Transit Analysis Package (TAP and autoKep): IDL Graphical User Interfaces for Extrasolar Planet Transit Photometry

We present an IDL graphical user interface-driven software package designed for the analysis of extrasolar planet transit light curves. The Transit Analysis Package (TAP) software uses Markov Chain Monte Carlo (MCMC) techniques to fit light curves using the analytic model of Mandel and Agol (2002). The package incorporates a wavelet based likelihood function developed by Carter and Winn (2009) which allows the MCMC to assess parameter uncertainties more robustly than classic chi-squared methods by parameterizing uncorrelated "white" and correlated "red" noise. The software is able to simultaneously analyze multiple transits observed in different conditions (instrument, filter, weather, etc). The graphical interface allows for the simple execution and interpretation of Bayesian MCMC analysis tailored to a user's specific data set and has been thoroughly tested on ground-based and Kepler photometry. AutoKep provides a similar GUI for the preparation of Kepler MAST archive data for analysis by TAP or any other analysis software. This paper describes the software release and provides instructions for its use.Comment: 8 pages, 2 figure

KELT-4Ab: An inflated Hot Jupiter transiting the bright (V~10) component of a hierarchical triple

We report the discovery of KELT-4Ab, an inflated, transiting Hot Jupiter orbiting the brightest component of a hierarchical triple stellar system. The host star is an F star with T_(eff) = 6206 ± 75 K, log g = 4.108 ± 0.014, [Fe/H] = -0.116_(-0.069)^(+0.065, M_* = 1.201_(-0.061)^(+0.067) M_☉, and R_* = 1.603_(-0.038)^(+0.039) R_☉. The best-fit linear ephemeris is BJD_(TDB); = 2456193.29157 ± 0.00021 + E(2.9895936 ± 0.0000048). With a magnitude of V ~ 10, a planetary radius of 1.699_(-0.045)^(+0.046); R_J, and a mass of 0.902_(-0.059)^(+0.060) M_J, it is the brightest host among the population of inflated Hot Jupiters (R_P > 1.5 R_J), making it a valuable discovery for probing the nature of inflated planets. In addition, its existence within a hierarchical triple and its proximity to Earth (210 pc) provide a unique opportunity for dynamical studies with continued monitoring with high resolution imaging and precision radial velocities. The projected separation between KELT-4A and KELT-4BC is 328 ± 16 AU and the projected separation between KELT-4B and KELT-4C is 10.30 ± 0.74 AU. Assuming face-on, circular orbits, their respective periods would be 3780 ± 290 and 29.4 ± 3.6 years and the astrometric motions relative to the epoch in this work of both the binary stars around each other and of the binary around the primary star would be detectable now and may provide meaningful constraints on the dynamics of the system

Florivory Shapes both Leaf and Floral Interactions

Florivory, or the consumption of flowers, is a ubiquitous interaction that can reduce plant reproduction directly by damaging reproductive tissues and indirectly by deterring pollinators. However, we know surprisingly little about how florivory alters plant traits or the larger community of species interactions. Although leaf damage is known to affect floral traits and interactions in many systems, the consequences of floral damage for leaf traits and interactions are unknown. We manipulated floral damage in Impatiens capensisand measured effects on floral attractive traits and secondary chemicals, leaf secondary chemicals, floral interactions, leaf herbivory, and plant reproduction. We also examined relationships between early season floral traits and floral interactions, to explore which traits structure floral interactions. Moderate but not high florivory significantly increased relative selfed reproduction, leading to a shift in mating system away from outcrossing. Florivory increased leaf secondary compounds and decreased leaf herbivory, although mechanisms other than leaf chemistry may be responsible for some of the reduced leaf damage. Florivory altered four of seven measured interactions, including increased subsequent florivory and reduced flower spiders, although only leaf damage effects were significant after correcting for multiple tests. Pretreatment concentrations of floral anthocyanins and condensed tannins were associated with reduced levels of many floral antagonisms, including florivory, nectar larceny, and flower spider abundance, suggesting these traits play a role in floral resistance. Overall, our results indicate a broad range of community and potential evolutionary consequences of florivory through structuring subsequent floral interactions, altering leaf secondary chemicals, and shaping leaf herbivory

HIV-1 Vpu Promotes Release and Prevents Endocytosis of Nascent Retrovirus Particles from the Plasma Membrane

The human immunodeficiency virus (HIV) type-1 viral protein U (Vpu) protein enhances the release of diverse retroviruses from human, but not monkey, cells and is thought to do so by ablating a dominant restriction to particle release. Here, we determined how Vpu expression affects the subcellular distribution of HIV-1 and murine leukemia virus (MLV) Gag proteins in human cells where Vpu is, or is not, required for efficient particle release. In HeLa cells, where Vpu enhances HIV-1 and MLV release approximately 10-fold, concentrations of HIV-1 Gag and MLV Gag fused to cyan fluorescent protein (CFP) were initially detected at the plasma membrane, but then accumulated over time in early and late endosomes. Endosomal accumulation of Gag-CFP was prevented by Vpu expression and, importantly, inhibition of plasma membrane to early endosome transport by dominant negative mutants of Rab5a, dynamin, and EPS-15. Additionally, accumulation of both HIV and MLV Gag in endosomes required a functional late-budding domain. In human HOS cells, where HIV-1 and MLV release was efficient even in the absence of Vpu, Gag proteins were localized predominantly at the plasma membrane, irrespective of Vpu expression or manipulation of endocytic transport. While these data indicated that Vpu inhibits nascent virion endocytosis, Vpu did not affect transferrin endocytosis. Moreover, inhibition of endocytosis did not restore Vpu-defective HIV-1 release in HeLa cells, but instead resulted in accumulation of mature virions that could be released from the cell surface by protease treatment. Thus, these findings suggest that a specific activity that is present in HeLa cells, but not in HOS cells, and is counteracted by Vpu, traps assembled retrovirus particles at the cell surface. This entrapment leads to subsequent endocytosis by a Rab5a- and clathrin-dependent mechanism and intracellular sequestration of virions in endosomes

The Mass of the Black Hole in the Quasar PG 2130+099

We present the results of a recent reverberation-mapping campaign undertaken to improve measurements of the radius of the broad line region and the central black hole mass of the quasar PG 2130+099. Cross correlation of the 5100 angstrom continuum and H-beta emission-line light curves yields a time lag of 22.9 (+4.4 - 4.3) days, corresponding to a central black hole mass MBH= 3.8 (+/- 1.5) x 10^7 Msun. This value supports the notion that previous measurements yielded an incorrect lag. We re-analyzed previous datasets to investigate the possible sources of the discrepancy and conclude that previous measurement errors were apparently caused by a combination of undersampling of the light curves and long-term secular changes in the H-beta emission-line equivalent width. With our new measurements, PG 2130+099 is no longer an outlier in either the R-L or the MBH-Sigma relationships.Comment: 21 pages, 7 figures; Accepted for publication in Ap

Kynurenine pathway inhibition reduces central nervous system inflammation in a model of human African trypanosomiasis

Human African trypanosomiasis, or sleeping sickness, is caused by the protozoan parasites <i>Trypanosoma brucei rhodesiense</i> or <i>Trypanosoma brucei gambiense</i>, and is a major cause of systemic and neurological disability throughout sub-Saharan Africa. Following early-stage disease, the trypanosomes cross the blood-brain barrier to invade the central nervous system leading to the encephalitic, or late stage, infection. Treatment of human African trypanosomiasis currently relies on a limited number of highly toxic drugs, but untreated, is invariably fatal. Melarsoprol, a trivalent arsenical, is the only drug that can be used to cure both forms of the infection once the central nervous system has become involved, but unfortunately, this drug induces an extremely severe post-treatment reactive encephalopathy (PTRE) in up to 10% of treated patients, half of whom die from this complication. Since it is unlikely that any new and less toxic drug will be developed for treatment of human African trypanosomiasis in the near future, increasing attention is now being focussed on the potential use of existing compounds, either alone or in combination chemotherapy, for improved efficacy and safety. The kynurenine pathway is the major pathway in the metabolism of tryptophan. A number of the catabolites produced along this pathway show neurotoxic or neuroprotective activities, and their role in the generation of central nervous system inflammation is well documented. In the current study, Ro-61-8048, a high affinity kynurenine-3-monooxygenase inhibitor, was used to determine the effect of manipulating the kynurenine pathway in a highly reproducible mouse model of human African trypanosomiasis. It was found that Ro-61-8048 treatment had no significant effect (P = 0.4445) on the severity of the neuroinflammatory pathology in mice during the early central nervous system stage of the disease when only a low level of inflammation was present. However, a significant (P = 0.0284) reduction in the severity of the neuroinflammatory response was detected when the inhibitor was administered in animals exhibiting the more severe, late central nervous system stage, of the infection. <i>In vitro</i> assays showed that Ro-61-8048 had no direct effect on trypanosome proliferation suggesting that the anti-inflammatory action is due to a direct effect of the inhibitor on the host cells and not a secondary response to parasite destruction. These findings demonstrate that kynurenine pathway catabolites are involved in the generation of the more severe inflammatory reaction associated with the late central nervous system stages of the disease and suggest that Ro-61-8048 or a similar drug may prove to be beneficial in preventing or ameliorating the PTRE when administered as an adjunct to conventional trypanocidal chemotherap

Follow-Up Observations of PTFO 8-8695: A 3 MYr Old T-Tauri Star Hosting a Jupiter-mass Planetary Candidate

We present Spitzer 4.5\micron\ light curve observations, Keck NIRSPEC radial velocity observations, and LCOGT optical light curve observations of PTFO~8-8695, which may host a Jupiter-sized planet in a very short orbital period (0.45 days). Previous work by \citet{vaneyken12} and \citet{barnes13} predicts that the stellar rotation axis and the planetary orbital plane should precess with a period of $300 - 600$ days. As a consequence, the observed transits should change shape and depth, disappear, and reappear with the precession. Our observations indicate the long-term presence of the transit events ($>3$ years), and that the transits indeed do change depth, disappear and reappear. The Spitzer observations and the NIRSPEC radial velocity observations (with contemporaneous LCOGT optical light curve data) are consistent with the predicted transit times and depths for the $M_\star = 0.34\ M_\odot$ precession model and demonstrate the disappearance of the transits. An LCOGT optical light curve shows that the transits do reappear approximately 1 year later. The observed transits occur at the times predicted by a straight-forward propagation of the transit ephemeris. The precession model correctly predicts the depth and time of the Spitzer transit and the lack of a transit at the time of the NIRSPEC radial velocity observations. However, the precession model predicts the return of the transits approximately 1 month later than observed by LCOGT. Overall, the data are suggestive that the planetary interpretation of the observed transit events may indeed be correct, but the precession model and data are currently insufficient to confirm firmly the planetary status of PTFO~8-8695b.Comment: Accepted for publication in The Astrophysical Journa

Tempo and mode of performance evolution across multiple independent origins of adhesive toe pads in lizards

Understanding macroevolutionary dynamics of trait evolution is an important endeavor in evolutionary biology. Ecological opportunity can liberate a trait as it diversifies through trait space, while genetic and selective constraints can limit diversification. While many studies have examined the dynamics of morphological traits, diverse morphological traits may yield the same or similar performance and as performance is often more proximately the target of selection, examining only morphology may give an incomplete understanding of evolutionary dynamics. Here, we ask whether convergent evolution of pad‐bearing lizards has followed similar evolutionary dynamics, or whether independent origins are accompanied by unique constraints and selective pressures over macroevolutionary time. We hypothesized that geckos and anoles each have unique evolutionary tempos and modes. Using performance data from 59 species, we modified Brownian motion (BM) and Ornstein–Uhlenbeck (OU) models to account for repeated origins estimated using Bayesian ancestral state reconstructions. We discovered that adhesive performance in geckos evolved in a fashion consistent with Brownian motion with a trend, whereas anoles evolved in bounded performance space consistent with more constrained evolution (an Ornstein–Uhlenbeck model). Our results suggest that convergent phenotypes can have quite distinctive evolutionary patterns, likely as a result of idiosyncratic constraints or ecological opportunities

Renormalization group and perfect operators for stochastic differential equations

We develop renormalization group methods for solving partial and stochastic differential equations on coarse meshes. Renormalization group transformations are used to calculate the precise effect of small scale dynamics on the dynamics at the mesh size. The fixed point of these transformations yields a perfect operator: an exact representation of physical observables on the mesh scale with minimal lattice artifacts. We apply the formalism to simple nonlinear models of critical dynamics, and show how the method leads to an improvement in the computational performance of Monte Carlo methods.Comment: 35 pages, 16 figure

Orbital character of O 2p unoccupied states near the Fermi level in CrO2

The orbital character, orientation, and magnetic polarization of the O 2$p$ unoccupied states near the Fermi level ($E_F$) in CrO$_2$ was determined using polarization-dependent X-ray absorption spectroscopy (XAS) and X-ray magnetic circular dichroism (XMCD) from high-quality, single-crystal films. A sharp peak observed just above $E_F$ is excited only by the electric field vector ($\bf E$) normal to the tetragonal $c$-axis, characteristic of a narrow band ($\approx$ 0.7 eV bandwidth) constituted from O 2$p$ orbitals perpendicular to $c$ (O 2$p_y$) hybridized with Cr 3$d_{xz-yz}$ $t_{2g}$ states. By comparison with band-structure and configuration-interaction (CI) cluster calculations our results support a model of CrO$_2$ as a half-metallic ferromagnet with large exchange-splitting energy ($\Delta_{exch-split}$ $\approx$ 3.0 eV) and substantial correlation effects.Comment: 4 pages, 3 figures, accepted for publication in Phys. Rev. B Rapid Com