded in a multi-layered target by the ion beam. Detailed numerical simulations have shown that using parameters of the heavy ion beam that will be available at FAIR, one can generate physical conditions that have been predicted to exist in the interior of giant planets. In the present paper, we report simulations of compression of water that show that one can generate a plasma phase as well as a superionic phase of water in the LAPLAS experiments.

Open access
The effect of a plasma needle on bacteria in planktonic samples and on peripheral blood mesenchymal stem cells

Saša Lazović et al 2010 New J. Phys. 12 083037

In this paper, we study the application of a plasma needle to induce necrosis in planktonic samples containing a single breed of bacteria. Two different types of bacteria, Staphylococcus aureus (ATCC 25923) and Escherichia coli (ATCC 25922), were covered in this study. In all experiments with bacteria, the samples were liquid suspensions of several different concentrations of bacteria prepared according to the McFarland standard. The second system studied in this paper was human peripheral blood mesenchymal stem cells (hPB-MSC). In the case of hPB-MSC, two sets of experiments were performed: when cells were covered with a certain amount of liquid (indirect) and when the cell sample was in direct contact with the plasma.

Most importantly, the study is made with the aim to see the effects when the living cells are in a liquid medium, which normally acts as protection against the many agents that may be released by plasmas. It was found that a good effect may be expected for a wide range of initial cell densities and operating conditions causing destruction of several orders of magnitude even under the protection of a liquid. It was established independently that a temperature increase could not affect the cells under the conditions of our experiment, so the effect could originate only from the active species produced by the plasma. In the case of those hPB-MSC that were not protected by a liquid, gas flow proved to produce a considerable effect, presumably due to poor adhesion of the cells, but in a liquid the effect was only due to the plasma. Further optimization of the operation may be attempted, opening up the possibility of localized in vivo sterilization.

CONDENSED MATTER

Open access
Advanced spectroscopic synchrotron techniques to unravel the intrinsic properties of dilute magnetic oxides: the case of Co:ZnO

A Ney et al 2010 New J. Phys. 12 013020

The use of synchrotron-based spectroscopy has revolutionized the way we look at matter. X-ray absorption spectroscopy (XAS) using linear and circular polarized light offers a powerful toolbox of element-specific structural, electronic and magnetic probes that is especially well suited for complex materials containing several elements. We use the specific example of Zn1−xCoxO (Co:ZnO) to demonstrate the usefulness of combining these XAS techniques to unravel its intrinsic properties. We demonstrate that as long as phase separation or excessive defect formation is absent, Co:ZnO is paramagnetic. We can establish quantitative thresholds based on four reliable quality indicators using XAS; samples that show ferromagnet-like behaviour fail to meet these quality indicators, and complementary experimental techniques indeed prove phase separation. Careful analysis of XAS spectra is shown to provide quantitative information on the presence and type of dilute secondary phases in a highly sensitive, non-destructive manner.

Open access
Topological insulators and superconductors: tenfold way and dimensional hierarchy

Shinsei Ryu et al 2010 New J. Phys. 12 065010

It has recently been shown that in every spatial dimension there exist precisely five distinct classes of topological insulators or superconductors. Within a given class, the different topological sectors can be distinguished, depending on the case, by a or a topological invariant. This is an exhaustive classification. Here we construct representatives of topological insulators and superconductors for all five classes and in arbitrary spatial dimension d, in terms of Dirac Hamiltonians. Using these representatives we demonstrate how topological insulators (superconductors) in different dimensions and different classes can be related via 'dimensional reduction' by compactifying one or more spatial dimensions (in 'Kaluza–Klein'-like fashion). For -topological insulators (superconductors) this proceeds by descending by one dimension at a time into a different class. The -topological insulators (superconductors), on the other hand, are shown to be lower-dimensional descendants of parent -topological insulators in the same class, from which they inherit their topological properties. The eightfold periodicity in dimension d that exists for topological insulators (superconductors) with Hamiltonians satisfying at least one reality condition (arising from time-reversal or charge-conjugation/particle–hole symmetries) is a reflection of the eightfold periodicity of the spinor representations of the orthogonal groups SO(N) (a form of Bott periodicity). Furthermore, we derive for general spatial dimensions a relation between the topological invariant that characterizes topological insulators and superconductors with chiral symmetry (i.e., the winding number) and the Chern–Simons invariant. For lower-dimensional cases, this formula relates the winding number to the electric polarization (d=1 spatial dimensions) or to the magnetoelectric polarizability (d=3 spatial dimensions). Finally, we also discuss topological field theories describing the spacetime theory of linear responses in topological insulators (superconductors) and study how the presence of inversion symmetry modifies the classification of topological insulators (superconductors).

Open access
Cold atoms near superconductors: atomic spin coherence beyond the Johnson noise limit

B Kasch et al 2010 New J. Phys. 12 065024

We report on the measurement of atomic spin coherence near the surface of a superconducting niobium wire. As compared to normal conducting metal surfaces, the atomic spin coherence is maintained for time periods beyond the Johnson noise limit. The result provides experimental evidence that magnetic near-field noise near the superconductor is strongly suppressed. Such long atomic spin coherence times near superconductors open the way towards the development of coherently coupled cold atom/solid state hybrid quantum systems with potential applications in quantum information processing and precision force sensing.

Open access
Sensitivity of the superconducting state and magnetic susceptibility to key aspects of electronic structure in ferropnictides

A F Kemper et al 2010 New J. Phys. 12 073030

Experiments on the iron–pnictide superconductors appear to show some materials where the ground state is fully gapped, and others where low-energy excitations dominate, possibly indicative of gap nodes. Within the framework of a five-orbital spin fluctuation theory for these systems, we discuss how changes in the doping, the electronic structure or interaction parameters can tune the system from a fully gapped to a nodal sign-changing gap with s-wave (A1g) symmetry (s±). In particular, we focus on the role of the hole pocket at the (π, π) point of the unfolded Brillouin zone, identified as crucial to the pairing by Kuroki et al (2009 Phys. Rev. B 79 224511), and show that its presence leads to additional nesting of hole and electron pockets, which stabilizes the isotropic s± state. The pocket's contribution to the pairing can be tuned by doping, surface effects and by changes in interaction parameters, which we examine. Analytic expressions for orbital pairing vertices calculated within the random phase approximation (RPA) fluctuation exchange approximation allow us to draw connections between aspects of the electronic structure, interaction parameters and the form of the superconducting gap.

NANOPHYSICS

Open access
Imaging the displacement field within epitaxial nanostructures by coherent diffraction: a feasibility study

Ana Diaz et al 2010 New J. Phys. 12 035006

We investigate the feasibility of applying coherent diffraction imaging to highly strained epitaxial nanocrystals using finite-element simulations of SiGe islands as input in standard phase retrieval algorithms. We discuss the specific problems arising from both epitaxial and highly strained systems and we propose different methods to overcome these difficulties. Finally, we describe a coherent microdiffraction experimental setup using extremely focused x-ray beams to perform experiments on individual nanostructures.

Open access
Self-excitation of single nanomechanical pillars

Hyun S Kim et al 2010 New J. Phys. 12 033008

Self-excitation is a mechanism that is ubiquitous for electromechanical power devices such as electrical generators. This is conventionally achieved by making use of the magnetic field component in electrical generators (Nedic and Lipo 2000 IEEE/IAS Conf. Records (Rome, Italy) vol 1 pp 51–6), a good and widely visible example of which is the wind turbine farm (Muljadi et al 2005 J. Sol. Energy Eng. 127 581–7). In other words, a static force, such as the wind acting on rotor blades, can generate a resonant excitation at a certain mechanical frequency. For nanomechanical systems (Craighead 2000 Science 290 1532–5; Roukes 2001 Phys. World 14 25–31; Cleland 2003 Foundations of Nanomechanics (Berlin: Springer); Ayari et al 2007 Nano Lett. 7 2252–7; Koenig et al 2008 Nat. Nanotechnol. 3 482–4) such a self-excitation (SE) mechanism is also highly desirable, because it can generate mechanical oscillations at radio frequencies by simply applying a dc bias voltage. This is of great importance for low-power signal communication devices and detectors, as well as for mechanical computing elements. For a particular nanomechanical system—the single electron shuttle—this effect was predicted some time ago by Gorelik et al (Phys. Rev. Lett. 80 4526–9). Here, we use a nanoelectromechanical single electron transistor (NEMSET) to demonstrate self-excitation for both the soft and hard regimes, respectively. The ability to use self-excitation in nanomechanical systems may enable the detection of quantum mechanical backaction effects (Naik et al 2006 Nature 443 193–6) in direct tunneling, macroscopic quantum tunneling (Savelev et al 2006 New J. Phys. 8 105–15) and rectification (Pistolesi and Fazio 2005 Phys. Rev. Lett. 94 036806–4). All these effects have so far been overshadowed by the large driving voltages that had to be applied.

Open access
Broadband nano-focusing of light using kissing nanowires

Dang Yuan Lei et al 2010 New J. Phys. 12 093030

A strategy has been proposed recently to design plasmonic nanostructures capable of efficient harvesting of light over a broadband spectrum. Applying a singular conformal transformation to a metal–insulator–metal infinite structure, the optical response of two kissing nanowires can be deduced analytically. This nanostructure is shown to exhibit a large and continuous absorption cross-section relative to its physical size over the whole visible spectrum. Considerable field enhancement and confinement at the nano-scale are also expected at the touching point. Actually, instead of transporting the energy out to infinity, like in a metal slab geometry, the surface plasmon modes here propagate towards the singularity of the structure where their velocity vanishes and energy accumulates. The field enhancement is then a balance between this energy accumulation and dissipation losses. The asymptotic case of a nanowire placed on top of a metal plate is shown to be of great interest for nanofocusing. Finally, numerical simulations are performed to investigate the effect of radiative losses when the structure dimension becomes comparable to the wavelength.

Open access
Soliton trap in strained graphene nanoribbons

Ken-ichi Sasaki et al 2010 New J. Phys. 12 103015

The wavefunction of a massless fermion consists of two chiralities, left handed and right handed, which are eigenstates of the chiral operator. The theory of weak interactions of elementary particle physics is not symmetric about the two chiralities, and such a symmetry-breaking theory is referred to as a chiral gauge theory. The chiral gauge theory can be applied to the massless Dirac particles of graphene. In this paper, we show within the framework of the chiral gauge theory for graphene that a topological soliton exists near the boundary of a graphene nanoribbon in the presence of a strain. This soliton is a zero-energy state connecting two chiralities and is an elementary excitation transporting a pseudo-spin. The soliton should be observable by means of a scanning tunneling microscopy experiment.

SURFACE SCIENCE AND THIN FILMS

Open access
Microscopic return point memory in Co/Pd multilayer films

K A Seu et al 2010 New J. Phys. 12 035009

We report soft x-ray speckle metrology measurements of microscopic return point and complementary point memory in Co/Pd magnetic films having perpendicular anisotropy. We observe that the domains assemble into a common labyrinth phase with a period that varies by nearly a factor of two between initial reversal and fields near saturation. Unlike previous studies of similar systems, the ability of the film to reproduce its domain structure after magnetic cycling through saturation varies from loop to loop, from position to position on the sample, and with the part of the speckle pattern used in the metrology measurements. We report the distribution of memory as a function of field and discuss these results in terms of the reversal process.

Open access
Graphene on Ru(0001): a corrugated and chiral structure

D Martoccia et al 2010 New J. Phys. 12 043028

We present a structural analysis of the graphene/Ru(0001) system obtained by surface x-ray diffraction. The data were fitted using Fourier-series-expanded displacement fields from an ideal bulk structure plus the application of symmetry constraints. The shape of the observed superstructure rods proves a reconstruction of the substrate, induced by strong bonding of graphene to ruthenium. Both the graphene layer and the underlying substrate are corrugated, with peak-to-peak heights of (0.82±0.15) Å and (0.19±0.02) Å for graphene and the topmost Ru-atomic layer, respectively. The Ru corrugation decays slowly over several monolayers into the bulk. The system also exhibits chirality, whereby in-plane rotations of up to 2.0° in those regions of the superstructure where the graphene is weakly bound are driven by elastic energy minimization.

Open access
Effective continuous model for surface states and thin films of three-dimensional topological insulators

Wen-Yu Shan et al 2010 New J. Phys. 12 043048

Two-dimensional (2D) effective continuous models are derived for the surface states and thin films of a three-dimensional topological insulator (3DTI). Starting from an effective model for 3DTI based on first-principles calculations (Zhang et al 2009 Nat. Phys. 5 438), we present solutions for both the surface states in a semi-infinite boundary condition and those in a thin film with finite thickness. The coupling between opposite topological surfaces and structure inversion asymmetry (SIA) gives rise to gapped Dirac hyperbolas with Rashba-like splittings in the energy spectrum. In addition, SIA leads to asymmetric distributions of wavefunctions for the surface states along the film growth direction, making some branches in the energy spectra much harder than others to probe by light. These features agree well with the recent angle-resolved photoemission spectra of Bi2Se3 films grown on SiC substrate (Zhang et al 2009 arXiv:0911.3706). More importantly, using the parameters fitted by experimental data, the result indicates that the thin film Bi2Se3 lies in the quantum spin Hall (QSH) region based on the calculation of the Chern number and Z2 invariant. In addition, strong SIA always tends to destroy the QSH state.

Open access
Formation of a non-magnetic metallic iron nitride layer on bcc Fe(100)

C Navío et al 2010 New J. Phys. 12 073004

We report the formation of a stable iron nitride thin film following the exposition of an Fe(001) single crystal to atomic N plasma produced by means of a radio-frequency (rf) discharge source. The obtained phase, enabled by N-atomic diffusion into the iron matrix, has been characterized using spectroscopical and structural techniques. The comparison of the experimental results with first-principles calculations sheds light on the formed structure stability. The result is the formation of a metallic non-magnetic protective coating film on the iron substrate with a zinc blende (ZB) structure (γ''-FeN). The formed film has high oxidation resistance, metallic character, non-magnetic ground state and good epitaxial growth. Thermal treatment of the iron nitride film shows that, at around 700 K, the FeN is decomposed, resulting in bcc Fe as a consequence of the high diffusivity of N in Fe.

Open access
Submonolayer growth of copper-phthalocyanine on Ag(111)

Ingo Kröger et al 2010 New J. Phys. 12 083038

The growth of high-quality thin films is a key issue in the ability to design electronic devices based on organic materials and to tune their properties. In this context, the interfaces between metals and organic films play a decisive role. Here, we report on the interface formation between copper-phthalocyanine (CuPc) and an Ag(111) surface using various complementary methods. High-resolution low-energy electron diffraction revealed a rich phase diagram for this system with disordered (two-dimensional (2D)-gas-like) and ordered structures (commensurate and point-on-line). In particular, a continuous change in lattice parameters with increasing coverage was found for long-range ordered structures, indicating a substrate-mediated repulsive intermolecular interaction similar to the case of tin-phthalocyanine/Ag(111). Chemisorptive bonding to the substrate was found by x-ray standing waves and ultraviolet photoelectron spectroscopy, and this weakened with increasing coverage at low temperature. This remarkable effect is correlated to a shift in the highest occupied molecular orbital (HOMO) and a HOMO-1 split off band to higher binding energies. Based on our experimental results, we present a comprehensive study of the adsorption behavior of CuPc/Ag(111), including the mechanisms for phase formation and molecular interaction.

Open access
Direct observation of spin-polarized surface states in the parent compound of a topological insulator using spin- and angle-resolved photoemission spectroscopy in a Mott-polarimetry mode

D Hsieh et al 2010 New J. Phys. 12 125001

We report high-resolution spin-resolved photoemission spectroscopy (spin-ARPES) measurements on the parent compound Sb of the recently discovered three-dimensional topological insulator Bi1−xSbx (Hsieh et al 2008 Nature 452 970, Hsieh et al 2009 Science 323 919). By modulating the incident photon energy, we are able to map both the bulk and the (111) surface band structure, from which we directly demonstrate that the surface bands are spin polarized by the spin–orbit interaction and connect the bulk valence and conduction bands in a topologically non-trivial way. A unique asymmetric Dirac surface state gives rise to a k-splitting of its spin-polarized electronic channels. These results complement our previously published works on this class of materials and re-confirm our discovery of topological insulator states in the Bi1−xSbx series.

SOFT MATTER AND BIOLOGICAL PHYSICS

Open access
A stochastic spatial model of HIV dynamics with an asymmetric battle between the virus and the immune system

Hai Lin and J W Shuai 2010 New J. Phys. 12 043051

A stochastic spatial model based on the Monte Carlo approach is developed to study the dynamics of human immunodeficiency virus (HIV) infection. We aim to propose a more detailed and realistic simulation frame by incorporating many important features of HIV dynamics, which include infections, replications and mutations of viruses, antigen recognitions, activations and proliferations of lymphocytes, and diffusions, encounters and interactions of virions and lymphocytes. Our model successfully reproduces the three-phase pattern observed in HIV infection, and the simulation results for the time distribution from infection to AIDS onset are also in good agreement with the clinical data. The interactions of viruses and the immune system in all the three phases are investigated. We assess the relative importance of various immune system components in the acute phase. The dynamics of how the two important factors, namely the viral diversity and the asymmetric battle between HIV and the immune system, result in AIDS are investigated in detail with the model.

Open access
Quantum superpositions in photosynthetic light harvesting: delocalization and entanglement

Akihito Ishizaki and Graham R Fleming 2010 New J. Phys. 12 055004

We explore quantum entanglement among the chlorophyll molecules in light-harvesting complex II, which is the most abundant photosynthetic antenna complex in plants containing over 50% of the world's chlorophyll molecules. Our results demonstrate that there exists robust quantum entanglement under physiological conditions for the case of a single elementary excitation. However, this nonvanishing entanglement is not unexpected because entanglement in the single-excitation manifold is conceptually the same as quantum delocalized states, which are the spectroscopically detectable energy eigenstates of the system. We discuss the impact of the surrounding environments and correlated fluctuations in electronic energies of different pigments upon quantum delocalization and quantum entanglement. It is demonstrated that investigations with tools quantifying the entanglement can provide us with more detailed information on the nature of quantum delocalization, in particular the so-called dynamic localization, which is difficult for a traditional treatment to capture.

Open access
Energy transfer, entanglement and decoherence in a molecular dimer interacting with a phonon bath

Hoda Hossein-Nejad and Gregory D Scholes 2010 New J. Phys. 12 065045

We study the dynamics of energy transfer and dephasing in a molecular dimer with degenerate energies interacting with an anti-correlated, collective vibrational bath. By diagonalizing the total Hamiltonian, we obtain an analytic expression for the dephasing rate as a function of temperature, resonance coupling, system–bath coupling and the spectrum of the bath. Eigenstates of the total Hamiltonian are identified as a natural basis set for studies of decoherence dynamics, and the study is motivated by observations of persistent coherence in two-dimensional (2D) photon echo experiments on photosynthetic light-harvesting proteins (Collini et al 2010 Nature 463 644–7). We find that, under the influence of a collective phonon bath, coherence survives longer in systems with weak electronic couplings, in agreement with observations of long-lasting coherence in weakly coupled multichromophoric systems.

Open access
Treatment of Candida albicans biofilms with low-temperature plasma induced by dielectric barrier discharge and atmospheric pressure plasma jet

Ina Koban et al 2010 New J. Phys. 12 073039

Because of some disadvantages of chemical disinfection in dental practice (especially denture cleaning), we investigated the effects of physical methods on Candida albicans biofilms. For this purpose, the antifungal efficacy of three different low-temperature plasma devices (an atmospheric pressure plasma jet and two different dielectric barrier discharges (DBDs)) on Candida albicans biofilms grown on titanium discs in vitro was investigated. As positive treatment controls, we used 0.1% chlorhexidine digluconate (CHX) and 0.6% sodium hypochlorite (NaOCl). The corresponding gas streams without plasma ignition served as negative treatment controls. The efficacy of the plasma treatment was determined evaluating the number of colony-forming units (CFU) recovered from titanium discs. The plasma treatment reduced the CFU significantly compared to chemical disinfectants. While 10 min CHX or NaOCl exposure led to a CFU log10 reduction factor of 1.5, the log10 reduction factor of DBD plasma was up to 5. In conclusion, the use of low-temperature plasma is a promising physical alternative to chemical antiseptics for dental practice.

Open access
Dose-dependent biological damage of tumour cells by laser-accelerated proton beams

S D Kraft et al 2010 New J. Phys. 12 085003

We report on the first irradiation of in vitro tumour cells with laser-accelerated proton pulses showing dose-dependent biological damage. This experiment, paving the way for future radiobiological studies with laser-accelerated protons, demonstrates the simultaneous availability of all the components indispensable for systematic radiobiological studies: a laser–plasma accelerator providing proton spectra with maximum energy exceeding 15 MeV and applicable doses of a few Gy within a few minutes; a beam transport and filtering system; an in-air irradiation site; and a dosimetry system providing both online dose monitoring and absolute dose information applied to the cell sample and the full infrastructure for analysing radiation-induced damage in cells.

STATISTICAL PHYSICS AND COMPLEX SYSTEMS

Open access
Recurrence networks—a novel paradigm for nonlinear time series analysis

Reik V Donner et al 2010 New J. Phys. 12 033025

This paper presents a new approach for analysing the structural properties of time series from complex systems. Starting from the concept of recurrences in phase space, the recurrence matrix of a time series is interpreted as the adjacency matrix of an associated complex network, which links different points in time if the considered states are closely neighboured in phase space. In comparison with similar network-based techniques the new approach has important conceptual advantages, and can be considered as a unifying framework for transforming time series into complex networks that also includes other existing methods as special cases. It has been demonstrated here that there are fundamental relationships between many topological properties of recurrence networks and different nontrivial statistical properties of the phase space density of the underlying dynamical system. Hence, this novel interpretation of the recurrence matrix yields new quantitative characteristics (such as average path length, clustering coefficient, or centrality measures of the recurrence network) related to the dynamical complexity of a time series, most of which are not yet provided by other existing methods of nonlinear time series analysis.

Open access
Synchronization on effective networks

Tao Zhou et al 2010 New J. Phys. 12 043030

The study of network synchronization has attracted increasing attentionrecently. In this paper, we strictly define a class of networks, namely effective networks, which are synchronizable and orientable networks. We can prove that all the effective networks with the same size have the same spectra, and are of the best synchronizability according to the master stability analysis. However, it is found that the synchronization time for different effective networks can be quite different. Further analysis shows that the key ingredient affecting the synchronization time is the maximal depth of an effective network: the larger depth results in a longer synchronization time. The secondary factor is the number of links. The increasing number of links connecting nodes in the same layer (horizontal links) will lead to longer synchronization time, whereas the increasing number of links connecting nodes in neighboring layers (vertical links) will accelerate the synchronization. Our analysis of the relationship between the structure and synchronization properties of the original and effective networks shows that the purely directed effective network can provide an approximation of the original weighted network with normalized input strength. Our findings provide insights into the roles of depth, horizontal and vertical links in the synchronizing process, and suggest that the spectral analysis is helpful yet insufficient for the comprehensive understanding of network synchronization.

Open access
A simple model for skewed species-lifetime distributions

Yohsuke Murase et al 2010 New J. Phys. 12 063021

A simple model of a biological community assembly is studied. Communities are assembled by successive migrations and extinctions of species. In the model, species are interacting with each other. The intensity of the interaction between each pair of species is denoted by an interaction coefficient. At each time step, a new species is introduced to the system with randomly assigned interaction coefficients. If the sum of the coefficients, which we call the fitness of a species, is negative, the species goes extinct. The species-lifetime distribution is found to be well characterized by a stretched exponential function with an exponent close to 1/2. This profile agrees not only with more realistic population dynamics models but also with fossil records. We also find that an age-independent and inversely diversity-dependent mortality, which is confirmed in the simulation, is a key mechanism accounting for the distribution.

Open access
Optimal Prandtl number for heat transfer in rotating Rayleigh–Bénard convection

Richard J A M Stevens et al 2010 New J. Phys. 12 075005

Numerical data for the heat transfer as a function of the Prandtl (Pr) and Rossby (Ro) numbers in turbulent rotating Rayleigh–Bénard convection are presented for Rayleigh number Ra=108. When Ro is fixed, the heat transfer enhancement with respect to the non-rotating value shows a maximum as a function of Pr. This maximum is due to the reduced effect of Ekman pumping when Pr becomes too small or too large. When Pr becomes small, i.e. for large thermal diffusivity, the heat that is carried by the vertical vortices spreads out in the middle of the cell and Ekman pumping thus becomes less effective. For higher Pr the thermal boundary layers (BLs) are thinner than the kinetic BLs and therefore the Ekman vortices do not reach the thermal BL. This means that the fluid that is sucked into the vertical vortices is colder than that for lower Pr, which limits the upwards heat transfer.

Open access
Experiments on wave turbulence: the evolution and growth of second sound acoustic turbulence in superfluid 4He confirm self-similarity

A N Ganshin et al 2010 New J. Phys. 12 083047

We report our experiments on the formation of second sound acoustic turbulence in superfluid 4He. The initial growth in spectral amplitude follows power laws that steepen rapidly with increasing harmonic number n, corresponding to a propagating front in frequency space. The lower growth exponents agree well with analytic predictions and numerical modeling. The observed increase in the formation delay with n validates the concept of self-similarity in the growth of wave turbulence.

Open access
Worldwide spreading of economic crisis

Antonios Garas et al 2010 New J. Phys. 12 113043

We model the spreading of a crisis by constructing a global economic network and applying the susceptible–infected–recovered (SIR) epidemic model with a variable probability of infection. The probability of infection depends on the strength of economic relations between a given pair of countries and the strength of the target country. It is expected that a crisis that originates in a large country, such as the USA, has the potential to spread globally, such as the recent crisis. Surprisingly, we also show that countries with a much lower GDP, such as Belgium, are able to initiate a global crisis. Using the k-shell decomposition method to quantify the spreading power (of a node), we obtain a measure of 'centrality' as a spreader of each country in the economic network. We thus rank the different countries according to the shell they belong to, and find the 12 most central ones. These countries are the most likely to spread a crisis globally. Of these 12, only six are large economies, while the other six are medium/small ones, a result that could not have been otherwise anticipated. Furthermore, we use our model to predict the crisis spreading potential of countries belonging to different shells according to the crisis magnitude.

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