The Bacterial Chemotactic Response Reflects a Compromise Between Transient and Steady State Behavior

Swimming bacteria detect chemical gradients by performing temporal comparisons of recent measurements of chemical concentration. These comparisons are described quantitatively by the chemotactic response function, which we expect to optimize chemotactic behavioral performance. We identify two independent chemotactic performance criteria: in the short run, a favorable response function should move bacteria up chemoattractant gradients, while in the long run, bacteria should aggregate at peaks of chemoattractant concentration. Surprisingly, these two criteria conflict, so that when one performance criterion is most favorable, the other is unfavorable. Since both types of behavior are biologically relevant, we include both behaviors in a composite optimization that yields a response function that closely resembles experimental measurements. Our work suggests that the bacterial chemotactic response function can be derived from simple behavioral considerations, and sheds light on how the response function contributes to chemotactic performance.Comment: 19 pages, 5 figure

Increased accuracy of ligand sensing by receptor internalization

Many types of cells can sense external ligand concentrations with cell-surface receptors at extremely high accuracy. Interestingly, ligand-bound receptors are often internalized, a process also known as receptor-mediated endocytosis. While internalization is involved in a vast number of important functions for the life of a cell, it was recently also suggested to increase the accuracy of sensing ligand as the overcounting of the same ligand molecules is reduced. Here we show, by extending simple ligand-receptor models to out-of-equilibrium thermodynamics, that internalization increases the accuracy with which cells can measure ligand concentrations in the external environment. Comparison with experimental rates of real receptors demonstrates that our model has indeed biological significance.Comment: 9 pages, 4 figures, accepted for publication in Physical Review

Spin-dependent resonant tunneling through semimetallic ErAs quantum wells

Resonant tunneling through semimetallic ErAs quantum wells embedded in GaAs structures with AlAs barriers was recently found to exhibit an intriguing behavior in magnetic fields which is explained in terms of tunneling selection rules and the spin-polarized band structure including spin-orbit coupling.Comment: 4 pages, figures supplied as self-unpacking figures.uu, uses epsfig.sty to incorporate figures in preprin

Diffraction in low-energy electron scattering from DNA: bridging gas phase and solid state theory

Using high-quality gas phase electron scattering calculations and multiple scattering theory, we attempt to gain insights on the radiation damage to DNA induced by secondary low-energy electrons in the condensed phase, and to bridge the existing gap with the gas phase theory and experiments. The origin of different resonant features (arising from single molecules or diffraction) is discussed and the calculations are compared to existing experiments in thin films.Comment: 40 pages preprint, 12 figures, submitted to J. Chem. Phy

Egalitarian justice and expected value

According to all-luck egalitarianism, the differential distributive effects of both brute luck, which defines the outcome of risks which are not deliberately taken, and option luck, which defines the outcome of deliberate gambles, are unjust. Exactly how to correct the effects of option luck is, however, a complex issue. This article argues that (a) option luck should be neutralized not just by correcting luck among gamblers, but among the community as a whole, because it would be unfair for gamblers as a group to be disadvantaged relative to non-gamblers by bad option luck; (b) individuals should receive the warranted expected results of their gambles, except insofar as individuals blamelessly lacked the ability to ascertain which expectations were warranted; and (c) where societal resources are insufficient to deliver expected results to gamblers, gamblers should receive a lesser distributive share which is in proportion to the expected results. Where all-luck egalitarianism is understood in this way, it allows risk-takers to impose externalities on non-risk-takers, which seems counterintuitive. This may, however, be an advantage as it provides a luck egalitarian rationale for assisting ‘negligent victims’

Optimal transport on wireless networks

We present a study of the application of a variant of a recently introduced heuristic algorithm for the optimization of transport routes on complex networks to the problem of finding the optimal routes of communication between nodes on wireless networks. Our algorithm iteratively balances network traffic by minimizing the maximum node betweenness on the network. The variant we consider specifically accounts for the broadcast restrictions imposed by wireless communication by using a different betweenness measure. We compare the performance of our algorithm to two other known algorithms and find that our algorithm achieves the highest transport capacity both for minimum node degree geometric networks, which are directed geometric networks that model wireless communication networks, and for configuration model networks that are uncorrelated scale-free networks.Comment: 5 pages, 4 figure

Thermal depinning of fluxons in discrete Josephson rings

We study the thermal depinning of single fluxons in rings made of Josephson junctions. Due to thermal fluctuations a fluxon can be excited from its energy minima and move through the array, causing a voltage across each junction. We find that for the initial depinning, the fluxon behaves as a single particle and follows a Kramers-type escape law. However, under some conditions this single particle description breaks down. At low values of the discreteness parameter and low values of the damping, the depinning rate is larger than the single particle result would suggest. In addition, for some values of the parameters the fluxon can undergo low-voltage diffusion before switching to the high-voltage whirling mode. This type of diffusion is similar to phase diffusion in a single junction, but occurs without frequency-dependent damping. We study the switching to the whirling state as well

Impact of time-ordered measurements of the two states in a niobium superconducting qubit structure

Measurements of thermal activation are made in a superconducting, niobium Persistent-Current (PC) qubit structure, which has two stable classical states of equal and opposite circulating current. The magnetization signal is read out by ramping the bias current of a DC SQUID. This ramping causes time-ordered measurements of the two states, where measurement of one state occurs before the other. This time-ordering results in an effective measurement time, which can be used to probe the thermal activation rate between the two states. Fitting the magnetization signal as a function of temperature and ramp time allows one to estimate a quality factor of 10^6 for our devices, a value favorable for the observation of long quantum coherence times at lower temperatures.Comment: 14 pages, 4 figure

Ab initio and finite-temperature molecular dynamics studies of lattice resistance in tantalum

This manuscript explores the apparent discrepancy between experimental data and theoretical calculations of the lattice resistance of bcc tantalum. We present the first results for the temperature dependence of the Peierls stress in this system and the first ab initio calculation of the zero-temperature Peierls stress to employ periodic boundary conditions, which are those best suited to the study of metallic systems at the electron-structure level. Our ab initio value for the Peierls stress is over five times larger than current extrapolations of experimental lattice resistance to zero-temperature. Although we do find that the common techniques for such extrapolation indeed tend to underestimate the zero-temperature limit, the amount of the underestimation which we observe is only 10-20%, leaving open the possibility that mechanisms other than the simple Peierls stress are important in controlling the process of low temperature slip.Comment: 12 pages and 9 figure

Direct and Inverse Solutions for Thermal-and Stress-Transients and the Analytical Determination of Boundary Conditions Using Remote Temperature or Strain Data

From an analytical standpoint, a majority of calculations use known boundary conditions (temperature or flux) and the so-called direct route to determine internal temperatures, strains, and/or stresses. For such problems where the thermal boundary condition is known a priori, the analytical procedure and solutions are tractable for the linear case where the thermophysical properties are independent of temperature. On the other hand, the inverse route where the boundary conditions must be determined from remotely determined temperature and/or flux data is much more difficult mathematically, as well as inherently sensitive to data errors (i.e., ill-posed). When solutions are available, they are often restricted to a harsh, albeit unrealistic step change in temperature or flux and/or are only valid for relatively short time frames before temperature changes occur at the far boundary. While the two approaches may seem to be at odds with each other, a generalized direct solution based on polynomial temperature or strain-histories can also be used to determine unknown boundary conditions via least-squares determination of coefficients. Once the inverse problem (and unknown boundary condition) is solved via these coefficients, the resulting polynomial can then be used with the generalized direct solution to determine the thermal-and stress-states as a function of time and position. When used for both thick slabs and tubes, excellent agreement was seen for various test cases. In fact, the derived solutions appear to be well suited for many thermal scenarios, provided the analysis is restricted to the time interval used to determine the polynomial and the thermophysical properties that do not vary with temperature. Since temperature dependent properties can certainly be an issue that affects accuracy in these types of calculations, some recent analytical procedures for both direct and inverse solutions are also discussed