Crystallization and preliminary crystallographic analysis of the DNA gyrase B protein from B-stearothermophilus

DNA gyrase B (GyrB) from B. stearothermophilus has been crystallized in the presence of the non-hydrolyzable ATP analogue, 5'-adenylpl-beta-gamma-imidodiphosphate (ADPNP), by the dialysis method. A complete native data set to 3.7 Angstrom has been collected from crystals which belonged to the cubic space group I23 with unit-cell dimension a = 250.6 Angstrom. Self-rotation function analysis indicates the position of a molecular twofold axis. Low-resolution data sets of a thimerosal and a selenomethionine derivative have also been analysed. The heavy-atom positions are consistent with one dimer in the asymmetric unit

Quantum tunneling dynamics of an interacting Bose-Einstein condensate through a Gaussian barrier

The transmission of an interacting Bose-Einstein condensate incident on a repulsive Gaussian barrier is investigated through numerical simulation. The dynamics associated with interatomic interactions are studied across a broad parameter range not previously explored. Effective 1D Gross-Pitaevskii equation (GPE) simulations are compared to classical Boltzmann-Vlasov equation (BVE) simulations in order to isolate purely coherent matterwave effects. Quantum tunneling is then defined as the portion of the GPE transmission not described by the classical BVE. An exponential dependence of transmission on barrier height is observed in the purely classical simulation, suggesting that observing such exponential dependence is not a sufficient condition for quantum tunneling. Furthermore, the transmission is found to be predominately described by classical effects, although interatomic interactions are shown to modify the magnitude of the quantum tunneling. Interactions are also seen to affect the amount of classical transmission, producing transmission in regions where the non-interacting equivalent has none. This theoretical investigation clarifies the contribution quantum tunneling makes to overall transmission in many-particle interacting systems, potentially informing future tunneling experiments with ultracold atoms.Comment: Close to the published versio

Observation of a Modulational Instability in Bose-Einstein condensates

We observe the breakup dynamics of an elongated cloud of condensed $^{85}$Rb atoms placed in an optical waveguide. The number of localized spatial components observed in the breakup is compared with the number of solitons predicted by a plane-wave stability analysis of the nonpolynomial nonlinear Schr\"odinger equation, an effective one-dimensional approximation of the Gross-Pitaevskii equation for cigar-shaped condensates. It is shown that the numbers predicted from the fastest growing sidebands are consistent with the experimental data, suggesting that modulational instability is the key underlying physical mechanism driving the breakup.Comment: 6 pages, 5 figure

Precise wavefunction engineering with magnetic resonance

Controlling quantum fluids at their fundamental length scale will yield superlative quantum simulators, precision sensors, and spintronic devices. This scale is typically below the optical diffraction limit, precluding precise wavefunction engineering using optical potentials alone. We present a protocol to rapidly control the phase and density of a quantum fluid down to the healing length scale using strong time-dependent coupling between internal states of the fluid in a magnetic field gradient. We demonstrate this protocol by simulating the creation of a single stationary soliton and double soliton states in a Bose-Einstein condensate with control over the individual soliton positions and trajectories, using experimentally feasible parameters. Such states are yet to be realized experimentally, and are a path towards engineering soliton gases and exotic topological excitations.Comment: 8+ pages, 3 figures; revised parameters and added section about optimisation of adiabatic, finite-duration pulses and analytic resolution limi

Spatial variation in breeding habitat selection by Cerulean Warblers (Setophaga cerulea) throughout the appalachian mountains

Studies of habitat selection are often of limited utility because they focus on small geographic areas, fail to examine behavior at multiple scales, or lack an assessment of the fitness consequences of habitat decisions. These limitations can hamper the identification of successful site-specific management strategies, which are urgently needed for severely declining species like Cerulean Warblers (Setophaga cerulea). We assessed how breeding habitat decisions made by Cerulean Warblers at multiple scales, and the subsequent effects of these decisions on nest survival, varied across the Appalachian Mountains. Selection for structural habitat features varied substantially among areas, particularly at the territory scale. Males within the least-forested landscapes selected microhabitat features that reflected more closed-canopy forest conditions, whereas males in highly forested landscapes favored features associated with canopy disturbance. Selection of nest-patch and nest-site attributes by females was more consistent across areas, with females selecting for increased tree size and understory cover and decreased basal area and midstory cover. Floristic preferences were similar across study areas: White Oak (Quercus alba), Cucumber-tree (Magnolia acuminata), and Sugar Maple (Acer saccharum) were preferred as nest trees, whereas red oak species (subgenus Erythrobalanus) and Red Maple (A. rubrum) were avoided. The habitat features that were related to nest survival also varied among study areas, and preferred features were negatively associated with nest survival at one area. Thus, our results indicate that large-scale spatial heterogeneity may influence local habitat-selection behavior and that it may be necessary to articulate site-specific management strategies for Cerulean Warblers

Identification of external influences on temperatures in California

We use eight different observational datasets to estimate California-average temperature trends over 1950-1999. Observed results are compared to trends from a suite of control simulations of natural internal climate variability. Observed increases in annual-mean surface temperature are distinguishable from climate noise in some but not all observational datasets. The most robust results are large positive trends in mean and maximum daily temperatures in late winter/early spring, as well as increases in minimum daily temperatures from January to September. These trends are inconsistent with model-based estimates of natural internal climate variability, and thus require one or more external forcing agents to be explained. Our results suggest that the warming of Californian winters over the second half of the twentieth century is associated with human-induced changes in large-scale atmospheric circulation. We also hypothesize that the lack of a detectable increase in summertime maximum temperature arises from a cooling associated with large-scale irrigation. This cooling may have, until now, counteracted the warming induced by increasing greenhouse gases and urbanization effects