Cutting Edge : Failure of Antigen-Specific CD4+ T Cell Recruitment to the Kidney during Systemic Candidiasis

Copyright © 2014 The Authors. Acknowledgments We thank E. Bolton and H. Bagavant for reagents and advice. We also acknowledge the staff of the Medical Research Facility at the University of Aberdeen for care of the animals used in this study. This work was supported by the Medical Research Council and the Wellcome Trust.Peer reviewedPublisher PD

Stellar Limb-Darkening Coefficients for CoRot and Kepler

Transiting exoplanets provide unparalleled access to the fundamental parameters of both extrasolar planets and their host stars. We present limb-darkening coefficients (LDCs) for the exoplanet hunting CoRot and Kepler missions. The LDCs are calculated with ATLAS stellar atmospheric model grids and span a wide range of Teff, log g, and metallically [M/H]. Both CoRot and Kepler contain wide, nonstandard response functions, and are producing a large inventory of high-quality transiting lightcurves, sensitive to stellar limb darkening. Comparing the stellar model limb darkening to results from the first seven CoRot planets, we find better fits are found when two model intensities at the limb are excluded in the coefficient calculations. This calculation method can help to avoid a major deficiency present at the limbs of the 1D stellar models.Comment: Accepted for publication in A&A. 4 pages, 2 figures, 2 tables. Full versions of tables 1 and 2 containing limb-darkening coefficients available at http://vega.lpl.arizona.edu/~sing

Marginalising instrument systematics in HST WFC3 transit lightcurves

Hubble Space Telescope (HST) Wide Field Camera 3 (WFC3) infrared observations at 1.1-1.7$\mu$m probe primarily the H$_2$O absorption band at 1.4$\mu$m, and has provided low resolution transmission spectra for a wide range of exoplanets. We present the application of marginalisation based on Gibson (2014) to analyse exoplanet transit lightcurves obtained from HST WFC3, to better determine important transit parameters such as R$_p$/R$_*$, important for accurate detections of H$_2$O. We approximate the evidence, often referred to as the marginal likelihood, for a grid of systematic models using the Akaike Information Criterion (AIC). We then calculate the evidence-based weight assigned to each systematic model and use the information from all tested models to calculate the final marginalised transit parameters for both the band-integrated, and spectroscopic lightcurves to construct the transmission spectrum. We find that a majority of the highest weight models contain a correction for a linear trend in time, as well as corrections related to HST orbital phase. We additionally test the dependence on the shift in spectral wavelength position over the course of the observations and find that spectroscopic wavelength shifts $\delta_\lambda(\lambda)$, best describe the associated systematic in the spectroscopic lightcurves for most targets, while fast scan rate observations of bright targets require an additional level of processing to produce a robust transmission spectrum. The use of marginalisation allows for transparent interpretation and understanding of the instrument and the impact of each systematic evaluated statistically for each dataset, expanding the ability to make true and comprehensive comparisons between exoplanet atmospheres.Comment: 19 pages, 13 figures, 8 tables, Accepted to Ap

Corrigendum to "The upper atmosphere of the exoplanet HD209458b revealed by the sodium D lines: Temperature-pressure profile, ionization layer and thermosphere" [2011, A&A, 527, A110]

An error was detected in the code used for the analysis of the HD209458b sodium profile (Vidal-Madjar et al. 2011). Here we present an updated T-P profile and briefly discuss the consequences.Comment: Published in Astronomy & Astrophysics, 533, C

Gran Telescopio Canarias OSIRIS Transiting Exoplanet Atmospheric Survey: Detection of potassium in XO-2b from narrowband spectrophotometry

We present Gran Telescopio Canarias (GTC) optical transit narrow-band photometry of the hot-Jupiter exoplanet XO-2b using the OSIRIS instrument. This unique instrument has the capabilities to deliver high cadence narrow-band photometric lightcurves, allowing us to probe the atmospheric composition of hot Jupiters from the ground. The observations were taken during three transit events which cover four wavelengths at spectral resolutions near 500, necessary for observing atmospheric features, and have near-photon limited sub-mmag precisions. Precision narrow-band photometry on a large aperture telescope allows for atmospheric transmission spectral features to be observed for exoplanets around much fainter stars than those of the well studied targets HD209458b and HD189733b, providing access to the majority of known transiting planets. For XO-2b, we measure planet-to-star radius contrasts of R_pl/R_star=0.10508+/-0.00052 at 6792 Ang, 0.10640+/-0.00058 at 7582 Ang, and 0.10686+/-0.00060 at 7664.9 Ang, and 0.10362+/-0.00051 at 8839 Ang. These measurements reveal significant spectral features at two wavelengths, with an absorption level of 0.067+/-0.016% at 7664.9 Ang due to atmospheric potassium in the line core (a 4.1-sigma significance level), and an absorption level of 0.058+/-0.016% at 7582 Ang, (a 3.6-sigma significance level). When comparing our measurements to hot-Jupiter atmospheric models, we find good agreement with models which are dominated in the optical by alkali metals. This is the first evidence for potassium in an extrasolar planet, an element that has long been theorized along with sodium to be a dominant source of opacity at optical wavelengths for hot Jupiters.Comment: 11 pages, 6 figures, accepted in A&A, minor changes to wording, primarily section 4.2, and the title has also been slightly modifie

HST/STIS Optical Transit Transmission Spectra of the hot-Jupiter HD209458b

We present the transmission spectra of the hot-Jupiter HD209458b taken with the Space Telescope Imaging Spectrograph aboard the Hubble Space Telescope. Our analysis combines data at two resolutions and applies a complete pixel-by-pixel limb-darkening correction to fully reveal the spectral line shapes of atmospheric absorption features. Terrestrial-based Na I and H I contamination are identified which mask the strong exoplanetary absorption signature in the Na core, which we find reaches total absorption levels of ~0.11% in a 4.4 Ang band. The Na spectral line profile is characterized by a wide absorption profile at the lowest absorption depths, and a sharp transition to a narrow absorption profile at higher absorption values. The transmission spectra also shows the presence of an additional absorber at ~6,250 Ang, observed at both medium and low resolutions. We performed various limb-darkening tests, including using high precision limb-darkening measurements of the sun to characterize a general trend of Atlas models to slightly overestimate the amount of limb-darkening at all wavelengths, likely due to the limitations of the model's one-dimensional nature. We conclude that, despite these limitations, Atlas models can still successfully model limb-darkening in high signal-to-noise transits of solar-type stars, like HD209458, to a high level of precision over the entire optical regime (3,000-10,000 Ang) at transit phases between 2nd and 3rd contact.Comment: 18 pages, 11 figures, Accepted to Ap

The prevalence of dust on the exoplanet HD 189733b from Hubble and Spitzer observations

The hot Jupiter HD189733b is the most extensively observed exoplanet. Its atmosphere has been detected and characterised in transmission and eclipse spectroscopy, and its phase curve measured at several wavelengths. This paper brings together results of our campaign to obtain the complete transmission spectrum of the atmosphere of this planet from UV to IR with HST, using STIS, ACS and WFC3. We provide a new tabulation of the transmission spectrum across the entire visible and IR range. The radius ratio in each wavelength band was rederived to ensure a consistent treatment of the bulk transit parameters and stellar limb-darkening. Special care was taken to correct for, and derive realistic estimates of the uncertainties due to, both occulted and unocculted star spots. The combined spectrum is very different from the predictions of cloud-free models: it is dominated by Rayleigh scattering over the whole visible and near infrared range, the only detected features being narrow Na and K lines. We interpret this as the signature of a haze of condensate grains extending over at least 5 scale heights. We show that a dust-dominated atmosphere could also explain several puzzling features of the emission spectrum and phase curves, including the large amplitude of the phase curve at 3.6um, the small hot-spot longitude shift and the hot mid-infrared emission spectrum. We discuss possible compositions and derive some first-order estimates for the properties of the putative condensate haze/clouds. We finish by speculating that the dichotomy between the two observationally defined classes of hot Jupiter atmospheres, of which HD189733b and HD209458b are the prototypes, might not be whether they possess a temperature inversion, but whether they are clear or dusty. We also consider the possibility of a continuum of cloud properties between hot Jupiters, young Jupiters and L-type brown dwarfs.Comment: Accepted for publication in MNRAS. 31 pages, 19 figures, 8 table

Novel Omega-3 Fatty Acid Epoxygenase Metabolite Reduces Kidney Fibrosis.

Cytochrome P450 (CYP) monooxygenases epoxidize the omega-3 polyunsaturated fatty acid (PUFA) docosahexaenoic acid into novel epoxydocosapentaenoic acids (EDPs) that have multiple biological actions. The present study determined the ability of the most abundant EDP regioisomer, 19,20-EDP to reduce kidney injury in an experimental unilateral ureteral obstruction (UUO) renal fibrosis mouse model. Mice with UUO developed kidney tubular injury and interstitial fibrosis. UUO mice had elevated kidney hydroxyproline content and five-times greater collagen positive fibrotic area than sham control mice. 19,20-EDP treatment to UUO mice for 10 days reduced renal fibrosis with a 40%-50% reduction in collagen positive area and hydroxyproline content. There was a six-fold increase in kidney α-smooth muscle actin (α-SMA) positive area in UUO mice compared to sham control mice, and 19,20-EDP treatment to UUO mice decreased α-SMA immunopositive area by 60%. UUO mice demonstrated renal epithelial-to-mesenchymal transition (EMT) with reduced expression of the epithelial marker E-cadherin and elevated expression of multiple mesenchymal markers (FSP-1, α-SMA, and desmin). Interestingly, 19,20-EDP treatment reduced renal EMT in UUO by decreasing mesenchymal and increasing epithelial marker expression. Overall, we demonstrate that a novel omega-3 fatty acid metabolite 19,20-EDP, prevents UUO-induced renal fibrosis in mice by reducing renal EMT

Higher rank numerical ranges of normal matrices

The higher rank numerical range is closely connected to the construction of quantum error correction code for a noisy quantum channel. It is known that if a normal matrix $A \in M_n$ has eigenvalues $a_1, \..., a_n$, then its higher rank numerical range $\Lambda_k(A)$ is the intersection of convex polygons with vertices $a_{j_1}, \..., a_{j_{n-k+1}}$, where $1 \le j_1 < \... < j_{n-k+1} \le n$. In this paper, it is shown that the higher rank numerical range of a normal matrix with $m$ distinct eigenvalues can be written as the intersection of no more than $\max\{m,4\}$ closed half planes. In addition, given a convex polygon ${\mathcal P}$ a construction is given for a normal matrix $A \in M_n$ with minimum $n$ such that $\Lambda_k(A) = {\mathcal P}$. In particular, if ${\mathcal P}$ has $p$ vertices, with $p \ge 3$, there is a normal matrix $A \in M_n$ with $n \le \max\left\{p+k-1, 2k+2 \right\}$ such that $\Lambda_k(A) = {\mathcal P}$.Comment: 12 pages, 9 figures, to appear in SIAM Journal on Matrix Analysis and Application