A modified leapfrog scheme for shallow water equations

Author Posting. © The Author(s), 2011. This is the author's version of the work. It is posted here by permission of Elsevier B.V. for personal use, not for redistribution. The definitive version was published in Computers & Fluids 52 (2011): 69-72, doi:10.1016/j.compfluid.2011.08.019.In the 1D linearized shallow water equations, the Courant number should be < 0.5 for stability in the original Leapfrog (LF) scheme. Here, we propose using the time-averaged heights in the pressure gradient force in the momentum equations. The stability analysis shows that the new scheme is neutral when Courant number <1. The scheme is 2nd order accurate in both time and space. It does not require iterations and can be easily applied in 2D or 3D wave equations. The numerical simulations for 2-D linearized shallow water equations are consistent with those obtained from a 2-time-step semi-implicit scheme

Subharmonic energy transfer from the semidiurnal internal tide to near-diurnal motions over Kaena Ridge, Hawaii

Author Posting. © American Meteorological Society, 2013. This article is posted here by permission of American Meteorological Society for personal use, not for redistribution. The definitive version was published in Journal of Physical Oceanography 43 (2013): 766–789, doi:10.1175/JPO-D-12-0141.1.Nonlinear energy transfers from the semidiurnal internal tide to high-mode, near-diurnal motions are documented near Kaena Ridge, Hawaii, an energetic generation site for the baroclinic tide. Data were collected aboard the Research Floating Instrument Platform (FLIP) over a 35-day period during the fall of 2002, as part of the Hawaii Ocean Mixing Experiment (HOME) Nearfield program. Energy transfer terms for a PSI resonant interaction at midlatitude are identified and compared to those for near-inertial PSI close to the M2 critical latitude. Bispectral techniques are used to demonstrate significant energy transfers in the Nearfield, between the low-mode M2 internal tide and subharmonic waves with frequencies near M2/2 and vertical wavelengths of O(120 m). A novel prefilter is used to test the PSI wavenumber resonance condition, which requires the subharmonic waves to propagate in opposite vertical directions. Depth–time maps of the interactions, formed by directly estimating the energy transfer terms, show that energy is transferred predominantly from the tide to subharmonic waves, but numerous reverse energy transfers are also found. A net forward energy transfer rate of 2 × 10−9 W kg−1 is found below 400 m. The suggestion is that the HOME observations of energy transfer from the tide to subharmonic waves represent a first step in the open-ocean energy cascade. Observed PSI transfer rates could account for a small but significant fraction of the turbulent dissipation of the tide within 60 km of Kaena Ridge. Further extrapolation suggests that integrated PSI energy transfers equatorward of the M2 critical latitude may be comparable to PSI energy transfers previously observed near 28.8°N.This work was supported by the National Science Foundation and the Office of Naval Research.2013-10-0

Energy transfer from high-shear, low-frequency internal waves to high-frequency waves near Kaena Ridge, Hawaii

Author Posting. © American Meteorological Society, 2012. This article is posted here by permission of American Meteorological Society for personal use, not for redistribution. The definitive version was published in Journal of Physical Oceanography 42 (2012): 1524–1547, doi:10.1175/JPO-D-11-0117.1.Evidence is presented for the transfer of energy from low-frequency inertial–diurnal internal waves to high-frequency waves in the band between 6 cpd and the buoyancy frequency. This transfer links the most energetic waves in the spectrum, those receiving energy directly from the winds, barotropic tides, and parametric subharmonic instability, with those most directly involved in the breaking process. Transfer estimates are based on month-long records of ocean velocity and temperature obtained continuously over 80–800 m from the research platform (R/P) Floating Instrument Platform (FLIP) in the Hawaii Ocean Mixing Experiment (HOME) Nearfield (2002) and Farfield (2001) experiments, in Hawaiian waters. Triple correlations between low-frequency vertical shears and high-frequency Reynolds stresses, uiw∂Ui/∂z, are used to estimate energy transfers. These are supported by bispectral analysis, which show significant energy transfers to pairs of waves with nearly identical frequency. Wavenumber bispectra indicate that the vertical scales of the high-frequency waves are unequal, with one wave of comparable scale to that of the low-frequency parent and the other of much longer scale. The scales of the high-frequency waves contrast with the classical pictures of induced diffusion and elastic scattering interactions and violates the scale-separation assumption of eikonal models of interaction. The possibility that the observed waves are Doppler shifted from intrinsic frequencies near f or N is explored. Peak transfer rates in the Nearfield, an energetic tidal conversion site, are on the order of 2 × 10−7 W kg−1 and are of similar magnitude to estimates of turbulent dissipation that were made near the ridge during HOME. Transfer rates in the Farfield are found to be about half the Nearfield values.This work was supported by the National Science Foundation and the Office of Naval Research.2013-03-0

Statistical correlation for the composite Boson

It is well known that the particles in a beam of Boson obeying Bose-Einstein statistics tend to cluster (bunching effect), while the particles in a degenerate beam of Fermion obeying Fermi-Dirac statistics expel each other (anti-bunching effect). Here we investigate, for the first time, the statistical correlation effect for the composite Boson, which is formed from a spin singlet entangled electron pair. By using nonequilibrium Green's function technique, we obtain a positive cross correlation for this kind of the composite Boson when the external voltage is smaller than the gap energy, which demonstrates that a spin singlet entangled electron pair looks like a composite Boson. In the larger voltage limit, the cross correlation becomes negative due to the contribution of the quasiparticles. At large voltages, the oscillation between Fermionic and Bosonic behavior of cross correlation is also observed in the strong coupling regime as one changes the position of the resonant levels. Our result can be easily tested in a three-terminal normal-superconductor-superconductor (N-S-S) hybrid mesoscopic system

Scaling turbulent dissipation in the transition layer

Author Posting. © American Meteorological Society, 2013. This article is posted here by permission of American Meteorological Society for personal use, not for redistribution. The definitive version was published in Journal of Physical Oceanography 43 (2013): 2475–2489, doi:10.1175/JPO-D-13-057.1.Data from three midlatitude, month-long surveys are examined for evidence of enhanced vertical mixing associated with the transition layer (TL), here defined as the strongly stratified layer that exists between the well mixed layer and the thermocline below. In each survey, microstructure estimates of turbulent dissipation were collected concurrently with fine-structure stratification and shear. Survey-wide averages are formed in a “TL coordinate” zTL, which is referenced around the depth of maximum stratification for each profile. Averaged profiles show characteristic TL structures such as peaks in stratification N2 and shear variance S2, which fall off steeply above zTL = 0 and more gradually below. Turbulent dissipation rates ɛ are 5–10 times larger than those found in the upper thermocline (TC). The gradient Richardson number Ri = N2/S2 becomes unstable (Ri 0. Ri is stable for zTL ≤ 0. Turbulent dissipation is found to scale exponentially with depth for zTL ≤ 0, but the decay scales are different for the TL and upper TC: ɛ scales well with either N2 or S2. Owing to the strong correlation between S2 and N2, existing TC scalings of the form ɛ ~ |S|p|N|q overpredict variations in ɛ. The scale dependence of shear variance is not found to significantly affect the scalings of ɛ versus N2 and S2 for zTL ≤ 0. However, the onset of unstable Ri at the top of the TL is sensitively dependent to the resolution of the shears.This work was funded by NSF Grant OCE-0968787 as part of a Climate Process Team for internal wave-driven mixing

A modified atmospheric non-hydrostatic model on low aspect ratio grids

© The Author(s), 2012. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Tellus A 64 (2012): 17516, doi:10.3402/tellusa.v64i0.17516.It is popular to use a horizontal explicit and a vertical implicit (HE-VI) scheme in the compressible nonhydrostatic (NH) model. However, when the aspect ratio becomes small, a small time-interval is required in HE-VI, because the Courant-Fredrich-Lewy (CFL) criterion is determined by the horizontal grid spacing. Furthermore, simulations from HE-VI can depart from the forward–backward (FB) scheme in NH even when the time interval is less than the CFL criterion allowed. Hence, a modified non-hydrostatic (MNH) model is proposed, in which the left-hand side of the continuity equation is multiplied by a parameter d (45d516, in this study). When the linearized MNH is solved by FB (can be other schemes), the eigenvalue shows that MNH can suppress the frequency of acoustic waves very effectively but does not have a significant impact on the gravity waves. Hence, MNH enables to use a longer time step than that allowed in the original NH. When the aspect ratio is small, MNH solved by FB can be more accurate and efficient than the NH solved by HE-VI. Therefore, MNH can be very useful to study cloud, Large Eddy Simulation (LES), turbulence, flow over complex terrains, etc., which require fine resolution in both horizontal and vertical directions

L-Leucine Improves Metabolic Disorders in Mice With in-utero Cigarette Smoke Exposure

Objectives: Maternal cigarette smoke exposure (SE) causes intrauterine undernutrition, resulting in increased risk for metabolic disorders and type 2 diabetes in the offspring without sex differences. L-leucine supplementation has been shown to reduce body weight and improve glucose metabolism in both obese animals and humans. In this study, we aimed to determine whether postnatal L-leucine supplementation in female offspring can ameliorate the detrimental impact of maternal SE. Methods: Female Balb/c mice (6-week) were exposed to cigarette smoke (SE, 2 cigarettes/day) prior to mating for 5 weeks until the pups weaned. Sham dams were exposed to air during the same period. Half of the female offspring from the SE and SHAM dams were supplied with L-leucine via drinking water (1.5% w/w) after weaning (21-day) for 10 weeks and sacrificed at 13 weeks (adulthood). Results: Maternal SE during pregnancy resulted in smaller body weight and glucose intolerance in the offspring. L-leucine supplement in Sham offspring reduced body weight, fat mass, and fasting blood glucose levels compared with their untreated littermates; however somatic growth was not changed. L-leucine supplement in SE offspring improved glucose tolerance and reduced fat mass compared with untreated littermates. Conclusions: Postnatal L-leucine supplement could reduce fat accumulation and ameliorate glucose metabolic disorder caused by maternal SE. The application of leucine may provide a potential strategy for reducing metabolic disorders in offspring from mothers who continued to smoke during pregnancy

Modeling and generating moving trees from video

We present a probabilistic approach for the automatic production of tree models with convincing 3D appearance and motion. The only input is a video of a moving tree that provides us an initial dynamic tree model, which is used to generate new individual trees of the same type. Our approach combines global and local constraints to construct a dynamic 3D tree model from a 2D skeleton. Our modeling takes into account factors such as the shape of branches, the overall shape of the tree, and physically plausible motion. Furthermore, we provide a generative model that creates multiple trees in 3D, given a single example model. This means that users no longer have to make each tree individually, or specify rules to make new trees. Results with different species are presented and compared to both reference input data and state of the art alternatives

Global patterns of diapycnal mixing from measurements of the turbulent dissipation rate

The authors present inferences of diapycnal diffusivity from a compilation of over 5200 microstructure profiles. As microstructure observations are sparse, these are supplemented with indirect measurements of mixing obtained from (i) Thorpe-scale overturns from moored profilers, a finescale parameterization applied to (ii) shipboard observations of upper-ocean shear, (iii) strain as measured by profiling floats, and (iv) shear and strain from full-depth lowered acoustic Doppler current profilers (LADCP) and CTD profiles. Vertical profiles of the turbulent dissipation rate are bottom enhanced over rough topography and abrupt, isolated ridges. The geography of depth-integrated dissipation rate shows spatial variability related to internal wave generation, suggesting one direct energy pathway to turbulence. The global-averaged diapycnal diffusivity below 1000-m depth is O(10?4) m2 s?1 and above 1000-m depth is O(10?5) m2 s?1. The compiled microstructure observations sample a wide range of internal wave power inputs and topographic roughness, providing a dataset with which to estimate a representative global-averaged dissipation rate and diffusivity. However, there is strong regional variability in the ratio between local internal wave generation and local dissipation. In some regions, the depth-integrated dissipation rate is comparable to the estimated power input into the local internal wave field. In a few cases, more internal wave power is dissipated than locally generated, suggesting remote internal wave sources. However, at most locations the total power lost through turbulent dissipation is less than the input into the local internal wave field. This suggests dissipation elsewhere, such as continental margins

Reduced meiotic recombination on the XY bivalent is correlated with an increased incidence of sex chromosome aneuploidy in men with non-obstructive azoospermia

Both aberrant meiotic recombination and an increased frequency of sperm aneuploidy have been observed in infertile men. However, this association has not been demonstrated within individual men. The purpose of this study was to determine the association between the frequency of recombination observed in pachytene spermatocytes and the frequency of aneuploidy in sperm from the same infertile men. Testicular tissue from seven men with non-obstructive azoospermia (NOA) and six men undergoing vasectomy reversal (controls) underwent meiotic analysis. Recombination sites were recorded for individual chromosomes. Testicular and ejaculated sperm from NOA patients and controls, respectively, were tested for aneuploidy frequencies for chromosomes 9, 21, X and Y. There was a significant increase in the frequency of pachytene cells with at least one achiasmate bivalent in infertile men (12.4%) compared with controls (4.2%, P = 0.02). Infertile men also had a significantly higher frequency of sperm disomy than controls for chromosomes 21 (1.0% versus 0.24%, P = 0.001), XX (0.16% versus 0.03%, P = 0.004) and YY (0.12% versus 0.03%, P = 0.04). There was a significant correlation between meiotic cells with zero MLH1 foci in the sex body and total sex chromosome disomy (XX + YY + XY) in sperm from men with NOA (r = 0.79, P = 0.036)