Effect of short chain fatty acids on the expression of free fatty acid receptor 2 (Ffar2), Ffar3 and early-stage adipogenesis

Adipose tissue has a major influence on insulin sensitivity. Stimulation of free fatty acid receptor 2 (FFAR2) has been proposed to influence adipocyte differentiation. We hypothesised that exposing preadipocytes to short chain fatty acids would induce earlier expression of nuclear receptors that co-ordinate adipogenesis, triglyceride accumulation and leptin secretion. 3T3-L1 preadipocytes were differentiated in the presence of 1 μM acetate, 0.1–10 μM propionate or vehicle control. In experiment 1, expression of Ffar2 and nuclear receptor mRNA was measured by quantitative PCR over 48 h following onset of differentiation. In experiment 2, extracellular leptin concentration and intracellular triglyceride content were measured at days 0, 2, 4, 6, 8 and 10 following the onset of differentiation. Control cells exhibited similar temporal dynamics of gene expression, triglyceride accumulation and leptin secretion as reported previously. We were unable to detect expression of Ffar3 mRNA at any stage of differentiation. Consistent with a lack of Ffar2 expression in the first 24 h of differentiation, acetate and propionate had no significant effect on nuclear receptor expression. Furthermore, acetate or propionate treatment did not alter leptin concentration or triglyceride content. In conclusion, we observed no significant effect of propionate or acetate on adipogenesis in 3T3-L1 cells using validated quantitative techniques

The interplay of intrinsic and extrinsic bounded noises in genetic networks

After being considered as a nuisance to be filtered out, it became recently clear that biochemical noise plays a complex role, often fully functional, for a genetic network. The influence of intrinsic and extrinsic noises on genetic networks has intensively been investigated in last ten years, though contributions on the co-presence of both are sparse. Extrinsic noise is usually modeled as an unbounded white or colored gaussian stochastic process, even though realistic stochastic perturbations are clearly bounded. In this paper we consider Gillespie-like stochastic models of nonlinear networks, i.e. the intrinsic noise, where the model jump rates are affected by colored bounded extrinsic noises synthesized by a suitable biochemical state-dependent Langevin system. These systems are described by a master equation, and a simulation algorithm to analyze them is derived. This new modeling paradigm should enlarge the class of systems amenable at modeling. We investigated the influence of both amplitude and autocorrelation time of a extrinsic Sine-Wiener noise on: $(i)$ the Michaelis-Menten approximation of noisy enzymatic reactions, which we show to be applicable also in co-presence of both intrinsic and extrinsic noise, $(ii)$ a model of enzymatic futile cycle and $(iii)$ a genetic toggle switch. In $(ii)$ and $(iii)$ we show that the presence of a bounded extrinsic noise induces qualitative modifications in the probability densities of the involved chemicals, where new modes emerge, thus suggesting the possibile functional role of bounded noises

Nonlinear Hydrodynamics from Flow of Retarded Green's Function

We study the radial flow of retarded Green's function of energy-momentum tensor and $R$-current of dual gauge theory in presence of generic higher derivative terms in bulk Lagrangian. These are first order non-linear Riccati equations. We solve these flow equations analytically and obtain second order transport coefficients of boundary plasma. This way of computing transport coefficients has an advantage over usual Kubo approach. The non-linear equation turns out to be a linear first order equation when we study the Green's function perturbatively in momentum. We consider several examples including $Weyl^4$ term and generic four derivative terms in bulk. We also study the flow equations for $R$-charged black holes and obtain exact expressions for second order transport coefficients for dual plasma in presence of arbitrary chemical potentials. Finally we obtain higher derivative corrections to second order transport coefficients of boundary theory dual to five dimensional gauge supergravity.Comment: Version 2, reference added, typos correcte

Carbon storage and DNA absorption in allophanic soils and paleosols

Andisols and andic paleosols dominated by the nanocrystalline mineral allophane sequester large amounts of carbon (C), attributable mainly to its chemical bonding with charged hydroxyl groups on the surface of allophane together with its physical protection in nanopores within and between allophane nanoaggregates. C near-edge X-ray absorption fine structure (NEXAFS) spectra for a New Zealand Andisol (Tirau series) showed that the organic matter (OM) mainly comprises quinonic, aromatic, aliphatic, and carboxylic C. In different buried horizons from several other Andisols, C contents varied but the C species were similar, attributable to pedogenic processes operating during developmental upbuilding, downward leaching, or both. The presence of OM in natural allophanic soils weakened the adsorption of DNA on clay; an adsorption isotherm experiment involving humic acid (HA) showed that HA-free synthetic allophane adsorbed seven times more DNA than HA-rich synthetic allophane. Phosphorus X-ray absorption near-edge structure (XANES) spectra for salmonsperm DNA and DNA-clay complexes indicated that DNA was bound to the allophane clay through the phosphate group, but it is not clear if DNA was chemically bound to the surface of the allophane or to OM, or both. We plan more experiments to investigate interactions among DNA, allophane (natural and synthetic), and OM. Because DNA shows a high affinity to allophane, we are studying the potential to reconstruct late Quaternary palaeoenvironments by attempting to extract and characterise ancient DNA from allophanic paleosol

Universal thermal and electrical conductivity from holography

It is known from earlier work of Iqbal, Liu (arXiv:0809.3808) that the boundary transport coefficients such as electrical conductivity (at vanishing chemical potential), shear viscosity etc. at low frequency and finite temperature can be expressed in terms of geometrical quantities evaluated at the horizon. In the case of electrical conductivity, at zero chemical potential gauge field fluctuation and metric fluctuation decouples, resulting in a trivial flow from horizon to boundary. In the presence of chemical potential, the story becomes complicated due to the fact that gauge field and metric fluctuation can no longer be decoupled. This results in a nontrivial flow from horizon to boundary. Though horizon conductivity can be expressed in terms of geometrical quantities evaluated at the horizon, there exist no such neat result for electrical conductivity at the boundary. In this paper we propose an expression for boundary conductivity expressed in terms of geometrical quantities evaluated at the horizon and thermodynamical quantities. We also consider the theory at finite cutoff outside the horizon (arXiv:1006.1902) and give an expression for cutoff dependent electrical conductivity, which interpolates smoothly between horizon conductivity and boundary conductivity . Using the results about the electrical conductivity we gain much insight into the universality of thermal conductivity to viscosity ratio proposed in arXiv:0912.2719.Comment: An appendix added discussing relation between boundary conductivity and universal conductivity of stretched horizon, version to be published in JHE

Hydrodynamics from charged black branes

We extend the recent work on fluid-gravity correspondence to charged black-branes by determining the metric duals to arbitrary charged fluid configuration up to second order in the boundary derivative expansion. We also derive the energy-momentum tensor and the charge current for these configurations up to second order in the boundary derivative expansion. We find a new term in the charge current when there is a bulk Chern-Simons interaction thus resolving an earlier discrepancy between thermodynamics of charged rotating black holes and boundary hydrodynamics. We have also confirmed that all our expressions are covariant under boundary Weyl-transformations as expected.Comment: 0+ 31 Pages; v2: 0+33 pages, typos corrected and new sections (in appendix) added; v3:published versio

Analytic Lifshitz black holes in higher dimensions

We generalize the four-dimensional R^2-corrected z=3/2 Lifshitz black hole to a two-parameter family of black hole solutions for any dynamical exponent z and for any dimension D. For a particular relation between the parameters, we find the first example of an extremal Lifshitz black hole. An asymptotically Lifshitz black hole with a logarithmic decay is also exhibited for a specific critical exponent depending on the dimension. We extend this analysis to the more general quadratic curvature corrections for which we present three new families of higher-dimensional D>=5 analytic Lifshitz black holes for generic z. One of these higher-dimensional families contains as critical limits the z=3 three-dimensional Lifshitz black hole and a new z=6 four-dimensional black hole. The variety of analytic solutions presented here encourages to explore these gravity models within the context of non-relativistic holographic correspondence.Comment: 14 page

Finite-size and correlation-induced effects in Mean-field Dynamics

The brain's activity is characterized by the interaction of a very large number of neurons that are strongly affected by noise. However, signals often arise at macroscopic scales integrating the effect of many neurons into a reliable pattern of activity. In order to study such large neuronal assemblies, one is often led to derive mean-field limits summarizing the effect of the interaction of a large number of neurons into an effective signal. Classical mean-field approaches consider the evolution of a deterministic variable, the mean activity, thus neglecting the stochastic nature of neural behavior. In this article, we build upon two recent approaches that include correlations and higher order moments in mean-field equations, and study how these stochastic effects influence the solutions of the mean-field equations, both in the limit of an infinite number of neurons and for large yet finite networks. We introduce a new model, the infinite model, which arises from both equations by a rescaling of the variables and, which is invertible for finite-size networks, and hence, provides equivalent equations to those previously derived models. The study of this model allows us to understand qualitative behavior of such large-scale networks. We show that, though the solutions of the deterministic mean-field equation constitute uncorrelated solutions of the new mean-field equations, the stability properties of limit cycles are modified by the presence of correlations, and additional non-trivial behaviors including periodic orbits appear when there were none in the mean field. The origin of all these behaviors is then explored in finite-size networks where interesting mesoscopic scale effects appear. This study leads us to show that the infinite-size system appears as a singular limit of the network equations, and for any finite network, the system will differ from the infinite system

On Charged Lifshitz Black Holes

We obtain exact solutions of charged asymptotically Lifshitz black holes in arbitrary (d+2) dimensions, generalizing the four dimensional solution investigated in 0908.2611[hep-th]. We find that both the conventional Hamiltonian approach and the recently proposed method for defining mass in non-relativistic backgrounds do not work for this specific example. Thus the mass of the black hole can only be determined by the first law of thermodynamics. We also obtain perturbative solutions in five-dimensional Gauss-Bonnet gravity. The ratio of shear viscosity over entropy density and the DC conductivity are calculated in the presence of Gauss-Bonnet corrections.Comment: 24 pages, no figures, to appear in JHE

Holographic GB gravity in arbitrary dimensions

We study the properties of the holographic CFT dual to Gauss-Bonnet gravity in general $D \ge 5$ dimensions. We establish the AdS/CFT dictionary and in particular relate the couplings of the gravitational theory to the universal couplings arising in correlators of the stress tensor of the dual CFT. This allows us to examine constraints on the gravitational couplings by demanding consistency of the CFT. In particular, one can demand positive energy fluxes in scattering processes or the causal propagation of fluctuations. We also examine the holographic hydrodynamics, commenting on the shear viscosity as well as the relaxation time. The latter allows us to consider causality constraints arising from the second-order truncated theory of hydrodynamics.Comment: 48 pages, 9 figures. v2: New discussion on free fields in subsection 3.3 and new appendix B on conformal tensor fields. Added comments on the relation between the central charge appearing in the two-point function and the "central charge" characterizing the entropy density in the discussion. References adde