Large-scale bottleneck effect in two-dimensional turbulence

The bottleneck phenomenon in three-dimensional turbulence is generally associated with the dissipation range of the energy spectrum. In the present work, it is shown by using a two-point closure theory, that in two-dimensional turbulence it is possible to observe a bottleneck at the large scales, due to the effect of friction on the inverse energy cascade. This large-scale bottleneck is directly related to the process of energy condensation, the pile-up of energy at wavenumbers corresponding to the domain size. The link between the use of friction and the creation of space-filling structures is discussed and it is concluded that the careless use of hypofriction might reduce the inertial range of the energy spectrum

Growing condensate in two-dimensional turbulence

We report a numerical study, supplemented by phenomenological explanations, of ``energy condensation'' in forced 2D turbulence in a biperiodic box. Condensation is a finite size effect which occurs after the standard inverse cascade reaches the size of the system. It leads to emergence of a coherent vortex dipole. We show that the time growth of the dipole is self-similar, and it contains most of the injected energy, thus resulting in an energy spectrum which is markedly steeper than the standard $k^{-5/3}$ one. Once the coherent component is subtracted, however, the remaining fluctuations have a spectrum close to $k^{-1}$. The fluctuations decay slowly as the coherent part grows.Comment: 4 pages, 4 figures. This version includes some additional phenomenological explanations of the results, additional references and improved figure

Enstrophy dissipation in two-dimensional turbulence

Insight into the problem of two-dimensional turbulence can be obtained by an analogy with a heat conduction network. It allows the identification of an entropy function associated to the enstrophy dissipation and that fluctuates around a positive (mean) value. While the corresponding enstrophy network is highly nonlocal, the direction of the enstrophy current follows from the Second Law of Thermodynamics. An essential parameter is the ratio $T_k = \gamma_k /(\nu k^2)$ of the intensity of driving $\gamma_k>0$ as a function of wavenumber $k$, to the dissipation strength $\nu k^2$, where $\nu$ is the viscosity. The enstrophy current flows from higher to lower values of $T_k$, similar to a heat current from higher to lower temperature. Our probabilistic analysis of the enstrophy dissipation and the analogy with heat conduction thus complements and visualizes the more traditional spectral arguments for the direct enstrophy cascade. We also show a fluctuation symmetry in the distribution of the total entropy production which relates the probabilities of direct and inverse enstrophy cascades.Comment: 8 pages, revtex

Positively charged amino acids are essential for electron transfer and protein-protein interactions in the soluble methane monooxygenase complex from methylococcus capsulatus (Bath)

The soluble methane monooxygenase (sMMO) complex from Methylococcus capsulatus (Bath) catalyses oxygen- and NAD(P)H-dependent oxygenation of methane, propene and other substrates. Whole-complex sMMO oxygenase activity requires all three sMMO components: the hydroxylase, the reductase and protein B. Also, in the presence of hydrogen peroxide, the hydroxylase alone catalyses substrate oxygenation via the peroxide shunt reaction. We investigated the effect of amine cross-linking on hydroxylase activity in order to probe the role of a gross conformational change that occurs in the hydroxylase upon binding of the other protein components. The cross-linker inhibited hydroxylase activity in the whole complex but this effect was due to covalent modification of primary amine groups rather than cross-linking. Covalent modification of arginine side-chains on the hydroxylase had a similar effect but, most remarkably, neither form of modification affected the activity of the hydroxylase via the peroxide shunt reaction. It was shown that covalent modification of positively charged groups on the hydroxylase, which occurred at multiple sites, interfered with its physical and functional interactions with protein B and with the passage of electrons from the reductase. These results indicate that protein B and the reductase of the sMMO complex interact via positively charged groups on the surface of the hydroxylase to induce a conformational change that is necessary for delivery of electrons into the active site of the hydroxylase. Modification of positively charged groups on protein B had no effect on its function, consistent with the hypothesis that positively charged groups on the hydroxylase interact with negative charges on protein B. Thus, we have discovered a means of specifically inactivating the interactions between the sMMO complex while preserving the catalytic activity of the hydroxylase active site which provides a new method of studying intercomponent interactions within sMMO.</p

Lagrangian filtered density function for LES-based stochastic modelling of turbulent dispersed flows

The Eulerian-Lagrangian approach based on Large-Eddy Simulation (LES) is one of the most promising and viable numerical tools to study turbulent dispersed flows when the computational cost of Direct Numerical Simulation (DNS) becomes too expensive. The applicability of this approach is however limited if the effects of the Sub-Grid Scales (SGS) of the flow on particle dynamics are neglected. In this paper, we propose to take these effects into account by means of a Lagrangian stochastic SGS model for the equations of particle motion. The model extends to particle-laden flows the velocity-filtered density function method originally developed for reactive flows. The underlying filtered density function is simulated through a Lagrangian Monte Carlo procedure that solves for a set of Stochastic Differential Equations (SDEs) along individual particle trajectories. The resulting model is tested for the reference case of turbulent channel flow, using a hybrid algorithm in which the fluid velocity field is provided by LES and then used to advance the SDEs in time. The model consistency is assessed in the limit of particles with zero inertia, when "duplicate fields" are available from both the Eulerian LES and the Lagrangian tracking. Tests with inertial particles were performed to examine the capability of the model to capture particle preferential concentration and near-wall segregation. Upon comparison with DNS-based statistics, our results show improved accuracy and considerably reduced errors with respect to the case in which no SGS model is used in the equations of particle motion

Coriolis force in Geophysics: an elementary introduction and examples

We show how Geophysics may illustrate and thus improve classical Mechanics lectures concerning the study of Coriolis force effects. We are then interested in atmospheric as well as oceanic phenomena we are familiar with, and are for that reason of pedagogical and practical interest. Our aim is to model them in a very simple way to bring out the physical phenomena that are involved.Comment: Accepted for publication in European Journal of Physic

Dynamics of spectrally truncated inviscid turbulence

The evolution of the turbulent energy spectrum for the inviscid spectrally truncated Euler equations is studied by closure calculations. The observed behavior is similar to the one found in direct numerical simulations [Cichowlas, Bona\"ititi, Debbasch, and Brachet, Phys. Rev. Lett. 95, 264502 (2005)]. A Kolmogorov spectral range and an equipartition range are observed simultaneously. Between these two ranges a "quasi-dissipative" zone is present in the kinetic energy spectrum. The time evolution of the wave number that marks the beginning of the equipartition range is analyzed and it is shown that spectral nonlocal interactions are governing this evolution

Classical and quantum regimes of two-dimensional turbulence in trapped Bose-Einstein condensates

We investigate two-dimensional turbulence in finite-temperature trapped Bose-Einstein condensates within damped Gross-Pitaevskii theory. Turbulence is produced via circular motion of a Gaussian potential barrier stirring the condensate. We systematically explore a range of stirring parameters and identify three regimes, characterized by the injection of distinct quantum vortex structures into the condensate: (A) periodic vortex dipole injection, (B) irregular injection of a mixture of vortex dipoles and co-rotating vortex clusters, and (C) continuous injection of oblique solitons that decay into vortex dipoles. Spectral analysis of the kinetic energy associated with vortices reveals that regime (B) can intermittently exhibit a Kolmogorov $k^{-5/3}$ power law over almost a decade of length or wavenumber ($k$) scales. The kinetic energy spectrum of regime (C) exhibits a clear $k^{-3/2}$ power law associated with an inertial range for weak-wave turbulence, and a $k^{-7/2}$ power law for high wavenumbers. We thus identify distinct regimes of forcing for generating either two-dimensional quantum turbulence or classical weak-wave turbulence that may be realizable experimentally.Comment: 11 pages, 10 figures. Minor updates to text and figures 1, 2 and