Self Trapping of a Single Bacterium in its Own Chemoattractant

Bacteria (e.g. E. Coli) are very sensitive to certain chemoattractants (e.g. asparate) which they themselves produce. This leads to chemical instabilities in a uniform population. We discuss here the different case of a single bacterium, following the general scheme of Brenner, Levitov and Budrene. We show that in one and two dimensions (in a capillary or in a thin film) the bacterium can become self-trapped in its cloud of attractant. This should occur if a certain coupling constant $g$ is larger than unity. We then estimate the reduced diffusion D_eff of the bacterium in the strong coupling limit, and find D_eff ~ 1/g.Comment: 4 pages, absolutely no figure

P1 finite element methods for an elliptic state-constrained distributed optimal control problem with Neumann boundary conditions

We investigate two P finite element methods for an elliptic state-constrained distributed optimal control problem with Neumann boundary conditions on general polygonal domains.

Enhancing the Mass Sensitivity of Graphene Nanoresonators Via Nonlinear Oscillations: The Effective Strain Mechanism

We perform classical molecular dynamics simulations to investigate the enhancement of the mass sensitivity and resonant frequency of graphene nanomechanical resonators that is achieved by driving them into the nonlinear oscillation regime. The mass sensitivity as measured by the resonant frequency shift is found to triple if the actuation energy is about 2.5 times the initial kinetic energy of the nanoresonator. The mechanism underlying the enhanced mass sensitivity is found to be the effective strain that is induced in the nanoresonator due to the nonlinear oscillations, where we obtain an analytic relationship between the induced effective strain and the actuation energy that is applied to the graphene nanoresonator. An important implication of this work is that there is no need for experimentalists to apply tensile strain to the resonators before actuation in order to enhance the mass sensitivity. Instead, enhanced mass sensitivity can be obtained by the far simpler technique of actuating nonlinear oscillations of an existing graphene nanoresonator.Comment: published versio

Transient down-regulation of beta1 integrin subtypes on kidney carcinoma cells is induced by mechanical contact with endothelial cell membranes

Adhesion molecules of the integrin beta1 family are thought to be involved in the malignant progression renal cell carcinoma (RCC). Still, it is not clear how they contribute to this process. Since the hematogenous phase of tumour dissemination is the rate-limiting step in the metastatic process, we explored beta1 integrin alterations on several RCC cell lines (A498, Caki1, KTC26) before and after contacting vascular endothelium in a tumour-endothelium (HUVEC) co-culture assay. Notably, alpha2, alpha3 and alpha5 integrins became down-regulated immediately after the tumour cells attached to HUVEC, followed by re-expression shortly thereafter. Integrin down-regulation on RCC cells was caused by direct contact with endothelial cells, since the isolated endothelial membrane fragments but not the cell culture supernatant contributed to the observed effects. Integrin loss was accompanied by a reduced focal adhesion kinase (FAK) expression, FAK activity and diminished binding of tumour cells to matrix proteins. Furthermore, intracellular signalling proteins RCC cells were altered in the presence of HUVEC membrane fragments, in particular 14-3-3 epsilon, ERK2, PKCdelta, PKCepsilon and RACK1, which are involved in regulating tumour cell motility. We, therefore, speculate that contact of RCC cells with the vascular endothelium converts integrin-dependent adhesion to integrin-independent cell movement. The process of dynamic integrin regulation may be an important part in tumour cell migration strategy, switching the cells from being adhesive to becoming motile and invasive

Self-assembling DNA-caged particles: nanoblocks for hierarchical self-assembly

DNA is an ideal candidate to organize matter on the nanoscale, primarily due to the specificity and complexity of DNA based interactions. Recent advances in this direction include the self-assembly of colloidal crystals using DNA grafted particles. In this article we theoretically study the self-assembly of DNA-caged particles. These nanoblocks combine DNA grafted particles with more complicated purely DNA based constructs. Geometrically the nanoblock is a sphere (DNA grafted particle) inscribed inside a polyhedron (DNA cage). The faces of the DNA cage are open, and the edges are made from double stranded DNA. The cage vertices are modified DNA junctions. We calculate the equilibriuim yield of self-assembled, tetrahedrally caged particles, and discuss their stability with respect to alternative structures. The experimental feasability of the method is discussed. To conclude we indicate the usefulness of DNA-caged particles as nanoblocks in a hierarchical self-assembly strategy.Comment: v2: 21 pages, 8 figures; revised discussion in Sec. 2, replaced 2 figures, added new reference

Encapsulation of phosphorus dopants in silicon for the fabrication of a quantum computer

The incorporation of phosphorus in silicon is studied by analyzing phosphorus delta-doped layers using a combination of scanning tunneling microscopy, secondary ion mass spectrometry and Hall effect measurements. The samples are prepared by phosphine saturation dosing of a Si(100) surface at room temperature, a critical annealing step to incorporate phosphorus atoms, and subsequent epitaxial silicon overgrowth. We observe minimal dopant segregation (5 nm), complete electrical activation at a silicon growth temperature of 250 degrees C and a high two-dimensional electron mobility of 100 cm2/Vs at a temperature of 4.2 K. These results, along with preliminary studies aimed at further minimizing dopant diffusion, bode well for the fabrication of atomically precise dopant arrays in silicon such as those found in recent solid-state quantum computer architectures.Comment: 3 pages, 4 figure

A Spectral Method for Elliptic Equations: The Neumann Problem

Let $\Omega$ be an open, simply connected, and bounded region in $\mathbb{R}^{d}$, $d\geq2$, and assume its boundary $\partial\Omega$ is smooth. Consider solving an elliptic partial differential equation $-\Delta u+\gamma u=f$ over $\Omega$ with a Neumann boundary condition. The problem is converted to an equivalent elliptic problem over the unit ball $B$, and then a spectral Galerkin method is used to create a convergent sequence of multivariate polynomials $u_{n}$ of degree $\leq n$ that is convergent to $u$. The transformation from $\Omega$ to $B$ requires a special analytical calculation for its implementation. With sufficiently smooth problem parameters, the method is shown to be rapidly convergent. For $u\in C^{\infty}(\overline{\Omega})$ and assuming $\partial\Omega$ is a $C^{\infty}$ boundary, the convergence of $\Vert u-u_{n}\Vert_{H^{1}}$ to zero is faster than any power of $1/n$. Numerical examples in $\mathbb{R}^{2}$ and $\mathbb{R}^{3}$ show experimentally an exponential rate of convergence.Comment: 23 pages, 11 figure

Ground States of Two-Dimensional Polyampholytes

We perform an exact enumeration study of polymers formed from a (quenched) random sequence of charged monomers $\pm q_0$, restricted to a 2-dimensional square lattice. Monomers interact via a logarithmic (Coulomb) interaction. We study the ground state properties of the polymers as a function of their excess charge $Q$ for all possible charge sequences up to a polymer length N=18. We find that the ground state of the neutral ensemble is compact and its energy extensive and self-averaging. The addition of small excess charge causes an expansion of the ground state with the monomer density depending only on $Q$. In an annealed ensemble the ground state is fully stretched for any excess charge $Q>0$.Comment: 6 pages, 6 eps figures, RevTex, Submitted to Phys. Rev.