Long-Duration Gamma-Ray Burst Host Galaxies in Emission and Absorption

The galaxy population hosting long-duration GRBs provides a means to constrain the progenitor and an opportunity to use these violent explosions to characterize the nature of the high-redshift universe. Studies of GRB host galaxies in emission reveal a population of star-forming galaxies with great diversity, spanning a wide range of masses, metallicities, and redshifts. However, as a population GRB hosts are significantly less massive and poorer in metals than the hosts of other core-collapse transients, suggesting that GRB production is only efficient at metallicities significantly below Solar. GRBs may also prefer compact galaxies, and dense and/or central regions of galaxies, more than other types of core-collapse explosion. Meanwhile, studies of hosts in absorption against the luminous GRB optical afterglow provide a unique means of unveiling properties of the ISM in even the faintest and most distant galaxies; these observations are helping to constrain the chemical evolution of galaxies and the properties of interstellar dust out to very high redshifts. New ground- and space-based instrumentation, and the accumulation of larger and more carefully-selected samples, are continually enhancing our view of the GRB host population. © 2016, Springer Science+Business Media Dordrecht

Structure of a Bathtub Vortex : Importance of the Bottom Boundary Layer

A bathtub vortex in a cylindrical tank rotating at a constant angular velocity [omega] is studied by meansof a laboratory experiment, a numerical experiment and a boundary layer theory. The laboratory and numerical experiments show that two regimes of vortices in the steady-state can occur depending on [omega] and the volume flux Q through the drain hole: when Q is large and [omega] is small, a potential vortex is formed in which angular momentum outside the vortex core is constant in the non-rotating frame. However, when Q is small or [omega] is large, a vortex is generated in which the angular momentum decreases with decreasing radius. Boundary layertheory shows that the vortex regimes strongly depend on the theoretical radial volume flux through the bottomboundary layer under a potential vortex : when the ratio of Q to the theoretical boundary-layer radial volume flux Qb (scaled by 2π R2([omega] ν)12 ) at the outer rim of the vortex core is larger than a critical value (of order 1), the radial flow in the interior exists at all radiiand Regime I is realized, where R is the inner radius of the tank and ν the kinematicviscosity.When the ratio is less than the critical value, the radial flow in the interior nearlyvanishes inside a critical radius and almost all of the radial volume flux occurs only in the boundary layer,resulting in Regime II in which the angular momentum is not constant with radius. This criterion is found to explain the results of the laboratory and numerical experiments very well

The Star Formation Rate and Metallicity of the Host Galaxy of the Dark GRB 080325 at z = 1.78

We present near-infrared spectroscopy of the host galaxy of the dark gamma-ray burst (GRB) 080325 using Subaru/Multi-Object Infrared Camera and Spectrograph. The obtained spectrum provides a clear detection of H emission and marginal [Nii]λ6584. The host is a massive (M∗ ∼ 1011 Mȯ), dusty (Av ∼ 1.2) star-forming galaxy at z = 1.78. The extinction-corrected star formation rate (SFR) calculated from the H luminosity (35.6-47.0 Mȯ yr-1) is typical among GRB host galaxies (and star-forming galaxies generally) at z > 1; however, the specific SFR is lower than for normal star-forming galaxies at redshift ∼1.6, in contrast to the high specific SFR measured for many of other GRB hosts. The metallicity of the host is estimated to be 12 + log(O/H)KK04 = 8.88. We emphasize that this is one of the most massive host galaxies at z > for which metallicity is measured with emission-line diagnostics. The metallicity is fairly high among GRB hosts, however, this is still lower than the metallicity of normal star-forming galaxies of the same mass at z ∼ 1.6. The metallicity offset from normal star-forming galaxies is close to a typical value of other GRB hosts and indicates that GRB host galaxies are uniformly biased toward low metallicity over a wide range of redshifts and stellar masses. The low-metallicity nature of the GRB 080325 host likely cannot be attributed to the fundamental metallicity relation of star-forming galaxies because it is a metal-poor outlier from the relation and has a low specific star formation rate. Thus, we conclude that metallicity is important to the mechanism that produced this GRB. © 2015. The American Astronomical Society. All rights reserved

"Dark" GRB 080325 in a Dusty Massive Galaxy at z ~ 2

We present optical and near infrared observations of GRB 080325 classified as a "Dark GRB". Near-infrared observations with Subaru/MOIRCS provided a clear detection of afterglow in Ks band, although no optical counterpart was reported. The flux ratio of rest-wavelength optical to X-ray bands of the afterglow indicates that the dust extinction along the line of sight to the afterglow is Av = 2.7 - 10 mag. This large extinction is probably the major reason for optical faintness of GRB 080325. The J - Ks color of the host galaxy, (J - Ks = 1.3 in AB magnitude), is significantly redder than those for typical GRB hosts previously identified. In addition to J and Ks bands, optical images in B, Rc, i', and z' bands with Subaru/Suprime-Cam were obtained at about one year after the burst, and a photometric redshift of the host is estimated to be z_{photo} = 1.9. The host luminosity is comparable to L^{*} at z \sim 2 in contrast to the sub-L^{*} property of typical GRB hosts at lower redshifts. The best-fit stellar population synthesis model for the host shows that a large dust extinction (Av = 0.8 mag) attributes to the red nature of the host and that the host galaxy is massive (M_{*} = 7.0 \times 10^{10} Msun) which is one of the most massive GRB hosts previously identified. By assuming that the mass-metallicity relation for star-forming galaxies at z \sim 2 is applicable for the GRB host, this large stellar mass suggests the high metallicity environment around GRB 080325, consistent with inferred large extinction.Comment: 22 pages, 10 figures, accepted for publication in The Astrophysical Journa

Natalizumab affects T-cell phenotype in multiple sclerosis: implications for JCV reactivation

The anti-CD49d monoclonal antibody natalizumab is currently an effective therapy against the relapsing-remitting form of multiple sclerosis (RRMS). Natalizumab therapeutic efficacy is limited by the reactivation of the John Cunningham polyomavirus (JCV) and development of progressive multifocal leukoencephalopathy (PML). To correlate natalizumab-induced phenotypic modifications of peripheral blood T-lymphocytes with JCV reactivation, JCV-specific antibodies (serum), JCV-DNA (blood and urine), CD49d expression and relative abundance of peripheral blood T-lymphocyte subsets were longitudinally assessed in 26 natalizumab-treated RRMS patients. Statistical analyses were performed using GraphPad Prism and R. Natalizumab treatment reduced CD49d expression on memory and effector subsets of peripheral blood T-lymphocytes. Moreover, accumulation of peripheral blood CD8+ memory and effector cells was observed after 12 and 24 months of treatment. CD4+ and CD8+ T-lymphocyte immune-activation was increased after 24 months of treatment. Higher percentages of CD8+ effectors were observed in subjects with detectable JCV-DNA. Natalizumab reduces CD49d expression on CD8+ T-lymphocyte memory and effector subsets, limiting their migration to the central nervous system and determining their accumulation in peripheral blood. Impairment of central nervous system immune surveillance and reactivation of latent JCV, can explain the increased risk of PML development in natalizumab-treated RRMS subjects

Vitamin D receptor gene polymorphisms in multiple sclerosis patients in northwest Greece

<p>Abstract</p> <p>Background</p> <p>Polymorphisms of the vitamin D receptor (VDR) gene have been linked to both multiple sclerosis (MS) and osteoporosis. We examined the frequency of the Taq-I and Bsm-I polymorphisms of the vitamin D receptor (VDR) gene in 69 patients with MS and 81 age and sex-matched healthy individuals. Genotyping of Taq-I (rs731236) and Bsm-I (rs1544410) was performed using TaqMan^®SNP Genotyping Assay. All patients and controls had determination of body mass index (BMI), bone mineral density (BMD) and smoking history.</p> <p>Results</p> <p>The mean age of patients was 39 ± 10.5 years compared to 38.7 ± 10.7 years of the controls (p = 0.86), the BMI was 24.8 ± 4.2 kg/m²compared to 25.7 ± 4.8 kg/m²of the controls (p = 0.23), the BMD in the lumbar spine 0.981 ± 0.15 compared to 1.025 ± 013 of the controls (p = 0.06) and the total hip BMD was 0.875 ± 0.14 compared to 0.969 ± 0.12 of the controls (p < 0.001). There were no differences of the Taq-I (TT, CT, CC) and Bsm-I genotypes (GG, GA, AA) and allelic frequencies between MS and control individuals. Multivariate analysis also failed to show any association of the Taq-I and Bsm-I polymorphisms and MS or sex, BMI, BMD and smoking history.</p> <p>Conclusions</p> <p>This study suggests that the Taq-I and Bsm-I polymorphisms of the VDR gene are not associated with MS risk, BMI or BMD in the Greek population studied.</p

Influence of alternating temperature preculture on cryopreservation results for potato shoot tips

Cryopreservation is the most suitable long-term storage method for genetic resources of vegetatively maintained crops like potato. In the Leibniz Institute of Plant Genetics and Crop Plant Research (IPK) the DMSO droplet method is applied, and so far more than 1000 accessions are cryopreserved with an average regeneration rate of 58%. New experiments with four potato accessions using alternating temperatures (22/8°C day/night temperature, 8 h photoperiod, 7 d) prior to cryopreservation showed improved regeneration. The influence of this preculture on the shoot tips was studied for two wild, frost resistant species Solanum acaule and S. demissum and for two cultivated, frost sensitive potatoes S. tuberosum ‘Désirée’ and ‘King Edward’. Comparison of liquid and solid media after cryopreservation showed improved regeneration on solid media with higher regeneration percentages, less callus formation and better plantlet structure. In comparative analyses biochemical factors like soluble sugars, starch, and amino acid concentrations were measured. Shoot tips after constant and after alternating temperature preculture were analyzed. Total concentrations of soluble sugars (glucose, fructose, and sucrose) were higher for all accessions after the alternating temperature preculture, which could be the reason for improved cryopreservation results

Local Function Conservation in Sequence and Structure Space

We assess the variability of protein function in protein sequence and structure space. Various regions in this space exhibit considerable difference in the local conservation of molecular function. We analyze and capture local function conservation by means of logistic curves. Based on this analysis, we propose a method for predicting molecular function of a query protein with known structure but unknown function. The prediction method is rigorously assessed and compared with a previously published function predictor. Furthermore, we apply the method to 500 functionally unannotated PDB structures and discuss selected examples. The proposed approach provides a simple yet consistent statistical model for the complex relations between protein sequence, structure, and function. The GOdot method is available online (http://godot.bioinf.mpi-inf.mpg.de)

Metabolic State Determines Sensitivity to Cellular Stress in Huntington Disease: Normalization by Activation of PPARγ

Impairments in mitochondria and transcription are important factors in the pathogenesis of Huntington disease (HD), a neurodegenerative disease caused by a polyglutamine expansion in the huntingtin protein. This study investigated the effect of different metabolic states and peroxisome proliferator-activated receptor γ (PPARγ) activation on sensitivity to cellular stressors such as H2O2 or thapsigargin in HD. Striatal precursor cells expressing wild type (STHdhQ7) or mutant huntingtin (STHdhQ111) were prepared in different metabolic conditions (glucose vs. pyruvate). Due to the fact that STHdhQ111 cells exhibit mitochondrial deficits, we expected that in the pyruvate condition, where ATP is generated primarily by the mitochondria, there would be greater differences in cell death between the two cell types compared to the glucose condition. Intriguingly, it was the glucose condition that gave rise to greater differences in cell death. In the glucose condition, thapsigargin treatment resulted in a more rapid loss of mitochondrial membrane potential (ΔΨm), a greater activation of caspases (3, 8, and 9), and a significant increase in superoxide/reactive oxygen species (ROS) in STHdhQ111 compared to STHdhQ7, while both cell types showed similar kinetics of ΔΨm-loss and similar levels of superoxide/ROS in the pyruvate condition. This suggests that bioenergetic deficiencies are not the primary contributor to the enhanced sensitivity of STHdhQ111 cells to stressors compared to the STHdhQ7 cells. PPARγ activation significantly attenuated thapsigargin-induced cell death, concomitant with an inhibition of caspase activation, a delay in ΔΨm loss, and a reduction of superoxide/ROS generation in STHdhQ111 cells. Expression of mutant huntingtin in primary neurons induced superoxide/ROS, an effect that was significantly reduced by constitutively active PPARγ. These results provide significant insight into the bioenergetic disturbances in HD with PPARγ being a potential therapeutic target for HD

Molecular Modeling Study for Interaction between Bacillus subtilis Obg and Nucleotides

The bacterial Obg proteins (Spo0B-associated GTP-binding protein) belong to the subfamily of P-loop GTPase proteins that contain two equally and highly conserved domains, a C-terminal GTP binding domain and an N-terminal glycine-rich domain which is referred as the “Obg fold” and now it is considered as one of the new targets for antibacterial drug. When the Obg protein is associated with GTP, it becomes activated, because conformation of Obg fold changes due to the structural changes of GTPase switch elements in GTP binding site. In order to investigate the effects and structural changes in GTP bound to Obg and GTPase switch elements for activation, four different molecular dynamics (MD) simulations were performed with/without the three different nucleotides (GTP, GDP, and GDP + Pi) using the Bacillus subtilis Obg (BsObg) structure. The protein structures generated from the four different systems were compared using their representative structures. The pattern of Cα-Cα distance plot and angle between the two Obg fold domains of simulated apo form and each system (GTP, GDP, and GDP+Pi) were significantly different in the GTP-bound system from the others. The switch 2 element was significantly changed in GTP-bound system. Also root-mean-square fluctuation (RMSF) analysis revealed that the flexibility of the switch 2 element region was much higher than the others. This was caused by the characteristic binding mode of the nucleotides. When GTP was bound to Obg, its γ-phosphate oxygen was found to interact with the key residue (D212) of the switch 2 element, on the contrary there was no such interaction found in other systems. Based on the results, we were able to predict the possible binding conformation of the activated form of Obg with L13, which is essential for the assembly with ribosome