Perturbation Regime Research Articles

Using Kinetic Modelling to Infer Adaptations in Saccharomyces cerevisiae Carbohydrate Storage Metabolism to Dynamic Substrate Conditions.

Microbial metabolism is strongly dependent on the environmental conditions. While these can be well controlled under laboratory conditions, large-scale bioreactors are characterized by inhomogeneities and consequently dynamic conditions for the organisms. How Saccharomyces cerevisiae response to frequent perturbations in industrial bioreactors is still not understood mechanistically. To study the adjustments to prolonged dynamic conditions, we used published repeated substrate perturbation regime experimental data, extended it with proteomic measurements and used both for modelling approaches. Multiple types of data were combined; including quantitative metabolome, 13C enrichment and flux quantification data. Kinetic metabolic modelling was applied to study the relevant intracellular metabolic response dynamics. An existing model of yeast central carbon metabolism was extended, and different subsets of enzymatic kinetic constants were estimated. A novel parameter estimation pipeline based on combinatorial enzyme selection supplemented by regularization was developed to identify and predict the minimum enzyme and parameter adjustments from steady-state to dynamic substrate conditions. This approach predicted proteomic changes in hexose transport and phosphorylation reactions, which were additionally confirmed by proteome measurements. Nevertheless, the modelling also hints at a yet unknown kinetic or regulation phenomenon. Some intracellular fluxes could not be reproduced by mechanistic rate laws, including hexose transport and intracellular trehalase activity during substrate perturbation cycles.

Optical Control of High-Harmonic Generation at the Atomic Thickness.

High-harmonic generation (HHG), an extreme nonlinear optical phenomenon beyond the perturbation regime, is of great significance for various potential applications, such as high-energy ultrashort pulse generation with outstanding spatiotemporal coherence. However, efficient active control of HHG is still challenging due to the weak light-matter interaction displayed by currently known materials. Here, we demonstrate optically controlled HHG in monolayer semiconductors via the engineering of interband polarization. We find that HHG can be efficiently controlled in the excitonic spectral region with modulation depths up to 95% and ultrafast response speeds of several picoseconds. Quantitative time-domain theory of the nonlinear optical susceptibilities in monolayer semiconductors further corroborates these experimental observations. Our demonstration not only offers an in-depth understanding of HHG but also provides an effective approach toward active optical devices for strong-field physics and extreme nonlinear optics.

Non‐linear behaviour of electron acoustic wave dynamics in a magnetized plasma with non‐thermal hot electrons

AbstractNon‐linear dynamical behaviour of electron acoustic waves (EAWs) is studied in a magnetized non‐thermal plasma (containing inertial cold electrons, inertialess hot electrons following non‐thermal distribution function, and static ions) via a fluid dynamical approach. A linear dispersion relation is derived and the propagation of two possible modes and their evolution are studied through the different plasma configuration parameters, such as non‐thermality and external magnetic field strength. In a non‐linear perturbation regime, a reductive perturbation technique is employed to derive the non‐linear evolution equation and the analysis is executed for travelling plane waves in terms of a non‐linear dynamical system to enlighten the numerous aspects of the phase space dynamics. The results of numerical simulation predict the existence of a wide class of non‐linear structures, namely solitonic, periodic, quasiperiodic, and chaotic depending upon different controlling plasma parameters. Also, Poincaré return map analysis confirms these non‐linear structures of the EAWs.

Decrease in social cohesion in a colonial seabird under a perturbation regime

Social interactions, through influence on behavioural processes, can play an important role in populations’ resilience (i.e. ability to cope with perturbations). However little is known about the effects of perturbations on the strength of social cohesion in wild populations. Long-term associations between individuals may reflect the existence of social cohesion for seizing the evolutionary advantages of social living. We explore the existence of social cohesion and its dynamics under perturbations by analysing long-term social associations, in a colonial seabird, the Audouin’s gull Larus audouinii, living in a site experiencing a shift to a perturbed regime. Our goals were namely (1) to uncover the occurrence of long-term social ties (i.e. associations) between individuals and (2) to examine whether the perturbation regime affected this form of social cohesion. We analysed a dataset of more than 3500 individuals from 25 years of monitoring by means of contingency tables and within the Social Network Analysis framework. We showed that associations between individuals are not only due to philopatry or random gregariousness but that there are social ties between individuals over the years. Furthermore, social cohesion decreased under the perturbation regime. We sustain that perturbations may lead not only to changes in individuals’ behaviour and fitness but also to a change in populations’ social cohesion. The consequences of decreasing social cohesion are still not well understood, but they can be critical for the population dynamics of social species.

Enhanced sensitivity of optical gyroscope in a mechanical parity-time-symmetric system based on exceptional point

High-sensitivity gyroscope is widely used for rotation detection in several practical applications. Recently, exceptional points (EPs) have garnered considerable attention for enhancing the sensitivity of sensors based on optical cavities. Here, we propose an EP-enhanced optical gyroscope based on mechanical parity-time (PT) symmetry in a microcavity system. We demonstrate that by pumping the two optical modes with different colors, i.e., blue and red detuning, an effective mechanical PT-symmetric system can be obtained, and the system can be prepared at EP with appropriate parameters. The sensitivity of gyroscope at EP was enhanced by more than one order of magnitude in the weak perturbation regime as compared to that at diabolic point. This indicates that the sensitivity of gyroscope can be effectively enhanced by monitoring the mechanical modes rather than the optical modes. Overall, our work provides a promising approach to design high-sensitivity gyroscopes in optical microcavities and is potentially useful in a variety of research fields including fundamental physics and precision measurement.

Control of High-Harmonic Generation by Tuning the Electronic Structure and Carrier Injection.

High-harmonic generation (HHG), which is the generation of light with multiple optical harmonics, is an unconventional nonlinear optical phenomenon beyond the perturbation regime. HHG, which was initially observed in gaseous media, has recently been demonstrated in solid-state materials. Determining how to control such extreme nonlinear optical phenomena is a challenging subject. Here, we demonstrate the control of HHG through tuning the electronic structure and carrier injection using single-walled carbon nanotubes (SWCNTs). We reveal systematic changes in the high-harmonic spectra of SWCNTs with a series of electronic structures ranging from a metal structure to a semiconductor structure. We demonstrate enhancement or reduction of harmonic generation by more than 1 order of magnitude by tuning the electron and hole injection into the semiconductor SWCNTs through electrolyte gating. These results open a path toward the control of HHG in the context of field-effect transistor devices.

Plasmon-assisted two-photon absorption in a semiconductor quantum dot–metallic nanoshell composite

Tho-photon absorption holds potential for many practical applications. We theoretically investigate the onset of this phenomenon in a semiconductor quantum dot -- metallic nanoshell composite subjected to a resonant CW excitation. Two-photon absorption in this system may occur in two ways: incoherent -- due to a consecutive ground-to-one-exciton-to-biexciton transition and coherent -- due to a coherent two-photon process, involving the direct ground-to-biexciton transition in the quantum dot. The presence of the nanoshell nearby the quantum dot gives rise to two principal effects: (i) -- renormalization of the applied field amplitude and (ii) -- renormalization of the resonance frequencies and radiation relaxation rates of the quantum dot, both depending on the the quantum dot level populations. We show that in the perturbation regime, when the excitonic levels are only slightly populated, each of these factors may give rise to either suppression or enhancement of the two-photon absorption. The complicated interplay of the two determines the final effect. Beyond the perturbation regime, it is found that the two-photon absorption experiences a drastic enhancement, which occurs independently of the type of excitation, either into the one-exciton resonance or into the two-photon resonance. Other characteristic features of the two-photon absorption of the composite, emerging from the coupling between both nanoparticles, are bistability and self-oscillations.

Thermal phase transition in F(R) -charged AdS4 scalar theory

We investigate instabilities of $F(R)$-charged ${\mathrm{AdS}}_{4}$ black holes by a massive charged scalar field in a linear perturbation regime. We study tachyonic instabilities as the near horizon scalar condensation in a model of $F(R)$ gravity with planar horizon and investigate properties of possible phase transitions. The results show that such transitions are sensitive to the first derivative of $F(R)$ with respect to $R$ in that the larger its value, the higher the critical temperature, thus resulting in a new generation of high-temperature superconductors. Also, for a certain range of parameters, $F(R)$-charged ${\mathrm{AdS}}_{4}$ black holes suffer from superradiant instability. We consider the effects of the scalar mass and charge on such instabilities and conclude that Reissner-Nordstrom (RN) black holes decay into small hairy black holes that have a charged scalar condensate floating near the horizon. It is shown that the existence of phase transition at the critical temperature leading to a hairy black hole solution emerges for $T<{T}_{c}$, while RN black holes exist for $T>{T}_{c}$. The effect of $F(R)$ on the critical temperature is subsequently investigated in the case of superradiant instability, showing that higher critical temperatures would be possible in $F(R)$ gravity. We also check the stability of hairy black holes and show that the resulting hairy solution can be considered as a possible endpoint of superradiant instability of a small charged black hole.

Modeling the Impact of Hamiltonian Perturbations on Expectation Value Dynamics

Abstract Evidently, some relaxation dynamics, e.g. exponential decays, are much more common in nature than others. Recently there have been attempts to explain this observation on the basis of “typicality of perturbations” with respect to their impact on expectation value dynamics. These theories suggest that a majority of the very numerous, possible Hamiltonian perturbations entail more or less the same type of alteration of the decay dynamics. Thus, in this paper, we study how the approach towards equilibrium in closed quantum systems is altered due to weak perturbations. To this end, we perform numerical experiments on a particular, exemplary spin system. We compare our numerical data to predictions from three particular theories. We find satisfying agreement in the weak perturbation regime for one of these approaches.

Planet-induced spirals in the circumbinary disk of GG Tauri A

Context. ALMA high angular resolution observations of the dust and CO emission have already revealed signatures of protoplanets embedded in protoplanetary disks. These detections are around single T Tauri stars, while exoplanet surveys reveal that planets can also form in binary (or multiple) systems, either in circumstellar or circumbinary orbits. Aims. We searched for indirect evidence for planet formation in the multiple system GG Tau A, which harbors the most massive circumbinary disk among T Tauri stars. Methods. We performed CO(2–1) ALMA Cycle 6 observations of GG Tau A at 0.3″ resolution. The images confirm the “hot spot” detected at higher frequencies, but also reveal prominent spiral-like features. We modeled these features using the analytic prescription for the linear perturbation regime induced by low-mass planets. Results. The brightest spiral is well reproduced by a density wave excited by a protoplanet (GG Tau Ac) at the hot-spot location (290 au), just outside the dust ring. The absence of a clear gap (in gas or dust) at the planet location implies that its mass is significantly lower than that of Jupiter, i.e., of about the mass of Neptune or lower. Furthermore, other prominent (trailing) spiral patterns can be represented by adding one (or more) planet(s) at larger orbital radii, with the most obvious candidate located near the 2:1 mean-motion resonance with GG Tau Ac. Conclusions. The (proto-)planet GG Tau Ac appears to externally confine the ring in a stable configuration, explaining its high mass. Our results also suggest that planets similar in mass to Neptune may form in dense circumbinary disks orbiting (wide) binary stars. In the GG Tau case, orbital resonances appear to play an important role in shaping this multiple circumbinary planet system.

Stability of Kerr black holes in generalized hybrid metric-Palatini gravity

It is shown that the Kerr solution exists in the generalized hybrid metric-Palatini gravity theory and that for certain choices of the function $f(R,\mathcal{R})$ that characterizes the theory, the Kerr solution can be stable against perturbations on the scalar degree of freedom of the theory. We start by verifying which are the most general conditions on the function $f(R,\mathcal{R})$ that allow for the general relativistic Kerr solution to also be a solution of this theory. We perform a scalar perturbation in the trace of the metric tensor, which in turn imposes a perturbation in both the Ricci and Palatini scalar curvatures. To first order in the perturbation, the equations of motion, namely the field equations and the equation that relates the Ricci and the Palatini curvature scalars, can be rewritten in terms of a fourth-order wave equation for the perturbation $\ensuremath{\delta}R$ which can be factorized into two second-order massive wave equations for the same variable. The usual ansatz and separation methods are applied and stability bounds on the effective mass of the Ricci scalar perturbation are obtained. These stability regimes are studied case by case and specific forms of the function $f(R,\mathcal{R})$ that allow for a stable Kerr solution to exist within the perturbation regime studied are obtained.

First principles study of electronic structure and optical properties of armchair SnSi nanoribbons

In this paper, the electronic and optical properties of the armchair SnSi (A-SnSi) nanoribbon based on first-principles calculations are studied. The atoms of this structure in edge are passivated with the hydrogen atoms. Our calculations show that there are three distinct families of A-SnSi nanoribbon, 3p − 1, 3p, and 3p + 1 (where p is an integer). All A-SnSi nanoribbon families show semiconductor behavior. The band gap energy for the case of 3p + 1 is greater than the other two groups. In addition, the dielectric function and absorption coefficient of this structure within the framework of the perturbation regime under the dipole transition approximation is calculated. The results show that the presence of the peaks in the imaginary part of the dielectric function corresponds to the band gap energy for each structure, and the intensity of the interband transition in smaller energies is higher. The electron-hole interactions are also calculated using GW-BSE method to exhibit the influence of the many-body interactions on the optical absorption spectrum. These features can be utilized to design nano-scale optoelectronic devices.

Electroacoustic Waves in a Collision-Free Magnetized Superthermal Bi-Ion Plasma

The electroacoustic waves, particularly ion-acoustic waves (IAWs), and their expansion in the medium of a magnetized collision-free plasma system has been investigated theoretically. The plasma system is assumed to be composed of both positively and negatively charged mobile ion species and kappa-distributed hot electron species. In the nonlinear perturbation regime, the magnetized Korteweg–de Vries (KdV) and magnetized modified KdV (mKdV) equations are derived by using reductive perturbation method. The prime features (i.e., amplitude, phase speed, width, etc.) of the IAWs are studied precisely by analyzing the stationary solitary wave solutions of the magnetized KdV and magnetized mKdV equations, respectively. It occurs that the basic properties of the IAWs are significantly modified in the presence of the excess superthermal hot electrons, obliqueness, the plasma particle number densities, etc. It is also observed that, in case of magnetized KdV solitary waves, both compressive and rarefactive structures are formed, whereas only compressive structures are found for the magnetized mKdV solitary waves. The implication of our results in some space and laboratory plasma situations is concisely discussed.

Time-resolved photoelectron spectroscopy of polyatomic molecules using 42-nm vacuum ultraviolet laser based on high harmonics generation

Time-resolved photoelectron spectroscopy (TRPES) of gaseous polyatomic molecules using 266-nm (4.7eV) pump and 42-nm (29.5eV) probe pulses is presented. A 1-kHz Ti:sapphire laser with a 35fs pulse duration is employed to generate high harmonics in Kr gas, and the 19th harmonic (42-nm) was selected using two SiC/Mg mirrors. Clear observation of the ultrafast electronic dephasing in pyrazine and photoisomerization of 1,3-cyclohexadiene demonstrates the feasibility of TRPES with the UV pump and VUV probe pulses under weak excitation conditions in the perturbation regime.

Comparisons between the pendulum with varying length and the pendulum with oscillating support

We consider two forced dissipative pendulum systems, the pendulum with vertically oscillating support and the pendulum with periodically varying length, with a view to draw comparisons between their behaviour. We study the two systems for values of the parameters for which the dynamics are non-chaotic. We focus our investigation on the persisting attractive periodic orbits and their basins of attraction, utilising both analytical and numerical techniques. Although in some respect the two systems have similar behaviour, we find that even within the perturbation regime they may exhibit different dynamics. In particular, for the same value of the amplitude of the forcing, the pendulum with varying length turns out to be perturbed to a greater extent. Furthermore the periodic attractors persist under larger values of the damping coefficient in the pendulum with varying length. Finally, unlike the pendulum with oscillating support, the pendulum with varying length cannot be stabilised around the upward position for any values of the parameters.

Spatially cascading effect of perturbations in experimental meta-ecosystems

Ecosystems are linked to neighbouring ecosystems not only by dispersal, but also by the movement of subsidy. Such subsidy couplings between ecosystems have important landscape-scale implications because perturbations in one ecosystem may affect community structure and functioning in neighbouring ecosystems via increased/decreased subsidies. Here, we combine a general theoretical approach based on harvesting theory and a two-patch protist meta-ecosystem experiment to test the effect of regional perturbations on local community dynamics. We first characterized the relationship between the perturbation regime and local population demography on detritus production using a mathematical model. We then experimentally simulated a perturbation gradient affecting connected ecosystems simultaneously, thus altering cross-ecosystem subsidy exchanges. We demonstrate that the perturbation regime can interact with local population dynamics to trigger unexpected temporal variations in subsidy pulses from one ecosystem to another. High perturbation intensity initially led to the highest level of subsidy flows; however, the level of perturbation interacted with population dynamics to generate a crash in subsidy exchange over time. Both theoretical and experimental results show that a perturbation regime interacting with local community dynamics can induce a collapse in population levels for recipient ecosystems. These results call for integrative management of human-altered landscapes that takes into account regional dynamics of both species and resource flows.

Stable dynamics in forced systems with sufficiently high/low forcing frequency

We consider parametrically forced Hamiltonian systems with one-and-a-half degrees of freedom and study the stability of the dynamics when the frequency of the forcing is relatively high or low. We show that, provided the frequency is sufficiently high, Kolmogorov-Arnold-Moser (KAM) theorem may be applied even when the forcing amplitude is far away from the perturbation regime. A similar result is obtained for sufficiently low frequency, but in that case we need the amplitude of the forcing to be not too large; however, we are still able to consider amplitudes which are outside of the perturbation regime. In addition, we find numerically that the dynamics may be stable even when the forcing amplitude is very large, well beyond the range of validity of the analytical results, provided the frequency of the forcing is taken correspondingly low.

Cosmological non-linear density and velocity power spectra including non-linear vector and tensor modes

We present the leading order non-linear density and velocity power spectra in the complete form; previous studies have omitted the vector- and tensor-type perturbations simultaneously excited by the scalar-type perturbation in nonlinear order. These additional contributions are comparable to the scalar-type purely relativistic perturbations, and thus negligible in the current paradigm of concordance cosmology: i.e., concerning density and velocity perturbations of the pressureless matter in perturbation regime well inside of matter-dominated epoch, we show that pure Einstein's gravity contributions appearing from the third order are entirely negligible (five orders of magnitude smaller than the Newtonian contributions) in all scales. We thus prove that Newtonian perturbation theory is quite reliable in calculating the amplitude of matter fluctuations even in the precision era of cosmology. Therefore, besides the ones imprinted as the initial condition generated in the earlier phase, the other relativistic effect relevant for interpreting observational data must be the projection effect that occurs when mapping galaxies on to the observed coordinate.

Tunable high-order sideband spectra generation using a photonic molecule optomechanical system.

A tunable high-order sideband spectra generation scheme is presented by using a photonic molecule optomechanical system coupled to a waveguide beyond the perturbation regime. The system is coherently driven by a two-tone laser consisting of a continuous-wave control field and a pulsed driving field which propagates through the waveguide. The frequency spectral feature of the output field is analyzed via numerical simulations, and we confirm that under the condition of intense and nanosecond pulse driving, the output spectrum exhibits the properties of high-order sideband frequency spectra. In the experimentally available parameter range, the output spectrum can be efficiently tuned by the system parameters, including the power of the driving pulse and the coupling rate between the cavities. In addition, analysis of the carrier-envelop phase-dependent effect of high-order sideband generation indicates that the system may present dependence upon the phase of the pulse. This may provide a further insight of the properties of cavity optomechanics in the nonlinear and non-perturbative regime, and may have potential applications in optical frequency comb and communication based on the optomechanical platform.

Radiation damage in X-ray crystallography: a quantum-mechanical study of photoinduced defect formation in beeswax-analogue n-eicosane crystals

We study the nuclear dynamics of n-eicosane ( $$\hbox {C}_{20}\hbox {H}_{42}$$ ) in the crystalline state after photoirradation at room temperature using adiabatic ab initio excited-state dynamics based on hybrid time-dependent density-functional theory. We consider the weak perturbation (absorption) limit, in which an excited electron and a hole are simultaneously created in the system, and the strong perturbation (photoemission) regime, in which one electron is removed. We examine the changes in the carbon chain conformation occurring over timescales of the order of ca. 5 ps relative to the unperturbed (ground state) crystal structure at room temperature, which we simulate using standard ab initio molecular dynamics based on hybrid density-functional theory. Whereas the system retains its ground-state structure in the photoemission limit, the formation of structural defects, in the form of local distortions of the chain geometry, is observed in the absorption limit. We attribute the formation of these defects to the nuclear screening of the electron–hole pair created by photoexcitation. We discuss these findings in the context of radiation damage in organic/biological macromolecules and X-ray diffraction techniques.