Idd9.2 and Idd9.3 Protective Alleles Function in CD4+ T-Cells and Nonlymphoid Cells to Prevent Expansion of Pathogenic Islet-Specific CD8+ T-Cells

OBJECTIVE - Multiple type 1 diabetes susceptibility genes have now been identified in both humans and mice, yet mechanistic understanding of how they impact disease pathogenesis is still minimal. We have sought to dissect the cellular basis for how the highly protective mouse Idd9 region limits the expansion of autoreactive CD8 T-cells, a key cell type in destruction of the islets. RESEARCH DESIGN AND METHODS - We assess the endogenous CD8 T-cell repertoire for reactivity to the islet antigen glucose-6-phosphatase-related protein (IGRP). Through the use of adoptively transferred T-cells, bone marrow chimeras, and reconstituted severe combined immunodeficient mice, we identify the protective cell types involved. RESULTS - IGRP-specific CD8 T-cells are present at low frequency in the insulitic lesions of Idd9 mice and could not be recalled in the periphery by viral expansion. We show that Idd9 genes act extrinsically to the CD8 T-cell to prevent the massive expansion of pathogenic effectors near the time of disease onset that occurs in NOD mice. The subregions Idd9.2 and Idd9.3 mediated this effect. Interestingly, the Idd9.1 region, which provides significant protection from disease, did not prevent the expansion of autoreactive CD8 T-cells. Expression of Idd9 genes was required by both CD4 T-cells and a nonlymphoid cell to induce optimal tolerance. CONCLUSIONS - Idd9 protective alleles are associated with reduced expansion of IGRP-specific CD8 T-cells. Intrinsic expression of protective Idd9 alleles in CD4 T-cells and nonlymphoid cells is required to achieve an optimal level of tolerance. Protective alleles in the Idd9.2 congenic subregion are required for the maximal reduction of islet-specific CD8 T-cells

The state of tranquility: Subjective perception is shaped by contextual modulation of auditory connectivity

In this study, we investigated brain mechanisms for the generation of subjective experience from objective sensory inputs. Our experimental construct was subjective tranquility. Tranquility is a mental state more likely to occur in the presence of objective sensory inputs that arise from natural features in the environment. We used functional magnetic resonance imaging to examine the neural response to scenes that were visually distinct (beach images vs. freeway images) and experienced as tranquil (beach) or non-tranquil (freeway). Both sets of scenes had the same auditory component because waves breaking on a beach and vehicles moving on a freeway can produce similar auditory spectral and temporal characteristics, perceived as a constant roar. Compared with scenes experienced as non-tranquil, we found that subjectively tranquil scenes were associated with significantly greater effective connectivity between the auditory cortex and medial prefrontal cortex, a region implicated in the evaluation of mental states. Similarly enhanced connectivity was also observed between the auditory cortex and posterior cingulate gyrus, temporoparietal cortex and thalamus. These findings demonstrate that visual context can modulate connectivity of the auditory cortex with regions implicated in the generation of subjective states. Importantly, this effect arises under conditions of identical auditory input. Hence, the same sound may be associated with different percepts reflecting varying connectivity between the auditory cortex and other brain regions. This suggests that subjective experience is more closely linked to the connectivity state of the auditory cortex than to its basic sensory inputs

Remarkable Capacity for Anaerobic Oxidation of Methane at High Methane Concentration

Anaerobic oxidation of methane (AOM), a central process in the carbon cycle of anoxic environments, moderates the release of methane from soils and sediments to water bodies and, ultimately, the atmosphere. The regulation of AOM in the environment remains poorly constrained. Here we quantified AOM and sulfate reduction (SR) rates in diverse deep seafloor samples at in situ pressure and methane concentration and discovered that, in some cases, AOM exceeded SR rates by more than four times when methane concentrations were above 5 mM. Methane concentration also affected other carbon-cycling processes (e.g., carbon assimilation) in addition to SR. These results illustrate that substantial amounts of methane may be oxidized independent of SR under in situ conditions, reshaping our view of the capacity and mechanism of AOM in methane-rich environments, including the deep biosphere, where sulfate availability is considered to limit AOM

Geometric optics and instability for semi-classical Schrodinger equations

We prove some instability phenomena for semi-classical (linear or) nonlinear Schrodinger equations. For some perturbations of the data, we show that for very small times, we can neglect the Laplacian, and the mechanism is the same as for the corresponding ordinary differential equation. Our approach allows smaller perturbations of the data, where the instability occurs for times such that the problem cannot be reduced to the study of an o.d.e.Comment: 22 pages. Corollary 1.7 adde

Modeling DNA Structure, Elasticity and Deformations at the Base-pair Level

We present a generic model for DNA at the base-pair level. We use a variant of the Gay-Berne potential to represent the stacking energy between neighboring base-pairs. The sugar-phosphate backbones are taken into account by semi-rigid harmonic springs with a non-zero spring length. The competition of these two interactions and the introduction of a simple geometrical constraint leads to a stacked right-handed B-DNA-like conformation. The mapping of the presented model to the Marko-Siggia and the Stack-of-Plates model enables us to optimize the free model parameters so as to reproduce the experimentally known observables such as persistence lengths, mean and mean squared base-pair step parameters. For the optimized model parameters we measured the critical force where the transition from B- to S-DNA occurs to be approximately $140{pN}$. We observe an overstretched S-DNA conformation with highly inclined bases that partially preserves the stacking of successive base-pairs.Comment: 15 pages, 25 figures. submitted to PR

Dynamic Evolution Model of Isothermal Voids and Shocks

We explore self-similar hydrodynamic evolution of central voids embedded in an isothermal gas of spherical symmetry under the self-gravity. More specifically, we study voids expanding at constant radial speeds in an isothermal gas and construct all types of possible void solutions without or with shocks in surrounding envelopes. We examine properties of void boundaries and outer envelopes. Voids without shocks are all bounded by overdense shells and either inflows or outflows in the outer envelope may occur. These solutions, referred to as type $\mathcal{X}$ void solutions, are further divided into subtypes $\mathcal{X}_{\rm I}$ and $\mathcal{X}_{\rm II}$ according to their characteristic behaviours across the sonic critical line (SCL). Void solutions with shocks in envelopes are referred to as type $\mathcal{Z}$ voids and can have both dense and quasi-smooth edges. Asymptotically, outflows, breezes, inflows, accretions and static outer envelopes may all surround such type $\mathcal{Z}$ voids. Both cases of constant and varying temperatures across isothermal shock fronts are analyzed; they are referred to as types $\mathcal{Z}_{\rm I}$ and $\mathcal{Z}_{\rm II}$ void shock solutions. We apply the `phase net matching procedure' to construct various self-similar void solutions. We also present analysis on void generation mechanisms and describe several astrophysical applications. By including self-gravity, gas pressure and shocks, our isothermal self-similar void (ISSV) model is adaptable to various astrophysical systems such as planetary nebulae, hot bubbles and superbubbles in the interstellar medium as well as supernova remnants.Comment: 24 pages, 13 figuers, accepted by ApS

Charged rotating dilaton black branes in AdS universe

We present the metric for the $(n+1)$-dimensional charged rotating dilaton black branes with cylindrical or toroidal horizons in the background of anti-de Sitter spacetime. We find the suitable counterterm which removes the divergences of the action in the presence of the dilaton potential in all higher dimensions. We plot the Penrose diagrams of the spacetime and reveal that the spacetime geometry crucially modifies in the presence of the dilaton field. The conserved and thermodynamic quantities of the black branes are also computed.Comment: 13 pages, 3 figures, to appear in Gen. Relat. Gravi

Thermodynamics of higher dimensional topological charged AdS black branes in dilaton gravity

In this paper, we study topological AdS black branes of $(n+1)$-dimensional Einstein-Maxwell-dilaton theory and investigate their properties. We use the area law, surface gravity and Gauss law interpretations to find entropy, temperature and electrical charge, respectively. We also employ the modified Brown and York subtraction method to calculate the quasilocal mass of the solutions. We obtain a Smarr-type formula for the mass as a function of the entropy and the charge, compute the temperature and the electric potential through the Smarr-type formula and show that these thermodynamic quantities coincide with their values which are calculated through using the geometry. Finally, we perform a stability analysis in the canonical ensemble and investigate the effects of the dilaton field and the size of black brane on the thermal stability of the solutions. We find that large black branes are stable but for small black brane, depending on the value of dilaton field and type of horizon, we encounter with some unstable phases.Comment: 21 pages, 21 figures, references updated, minor editing, accepted in EPJC (DOI: 10.1140/epjc/s10052-010-1483-3

Molecular mechanisms linking high body mass index to breast cancer etiology in post-menopausal breast tumor and tumor-adjacent tissues

Purpose: In post-menopausal women, high body mass index (BMI) is an established breast cancer risk factor and is associated with worse breast cancer prognosis. We assessed the associations between BMI and gene expression of both breast tumor and adjacent tissue in estrogen receptor-positive (ER+) and estrogen receptor-negative (ER−) diseases to help elucidate the mechanisms linking obesity with breast cancer biology in 519 post-menopausal women from the Nurses’ Health Study (NHS) and NHSII. Methods: Differential gene expression was analyzed separately in ER+ and ER− disease both comparing overweight (BMI ≥ 25 to &lt; 30) or obese (BMI ≥ 30) women to women with normal BMI (BMI< 25), and per 5 kg/m 2 increase in BMI. Analyses controlled for age and year of diagnosis, physical activity, alcohol consumption, and hormone therapy use. Gene set enrichment analyses were performed and validated among a subset of post-menopausal cases in The Cancer Genome Atlas (for tumor) and Polish Breast Cancer Study (for tumor-adjacent). Results: No gene was differentially expressed by BMI (FDR < 0.05). BMI was significantly associated with increased cellular proliferation pathways, particularly in ER+ tumors, and increased inflammation pathways in ER− tumor and ER− tumor-adjacent tissues (FDR < 0.05). High BMI was associated with upregulation of genes involved in epithelial-mesenchymal transition in ER+ tumor-adjacent tissues. Conclusions: This study provides insights into molecular mechanisms of BMI influencing post-menopausal breast cancer biology. Tumor and tumor-adjacent tissues provide independent information about potential mechanisms