A single amino acid determines preference between phospholipids and reveals length restriction for activation ofthe S1P₄ receptor

Background<br/><br/> Sphingosine-1-phosphate and lysophosphatidic acid (LPA) are ligands for two related families of G protein-coupled receptors, the S1P and LPA receptors, respectively. The lysophospholipid ligands of these receptors are structurally similar, however recognition of these lipids by these receptors is highly selective. A single residue present within the third transmembrane domain (TM) of S1P receptors is thought to determine ligand selectivity; replacement of the naturally occurring glutamic acid with glutamine (present at this position in the LPA receptors) has previously been shown to be sufficient to change the specificity of S1P<sub>1</sub> from S1P to 18:1 LPA.<br/><br/> Results<br/><br/> We tested whether mutation of this "ligand selectivity" residue to glutamine could confer LPA-responsiveness to the related S1P receptor, S1P<sub>4</sub>. This mutation severely affected the response of S1P<sub>4</sub> to S1P in a [<sup>35</sup>S]GTPγS binding assay, and imparted sensitivity to LPA species in the order 14:0 LPA > 16:0 LPA > 18:1 LPA. These results indicate a length restriction for activation of this receptor and demonstrate the utility of using LPA-responsive S1P receptor mutants to probe binding pocket length using readily available LPA species. Computational modelling of the interactions between these ligands and both wild type and mutant S1P<sub>4</sub> receptors showed excellent agreement with experimental data, therefore confirming the fundamental role of this residue in ligand recognition by S1P receptors.<br/><br/> Conclusions<br/><br/> Glutamic acid in the third transmembrane domain of the S1P receptors is a general selectivity switch regulating response to S1P over the closely related phospholipids, LPA. Mutation of this residue to glutamine confers LPA responsiveness with preference for short-chain species. The preference for short-chain LPA species indicates a length restriction different from the closely related S1P<sub>1</sub> receptor

Damped Bogoliubov excitations of a condensate interacting with a static thermal cloud

We calculate the damping of condensate collective excitations at finite temperatures arising from the lack of equilibrium between the condensate and thermal atoms. We neglect the non-condensate dynamics by fixing the thermal cloud in static equilibrium. We derive a set of generalized Bogoliubov equations for finite temperatures that contain an explicit damping term due to collisional exchange of atoms between the two components. We have numerically solved these Bogoliubov equations to obtain the temperature dependence of the damping of the condensate modes in a harmonic trap. We compare these results with our recent work based on the Thomas-Fermi approximation.Comment: 9 pages, 3 figures included. Submitted to PR

Theory of coherent Bragg spectroscopy of a trapped Bose-Einstein condensate

We present a detailed theoretical analysis of Bragg spectroscopy from a Bose-Einstein condensate at T=0K. We demonstrate that within the linear response regime, both a quantum field theory treatment and a meanfield Gross-Pitaevskii treatment lead to the same value for the mean evolution of the quasiparticle operators. The observable for Bragg spectroscopy experiments, which is the spectral response function of the momentum transferred to the condensate, can therefore be calculated in a meanfield formalism. We analyse the behaviour of this observable by carrying out numerical simulations in axially symmetric three-dimensional cases and in two dimensions. An approximate analytic expression for the observable is obtained and provides a means for identifying the relative importance of three broadening and shift mechanisms (meanfield, Doppler, and finite pulse duration) in different regimes. We show that the suppression of scattering at small values of q observed by Stamper-Kurn et al. [Phys. Rev. Lett. 83, 2876 (1999)] is accounted for by the meanfield treatment, and can be interpreted in terms of the interference of the u and v quasiparticle amplitudes. We also show that, contrary to the assumptions of previous analyses, there is no regime for trapped condensates for which the spectral response function and the dynamic structure factor are equivalent. Our numerical calculations can also be performed outside the linear response regime, and show that at large laser intensities a significant decrease in the shift of the spectral response function can occur due to depletion of the initial condensate.Comment: RevTeX4 format, 16 pages plus 7 eps figures; Update to published version: minors changes and an additional figure. (To appear in Phys. Rev. A

Dark soliton states of Bose-Einstein condensates in anisotropic traps

Dark soliton states of Bose-Einstein condensates in harmonic traps are studied both analytically and computationally by the direct solution of the Gross-Pitaevskii equation in three dimensions. The ground and self-consistent excited states are found numerically by relaxation in imaginary time. The energy of a stationary soliton in a harmonic trap is shown to be independent of density and geometry for large numbers of atoms. Large amplitude field modulation at a frequency resonant with the energy of a dark soliton is found to give rise to a state with multiple vortices. The Bogoliubov excitation spectrum of the soliton state contains complex frequencies, which disappear for sufficiently small numbers of atoms or large transverse confinement. The relationship between these complex modes and the snake instability is investigated numerically by propagation in real time.Comment: 11 pages, 8 embedded figures (two in color

Relaxation rates and collision integrals for Bose-Einstein condensates

Near equilibrium, the rate of relaxation to equilibrium and the transport properties of excitations (bogolons) in a dilute Bose-Einstein condensate (BEC) are determined by three collision integrals, $\mathcal{G}^{12}$, $\mathcal{G}^{22}$, and $\mathcal{G}^{31}$. All three collision integrals conserve momentum and energy during bogolon collisions, but only $\mathcal{G}^{22}$ conserves bogolon number. Previous works have considered the contribution of only two collision integrals, $\mathcal{G}^{22}$ and $\mathcal{G}^{12}$. In this work, we show that the third collision integral $\mathcal{G}^{31}$ makes a significant contribution to the bogolon number relaxation rate and needs to be retained when computing relaxation properties of the BEC. We provide values of relaxation rates in a form that can be applied to a variety of dilute Bose-Einstein condensates.Comment: 18 pages, 4 figures, accepted by Journal of Low Temperature Physics 7/201

Bose condensates in a harmonic trap near the critical temperature

The mean-field properties of finite-temperature Bose-Einstein gases confined in spherically symmetric harmonic traps are surveyed numerically. The solutions of the Gross-Pitaevskii (GP) and Hartree-Fock-Bogoliubov (HFB) equations for the condensate and low-lying quasiparticle excitations are calculated self-consistently using the discrete variable representation, while the most high-lying states are obtained with a local density approximation. Consistency of the theory for temperatures through the Bose condensation point requires that the thermodynamic chemical potential differ from the eigenvalue of the GP equation; the appropriate modifications lead to results that are continuous as a function of the particle interactions. The HFB equations are made gapless either by invoking the Popov approximation or by renormalizing the particle interactions. The latter approach effectively reduces the strength of the effective scattering length, increases the number of condensate atoms at each temperature, and raises the value of the transition temperature relative to the Popov approximation. The renormalization effect increases approximately with the log of the atom number, and is most pronounced at temperatures near the transition. Comparisons with the results of quantum Monte Carlo calculations and various local density approximations are presented, and experimental consequences are discussed.Comment: 15 pages, 11 embedded figures, revte

Elementary excitations of trapped Bose gas in the large-gas-parameter regime

We study the effect of going beyond the Gross-Pitaevskii theory on the frequencies of collective oscillations of a trapped Bose gas in the large gas parameter regime. We go beyond the Gross-Pitaevskii regime by including a higher-order term in the interatomic correlation energy. To calculate the frequencies we employ the sum-rule approach of many-body response theory coupled with a variational method for the determination of ground-state properties. We show that going beyond the Gross-Pitaevskii approximation introduces significant corrections to the collective frequencies of the compressional mode.Comment: 17 pages with 4 figures. To be published in Phys. Rev.

Primordialists and Constructionists: a typology of theories of religion

This article adopts categories from nationalism theory to classify theories of religion. Primordialist explanations are grounded in evolutionary psychology and emphasize the innate human demand for religion. Primordialists predict that religion does not decline in the modern era but will endure in perpetuity. Constructionist theories argue that religious demand is a human construct. Modernity initially energizes religion, but subsequently undermines it. Unpacking these ideal types is necessary in order to describe actual theorists of religion. Three distinctions within primordialism and constructionism are relevant. Namely those distinguishing: a) materialist from symbolist forms of constructionism; b) theories of origins from those pertaining to the reproduction of religion; and c) within reproduction, between theories of religious persistence and secularization. This typology helps to make sense of theories of religion by classifying them on the basis of their causal mechanisms, chronology and effects. In so doing, it opens up new sightlines for theory and research

Captivating behaviour: mouse models, experimental genetics and reductionist returns in the neurosciences

This a post-print, author-produced version of an article accepted for publication in The Sociological Review. Copyright © 2010 Wiley Blackwell. The definitive version is available at www3.interscience.wiley.comNo Abstract availabl