(1+3) Covariant Dynamics of Scalar Perturbations in Braneworlds

We discuss the dynamics of linear, scalar perturbations in an almost Friedmann-Robertson-Walker braneworld cosmology of Randall-Sundrum type II using the 1+3 covariant approach. We derive a complete set of frame-independent equations for the total matter variables, and a partial set of equations for the non-local variables which arise from the projection of the Weyl tensor in the bulk. The latter equations are incomplete since there is no propagation equation for the non-local anisotropic stress. We supplement the equations for the total matter variables with equations for the independent constituents in a cold dark matter cosmology, and provide solutions in the high and low-energy radiation-dominated phase under the assumption that the non-local anisotropic stress vanishes. These solutions reveal the existence of new modes arising from the two additional non-local degrees of freedom. Our solutions should prove useful in setting up initial conditions for numerical codes aimed at exploring the effect of braneworld corrections on the cosmic microwave background (CMB) power spectrum. As a first step in this direction, we derive the covariant form of the line of sight solution for the CMB temperature anisotropies in braneworld cosmologies, and discuss possible mechanisms by which braneworld effects may remain in the low-energy universe.Comment: 22 pages replaced with additional references and minor corrections in Revtex4, and accepted for publication in Phys. Rev.

Correlated adiabatic and isocurvature perturbations from double inflation

It is shown that double inflation (two minimally coupled massive scalar fields) can produce correlated adiabatic and isocurvature primordial perturbations. Depending on the two relevant parameters of the model, the contributions to the primordial perturbations are computed, with special emphasis on the correlation, which can be quantitatively represented by a correlation spectrum. Finally the primordial spectra are evolved numerically to obtain the CMBR anisotropy multipole expectation values. It turns out that the existence of mixing and correlation can alter very significantly the temperature fluctuation predictions.Comment: 23 pages, 7 figures, RevTex. To appear in Phys. Rev.

DNA-binding protein prediction using plant specific support vector machines:validation and application of a new genome annotation tool

There are currently 151 plants with draft genomes available but levels of functional annotation for putative protein products are low. Therefore, accurate computational predictions are essential to annotate genomes in the first instance, and to provide focus for the more costly and time consuming functional assays that follow. DNA-binding proteins are an important class of proteins that require annotation, but current computational methods are not applicable for genome wide predictions in plant species. Here, we explore the use of species and lineage specific models for the prediction of DNA-binding proteins in plants. We show that a species specific support vector machine model based on Arabidopsis sequence data is more accurate (accuracy 81%) than a generic model (74%), and based on this we develop a plant specific model for predicting DNA-binding proteins. We apply this model to the tomato proteome and demonstrate its ability to perform accurate high-throughput prediction of DNA-binding proteins. In doing so, we have annotated 36 currently uncharacterised proteins by assigning a putative DNA-binding function. Our model is publically available and we propose it be used in combination with existing tools to help increase annotation levels of DNA-binding proteins encoded in plant genomes

Non-Gaussianity from Inflation

Correlated adiabatic and isocurvature perturbation modes are produced during inflation through an oscillation mechanism when extra scalar degrees of freedom other than the inflaton field are present. We show that this correlation generically leads to sizeable non-Gaussian features both in the adiabatic and isocurvature perturbations. The non-Gaussianity is first generated by large non-linearities in some scalar sector and then efficiently transferred to the inflaton sector by the oscillation process. We compute the cosmic microwave background angular bispectrum, providing a characteristic feature of such inflationary non-Gaussianity,which might be detected by upcoming satellite experiments.Comment: Revised version accepted for publication in Phys. Rev. D. 19 pages, LaTeX fil

R-mode oscillations and rocket effect in rotating superfluid neutron stars. I. Formalism

We derive the hydrodynamical equations of r-mode oscillations in neutron stars in presence of a novel damping mechanism related to particle number changing processes. The change in the number densities of the various species leads to new dissipative terms in the equations which are responsible of the {\it rocket effect}. We employ a two-fluid model, with one fluid consisting of the charged components, while the second fluid consists of superfluid neutrons. We consider two different kind of r-mode oscillations, one associated with comoving displacements, and the second one associated with countermoving, out of phase, displacements.Comment: 10 page

Isolation and synthesis of N-(2-methyl-3-oxodec-8-enoyl)-2-pyrroline and 2-(hept-5-enyl)-3-methyl-4-oxo-6,7,8,8a-tetrahydro-4H-pyrrolo(2,1-b)-3-oxazine, two new fungal metabolites with in vivo antijuvenile hormone and insecticidal activity

[EN] Two new natural products, N-(2-methyl-3-oxodec-8-enoyl)-2-pyrroline (2) and 2-(hept-5-enyl)-3-methyl-4-oxo-6,7,8,8a-tetrahydro-4H-pyrrolo[2,1-b]-1,3-oxazine (3), have been isolated from Penicillium brevicompactum Dierckx. Compound 2 has shown an important in vivo anti-juvenile-hormone (anti-JH) activity while compound 3 has exhibited insecticidal activity against Oncopeltus fasciatus Dallas. Both products have been synthesized starting from 1,4-hexadiene, by means of a sequence of reactions which includes the preparation of 6-octenoic acid and its transformation into the corresponding acid chloride, in order to acylate Meldrum's acid. Subsequent aminolysis with pyrrolidine, followed by methylation at the activated position of the ß-oxo amide with iodomethane, introduction of a methoxy group at the pyrrolidine ring by anodic oxidation and final elimination of methanol on SiO2 led to 2 and 3. The fact that both metabolites can be prepared by the same sequence indicates that they must be biogenetically related. Based on structural similarities, compounds 2 and 3 are also closely related to the recently discovered brevioximeCantin Sanz, A.; Moya Sanz, MDP.; Castillo López, MÁ.; Primo Millo, J.; Miranda Alonso, MÁ.; Primo Yufera, E. (1999). Isolation and synthesis of N-(2-methyl-3-oxodec-8-enoyl)-2-pyrroline and 2-(hept-5-enyl)-3-methyl-4-oxo-6,7,8,8a-tetrahydro-4H-pyrrolo(2,1-b)-3-oxazine, two new fungal metabolites with in vivo antijuvenile hormone and insecticidal activity. European Journal of Organic Chemistry. 1:221-226. doi:10.1002/(SICI)1099-0690(199901)1999:13.0.CO;2-YS221226

Gauge-Invariant Initial Conditions and Early Time Perturbations in Quintessence Universes

We present a systematic treatment of the initial conditions and evolution of cosmological perturbations in a universe containing photons, baryons, neutrinos, cold dark matter, and a scalar quintessence field. By formulating the evolution in terms of a differential equation involving a matrix acting on a vector comprised of the perturbation variables, we can use the familiar language of eigenvalues and eigenvectors. As the largest eigenvalue of the evolution matrix is fourfold degenerate, it follows that there are four dominant modes with non-diverging gravitational potential at early times, corresponding to adiabatic, cold dark matter isocurvature, baryon isocurvature and neutrino isocurvature perturbations. We conclude that quintessence does not lead to an additional independent mode.Comment: Replaced with published version, 12 pages, 2 figure

Delayed gastric emptying and reduced postprandial small bowel water content of equicaloric whole meal bread versus rice meals in healthy subjects: novel MRI insights

BACKGROUND/OBJECTIVES: Postprandial bloating is a common symptom in patients with functional gastrointestinal (GI) diseases. Whole meal bread (WMB) often aggravates such symptoms though the mechanisms are unclear. We used magnetic resonance imaging (MRI) to monitor the intragastric fate of a WMB meal (11% bran) compared to a rice pudding (RP) meal. SUBJECTS/METHODS: 12 healthy volunteers completed this randomised crossover study. They fasted overnight and after an initial MRI scan consumed a glass of orange juice with a 2267 kJ WMB or an equicaloric RP meal. Subjects underwent serial MRI scans every 45 min up to 270 min to assess gastric volumes and small bowel water content and completed a GI symptom questionnaire. RESULTS: The MRI intragastric appearance of the two meals was markedly different. The WMB meal formed a homogeneous dark bolus with brighter liquid signal surrounding it. The RP meal separated into an upper, liquid layer and a lower particulate layer allowing more rapid emptying of the liquid compared to solid phase (sieving). The WMB meal had longer gastric half emptying times (132±8 min) compared to the RP meal (104±7 min), P<0.008. The WMB meal was associated with markedly reduced MRI-visible small bowel free mobile water content compared to the RP meal, P<0.0001. CONCLUSIONS: WMB bread forms a homogeneous bolus in the stomach which inhibits gastric sieving and hence empties slower than the equicaloric rice meal. These properties may explain why wheat causes postprandial bloating and could be exploited to design foods which prolong satiation

The universe seen at different scales

A large-scale smoothed-out model of the universe ignores small-scale inhomogeneities, but the averaged effects of those inhomogeneities may alter both observational and dynamical relations at the larger scale. This article discusses these effects, and comments briefly on the relation to gravitational entropy.Comment: 17 pages; matches published version in Phys. Lett. A (Einstein special issue

Observational constraints on the curvaton model of inflation

Simple curvaton models can generate a mixture of of correlated primordial adiabatic and isocurvature perturbations. The baryon and cold dark matter isocurvature modes differ only by an observationally null mode in which the two perturbations almost exactly compensate, and therefore have proportional effects at linear order. We discuss the CMB anisotropy in general mixed models, and give a simple approximate analytic result for the large scale CMB anisotropy. Working numerically we use the latest WMAP observations and a variety of other data to constrain the curvaton model. We find that models with an isocurvature contribution are not favored relative to simple purely adiabatic models. However a significant primordial totally correlated baryon isocurvature perturbation is not ruled out. Certain classes of curvaton model are thereby ruled out, other classes predict enough non-Gaussianity to be detectable by the Planck satellite. In the appendices we review the relevant equations in the covariant formulation and give series solutions for the radiation dominated era.Comment: Minor changes and corrections to match version accepted by PR