Optical and near-infrared observations of SN 2013dx associated with GRB 130702A

We present optical and near-infrared light curves and optical spectra of SN 2013dx, associated with the nearby (redshift 0.145) gamma-ray burst GRB 130702A. The prompt isotropic gamma-ray energy released from GRB 130702A is measured to be $E_{\gamma,\mathrm{iso}} = 6.4_{-1.0}^{+1.3} \times 10^{50}$erg (1keV to 10MeV in the rest frame), placing it intermediate between low-luminosity GRBs like GRB 980425/SN 1998bw and the broader cosmological population. We compare the observed $g^{\prime}r^{\prime}i^{\prime}z^{\prime}$ light curves of SN 2013dx to a SN 1998bw template, finding that SN 2013dx evolves $\sim20$% faster (steeper rise time), with a comparable peak luminosity. Spectroscopically, SN 2013dx resembles other broad-lined Type Ic supernovae, both associated with (SN 2006aj and SN 1998bw) and lacking (SN 1997ef, SN 2007I, and SN 2010ah) gamma-ray emission, with photospheric velocities around peak of $\sim$21,000 km s$^{-1}$. We construct a quasi-bolometric ($g^{\prime}r^{\prime}i^{\prime}z^{\prime}yJH$) light curve for SN 2013dx, and, together with the photospheric velocity, we derive basic explosion parameters using simple analytic models. We infer a $^{56}$Ni mass of $M_{\mathrm{Ni}} = 0.38\pm 0.01$M$_{\odot}$, an ejecta mass of $M_{\mathrm{ej}} = 3.0 \pm 0.1$ M$_{\odot}$, and a kinetic energy of $E_{\mathrm{K}} = (8.2 \pm 0.40) \times 10^{51}$erg (statistical uncertainties only), consistent with previous GRB-associated SNe. When considering the ensemble population of GRB-associated SNe, we find no correlation between the mass of synthesized $^{56}$Ni and high-energy properties, despite clear predictions from numerical simulations that $M_{\mathrm{Ni}}$ should correlate with the degree of asymmetry. On the other hand, $M_{\mathrm{Ni}}$ clearly correlates with the kinetic energy of the supernova ejecta across a wide range of core-collapse events

CD4 receptor diversity represents an ancient protection mechanism against primate lentiviruses.

Infection with human and simian immunodeficiency viruses (HIV/SIV) requires binding of the viral envelope glycoprotein (Env) to the host protein CD4 on the surface of immune cells. Although invariant in humans, the Env binding domain of the chimpanzee CD4 is highly polymorphic, with nine coding variants circulating in wild populations. Here, we show that within-species CD4 diversity is not unique to chimpanzees but found in many African primate species. Characterizing the outermost (D1) domain of the CD4 protein in over 500 monkeys and apes, we found polymorphic residues in 24 of 29 primate species, with as many as 11 different coding variants identified within a single species. D1 domain amino acid replacements affected SIV Env-mediated cell entry in a single-round infection assay, restricting infection in a strain- and allele-specific fashion. Several identical CD4 polymorphisms, including the addition of N-linked glycosylation sites, were found in primate species from different genera, providing striking examples of parallel evolution. Moreover, seven different guenons (Cercopithecus spp.) shared multiple distinct D1 domain variants, pointing to long-term trans-specific polymorphism. These data indicate that the HIV/SIV Env binding region of the primate CD4 protein is highly variable, both within and between species, and suggest that this diversity has been maintained by balancing selection for millions of years, at least in part to confer protection against primate lentiviruses. Although long-term SIV-infected species have evolved specific mechanisms to avoid disease progression, primate lentiviruses are intrinsically pathogenic and have left their mark on the host genome

Unexpected changes in the oxic/anoxic interface in the Black Sea

THE Black Sea is the largest anoxic marine basin in the world today1. Below the layer of oxygenated surface water, hydrogen sulphide builds up to concentrations as high as 425 μM in the deep water down to a maximum depth of 2,200 m (ref. 2). The hydrographic regime is characterized by low-salinity surface water of river origin overlying high-salinity deep water of Mediterranean origin1,3. A steep pycnocline, centred at about 50 m is the primary physical barrier to mixing and is the origin of the stability of the anoxic (oxygen/hydrogen sulphide) interface. Here we report new observations, however, that indicate dramatic changes in the oceanographic characteristics of the anoxic interface of the Black Sea over decadal or shorter timescales. The anoxic, sulphide-containing interface has moved up in the water column since the last US cruises in 1969 and 1975. In addition, a suboxic zone overlays the sulphide-containing deep water. The expected overlap of oxygen and sulphide was not present. We believe that these observations result from horizontal mixing or flushing events that inject denser, saltier water into the relevant part of the water column. It is possible that man-made reduction in freshwater inflow into the Black Sea could cause these changes, although natural variability cannot be discounted. © 1989 Nature Publishing Group

Allometry and Ecology of the Bilaterian Gut Microbiome

Classical ecology provides principles for construction and function of biological communities, but to what extent these apply to the animal-associated microbiota is just beginning to be assessed. Here, we investigated the influence of several well-known ecological principles on animal-associated microbiota by characterizing gut microbial specimens from bilaterally symmetrical animals (Bilateria) ranging from flies to whales. A rigorously vetted sample set containing 265 specimens from 64 species was assembled. Bacterial lineages were characterized by 16S rRNA gene sequencing. Previously published samples were also compared, allowing analysis of over 1,098 samples in total. A restricted number of bacterial phyla was found to account for the great majority of gut colonists. Gut microbial composition was associated with host phylogeny and diet. We identified numerous gut bacterial 16S rRNA gene sequences that diverged deeply from previously studied taxa, identifying opportunities to discover new bacterial types. The number of bacterial lineages per gut sample was positively associated with animal mass, paralleling known species-area relationships from island biogeography and implicating body size as a determinant of community stability and niche complexity. Samples from larger animals harbored greater numbers of anaerobic communities, specifying a mechanism for generating more-complex microbial environments. Predictions for species/abundance relationships from models of neutral colonization did not match the data set, pointing to alternative mechanisms such as selection of specific colonists by environmental niche. Taken together, the data suggest that niche complexity increases with gut size and that niche selection forces dominate gut community construction

Cj1411c Encodes for a Cytochrome P450 Involved in Campylobacter jejuni 81-176 Pathogenicity

Cytochrome P450s are b-heme-containing enzymes that are able to introduce oxygen atoms into a wide variety of organic substrates. They are extremely widespread in nature having diverse functions at both biochemical and physiological level. The genome of C. jejuni 81-176 encodes a single cytochrome P450 (Cj1411c) that has no close homologues. Cj1411c is unusual in its genomic location within a cluster involved in the biosynthesis of outer surface structures. Here we show that E. coli expressed and affinity-purified C. jejuni cytochrome P450 is lipophilic, containing one equivalent Cys-ligated heme. Immunoblotting confirmed the association of cytochrome P450 with membrane fractions. A Cj1411c deletion mutant had significantly reduced ability to infect human cells and was less able to survive following exposure to human serum when compared to the wild type strain. Phenotypically following staining with Alcian blue, we show that a Cj1411c deletion mutant produces significantly less capsular polysaccharide. This study describes the first known membrane-bound bacterial cytochrome P450 and its involvement in Campylobacter virulence

IPTF14yb: The first discovery of a gamma-ray burst afterglow independent of a high-energy trigger

We report here the discovery by the Intermediate Palomar Transient Factory (iPTF) of iPTF14yb, a luminous(Mr ≈ -27.8 mag), cosmological (redshift 1.9733), rapidly fading optical transient. We demonstrate, based onprobabilistic arguments and a comparison with the broader population, that iPTF14yb is the optical afterglow ofthe long-duration gamma-ray burst GRB 140226A. This marks the first unambiguous discovery of a GRBafterglow prior to (and thus entirely independent of) an associated high-energy trigger. We estimate the rate ofiPTF14yb-like sources (i.e., cosmologically distant relativistic explosions) based on iPTF observations, inferringan all-sky value of Rrel = 610 yr?1 (68% confidence interval of 1102000 yr?1). Our derived rate is consistent(within the large uncertainty) with the all-sky rate of on-axis GRBs derived by the Swift satellite. Finally, webriefly discuss the implications of the nondetection to date of bona fide orphan afterglows (i.e., those lackingdetectable high-energy emission) on GRB beaming and the degree of baryon loading in these relativistic jets. © 2015. The American Astronomical Society. All rights reserved

Search for strongly interacting massive particles generating trackless jets in proton-proton collisions at s = 13 TeV

A search for dark matter in the form of strongly interacting massive particles (SIMPs) using the CMS detector at the LHC is presented. The SIMPs would be produced in pairs that manifest themselves as pairs of jets without tracks. The energy fraction of jets carried by charged particles is used as a key discriminator to suppress efficiently the large multijet background, and the remaining background is estimated directly from data. The search is performed using proton-proton collision data corresponding to an integrated luminosity of 16.1 fb - 1 , collected with the CMS detector in 2016. No significant excess of events is observed above the expected background. For the simplified dark matter model under consideration, SIMPs with masses up to 100 GeV are excluded and further sensitivity is explored towards higher masses

Resolving the Inner Parsec of the Blazar J1924-2914 with the Event Horizon Telescope

The blazar J1924-2914 is a primary Event Horizon Telescope (EHT) calibrator for the Galactic center's black hole Sagittarius A*. Here we present the first total and linearly polarized intensity images of this source obtained with the unprecedented 20 mu as resolution of the EHT. J1924-2914 is a very compact flat-spectrum radio source with strong optical variability and polarization. In April 2017 the source was observed quasi-simultaneously with the EHT (April 5-11), the Global Millimeter VLBI Array (April 3), and the Very Long Baseline Array (April 28), giving a novel view of the source at four observing frequencies, 230, 86, 8.7, and 2.3 GHz. These observations probe jet properties from the subparsec to 100 pc scales. We combine the multifrequency images of J1924-2914 to study the source morphology. We find that the jet exhibits a characteristic bending, with a gradual clockwise rotation of the jet projected position angle of about 90 degrees between 2.3 and 230 GHz. Linearly polarized intensity images of J1924-2914 with the extremely fine resolution of the EHT provide evidence for ordered toroidal magnetic fields in the blazar compact core