A mass‐conservative staggered immersed boundary model for solving the shallow water equations on complex geometries

In this work, an approach is proposed for solving the 3D shallow water equations with embedded boundaries that are not aligned with the underlying horizontal Cartesian grid. A hybrid cut‐cell/ghost‐cell method is used together with a direction‐splitting implicit solver: Ghost cells are used for the momentum equations in order to prescribe the correct boundary condition at the immersed boundary, while cut cells are used in the continuity equation in order to conserve mass. The resulting scheme is robust, does not suffer any time step limitation for small cut cells, and conserves fluid mass up to machine precision. Moreover, the solver displays a second‐order spatial accuracy, both globally and locally. Comparisons with analytical solutions and reference numerical solutions on curvilinear grids confirm the quality of the method. Copyright © 2015 John Wiley & Sons, Ltd.     

Decoherence of anyonic charge in interferometry measurements

We examine interferometric measurements of the topological charge of (non-Abelian) anyons. The target's topological charge is measured from its effect on the interference of probe particles sent through the interferometer. We find that superpositions of distinct anyonic charges a and a' in the target decohere (exponentially in the number of probes particles used) when the probes have nontrivial monodromy with the charges that may be fused with a to give a'.     

Interferometry of non-Abelian anyons

We develop the general quantum measurement theory of non-Abelian anyons through interference experiments. The paper starts with a terse introduction to the theory of anyon models, focusing on the basic formalism necessary to apply standard quantum measurement theory to such systems. This is then applied to give a detailed analysis of anyonic charge measurements using a Mach-Zehnder interferometer for arbitrary anyon models. We find that, as anyonic probes are sent through the legs of the interferometer, superpositions of the total anyonic charge located in the target region collapse when they are distinguishable via monodromy with the probe anyons, which also determines the rate of collapse. We give estimates on the number of probes needed to obtain a desired confidence level for the measurement outcome distinguishing between charges, and explicitly work out a number of examples for some significant anyon models. We apply the same techniques to describe interferometry measurements in a double point-contact interferometer realized in fractional quantum Hall systems. To lowest order in tunneling, these results essentially match those from the Mach-Zehnder interferometer, but we also provide the corrections due to processes involving multiple tunnelings. Finally, we give explicit predictions describing state measurements for experiments in the Abelian hierarchy states, the non-Abelian Moore-Read state at ν=5/2 and Read-Rezayi state at ν=12/5.     

Competing topological orders in the ν=12/5 quantum Hall state

We provide numerical evidence that a p(x)-ip(y) paired Bonderson-Slingerland (BS) non-Abelian hierarchy state is a strong candidate for the observed ν=12/5 quantum Hall plateau. We confirm the existence of a gapped incompressible ν=12/5 quantum Hall state with shift S=2 on the sphere, matching that of the BS state. The exact ground state of the Coulomb interaction at S=2 is shown to have a large overlap with the BS trial wave function. Larger overlaps are obtained with BS-type wave functions that are hierarchical descendants of general p(x)-ip(y) weakly paired states at ν=5/2. We perform a finite-size scaling analysis of the ground-state energies for ν=12/5 states at shifts corresponding to the BS (S=2) and 3-clustered Read-Rezayi (S=-2) universality classes. This analysis reveals very tight competition between these two non-Abelian topological orders.     

Effects of lipopolysaccharide-induced inflammation on expression of growth-associated genes by corticospinal neurons

Background  

Inflammation around cell bodies of primary sensory neurons and retinal ganglion cells enhances expression of neuronal growth-associated genes and stimulates axonal regeneration. We have asked if inflammation would have similar effects on corticospinal neurons, which normally show little response to spinal cord injury. Lipopolysaccharide (LPS) was applied onto the pial surface of the motor cortex of adult rats with or without concomitant injury of the corticospinal tract at C4. Inflammation around corticospinal tract cell bodies in the motor cortex was assessed by immunohistochemistry for OX42 (a microglia and macrophage marker). Expression of growth-associated genes c-jun, ATF3, SCG10 and GAP-43 was investigated by immunohistochemistry or in situ hybridisation.     

Development of Ubiquitin‐Based Probe for Metalloprotease Deubiquitinases

Deubiquitinases (DUBs) are a family of enzymes that regulate the ubiquitin signaling cascade by removing ubiquitin from specific proteins in response to distinct signals. DUBs that belong to the metalloprotease family (metalloDUBs) contain Zn²⁺ in their active sites and are an integral part of distinct cellular protein complexes. Little is known about these enzymes because of the lack of specific probes. Described here is a Ub‐based probe that contains a ubiquitin moiety modified at its C‐terminus with a Zn²⁺ chelating group based on 8‐mercaptoquinoline, and a modification at the N‐terminus with either a fluorescent tag or a pull‐down tag. The probe is validated using Rpn11, a metalloDUB found in the 26S proteasome complex. This probe binds to metalloDUBs and efficiently pulled down overexpressed metalloDUBs from a HeLa cell lysate. Such probes may be used to study the mechanism of metalloDUBs in detail and allow better understanding of their biochemical processes.     

Beta-delayed proton emitter kr

The nucleide ⁷³Kr has been identified by on-line mass separation as a precursor of β-delayed proton emission. The proton branch is (6.8 ±1.2) × 10⁻³ proton/decay. The protons populate the ground state and also the first excited 2⁺ state at 866 keV in ⁷²Se with a relative intensity of (35±9) %. The value of Q_EC−B_p, where B_p is the proton separation energy for the nucleus ⁷³Br, is found to be 4.85 ±0.30 MeV based on the fraction of proton events preceded by positron decay.     

Thrombin-Derived Peptides Potentiate the Activity of Gram-Positive-Specific Antibiotics against Gram-Negative Bacteria

The continued rise of antibiotic resistance threatens to undermine the utility of the world’s current antibiotic arsenal. This problem is particularly troubling when it comes to Gram-negative pathogens for which there are inherently fewer antibiotics available. To address this challenge, recent attention has been focused on finding compounds capable of disrupting the Gram-negative outer membrane as a means of potentiating otherwise Gram-positive-specific antibiotics. In this regard, agents capable of binding to the lipopolysaccharide (LPS) present in the Gram-negative outer membrane are of particular interest as synergists. Recently, thrombin-derived C-terminal peptides (TCPs) were reported to exhibit unique LPS-binding properties. We here describe investigations establishing the capacity of TCPs to act as synergists with the antibiotics erythromycin, rifampicin, novobiocin, and vancomycin against multiple Gram-negative strains including polymyxin-resistant clinical isolates. We further assessed the structural features most important for the observed synergy and characterized the outer membrane permeabilizing activity of the most potent synergists. Our investigations highlight the potential for such peptides in expanding the therapeutic range of antibiotics typically only used to treat Gram-positive infections.     

Probing non-Abelian statistics with quasiparticle interferometry

We examine interferometric experiments in systems that exhibit non-Abelian braiding statistics, expressing outcomes in terms of the modular S-matrix. In particular, this result applies to fractional quantum Hall interferometry, and we give a detailed treatment of the Read-Rezayi states, providing explicit predictions for the recently observed nu = 12/5 plateau.